Psyllid ID: psy14655

---

Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-------120-------130-------140-------150-------160-------170-------180-------190-------200-------210-------220-------230-------240-------250-------260-
Protein Sequence
MIASSKGGVGKSTTTVNLATAMKICYPDKEIGILDADVFGPSIPILMNLPDTPLLNKDNLMIPLVNYGVKCLSMGNLITEKSAAIWRGLMVMQALNKLTVQVQWGPCDILFIDTPPGTGDTHLSLIQNLFIDTAIIITIPDTMSLQVAQRGYTMFKKLNIPVAGLVMNMNSVLCPSCNHMFELYENNLHQFEAKNFLKSYERKLYGIHMWNFLIPLCNLIIKIRNVAYGNSHGHGNTVHHHHVLNLIGEEDQKSGPYKKLK
Secondary Structure (PSIPRED)
ccccccccccHHHHHHHHHHHHHHHccccEEEEEcccccccccccccccccccccccccEEEEEcccccEEEEEEccccccccEEEEHHHHHHHHHHHHHccccccccEEEEEcccccHHHHHHHHccccccEEEEEccccHHHHHHHHHHHHHHHcccccEEEEEEcccccccccccccccccccccHHHHHHHHHHHHHHHHcccccccccccccccccccccccccccccccccccHHHHHHHHHHHHHHcccccccc
Secondary Structure Prediction (SSPRO)
ccccccccccHHHHHHHHHHHHHHHHcccEEEEEEcccccccccHHcccccccccccccEEEEHHHcccEEEEEEEEccccccEEEccHHHHHHHHHHHHHcccccccEEEEEcccccccHHEEHHccccccEEEEEEcHHHHHHHHHHHHHHHHHHccccEEEEEEccEEEEcccccccHHHccccHHHHHHHHHHHHHHHHHHHHHHHHccccEEccccccccEEccccccccEEEccccHHHHHHHHccccccHHHcc
Coil and Loop (DISEMBL)
miasskggvgkstTTVNLATAMKicypdkeigildadvfgpsipilmnlpdtpllnkdnlmiplvNYGVKCLSMGNLITEKSAAIWRGLMVMQALNKLTVqvqwgpcdilfidtppgtgdtHLSLIQNLFIDTaiiitipdtmsLQVAQRGYTMFKKLNIPVAGLVmnmnsvlcpscnHMFELYENNLHQFEAKNFLKSYERKLYGIHMWNFLIPLCNLIIKIRnvaygnshghgntvhHHHVLNligeedqksgpykklk
Flexible Loop (DISEMBL)
miasskggvgkstTTVNLATAMKICYPDKEIGILDADVFGPSIPILMNLPDTPLLNKDNLMIPLVNYGVKCLSMGNLITEKSAAIWRGLMVMQALNKLTVQVQWGPCDILFIDTPPGTGDTHLSLIQNLFIDTAIIITIPDTMSLQVAQRGYTMFKKLNIPVAGLVMNMNSVLCPSCNHMFELYENNLHQFEAKNFLKSYERKLYGIHMWNFLIPLCNLIIKIRNVAYGNSHGHGNTVHHHHVLNLigeedqksgpykklk
Low Complexity Region (SEG)
MIASSKGGVGKSTTTVNLATAMKICYPDKEIGILDADVFGPSIPILMNLPDTPLLNKDNLMIPLVNYGVKCLSMGNLITEKSAAIWRGLMVMQALNKLTVQVQWGPCDILFIDTPPGTGDTHLSLIQNLFidtaiiitipdtMSLQVAQRGYTMFKKLNIPVAGLVMNMNSVLCPSCNHMFELYENNLHQFEAKNFLKSYERKLYGIHMWNFLIPLCNLIIKIRNVAYGNShghgntvhhhhvlnlIGEEDQKSGPYKKLK
Disordered region (IsUnstruct)
*************TTVNLATAMKICYPDKEIGILDADVFGPSIPILMNLPDTPLLNKDNLMIPLVNYGVKCLSMGNLITEKSAAIWRGLMVMQALNKLTVQVQWGPCDILFIDTPPGTGDTHLSLIQNLFIDTAIIITIPDTMSLQVAQRGYTMFKKLNIPVAGLVMNMNSVLCPSCNHMFELYENNLHQFEAKNFLKSYERKLYGIHMWNFLIPLCNLIIKIRNVAYG********************************
Disordered Region (DISOPRED)
MIASSKGGVGKSTTTVNLATAMKICYPDKEIGILDADVFGPSIPILMN************MIPLVNYGVKCLSMGNLITEKSAAIWRGLMVMQALNKLTVQVQWGPCDILFIDTPPGTGDTHLSLIQNLFIDTAIIITIPDTMSLQVAQRGYTMFKKLNIPVAGLVMNMNSVLCPSCNHMFELYENNLHQFEAKNFLKSYERKLYGIHMWNFLIPLCNLIIKIRN*****SHGHGNTVHHHHVLNLIGEEDQKSGPYK***
Disordered Region (DISEMBL)
***********STTTVNLATAMKICYPDKEIGILDADVFGPSIPILMNLPDTPLLNKDNLMIPLVNYGVKCLSMGNLITEKSAAIWRGLMVMQALNKLTVQVQWGPCDILFIDTPPGTGDTHLSLIQNLFIDTAIIITIPDTMSLQVAQRGYTMFKKLNIPVAGLVMNMNSVLCPSCNHMFELYENNLHQFEAKNFLKSYERKLYGIHMWNFLIPLCNLIIKIRNVAYGNSHGHGNTVHHHHVLNLIGEE***********
Disordered Region (DISPRO)
*********GKSTTTVNLATAMKICYPDKEIGILDADVFGPSIPILMNLPDTPLLNKDNLMIPLVNYGVKCLSMGNLITEKSAAIWRGLMVMQALNKLTVQVQWGPCDILFIDTPPGTGDTHLSLIQNLFIDTAIIITIPDTMSLQVAQRGYTMFKKLNIPVAGLVMNMNSVLCPSCNHMFELYENNLHQFEAKNFLKSYERKLYGIHMWNFLIPLCNLIIKIRNVAYGNSHGHGNTVHHHHVLNLIGEEDQKSGPY****
Transmembrane Helix (TMHMM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooHHHHHHHHHHHHHHHHHHiiiiiiiiiiiiHHHHHHHHHHHHHHHHHHooooooooooooooooooooooooooHHHHHHHHHHHHHHHHHHiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
Transmembrane Helix (MEMSAT)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhhhhhooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (MEMSAT_SVM)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (Phobius)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
Signal Peptide (SignalP NN Mode)
xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
Coiled Coils (COILS)
MIASSKGGVGKSTTTVNLATAMKICYPDKEIGILDADVFGPSIPILMNLPDTPLLNKDNLMIPLVNYGVKCLSMGNLITEKSAAIWRGLMVMQALNKLTVQVQWGPCDILFIDTPPGTGDTHLSLIQNLFIDTAIIITIPDTMSLQVAQRGYTMFKKLNIPVAGLVMNMNSVLCPSCNHMFELYENNLHQFEAKNFLKSYERKLYGIHMWNFLIPLCNLIIKIRNVAYGNSHGHGNTVHHHHVLNLIGEEDQKSGPYKKLK
Positional Conservation
no confident homologs detected

---

Close Homologs for Annotation Transfer

Close Homologs in SWISS-PROT Database Detected by BLAST

Original result of BLAST against SWISS-PROT Database

ID	Length	Definition	RBH(Q2H)	RBH(H2Q)	Q cover	H cover	Identity	E-value
Query	261	2.2.26 [Sep-21-2011]
Q9CWD8	319	Iron-sulfur protein NUBPL	yes	N/A	0.704	0.576	0.516	1e-49
Q8TB37	319	Iron-sulfur protein NUBPL	yes	N/A	0.704	0.576	0.505	3e-49
Q54F15	323	Iron-sulfur protein NUBPL	yes	N/A	0.743	0.600	0.455	6e-43
O24999	368	Protein mrp homolog OS=He	no	N/A	0.708	0.502	0.444	2e-40
Q9ZMM5	368	Protein mrp homolog OS=He	yes	N/A	0.708	0.502	0.439	2e-40
Q6CE48	312	Iron-sulfur protein IND1	yes	N/A	0.739	0.618	0.405	6e-40
Q57731	290	Uncharacterized ATP-bindi	yes	N/A	0.743	0.668	0.402	6e-35
P45135	370	Protein mrp homolog OS=Ha	yes	N/A	0.693	0.489	0.407	6e-35
P0AF08	369	Protein mrp OS=Escherichi	N/A	N/A	0.762	0.539	0.368	2e-33
P0AF09	369	Protein mrp OS=Escherichi	yes	N/A	0.762	0.539	0.368	2e-33

>sp|Q9CWD8|NUBPL_MOUSE Iron-sulfur protein NUBPL OS=Mus musculus GN=Nubpl PE=2 SV=2

 Score =  196 bits (499), Expect = 1e-49,   Method: Compositional matrix adjust.
 Identities = 95/184 (51%), Positives = 126/184 (68%)

Query: 1   MIASSKGGVGKSTTTVNLATAMKICYPDKEIGILDADVFGPSIPILMNLPDTPLLNKDNL 60
           ++AS KGGVGKSTT VNLA A+      K +G+LD DV+GPSIP +MNL   P L+ +NL
Sbjct: 71  VVASGKGGVGKSTTAVNLALALAANDSSKAVGLLDVDVYGPSIPKMMNLRGNPELSPNNL 130

Query: 61  MIPLVNYGVKCLSMGNLITEKSAAIWRGLMVMQALNKLTVQVQWGPCDILFIDTPPGTGD 120
           M PL+NYG+ C+SMG L+ E +  +WRGLMVM A+ KL  QV WG  D L +D PPGTGD
Sbjct: 131 MRPLLNYGIACMSMGFLVEETAPLVWRGLMVMSAIEKLLRQVDWGQLDYLVVDMPPGTGD 190

Query: 121 THLSLIQNLFIDTAIIITIPDTMSLQVAQRGYTMFKKLNIPVAGLVMNMNSVLCPSCNHM 180
             LS+ QN+ I  A+I++ P  ++L  A +G  MF+K+N+PV GLV NM+   CP C H 
Sbjct: 191 VQLSVSQNIPISGAVIVSTPQDIALMDAHKGAEMFRKVNVPVLGLVQNMSVFQCPKCKHK 250

Query: 181 FELY 184
             ++
Sbjct: 251 THIF 254

Required for the assembly of the mitochondrial membrane respiratory chain NADH dehydrogenase (Complex I). May deliver of one or more Fe-S clusters to complex I subunits.
Mus musculus (taxid: 10090)

>sp|Q8TB37|NUBPL_HUMAN Iron-sulfur protein NUBPL OS=Homo sapiens GN=NUBPL PE=1 SV=3

 Score =  195 bits (495), Expect = 3e-49,   Method: Compositional matrix adjust.
 Identities = 93/184 (50%), Positives = 125/184 (67%)

Query: 1   MIASSKGGVGKSTTTVNLATAMKICYPDKEIGILDADVFGPSIPILMNLPDTPLLNKDNL 60
           ++AS KGGVGKSTT VNLA A+      K IG+LD DV+GPS+P +MNL   P L++ NL
Sbjct: 71  VVASGKGGVGKSTTAVNLALALAANDSSKAIGLLDVDVYGPSVPKMMNLKGNPELSQSNL 130

Query: 61  MIPLVNYGVKCLSMGNLITEKSAAIWRGLMVMQALNKLTVQVQWGPCDILFIDTPPGTGD 120
           M PL+NYG+ C+SMG L+ E    +WRGLMVM A+ KL  QV WG  D L +D PPGTGD
Sbjct: 131 MRPLLNYGIACMSMGFLVEESEPVVWRGLMVMSAIEKLLRQVDWGQLDYLVVDMPPGTGD 190

Query: 121 THLSLIQNLFIDTAIIITIPDTMSLQVAQRGYTMFKKLNIPVAGLVMNMNSVLCPSCNHM 180
             LS+ QN+ I  A+I++ P  ++L  A +G  MF+++++PV GLV NM+   CP C H 
Sbjct: 191 VQLSVSQNIPITGAVIVSTPQDIALMDAHKGAEMFRRVHVPVLGLVQNMSVFQCPKCKHK 250

Query: 181 FELY 184
             ++
Sbjct: 251 THIF 254

Required for the assembly of the mitochondrial membrane respiratory chain NADH dehydrogenase (Complex I). May deliver of one or more Fe-S clusters to complex I subunits.

Homo sapiens (taxid: 9606)

>sp|Q54F15|NUBPL_DICDI Iron-sulfur protein NUBPL OS=Dictyostelium discoideum GN=nubpl PE=3 SV=1

 Score =  174 bits (441), Expect = 6e-43,   Method: Compositional matrix adjust.
 Identities = 92/202 (45%), Positives = 126/202 (62%), Gaps = 8/202 (3%)

Query: 2   IASSKGGVGKSTTTVNLATAMKICYPDKEIGILDADVFGPSIPILMNLP--DTPLLNKDN 59
           ++S+KGGVGKST  VN+A  + +   +  +G+LD DVFGPSIP++M+L   + P  N+ N
Sbjct: 62  VSSAKGGVGKSTCAVNIA--LGLSSHNLSVGLLDVDVFGPSIPLMMDLKNHEKPFTNELN 119

Query: 60  LMIPLVNYGVKCLSMGNLITEKSAAIWRGLMVMQALNKLTVQVQWGPCDILFIDTPPGTG 119
            MIPL NYG+KC+SMG L+ E    IWRG MV  AL KL  Q  WG  D+L  D PPGTG
Sbjct: 120 QMIPLQNYGIKCMSMGFLVNEDDPIIWRGPMVGSALEKLLRQTDWGHLDVLVCDLPPGTG 179

Query: 120 DTHLSLIQNLFIDTAIIITIPDTMSLQVAQRGYTMFKKLNIPVAGLVMNMNSVLCPSCNH 179
           D  L++ Q + +  A+I++ P  ++L    RG  MFKK+ +P+ GLV NM+   CP CN 
Sbjct: 180 DAILTMCQRVPLTGAVIVSTPQDVALADVVRGVNMFKKVEVPILGLVENMSYFNCPHCNE 239

Query: 180 MFELYENNLHQFEAK----NFL 197
              ++ N   +  AK    NFL
Sbjct: 240 STHIFGNEGAKNTAKKMGINFL 261

Required for the assembly of the mitochondrial membrane respiratory chain NADH dehydrogenase (Complex I). May deliver of one or more Fe-S clusters to complex I subunits.

Dictyostelium discoideum (taxid: 44689)

>sp|O24999|MRP_HELPY Protein mrp homolog OS=Helicobacter pylori (strain ATCC 700392 / 26695) GN=mrp PE=3 SV=2

 Score =  166 bits (419), Expect = 2e-40,   Method: Compositional matrix adjust.
 Identities = 84/189 (44%), Positives = 122/189 (64%), Gaps = 4/189 (2%)

Query: 1   MIASSKGGVGKSTTTVNLATAMKICYPDKEIGILDADVFGPSIPILMNL--PDTPLLNKD 58
           MI+S KGGVGKSTT+VNL+ A+     ++++G+LDADV+GP+IP +M L   D  +    
Sbjct: 101 MISSGKGGVGKSTTSVNLSIAL--ANLNQKVGLLDADVYGPNIPRMMGLQSADVIMDPSG 158

Query: 59  NLMIPLVNYGVKCLSMGNLITEKSAAIWRGLMVMQALNKLTVQVQWGPCDILFIDTPPGT 118
             +IPL  +GV  +SMG L  E  + IWRG M+M+A+ ++   + WG  D+L +D PPGT
Sbjct: 159 KKLIPLKAFGVSVMSMGLLYDEGQSLIWRGPMLMRAIEQMLSDIIWGDLDVLVVDMPPGT 218

Query: 119 GDTHLSLIQNLFIDTAIIITIPDTMSLQVAQRGYTMFKKLNIPVAGLVMNMNSVLCPSCN 178
           GD  L+L Q + +   I +T P  +SL  A+R   MFKKL+IP+AG+V NM S +C  C 
Sbjct: 219 GDAQLTLAQAVPLSAGITVTTPQIVSLDDAKRSLDMFKKLHIPIAGIVENMGSFVCEHCK 278

Query: 179 HMFELYENN 187
              E++ +N
Sbjct: 279 KESEIFGSN 287

Helicobacter pylori (strain ATCC 700392 / 26695) (taxid: 85962)

>sp|Q9ZMM5|MRP_HELPJ Protein mrp homolog OS=Helicobacter pylori (strain J99) GN=mrp PE=3 SV=1

 Score =  166 bits (419), Expect = 2e-40,   Method: Compositional matrix adjust.
 Identities = 83/189 (43%), Positives = 123/189 (65%), Gaps = 4/189 (2%)

Query: 1   MIASSKGGVGKSTTTVNLATAMKICYPDKEIGILDADVFGPSIPILMNLPDTPLL--NKD 58
           MI+S KGGVGKSTT+VNL+ A+     ++++G+LDADV+GP+IP +M L +  ++     
Sbjct: 101 MISSGKGGVGKSTTSVNLSIAL--ANLNQKVGLLDADVYGPNIPRMMGLQNADVIMDPSG 158

Query: 59  NLMIPLVNYGVKCLSMGNLITEKSAAIWRGLMVMQALNKLTVQVQWGPCDILFIDTPPGT 118
             +IPL  +GV  +SMG L  E  + IWRG M+M+A+ ++   + WG  D+L +D PPGT
Sbjct: 159 KKLIPLKAFGVSVMSMGLLYDEGQSLIWRGPMLMRAIEQMLSDIIWGDLDVLVVDMPPGT 218

Query: 119 GDTHLSLIQNLFIDTAIIITIPDTMSLQVAQRGYTMFKKLNIPVAGLVMNMNSVLCPSCN 178
           GD  L+L Q + +   I +T P  +SL  A+R   MFKKL+IP+AG+V NM S +C  C 
Sbjct: 219 GDAQLTLAQAVPLSAGITVTTPQIVSLDDAKRSLDMFKKLHIPIAGIVENMGSFVCEHCK 278

Query: 179 HMFELYENN 187
              E++ +N
Sbjct: 279 KESEIFGSN 287

Helicobacter pylori (strain J99) (taxid: 85963)

>sp|Q6CE48|IND1_YARLI Iron-sulfur protein IND1 OS=Yarrowia lipolytica (strain CLIB 122 / E 150) GN=IND1 PE=1 SV=1

 Score =  164 bits (415), Expect = 6e-40,   Method: Compositional matrix adjust.
 Identities = 79/195 (40%), Positives = 121/195 (62%), Gaps = 2/195 (1%)

Query: 1   MIASSKGGVGKSTTTVNLATAMKICYPDKEIGILDADVFGPSIPILMNLPDTPLLNKDNL 60
           +++S+KGGVGKST +VN  TA+ +      +G+LD D+FGPSIP +  L   P +  +  
Sbjct: 71  VVSSAKGGVGKSTVSVN--TALSLAKRGLRVGLLDVDIFGPSIPTMFGLSGEPRMTHEGK 128

Query: 61  MIPLVNYGVKCLSMGNLITEKSAAIWRGLMVMQALNKLTVQVQWGPCDILFIDTPPGTGD 120
           +IP+  +G++ +SMG L+    A  WRGL+V +AL +L   V WG  D+L +D PPGTGD
Sbjct: 129 LIPMSKFGIQVMSMGFLVDPNKAVAWRGLLVQKALEQLLQDVDWGTLDVLVMDLPPGTGD 188

Query: 121 THLSLIQNLFIDTAIIITIPDTMSLQVAQRGYTMFKKLNIPVAGLVMNMNSVLCPSCNHM 180
             L++ Q + ID AII++ P  ++L    RG  +F+K    V GLV NM+  +CP+CNH 
Sbjct: 189 VQLTIAQTVKIDGAIIVSTPQDVALVDVVRGLDLFEKTYTKVLGLVQNMSVFVCPNCNHE 248

Query: 181 FELYENNLHQFEAKN 195
             ++  +    +AK+
Sbjct: 249 THIFGVDGAVSKAKS 263

Required for the effective assembly of the mitochondrial membrane respiratory chain NADH dehydrogenase (Complex I). Probably facilitates the assembly of Fe-S cofactors and subunits of complex I.

Yarrowia lipolytica (strain CLIB 122 / E 150) (taxid: 284591)

>sp|Q57731|Y283_METJA Uncharacterized ATP-binding protein MJ0283 OS=Methanocaldococcus jannaschii (strain ATCC 43067 / DSM 2661 / JAL-1 / JCM 10045 / NBRC 100440) GN=MJ0283 PE=3 SV=1

 Score =  147 bits (372), Expect = 6e-35,   Method: Compositional matrix adjust.
 Identities = 80/199 (40%), Positives = 124/199 (62%), Gaps = 5/199 (2%)

Query: 1   MIASSKGGVGKSTTTVNLATAMKICYPDKEIGILDADVFGPSIPILMNLPDTPLLNKDNL 60
           +I S KGGVGKST TVNLA A+ +    K++G+LDAD+ GP+IP ++ + +T  +     
Sbjct: 43  VILSGKGGVGKSTVTVNLAAALNLM--GKKVGVLDADIHGPNIPKMLGVENTQPMAGPAG 100

Query: 61  MIPLVNY-GVKCLSMGNLI-TEKSAAIWRGLMVMQALNKLTVQVQWGPCDILFIDTPPGT 118
           + P+V   G+K +S+G L+  +K+  IWRG  V  A+ +    V WG  D L IDTPPGT
Sbjct: 101 IFPIVTKDGIKTMSIGYLLPDDKTPVIWRGPKVSGAIRQFLSDVVWGELDYLLIDTPPGT 160

Query: 119 GDTHLSLIQNL-FIDTAIIITIPDTMSLQVAQRGYTMFKKLNIPVAGLVMNMNSVLCPSC 177
           GD  L+++Q++  ID AII+T P+ +S+   ++   M K LNIP+ G++ NM+  +CP C
Sbjct: 161 GDEQLTIMQSIPDIDGAIIVTTPEEVSVLDVKKSIMMAKMLNIPIIGIIENMSGFVCPYC 220

Query: 178 NHMFELYENNLHQFEAKNF 196
           N + +++     +  AK  
Sbjct: 221 NKVVDIFGRGGGEKAAKEL 239

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

>sp|P45135|MRP_HAEIN Protein mrp homolog OS=Haemophilus influenzae (strain ATCC 51907 / DSM 11121 / KW20 / Rd) GN=mrp PE=3 SV=2

 Score =  147 bits (372), Expect = 6e-35,   Method: Compositional matrix adjust.
 Identities = 75/184 (40%), Positives = 115/184 (62%), Gaps = 3/184 (1%)

Query: 2   IASSKGGVGKSTTTVNLATAMKICYPDKEIGILDADVFGPSIPILMNLPDTPLLNKDNLM 61
           ++S KGGVGKS+ +VNLA A++       +GILDAD++GPSIP ++   D    + DN  
Sbjct: 112 VSSGKGGVGKSSVSVNLALALQ--AQGARVGILDADIYGPSIPHMLGAADQRPTSPDNQH 169

Query: 62  I-PLVNYGVKCLSMGNLITEKSAAIWRGLMVMQALNKLTVQVQWGPCDILFIDTPPGTGD 120
           I P+  +G+   S+G L+ E SA IWRG M   AL++L  +  W   D L ID PPGTGD
Sbjct: 170 ITPIKAHGLSANSIGFLMNEDSATIWRGPMASSALSQLLNETLWDSLDYLVIDMPPGTGD 229

Query: 121 THLSLIQNLFIDTAIIITIPDTMSLQVAQRGYTMFKKLNIPVAGLVMNMNSVLCPSCNHM 180
             L+L Q + +  A+++T P  ++L  A +G +MF+++++PV G+V NM+  +C  C H 
Sbjct: 230 IQLTLSQQIPVTGAVVVTTPQDIALLDAVKGISMFERVSVPVLGIVENMSMHICSECGHH 289

Query: 181 FELY 184
             ++
Sbjct: 290 EAIF 293

Haemophilus influenzae (strain ATCC 51907 / DSM 11121 / KW20 / Rd) (taxid: 71421)

>sp|P0AF08|MRP_ECOLI Protein mrp OS=Escherichia coli (strain K12) GN=mrp PE=3 SV=1

 Score =  142 bits (359), Expect = 2e-33,   Method: Compositional matrix adjust.
 Identities = 76/206 (36%), Positives = 125/206 (60%), Gaps = 7/206 (3%)

Query: 2   IASSKGGVGKSTTTVNLATAMKICYPDKEIGILDADVFGPSIPILMNLPDTPLLNKDNL- 60
           ++S KGGVGKS+T VNLA A+       ++GILDAD++GPSIP ++   +    + D   
Sbjct: 112 VSSGKGGVGKSSTAVNLALAL--AAEGAKVGILDADIYGPSIPTMLGAENQRPTSPDGTH 169

Query: 61  MIPLVNYGVKCLSMGNLITEKSAAIWRGLMVMQALNKLTVQVQWGPCDILFIDTPPGTGD 120
           M P++++G+   S+G L+T+ +A +WRG M  +AL ++  +  W   D L +D PPGTGD
Sbjct: 170 MAPIMSHGLATNSIGYLVTDDNAMVWRGPMASKALMQMLQETLWPDLDYLVLDMPPGTGD 229

Query: 121 THLSLIQNLFIDTAIIITIPDTMSLQVAQRGYTMFKKLNIPVAGLVMNMNSVLCPSCNHM 180
             L+L QN+ +  A+++T P  ++L  A++G  MF+K+ +PV G+V NM+  +C +C H 
Sbjct: 230 IQLTLAQNIPVTGAVVVTTPQDIALIDAKKGIVMFEKVEVPVLGIVENMSVHICSNCGHH 289

Query: 181 FELYENNLHQFEAKNFLKSYERKLYG 206
             ++        A+   + Y  +L G
Sbjct: 290 EPIFGTG----GAEKLAEKYHTQLLG 311

Escherichia coli (strain K12) (taxid: 83333)

>sp|P0AF09|MRP_ECOL6 Protein mrp OS=Escherichia coli O6:H1 (strain CFT073 / ATCC 700928 / UPEC) GN=mrp PE=3 SV=1

 Score =  142 bits (359), Expect = 2e-33,   Method: Compositional matrix adjust.
 Identities = 76/206 (36%), Positives = 125/206 (60%), Gaps = 7/206 (3%)

Query: 2   IASSKGGVGKSTTTVNLATAMKICYPDKEIGILDADVFGPSIPILMNLPDTPLLNKDNL- 60
           ++S KGGVGKS+T VNLA A+       ++GILDAD++GPSIP ++   +    + D   
Sbjct: 112 VSSGKGGVGKSSTAVNLALAL--AAEGAKVGILDADIYGPSIPTMLGAENQRPTSPDGTH 169

Query: 61  MIPLVNYGVKCLSMGNLITEKSAAIWRGLMVMQALNKLTVQVQWGPCDILFIDTPPGTGD 120
           M P++++G+   S+G L+T+ +A +WRG M  +AL ++  +  W   D L +D PPGTGD
Sbjct: 170 MAPIMSHGLATNSIGYLVTDDNAMVWRGPMASKALMQMLQETLWPDLDYLVLDMPPGTGD 229

Query: 121 THLSLIQNLFIDTAIIITIPDTMSLQVAQRGYTMFKKLNIPVAGLVMNMNSVLCPSCNHM 180
             L+L QN+ +  A+++T P  ++L  A++G  MF+K+ +PV G+V NM+  +C +C H 
Sbjct: 230 IQLTLAQNIPVTGAVVVTTPQDIALIDAKKGIVMFEKVEVPVLGIVENMSVHICSNCGHH 289

Query: 181 FELYENNLHQFEAKNFLKSYERKLYG 206
             ++        A+   + Y  +L G
Sbjct: 290 EPIFGTG----GAEKLAEKYHTQLLG 311

Escherichia coli O6:H1 (strain CFT073 / ATCC 700928 / UPEC) (taxid: 199310)

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	261
332022143	319	Nucleotide-binding protein-like protein	0.712	0.583	0.666	1e-67
307206334	315	Nucleotide-binding protein-like [Harpegn	0.716	0.593	0.631	5e-66
307173290	316	Nucleotide-binding protein-like [Campono	0.712	0.588	0.639	1e-65
350537113	306	uncharacterized protein LOC100169181 [Ac	0.743	0.633	0.597	8e-63
357622111	273	putative nucleotide binding protein [Dan	0.727	0.695	0.589	1e-62
383865446	382	PREDICTED: iron-sulfur protein NUBPL-lik	0.731	0.5	0.581	1e-62
91078214	291	PREDICTED: similar to Nucleotide-binding	0.766	0.687	0.576	2e-62
345493797	384	PREDICTED: iron-sulfur protein NUBPL-lik	0.793	0.539	0.555	9e-61
328793077	380	PREDICTED: iron-sulfur protein NUBPL-lik	0.712	0.489	0.580	5e-60
350405591	380	PREDICTED: iron-sulfur protein NUBPL-lik	0.762	0.523	0.544	1e-59

>gi|332022143|gb|EGI62465.1| Nucleotide-binding protein-like protein [Acromyrmex echinatior]

 Score =  261 bits (668), Expect = 1e-67,   Method: Compositional matrix adjust.
 Identities = 124/186 (66%), Positives = 148/186 (79%)

Query: 1   MIASSKGGVGKSTTTVNLATAMKICYPDKEIGILDADVFGPSIPILMNLPDTPLLNKDNL 60
           +IAS KGGVGKSTT VNLATA+KI  P K IG+LDADVFGPSIP++MN+ ++P+LN++N 
Sbjct: 69  LIASGKGGVGKSTTAVNLATALKIIEPKKSIGLLDADVFGPSIPLMMNIHESPVLNQENF 128

Query: 61  MIPLVNYGVKCLSMGNLITEKSAAIWRGLMVMQALNKLTVQVQWGPCDILFIDTPPGTGD 120
           M PLVNYGVKC+SMG LI EKS  +WRGLMVM AL+KL  QV WGP D L IDTPPGTGD
Sbjct: 129 MEPLVNYGVKCMSMGFLIDEKSPVVWRGLMVMSALDKLVNQVAWGPLDYLIIDTPPGTGD 188

Query: 121 THLSLIQNLFIDTAIIITIPDTMSLQVAQRGYTMFKKLNIPVAGLVMNMNSVLCPSCNHM 180
           THLSLIQ LFI  A+++T P  ++L+V +RG  MFKKLNIPVAG+V NM+SV CP C   
Sbjct: 189 THLSLIQTLFITGALLVTTPQKVALEVTRRGANMFKKLNIPVAGIVENMSSVTCPKCMTE 248

Query: 181 FELYEN 186
             L+ N
Sbjct: 249 VPLFGN 254

Source: Acromyrmex echinatior

Species: Acromyrmex echinatior

Genus: Acromyrmex

Family: Formicidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|307206334|gb|EFN84391.1| Nucleotide-binding protein-like [Harpegnathos saltator]

 Score =  256 bits (655), Expect = 5e-66,   Method: Compositional matrix adjust.
 Identities = 118/187 (63%), Positives = 149/187 (79%)

Query: 1   MIASSKGGVGKSTTTVNLATAMKICYPDKEIGILDADVFGPSIPILMNLPDTPLLNKDNL 60
           ++AS KGGVGKSTT VNLA A+KI  P + +G+LDADVFGPSIP++MN+ ++P++N + L
Sbjct: 65  LVASGKGGVGKSTTAVNLAIALKIIEPKRSVGLLDADVFGPSIPVMMNIHESPIINYEKL 124

Query: 61  MIPLVNYGVKCLSMGNLITEKSAAIWRGLMVMQALNKLTVQVQWGPCDILFIDTPPGTGD 120
           M PL+NYG+KC+SMG LI EKS  IWRGLMVM ALNKL  QV WGP D L IDTPPGTGD
Sbjct: 125 MEPLINYGIKCMSMGFLIDEKSPVIWRGLMVMDALNKLVNQVAWGPLDYLVIDTPPGTGD 184

Query: 121 THLSLIQNLFIDTAIIITIPDTMSLQVAQRGYTMFKKLNIPVAGLVMNMNSVLCPSCNHM 180
           THLSLIQNLFI  A+++T P  ++L+V +RG  MFKKL+IPVAG+V NM++V+CP C   
Sbjct: 185 THLSLIQNLFISGALLVTTPQKVALEVTRRGANMFKKLDIPVAGIVENMSTVMCPKCMTE 244

Query: 181 FELYENN 187
             L+ N+
Sbjct: 245 VPLFNND 251

Source: Harpegnathos saltator

Species: Harpegnathos saltator

Genus: Harpegnathos

Family: Formicidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|307173290|gb|EFN64324.1| Nucleotide-binding protein-like [Camponotus floridanus]

 Score =  255 bits (652), Expect = 1e-65,   Method: Compositional matrix adjust.
 Identities = 119/186 (63%), Positives = 148/186 (79%)

Query: 1   MIASSKGGVGKSTTTVNLATAMKICYPDKEIGILDADVFGPSIPILMNLPDTPLLNKDNL 60
           ++AS KGGVGKSTT VNLATA+K+  P K IG+LDADVFGPSIP++MN+ ++P++N+ NL
Sbjct: 66  LVASGKGGVGKSTTAVNLATALKLNEPKKSIGLLDADVFGPSIPLMMNIYESPIINQKNL 125

Query: 61  MIPLVNYGVKCLSMGNLITEKSAAIWRGLMVMQALNKLTVQVQWGPCDILFIDTPPGTGD 120
           M PLVNYGVKC+SMG LI EKS  +WRGLMVM AL+KL  QV WG  D L IDTPPGTGD
Sbjct: 126 MEPLVNYGVKCMSMGFLIDEKSPVVWRGLMVMSALDKLVNQVAWGSLDYLVIDTPPGTGD 185

Query: 121 THLSLIQNLFIDTAIIITIPDTMSLQVAQRGYTMFKKLNIPVAGLVMNMNSVLCPSCNHM 180
           THLSLIQN FI  A+++T P  ++L+V +RG  MFKKL+IPVAG+V NM++V+CP C   
Sbjct: 186 THLSLIQNFFITGALLVTTPQKVALEVTRRGANMFKKLDIPVAGIVENMSTVMCPKCMTE 245

Query: 181 FELYEN 186
             L+ N
Sbjct: 246 IPLFGN 251

Source: Camponotus floridanus

Species: Camponotus floridanus

Genus: Camponotus

Family: Formicidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|350537113|ref|NP_001233089.1| uncharacterized protein LOC100169181 [Acyrthosiphon pisum] gi|239791551|dbj|BAH72226.1| ACYPI009822 [Acyrthosiphon pisum]

 Score =  246 bits (627), Expect = 8e-63,   Method: Compositional matrix adjust.
 Identities = 116/194 (59%), Positives = 151/194 (77%)

Query: 1   MIASSKGGVGKSTTTVNLATAMKICYPDKEIGILDADVFGPSIPILMNLPDTPLLNKDNL 60
           ++AS KGGVGKSTT VNLATA+K   P+K++G+LDADVFGPSIP++MNL +TPL+N DNL
Sbjct: 58  LVASGKGGVGKSTTAVNLATALKCVAPNKDVGLLDADVFGPSIPLMMNLHETPLINNDNL 117

Query: 61  MIPLVNYGVKCLSMGNLITEKSAAIWRGLMVMQALNKLTVQVQWGPCDILFIDTPPGTGD 120
           M+PLVNYGVKC+SMGNLIT++SAAIWRGLMVM A++KL   V W   D L +DTPPGTGD
Sbjct: 118 MVPLVNYGVKCMSMGNLITDQSAAIWRGLMVMGAIDKLIRGVSWDHTDYLIVDTPPGTGD 177

Query: 121 THLSLIQNLFIDTAIIITIPDTMSLQVAQRGYTMFKKLNIPVAGLVMNMNSVLCPSCNHM 180
           THLSL QNL I   +I+T     +L V +RG TMFKKLNIP+ G+V NM+++ C  C+H 
Sbjct: 178 THLSLAQNLPISGVLIVTTGQKAALGVTRRGITMFKKLNIPILGIVQNMSTIKCLKCSHE 237

Query: 181 FELYENNLHQFEAK 194
             ++ +++ +   +
Sbjct: 238 NYVFGDSVQELATQ 251

Source: Acyrthosiphon pisum

Species: Acyrthosiphon pisum

Genus: Acyrthosiphon

Family: Aphididae

Order: Hemiptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|357622111|gb|EHJ73712.1| putative nucleotide binding protein [Danaus plexippus]

 Score =  245 bits (625), Expect = 1e-62,   Method: Compositional matrix adjust.
 Identities = 112/190 (58%), Positives = 145/190 (76%)

Query: 1   MIASSKGGVGKSTTTVNLATAMKICYPDKEIGILDADVFGPSIPILMNLPDTPLLNKDNL 60
           ++AS KGGVGK+TT VNLA AMK+  PDKEIG+LDADVFGPS+P++MN+   P+LN +NL
Sbjct: 19  LVASGKGGVGKTTTAVNLACAMKVIEPDKEIGLLDADVFGPSVPLMMNITGEPMLNDENL 78

Query: 61  MIPLVNYGVKCLSMGNLITEKSAAIWRGLMVMQALNKLTVQVQWGPCDILFIDTPPGTGD 120
           + PL+NYGVKC+SMG L++ ++A +WRGLMVMQAL +LT  V WGP D L +DTPPGTGD
Sbjct: 79  IEPLLNYGVKCMSMGLLVSGENAVVWRGLMVMQALERLTRHVAWGPLDCLVVDTPPGTGD 138

Query: 121 THLSLIQNLFIDTAIIITIPDTMSLQVAQRGYTMFKKLNIPVAGLVMNMNSVLCPSCNHM 180
           THLSL QNL ID A+++T P + +LQV +RG  MF+KL IP+ GLV NM+  +C  C   
Sbjct: 139 THLSLAQNLPIDGALVVTTPQSAALQVTKRGVNMFEKLKIPIVGLVENMSHAMCSKCGTK 198

Query: 181 FELYENNLHQ 190
             ++ N   Q
Sbjct: 199 NFVFGNETKQ 208

Source: Danaus plexippus

Species: Danaus plexippus

Genus: Danaus

Family: Nymphalidae

Order: Lepidoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|383865446|ref|XP_003708184.1| PREDICTED: iron-sulfur protein NUBPL-like [Megachile rotundata]

 Score =  245 bits (625), Expect = 1e-62,   Method: Compositional matrix adjust.
 Identities = 111/191 (58%), Positives = 146/191 (76%)

Query: 1   MIASSKGGVGKSTTTVNLATAMKICYPDKEIGILDADVFGPSIPILMNLPDTPLLNKDNL 60
           ++AS KGGVGKST  VNL+TA+KI  P K IG+LDADVFGPS+P++MNL ++P++N  NL
Sbjct: 68  VVASGKGGVGKSTVAVNLSTALKIVEPKKSIGLLDADVFGPSVPLMMNLKNSPVVNDANL 127

Query: 61  MIPLVNYGVKCLSMGNLITEKSAAIWRGLMVMQALNKLTVQVQWGPCDILFIDTPPGTGD 120
           + PL+NYGVKC+SMG LI +KS  IWRGLMVM A+ KL  QV W P D L +DTPPGTGD
Sbjct: 128 IEPLLNYGVKCMSMGFLIDDKSPVIWRGLMVMSAIEKLLRQVAWDPLDYLIVDTPPGTGD 187

Query: 121 THLSLIQNLFIDTAIIITIPDTMSLQVAQRGYTMFKKLNIPVAGLVMNMNSVLCPSCNHM 180
           THLS++QNL +  A+++T P   +L+V  RG  MFK+LN+P+ G+V NM++V+CP CN+ 
Sbjct: 188 THLSIVQNLPVTGALLVTTPQKAALEVTARGANMFKRLNVPIIGIVENMSNVICPKCNNK 247

Query: 181 FELYENNLHQF 191
             LY+N    F
Sbjct: 248 ITLYDNGTETF 258

Source: Megachile rotundata

Species: Megachile rotundata

Genus: Megachile

Family: Megachilidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|91078214|ref|XP_969103.1| PREDICTED: similar to Nucleotide-binding protein-like [Tribolium castaneum]

 Score =  245 bits (625), Expect = 2e-62,   Method: Compositional matrix adjust.
 Identities = 117/203 (57%), Positives = 151/203 (74%), Gaps = 3/203 (1%)

Query: 1   MIASSKGGVGKSTTTVNLATAMKICYPDKEIGILDADVFGPSIPILMNLPDTPLLNKDNL 60
           +++S KGGVGKSTT+VNLA A+K  YPDK IG+LD DVFGPSIP++MNL +TPLLN  N 
Sbjct: 44  LVSSGKGGVGKSTTSVNLAAALKFAYPDKNIGLLDCDVFGPSIPLMMNLHETPLLNDKNQ 103

Query: 61  MIPLVNYGVKCLSMGNLITEKSAAIWRGLMVMQALNKLTVQVQWGPCDILFIDTPPGTGD 120
           M+PL NYG+KC+SMG LI E S  IWRGLMVMQAL KL  QV WG  D L +DTPPGTGD
Sbjct: 104 MLPLTNYGIKCMSMGFLIAEGSPVIWRGLMVMQALEKLLRQVYWGRIDYLIVDTPPGTGD 163

Query: 121 THLSLIQNLFIDTAIIITIPDTMSLQVAQRGYTMFKKLNIPVAGLVMNMNSVLCPSCNHM 180
           THLSL+QN+ I   I+IT P   +L V +RG  M+KK+++P+ GLV NM+SV CPSC++ 
Sbjct: 164 THLSLVQNIPISGVILITTPQLAALDVTKRGAAMYKKISVPIIGLVENMSSVTCPSCHNT 223

Query: 181 FELY---ENNLHQFEAKNFLKSY 200
            +++    +NL      + ++S+
Sbjct: 224 VQIFGAGTSNLANEIGTDIIQSF 246

Source: Tribolium castaneum

Species: Tribolium castaneum

Genus: Tribolium

Family: Tenebrionidae

Order: Coleoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|345493797|ref|XP_003427155.1| PREDICTED: iron-sulfur protein NUBPL-like [Nasonia vitripennis]

 Score =  239 bits (610), Expect = 9e-61,   Method: Compositional matrix adjust.
 Identities = 116/209 (55%), Positives = 154/209 (73%), Gaps = 2/209 (0%)

Query: 1   MIASSKGGVGKSTTTVNLATAMKICYPDKEIGILDADVFGPSIPILMNLPDTPLLNKDNL 60
           ++AS KGGVGKSTT+VNLA A+K   P K IG+LDADVFGPSIP++MNL ++P+LN +NL
Sbjct: 72  IVASGKGGVGKSTTSVNLAVALKAMDPSKSIGLLDADVFGPSIPLMMNLHESPVLNSNNL 131

Query: 61  MIPLVNYGVKCLSMGNLITEKSAAIWRGLMVMQALNKLTVQVQWGPCDILFIDTPPGTGD 120
           M PLVN+GVKC+SMG LI +KS+ +WRGLMVM A+++L  QV WGP D L +DTPPGTGD
Sbjct: 132 MEPLVNFGVKCMSMGFLIEKKSSPVWRGLMVMGAIDRLLRQVAWGPLDYLIVDTPPGTGD 191

Query: 121 THLSLIQNLFIDTAIIITIPDTMSLQVAQRGYTMFKKLNIPVAGLVMNMNSVLCPSCNHM 180
           THLSL+QNL I  A+++T P   ++ V +RG +M+ K+NIP+AG+V NM +V+CP+C   
Sbjct: 192 THLSLVQNLPISGALLVTTPQKAAVDVTRRGASMYDKVNIPLAGIVSNMTNVICPNCKSE 251

Query: 181 FELYENNLHQFEAKNFLKSYE-RKLYGIH 208
             L ++      AK   K+   R    IH
Sbjct: 252 VPLSKDGTDGL-AKELGKNLNIRTFTSIH 279

Source: Nasonia vitripennis

Species: Nasonia vitripennis

Genus: Nasonia

Family: Pteromalidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|328793077|ref|XP_623838.2| PREDICTED: iron-sulfur protein NUBPL-like [Apis mellifera]

 Score =  237 bits (604), Expect = 5e-60,   Method: Compositional matrix adjust.
 Identities = 108/186 (58%), Positives = 142/186 (76%)

Query: 1   MIASSKGGVGKSTTTVNLATAMKICYPDKEIGILDADVFGPSIPILMNLPDTPLLNKDNL 60
           ++AS KGGVGKST  VNL+ A+K   P K +G+LDAD+FGPS+P++MN+   P++N  NL
Sbjct: 68  IVASGKGGVGKSTIAVNLSIALKTIEPQKSVGLLDADIFGPSVPLMMNIRQNPMINNANL 127

Query: 61  MIPLVNYGVKCLSMGNLITEKSAAIWRGLMVMQALNKLTVQVQWGPCDILFIDTPPGTGD 120
           + PLVNYGVKC+SMG LI  KS+ IWRGLMVM A++KL  QV WGP D L +DTPPGTGD
Sbjct: 128 IEPLVNYGVKCMSMGFLIDNKSSVIWRGLMVMNAIDKLLYQVAWGPLDYLVVDTPPGTGD 187

Query: 121 THLSLIQNLFIDTAIIITIPDTMSLQVAQRGYTMFKKLNIPVAGLVMNMNSVLCPSCNHM 180
           THLS++QNL +   ++IT P T +L+V +RG  +FK LNIP+ G+V NM+SV+CP CN+ 
Sbjct: 188 THLSIVQNLPVAGVLLITTPQTTALEVTRRGANIFKHLNIPIIGIVENMSSVICPQCNNE 247

Query: 181 FELYEN 186
             LY +
Sbjct: 248 IILYND 253

Source: Apis mellifera

Species: Apis mellifera

Genus: Apis

Family: Apidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|350405591|ref|XP_003487487.1| PREDICTED: iron-sulfur protein NUBPL-like [Bombus impatiens]

 Score =  235 bits (600), Expect = 1e-59,   Method: Compositional matrix adjust.
 Identities = 111/204 (54%), Positives = 146/204 (71%), Gaps = 5/204 (2%)

Query: 1   MIASSKGGVGKSTTTVNLATAMKICYPDKEIGILDADVFGPSIPILMNLPDTPLLNKDNL 60
           ++AS KGGVGKSTT VNL  A+K   P K +G+LDADVFGPSIP++MN+  +P +N  NL
Sbjct: 68  VVASGKGGVGKSTTAVNLCIALKTIKPQKSVGLLDADVFGPSIPLMMNIQQSPTVNNTNL 127

Query: 61  MIPLVNYGVKCLSMGNLITEKSAAIWRGLMVMQALNKLTVQVQWGPCDILFIDTPPGTGD 120
           + PL+NYG+KC+SMG LI +KS  IWRGLMVM A++KL  QV W P D L IDTPPGTGD
Sbjct: 128 IEPLINYGIKCMSMGFLIDDKSPVIWRGLMVMSAIDKLLRQVAWNPLDYLVIDTPPGTGD 187

Query: 121 THLSLIQNLFIDTAIIITIPDTMSLQVAQRGYTMFKKLNIPVAGLVMNMNSVLCPSCNHM 180
           THLS+IQNL +  A+++T P   +L+V +RG  MFK+LNIP+ G+V NM++++CP C + 
Sbjct: 188 THLSIIQNLPVAGALLVTTPQKAALEVTRRGANMFKRLNIPIIGIVENMSNIICPECKNE 247

Query: 181 FELYENNLHQFEAKNFLKSYERKL 204
             LY       E +   K  E K+
Sbjct: 248 IILYNG-----ETQTVAKELESKM 266

Source: Bombus impatiens

Species: Bombus impatiens

Genus: Bombus

Family: Apidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

---

Prediction of Gene Ontology (GO) Terms

Close Homologs with Gene Ontology terms Detected by BLAST

Original result of BLAST against Gene Ontology (AMIGO)

ID	Length	Definition	Q cover	H cover	Identity	E-value
Query	261
UNIPROTKB|E2REF1	333	NUBPL "Uncharacterized protein	0.704	0.552	0.494	1.8e-46
RGD|1307232	319	Nubpl "nucleotide binding prot	0.704	0.576	0.494	1e-45
MGI|MGI:1924076	319	Nubpl "nucleotide binding prot	0.704	0.576	0.494	1.3e-45
UNIPROTKB|E1BE32	331	NUBPL "Uncharacterized protein	0.704	0.555	0.489	2.7e-45
CGD|CAL0004410	300	orf19.2043 [Candida albicans (	0.750	0.653	0.482	3.4e-45
UNIPROTKB|Q5AD24	300	CaO19.2043 "Putative uncharact	0.750	0.653	0.482	3.4e-45
UNIPROTKB|Q8TB37	319	NUBPL "Iron-sulfur protein NUB	0.704	0.576	0.483	4.4e-45
UNIPROTKB|F1NG62	289	NUBPL "Uncharacterized protein	0.704	0.636	0.494	1.2e-44
TAIR|locus:2122995	313	INDH "iron-sulfur protein requ	0.747	0.623	0.477	1.5e-44
FB|FBgn0032986	293	CG3262 [Drosophila melanogaste	0.704	0.627	0.457	1.5e-42

UNIPROTKB|E2REF1 NUBPL "Uncharacterized protein" [Canis lupus familiaris (taxid:9615)]

 Score = 487 (176.5 bits), Expect = 1.8e-46, P = 1.8e-46
 Identities = 91/184 (49%), Positives = 121/184 (65%)

Query:     1 MIASSKGGVGKSTTTVNLATAMKICYPDKEIGILDADVFGPSIPILMNLPDTPLLNKDNL 60
             ++AS KGGVGKSTT VNLA  +      K +G+LD DV+GPSIP +MNL   P L+++NL
Sbjct:    75 VVASGKGGVGKSTTAVNLALGLAANDSSKAVGLLDVDVYGPSIPKMMNLKGNPELSQNNL 134

Query:    61 MIPLVNYGVKCLSMGNLITEKSAAIWRGLMVMQALNKLTVQVQWGPCDILFIDTPPGTGD 120
             M PL+NYG+ C+SMG LI E +  +WRGLMVM A+ KL  QV WGP D L +DTPPGTGD
Sbjct:   135 MRPLLNYGIACMSMGFLIEETAPVVWRGLMVMSAIEKLLRQVDWGPLDYLVVDTPPGTGD 194

Query:   121 THLSLIQNLFXXXXXXXXXXXXMSLQVAQRGYTMFKKLNIPVAGLVMNMNSVLCPSCNHM 180
               LS+ QN+             ++L  A +G  MF+K+++PV GL+ NM+   CP C H 
Sbjct:   195 VQLSISQNIPISGAVIVSTPQDIALVDAHKGAEMFRKVHVPVLGLIQNMSVFQCPKCKHR 254

Query:   181 FELY 184
               ++
Sbjct:   255 THIF 258

GO:0070584 "mitochondrion morphogenesis" evidence=IEA

GO:0051539 "4 iron, 4 sulfur cluster binding" evidence=IEA

GO:0032981 "mitochondrial respiratory chain complex I assembly" evidence=IEA

GO:0005739 "mitochondrion" evidence=IEA

GO:0005524 "ATP binding" evidence=IEA

RGD|1307232 Nubpl "nucleotide binding protein-like" [Rattus norvegicus (taxid:10116)]

 Score = 480 (174.0 bits), Expect = 1.0e-45, P = 1.0e-45
 Identities = 91/184 (49%), Positives = 119/184 (64%)

Query:     1 MIASSKGGVGKSTTTVNLATAMKICYPDKEIGILDADVFGPSIPILMNLPDTPLLNKDNL 60
             ++AS KGGVGKSTT VNLA A+      K +G+LD DV+GPSIP +MNL   P L+ +NL
Sbjct:    71 VVASGKGGVGKSTTAVNLALALAANDSSKAVGLLDVDVYGPSIPKMMNLKGNPELSPNNL 130

Query:    61 MIPLVNYGVKCLSMGNLITEKSAAIWRGLMVMQALNKLTVQVQWGPCDILFIDTPPGTGD 120
             M PL+NYG+ C+SMG L+ E +  +WRGLMVM A+ KL  QV WG  D L +D PPGTGD
Sbjct:   131 MRPLLNYGIACMSMGFLVEETAPLVWRGLMVMSAIEKLLRQVDWGQLDYLVVDMPPGTGD 190

Query:   121 THLSLIQNLFXXXXXXXXXXXXMSLQVAQRGYTMFKKLNIPVAGLVMNMNSVLCPSCNHM 180
               LS+ QN+             ++L  A +G  MF+K+N+PV GLV NM+   CP C H 
Sbjct:   191 VQLSVSQNIPISGAVIVSTPQDIALMDAHKGAEMFRKVNVPVLGLVQNMSVFQCPQCKHK 250

Query:   181 FELY 184
               ++
Sbjct:   251 THIF 254

GO:0005524 "ATP binding" evidence=IEA

GO:0005739 "mitochondrion" evidence=IEA

GO:0032981 "mitochondrial respiratory chain complex I assembly" evidence=IEA

GO:0051539 "4 iron, 4 sulfur cluster binding" evidence=IEA

GO:0070584 "mitochondrion morphogenesis" evidence=IEA

MGI|MGI:1924076 Nubpl "nucleotide binding protein-like" [Mus musculus (taxid:10090)]

 Score = 479 (173.7 bits), Expect = 1.3e-45, P = 1.3e-45
 Identities = 91/184 (49%), Positives = 119/184 (64%)

Query:     1 MIASSKGGVGKSTTTVNLATAMKICYPDKEIGILDADVFGPSIPILMNLPDTPLLNKDNL 60
             ++AS KGGVGKSTT VNLA A+      K +G+LD DV+GPSIP +MNL   P L+ +NL
Sbjct:    71 VVASGKGGVGKSTTAVNLALALAANDSSKAVGLLDVDVYGPSIPKMMNLRGNPELSPNNL 130

Query:    61 MIPLVNYGVKCLSMGNLITEKSAAIWRGLMVMQALNKLTVQVQWGPCDILFIDTPPGTGD 120
             M PL+NYG+ C+SMG L+ E +  +WRGLMVM A+ KL  QV WG  D L +D PPGTGD
Sbjct:   131 MRPLLNYGIACMSMGFLVEETAPLVWRGLMVMSAIEKLLRQVDWGQLDYLVVDMPPGTGD 190

Query:   121 THLSLIQNLFXXXXXXXXXXXXMSLQVAQRGYTMFKKLNIPVAGLVMNMNSVLCPSCNHM 180
               LS+ QN+             ++L  A +G  MF+K+N+PV GLV NM+   CP C H 
Sbjct:   191 VQLSVSQNIPISGAVIVSTPQDIALMDAHKGAEMFRKVNVPVLGLVQNMSVFQCPKCKHK 250

Query:   181 FELY 184
               ++
Sbjct:   251 THIF 254

GO:0000166 "nucleotide binding" evidence=IEA

GO:0005524 "ATP binding" evidence=IEA

GO:0005739 "mitochondrion" evidence=ISO;IDA

GO:0032981 "mitochondrial respiratory chain complex I assembly" evidence=ISO

GO:0046872 "metal ion binding" evidence=IEA

GO:0051536 "iron-sulfur cluster binding" evidence=IEA

GO:0051539 "4 iron, 4 sulfur cluster binding" evidence=ISO

GO:0070584 "mitochondrion morphogenesis" evidence=ISO

UNIPROTKB|E1BE32 NUBPL "Uncharacterized protein" [Bos taurus (taxid:9913)]

 Score = 476 (172.6 bits), Expect = 2.7e-45, P = 2.7e-45
 Identities = 90/184 (48%), Positives = 119/184 (64%)

Query:     1 MIASSKGGVGKSTTTVNLATAMKICYPDKEIGILDADVFGPSIPILMNLPDTPLLNKDNL 60
             ++AS KGGVGKSTT VNLA A+      K +G+LD DV+GPSIP +MNL   P L++ NL
Sbjct:    71 VVASGKGGVGKSTTAVNLALALAANDSSKAVGLLDVDVYGPSIPKMMNLKGNPELSQSNL 130

Query:    61 MIPLVNYGVKCLSMGNLITEKSAAIWRGLMVMQALNKLTVQVQWGPCDILFIDTPPGTGD 120
             M PL+NYG+ C+SMG L+ E +  +WRGLMVM A+ KL  QV WG  D L +D PPGTGD
Sbjct:   131 MRPLLNYGIACMSMGFLVEETAPLVWRGLMVMSAIEKLLRQVDWGQLDYLVVDMPPGTGD 190

Query:   121 THLSLIQNLFXXXXXXXXXXXXMSLQVAQRGYTMFKKLNIPVAGLVMNMNSVLCPSCNHM 180
               LS+ QN+             ++L  A +G  MF+K+++PV GLV NM+   CP C H 
Sbjct:   191 VQLSVSQNIPISGAVIVSTPQDIALMDAHKGAEMFRKVHVPVLGLVQNMSVFQCPKCKHK 250

Query:   181 FELY 184
               ++
Sbjct:   251 THIF 254

GO:0070584 "mitochondrion morphogenesis" evidence=IEA

GO:0051539 "4 iron, 4 sulfur cluster binding" evidence=IEA

GO:0032981 "mitochondrial respiratory chain complex I assembly" evidence=IEA

GO:0005739 "mitochondrion" evidence=IEA

GO:0005524 "ATP binding" evidence=IEA

CGD|CAL0004410 orf19.2043 [Candida albicans (taxid:5476)]

 Score = 475 (172.3 bits), Expect = 3.4e-45, P = 3.4e-45
 Identities = 96/199 (48%), Positives = 129/199 (64%)

Query:     1 MIASSKGGVGKSTTTVNLATAMKICYPDKEIGILDADVFGPSIPILMNLPDTPLLNKDNL 60
             +I+S+KGGVGKST +VN A A+      K++GILDAD+FGPSIP LMNL   P L+    
Sbjct:    59 LISSAKGGVGKSTVSVNTALALNSL--GKKVGILDADIFGPSIPKLMNLKGEPRLSSSGK 116

Query:    61 MIPLVNYGVKCLSMGNLITEKSAAIWRGLMVMQALNKLTVQVQWGPCDILFIDTPPGTGD 120
             ++PL NYGV+ +SMG LI EK A  WRGLMVM+AL +L  +V+W P D L +D PPGTGD
Sbjct:   117 LLPLSNYGVQTMSMGYLIDEKQAITWRGLMVMKALQQLLFEVEWSPIDYLVVDMPPGTGD 176

Query:   121 THLSLIQNLFXXXXXXXXXXXXMSLQVAQRGYTMFKKLNIPVAGLVMNMNSVLCPSCNHM 180
             T LS+ Q L             ++L  A +G TMF K+NIP+ G+V NM+  +CP+C H 
Sbjct:   177 TQLSIGQLLQITGAIIVSTPQDIALIDAVKGITMFNKINIPLIGMVQNMSHFICPNCKHE 236

Query:   181 FELYENN-LHQFEAKNFLK 198
               +++N    +   +N LK
Sbjct:   237 SHIFKNKGAERVALENNLK 255

GO:0005575 "cellular_component" evidence=ND

GO:0008150 "biological_process" evidence=ND

UNIPROTKB|Q5AD24 CaO19.2043 "Putative uncharacterized protein" [Candida albicans SC5314 (taxid:237561)]

 Score = 475 (172.3 bits), Expect = 3.4e-45, P = 3.4e-45
 Identities = 96/199 (48%), Positives = 129/199 (64%)

Query:     1 MIASSKGGVGKSTTTVNLATAMKICYPDKEIGILDADVFGPSIPILMNLPDTPLLNKDNL 60
             +I+S+KGGVGKST +VN A A+      K++GILDAD+FGPSIP LMNL   P L+    
Sbjct:    59 LISSAKGGVGKSTVSVNTALALNSL--GKKVGILDADIFGPSIPKLMNLKGEPRLSSSGK 116

Query:    61 MIPLVNYGVKCLSMGNLITEKSAAIWRGLMVMQALNKLTVQVQWGPCDILFIDTPPGTGD 120
             ++PL NYGV+ +SMG LI EK A  WRGLMVM+AL +L  +V+W P D L +D PPGTGD
Sbjct:   117 LLPLSNYGVQTMSMGYLIDEKQAITWRGLMVMKALQQLLFEVEWSPIDYLVVDMPPGTGD 176

Query:   121 THLSLIQNLFXXXXXXXXXXXXMSLQVAQRGYTMFKKLNIPVAGLVMNMNSVLCPSCNHM 180
             T LS+ Q L             ++L  A +G TMF K+NIP+ G+V NM+  +CP+C H 
Sbjct:   177 TQLSIGQLLQITGAIIVSTPQDIALIDAVKGITMFNKINIPLIGMVQNMSHFICPNCKHE 236

Query:   181 FELYENN-LHQFEAKNFLK 198
               +++N    +   +N LK
Sbjct:   237 SHIFKNKGAERVALENNLK 255

GO:0005575 "cellular_component" evidence=ND

GO:0008150 "biological_process" evidence=ND

UNIPROTKB|Q8TB37 NUBPL "Iron-sulfur protein NUBPL" [Homo sapiens (taxid:9606)]

 Score = 474 (171.9 bits), Expect = 4.4e-45, P = 4.4e-45
 Identities = 89/184 (48%), Positives = 118/184 (64%)

Query:     1 MIASSKGGVGKSTTTVNLATAMKICYPDKEIGILDADVFGPSIPILMNLPDTPLLNKDNL 60
             ++AS KGGVGKSTT VNLA A+      K IG+LD DV+GPS+P +MNL   P L++ NL
Sbjct:    71 VVASGKGGVGKSTTAVNLALALAANDSSKAIGLLDVDVYGPSVPKMMNLKGNPELSQSNL 130

Query:    61 MIPLVNYGVKCLSMGNLITEKSAAIWRGLMVMQALNKLTVQVQWGPCDILFIDTPPGTGD 120
             M PL+NYG+ C+SMG L+ E    +WRGLMVM A+ KL  QV WG  D L +D PPGTGD
Sbjct:   131 MRPLLNYGIACMSMGFLVEESEPVVWRGLMVMSAIEKLLRQVDWGQLDYLVVDMPPGTGD 190

Query:   121 THLSLIQNLFXXXXXXXXXXXXMSLQVAQRGYTMFKKLNIPVAGLVMNMNSVLCPSCNHM 180
               LS+ QN+             ++L  A +G  MF+++++PV GLV NM+   CP C H 
Sbjct:   191 VQLSVSQNIPITGAVIVSTPQDIALMDAHKGAEMFRRVHVPVLGLVQNMSVFQCPKCKHK 250

Query:   181 FELY 184
               ++
Sbjct:   251 THIF 254

GO:0005524 "ATP binding" evidence=IEA

GO:0046872 "metal ion binding" evidence=IEA

GO:0005739 "mitochondrion" evidence=IDA

GO:0051539 "4 iron, 4 sulfur cluster binding" evidence=IDA

GO:0070584 "mitochondrion morphogenesis" evidence=IMP

GO:0032981 "mitochondrial respiratory chain complex I assembly" evidence=IMP

UNIPROTKB|F1NG62 NUBPL "Uncharacterized protein" [Gallus gallus (taxid:9031)]

 Score = 470 (170.5 bits), Expect = 1.2e-44, P = 1.2e-44
 Identities = 91/184 (49%), Positives = 118/184 (64%)

Query:     1 MIASSKGGVGKSTTTVNLATAMKICYPDKEIGILDADVFGPSIPILMNLPDTPLLNKDNL 60
             ++AS KGGVGKST  VN+A A+      KE+G+LDAD++GPSIP +MNL   P L   NL
Sbjct:    76 VVASGKGGVGKSTAAVNIALALAANDSAKEVGLLDADIYGPSIPKMMNLKGNPELTPKNL 135

Query:    61 MIPLVNYGVKCLSMGNLITEKSAAIWRGLMVMQALNKLTVQVQWGPCDILFIDTPPGTGD 120
             M PL NYG+ C+SMG LI E +  +WRGLMVM A+ KL  QV WG  D L ID PPGTGD
Sbjct:   136 MRPLKNYGIACMSMGFLIEEAAPVVWRGLMVMSAVEKLLRQVDWGQLDYLVIDMPPGTGD 195

Query:   121 THLSLIQNLFXXXXXXXXXXXXMSLQVAQRGYTMFKKLNIPVAGLVMNMNSVLCPSCNHM 180
               LS+ QN+             ++L  A++G  MF+K+++PV GLV NM+   CP C H 
Sbjct:   196 VQLSISQNIPIAGAVIISTPQDVALLDARKGTEMFRKVHVPVLGLVQNMSVFRCPKCEHE 255

Query:   181 FELY 184
               ++
Sbjct:   256 THIF 259

GO:0005524 "ATP binding" evidence=IEA

GO:0005739 "mitochondrion" evidence=IEA

GO:0032981 "mitochondrial respiratory chain complex I assembly" evidence=IEA

GO:0051539 "4 iron, 4 sulfur cluster binding" evidence=IEA

GO:0070584 "mitochondrion morphogenesis" evidence=IEA

TAIR|locus:2122995 INDH "iron-sulfur protein required for NADH dehydrogenase" [Arabidopsis thaliana (taxid:3702)]

 Score = 469 (170.2 bits), Expect = 1.5e-44, P = 1.5e-44
 Identities = 95/199 (47%), Positives = 127/199 (63%)

Query:     2 IASSKGGVGKSTTTVNLATAM-KICYPDKEIGILDADVFGPSIPILMNLPDTPLLNKDNL 60
             +AS KGGVGKS+T VNLA A+   C  + +IG+LDADV+GPS+PI+MN+   P +N+D  
Sbjct:    48 VASGKGGVGKSSTAVNLAVALANKC--ELKIGLLDADVYGPSVPIMMNINQKPQVNQDMK 105

Query:    61 MIPLVNYGVKCLSMGNLITEKSAAIWRGLMVMQALNKLTVQVQWGPCDILFIDTPPGTGD 120
             MIP+ NYGVKC+SMG L+ + +  +WRG MVM AL K+T  V WG  DIL +D PPGTGD
Sbjct:   106 MIPVENYGVKCMSMGLLVEKDAPLVWRGPMVMSALAKMTKGVDWGDLDILVVDMPPGTGD 165

Query:   121 THLSLIQNLFXXXXXXXXXXXXMSLQVAQRGYTMFKKLNIPVAGLVMNMNSVLCPSCNH- 179
               +S+ QNL             ++L  A RG +MF K+ +P+ GLV NM+  +CP CN  
Sbjct:   166 AQISISQNLKLSGAVIVSTPQDVALADANRGISMFDKVRVPILGLVENMSCFVCPHCNEP 225

Query:   180 MFELYENNLHQFEAKNFLK 198
              F   +    +  AK  LK
Sbjct:   226 SFIFGKEGARRTAAKKGLK 244

GO:0005739 "mitochondrion" evidence=ISM;IDA

FB|FBgn0032986 CG3262 [Drosophila melanogaster (taxid:7227)]

 Score = 450 (163.5 bits), Expect = 1.5e-42, P = 1.5e-42
 Identities = 86/188 (45%), Positives = 122/188 (64%)

Query:     1 MIASSKGGVGKSTTTVNLATAM-KICYPDKEIGILDADVFGPSIPILMNLPDTPLLNKDN 59
             ++AS KGGVGKST  VN A ++ K+    K +G+LD D+FGP+IP+LMN+   P++N  N
Sbjct:    43 VVASGKGGVGKSTVAVNFACSLAKL---GKRVGLLDGDIFGPTIPLLMNVHGEPVVNDKN 99

Query:    60 LMIPLVNYGVKCLSMGNLITEKSAAIWRGLMVMQALNKLTVQVQWGPCDILFIDTPPGTG 119
             LMIP  NY VKCLSMG L   +++ IWRG +VM A+ +L     WG  D+L IDTPPGTG
Sbjct:   100 LMIPPQNYNVKCLSMGMLTPVETSVIWRGPLVMSAIQRLLKGTDWGLLDVLVIDTPPGTG 159

Query:   120 DTHLSLIQNLFXXXXXXXXXXXXMSLQVAQRGYTMFKKLNIPVAGLVMNMNSVLCPSCNH 179
             D HLSL Q+               ++QV  +G +M++KLN+P+ G+V NM   +C +CN 
Sbjct:   160 DVHLSLSQHAPITGVILVTTPHTAAVQVTLKGASMYEKLNVPIFGVVENMKYTICQNCNQ 219

Query:   180 MFELYENN 187
               E ++++
Sbjct:   220 RLEFFKDS 227

GO:0000166 "nucleotide binding" evidence=ISS

GO:0005524 "ATP 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

ID	Name	Annotated EC number	Identity	Query coverage	Hit coverage	RBH(Q2H)	RBH(H2Q)
Q57731	Y283_METJA	No assigned EC number	0.4020	0.7432	0.6689	yes	N/A
Q93459	NUBP1_CAEEL	No assigned EC number	0.3686	0.7318	0.6102	yes	N/A
O58667	Y949_PYRHO	No assigned EC number	0.3232	0.8160	0.7220	yes	N/A
Q9V0D9	Y851_PYRAB	No assigned EC number	0.3189	0.8160	0.7220	yes	N/A
Q8U1R0	Y1145_PYRFU	No assigned EC number	0.3189	0.8160	0.7220	yes	N/A
Q8TB37	NUBPL_HUMAN	No assigned EC number	0.5054	0.7049	0.5768	yes	N/A
Q9CWD8	NUBPL_MOUSE	No assigned EC number	0.5163	0.7049	0.5768	yes	N/A
Q54F15	NUBPL_DICDI	No assigned EC number	0.4554	0.7432	0.6006	yes	N/A
Q6CE48	IND1_YARLI	No assigned EC number	0.4051	0.7394	0.6185	yes	N/A

EC Number Prediction by EFICAz Software

Prediction Level	EC number	Confidence of Prediction
3rd Layer	2.7.10	LOW CONFIDENCE prediction!

---

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database

ID	Length	Definition	E-value
Query	261
cd02037	169	cd02037, MRP-like, MRP (Multiple Resistance and pH	4e-55
COG0489	265	COG0489, Mrp, ATPases involved in chromosome parti	7e-49
PRK11670	369	PRK11670, PRK11670, antiporter inner membrane prot	3e-46
pfam10609	81	pfam10609, ParA, ParA/MinD ATPase like	9e-30
COG0455	262	COG0455, flhG, Antiactivator of flagellar biosynth	3e-14
cd02035	217	cd02035, ArsA, ArsA ATPase functionas as an efflux	5e-12
cd02036	179	cd02036, MinD, Bacterial cell division requires th	3e-11
COG1192	259	COG1192, Soj, ATPases involved in chromosome parti	2e-10
TIGR01969	251	TIGR01969, minD_arch, cell division ATPase MinD, a	2e-09
cd03110	179	cd03110, Fer4_NifH_child, This protein family's fu	2e-09
pfam01656	217	pfam01656, CbiA, CobQ/CobB/MinD/ParA nucleotide bi	1e-07
COG1149	284	COG1149, COG1149, MinD superfamily P-loop ATPase c	2e-07
cd02042	104	cd02042, ParA, ParA and ParB of Caulobacter cresce	7e-06
cd01983	99	cd01983, Fer4_NifH, The Fer4_NifH superfamily cont	2e-05
cd01983	99	cd01983, Fer4_NifH, The Fer4_NifH superfamily cont	4e-05
TIGR01968	261	TIGR01968, minD_bact, septum site-determining prot	4e-05
COG2894	272	COG2894, MinD, Septum formation inhibitor-activati	5e-05
TIGR03018	207	TIGR03018, pepcterm_TyrKin, exopolysaccharide/PEP-	2e-04
cd02038	139	cd02038, FleN-like, FleN is a member of the Fer4_N	3e-04
COG1149	284	COG1149, COG1149, MinD superfamily P-loop ATPase c	6e-04
cd02038	139	cd02038, FleN-like, FleN is a member of the Fer4_N	7e-04
CHL00175	281	CHL00175, minD, septum-site determining protein; V	0.003

>gnl|CDD|238994 cd02037, MRP-like, MRP (Multiple Resistance and pH adaptation) is a homologue of the Fer4_NifH superfamily

 Score =  174 bits (444), Expect = 4e-55
 Identities = 69/178 (38%), Positives = 92/178 (51%), Gaps = 41/178 (23%)

Query: 2   IASSKGGVGKSTTTVNLATAMKICYPDKEIGILDADVFGPSIPILMNLPDTPLLNKDNLM 61
           + S KGGVGKST  VNLA A+       ++G+LDAD++GPSIP +               
Sbjct: 4   VMSGKGGVGKSTVAVNLALALA--KLGYKVGLLDADIYGPSIPKM--------------- 46

Query: 62  IPLVNYGVKCLSMGNLITEKSAAIWRGLMVMQALNKLTVQVQWGPCDILFIDTPPGTGDT 121
                                   WRG M M A+ +    V WG  D L ID PPGTGD 
Sbjct: 47  ------------------------WRGPMKMGAIKQFLTDVDWGELDYLVIDMPPGTGDE 82

Query: 122 HLSLIQNLFIDTAIIITIPDTMSLQVAQRGYTMFKKLNIPVAGLVMNMNSVLCPSCNH 179
           HL+L Q+L ID A+I+T P  ++L   ++   MFKK+NIP+ G+V NM+  +CP C  
Sbjct: 83  HLTLAQSLPIDGAVIVTTPQEVALDDVRKAIDMFKKVNIPILGVVENMSYFVCPHCGK 140

Like the other members of the superfamily, MRP contains a ATP-binding domain at the N-termini. It is found in bacteria as a membrane-spanning protein and functions as a Na+/H+ antiporter. Length = 169

>gnl|CDD|223563 COG0489, Mrp, ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]

 Score =  161 bits (410), Expect = 7e-49
 Identities = 71/181 (39%), Positives = 103/181 (56%), Gaps = 9/181 (4%)

Query: 1   MIASSKGGVGKSTTTVNLATAMKICYPDKEIGILDADVFGPSIPILMNLPD----TPLLN 56
            + S KGGVGKST  VNLA A+      K + +LDAD+ GPSIP ++ L +    T LL 
Sbjct: 61  AVTSGKGGVGKSTVAVNLAAAL--AQLGKRVLLLDADLRGPSIPRMLGLENLPGLTELLA 118

Query: 57  KDNLMIPLVNYGVKCLSMGNLITEKSAAIWRGLMVMQALNKLTVQVQWGPCDILFIDTPP 116
            + L   + + G+K LS+  L       I RGL+  +A+ +L   V WG  D + IDTPP
Sbjct: 119 GEALEPVIQHDGIKVLSILPLG--PVPVIPRGLLGSKAMLQLLEDVLWGEYDYVIIDTPP 176

Query: 117 GTGDTHLSLIQNLFIDTAIIITIPDTMSLQVAQRGYTMFKKLNIPVAGLVMNMNSVLCPS 176
           GTGD   +++Q +  D  +I+T P   +L+  ++   M +K  IPV G+V NM+  +CP 
Sbjct: 177 GTGDADATVLQRI-PDGVVIVTTPGKTALEDVKKAIDMLEKAGIPVLGVVENMSYFICPR 235

Query: 177 C 177
           C
Sbjct: 236 C 236

Length = 265

>gnl|CDD|183270 PRK11670, PRK11670, antiporter inner membrane protein; Provisional

 Score =  157 bits (400), Expect = 3e-46
 Identities = 73/179 (40%), Positives = 115/179 (64%), Gaps = 3/179 (1%)

Query: 2   IASSKGGVGKSTTTVNLATAMKICYPDKEIGILDADVFGPSIPILMNLPDTPLLNKDNL- 60
           ++S KGGVGKS+T VNLA A+       ++GILDAD++GPSIP ++   D    + D   
Sbjct: 112 VSSGKGGVGKSSTAVNLALALAA--EGAKVGILDADIYGPSIPTMLGAEDQRPTSPDGTH 169

Query: 61  MIPLVNYGVKCLSMGNLITEKSAAIWRGLMVMQALNKLTVQVQWGPCDILFIDTPPGTGD 120
           M P++ +G+   S+G L+T+ +A +WRG M  +AL ++  +  W   D L +D PPGTGD
Sbjct: 170 MAPIMAHGLATNSIGYLVTDDNAMVWRGPMASKALMQMLQETLWPDLDYLVLDMPPGTGD 229

Query: 121 THLSLIQNLFIDTAIIITIPDTMSLQVAQRGYTMFKKLNIPVAGLVMNMNSVLCPSCNH 179
             L+L QN+ +  A+++T P  ++L  A++G  MF+K+ +PV G+V NM+  +C +C H
Sbjct: 230 IQLTLAQNIPVTGAVVVTTPQDIALIDAKKGIVMFEKVEVPVLGIVENMSMHICSNCGH 288

Length = 369

>gnl|CDD|204531 pfam10609, ParA, ParA/MinD ATPase like

 Score =  106 bits (268), Expect = 9e-30
 Identities = 34/77 (44%), Positives = 51/77 (66%)

Query: 108 DILFIDTPPGTGDTHLSLIQNLFIDTAIIITIPDTMSLQVAQRGYTMFKKLNIPVAGLVM 167
           D L ID PPGTGD HL+L Q+L +D A+I+T P  ++L   ++   MFKK+N+P+ G+V 
Sbjct: 2   DYLLIDLPPGTGDEHLTLAQSLPVDGAVIVTTPQDVALLDVRKAIDMFKKVNVPILGVVE 61

Query: 168 NMNSVLCPSCNHMFELY 184
           NM+  +CP C     ++
Sbjct: 62  NMSYFVCPDCGEKIYIF 78

This family contains ATPases involved in plasmid partitioning. It also contains the cytosolic Fe-S cluster assembling factor NBP35 which is required for biogenesis and export of both ribosomal subunits. Length = 81

>gnl|CDD|223531 COG0455, flhG, Antiactivator of flagellar biosynthesis FleN, an ATPase [Cell motility]

 Score = 70.0 bits (172), Expect = 3e-14
 Identities = 44/185 (23%), Positives = 77/185 (41%), Gaps = 33/185 (17%)

Query: 2   IASSKGGVGKSTTTVNLATAMKICYPDKEIGILDADVFGPSIPILMNLPDTP-----LLN 56
           + S KGGVGK+T T NL  A+        + ++DAD+   ++ +L+ +   P     +L 
Sbjct: 7   VVSGKGGVGKTTITANLGAALAALGGKV-VLLIDADLGLGNLSLLLGVESKPTTLHDVLA 65

Query: 57  KD----NLMIPLVNYGVKCLSMGNLITEK---SAAIWRGLMVMQALNKLTVQVQWGPCDI 109
            +    +++      G+  L  G+ + +             V++ L +L         D 
Sbjct: 66  GEASIEDIIYETPQDGLYVLPGGSGLEDLAKLDPEDLED--VIKELEEL--------YDY 115

Query: 110 LFIDTPPGTGDTHLSLIQNLFIDTAIIITIPDTMSLQVAQRGYTMFK-----KLNIPVAG 164
           + IDT  G     LS I  L  D  +I+T P+  S+  A   Y   K      L++    
Sbjct: 116 ILIDTGAGLSRDTLSFI--LSSDELVIVTTPEPTSITDA---YKTIKILSKLGLDLLGRR 170

Query: 165 LVMNM 169
           +V+N 
Sbjct: 171 VVLNR 175

Length = 262

>gnl|CDD|238992 cd02035, ArsA, ArsA ATPase functionas as an efflux pump located on the inner membrane of the cell

 Score = 63.0 bits (154), Expect = 5e-12
 Identities = 48/211 (22%), Positives = 87/211 (41%), Gaps = 31/211 (14%)

Query: 6   KGGVGKSTTTVNLATAMKICYPDKEIGIL-------DADVFGPSIPILMNLPDTPLLNKD 58
           KGGVGK  TT+  ATA+++    K++ ++        +D   P++     + D  +    
Sbjct: 7   KGGVGK--TTIAAATAVRLAEEGKKVLLVSTDPAHNLSDKGLPNLSDAFIVEDPEIA--P 62

Query: 59  NL----MIPLVNYGVKCLSMGNLITEKSAAIWRG---LMVMQALNKLTVQVQWGPCDILF 111
           NL    +             G L+ E +AA+  G   L  + A+ +   +  +   D++ 
Sbjct: 63  NLYREEVDATRRVERAWGGEGGLMLELAAAL-PGIEELASLLAVFREFSEGLY---DVIV 118

Query: 112 IDTPPGTGDTHLSLIQNLFID----TAIIITIPDTMSLQVAQRGYTMFKKLNIPVAGLVM 167
            DT P TG T   L++ L  D    +  ++T+P+ + L   +R  T      IPV  +V+
Sbjct: 119 FDTAP-TGHTLRLLVRELLTDPERTSFRLVTLPEKLPLYETERAITELALYGIPVDAVVV 177

Query: 168 N----MNSVLCPSCNHMFELYENNLHQFEAK 194
           N          P      ++ +  L + E  
Sbjct: 178 NRVLPAEVDDDPFLAARRQIQQKYLAEIEEL 208

This ATP-driven oxyanion pump catalyzes the extrusion of arsenite, antimonite and arsenate. Maintenance of a low intracellular concentration of oxyanion produces resistance to the toxic agents. The pump is composed of two subunits, the catalytic ArsA subunit and the membrane subunit ArsB, which are encoded by arsA and arsB genes respectively. Arsenic efflux in bacteria is catalyzed by either ArsB alone or by ArsAB complex. The ATP-coupled pump, however, is more efficient. ArsA is composed of two homologous halves, A1 and A2, connected by a short linker sequence. Length = 217

>gnl|CDD|238993 cd02036, MinD, Bacterial cell division requires the formation of a septum at mid-cell

 Score = 60.3 bits (147), Expect = 3e-11
 Identities = 38/169 (22%), Positives = 69/169 (40%), Gaps = 50/169 (29%)

Query: 2   IASSKGGVGKSTTTVNLATAMKICYPDKEIGILDADVFGPSIPILMNLPDTPLLNKDNLM 61
           + S KGGVGK+TTT NL TA+       ++ ++DAD+   ++ +++ L +  +       
Sbjct: 4   VTSGKGGVGKTTTTANLGTALAQL--GYKVVLIDADLGLRNLDLILGLENRVVYT----- 56

Query: 62  IPLVNYGVKCLSMGNLITEKSAAIWRGLMVMQALNKLTVQVQWGPCDILFIDTPPGTG-D 120
             L +                        V+               D + ID+P G    
Sbjct: 57  --LHD------------------------VLAG-------------DYILIDSPAGIERG 77

Query: 121 THLSLIQNLFIDTAIIITIPDTMSLQVAQRGYTMFKKLNIPVAGLVMNM 169
              ++      D A+++T P+  SL+ A R   + + L I V G+++N 
Sbjct: 78  FITAI---APADEALLVTTPEISSLRDADRVKGLLEALGIKVVGVIVNR 123

The site is determined by the min operon products MinC, MinD and MinE. MinC is a nonspecific inhibitor of the septum protein FtsZ. MinE is the supressor of MinC. MinD plays a pivotal role, selecting the mid-cell over other sites through the activation and regulation of MinC and MinE. MinD is a membrane-associated ATPase, related to nitrogenase iron protein. More distantly related proteins include flagellar biosynthesis proteins and ParA chromosome partitioning proteins. MinD is a monomer. Length = 179

>gnl|CDD|224113 COG1192, Soj, ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]

 Score = 59.1 bits (143), Expect = 2e-10
 Identities = 52/254 (20%), Positives = 93/254 (36%), Gaps = 45/254 (17%)

Query: 2   IASSKGGVGKSTTTVNLATAMKICYPDKEIGILDADVFGPSIPILMNLPDTPLLNKDNL- 60
           +A+ KGGVGK+TT VNLA A+      K++ ++D D  G     L   PD      + L 
Sbjct: 7   VANQKGGVGKTTTAVNLAAALAK-RGGKKVLLIDLDPQGSLTSWLGLRPDLEGDLYNLLS 65

Query: 61  MIPLVNYGVKCLSM--------GNLITEKSAAIWRGLMVMQALNKLTVQVQWGPCDILFI 112
            +      +    +         N+   + A I    +  + L K  +       D + I
Sbjct: 66  GLKERPDILDYTVVIEGLDLIPSNIDLAEGAEIELNAVAKELLLKRLLDPVKDDYDYIII 125

Query: 113 DTPPGTGD-THLSLIQNLFIDTAIIITIPDTMSLQVAQRGYTMFKKLN------IPVAGL 165
           DTPP  G  T  +L      D  +I   P+ + L+  ++     + L       + V G+
Sbjct: 126 DTPPSLGVLTLNALAAA---DHVLIPVQPEFLDLEGLEQLLNTLEDLLKLRRNKLIVVGI 182

Query: 166 VMNMNSVLCPSCNHMFELYENNLHQFEAKNFLKSYERKLYGIHMWNFLIPLCNLIIKIRN 225
           ++                +++        + +    ++L G  +    IP        R 
Sbjct: 183 LITR--------------FDSRTKLA---DEVLQELKQLLGDPVLKTKIP--------RR 217

Query: 226 VAYGNSHGHGNTVH 239
           VAY  +   G  ++
Sbjct: 218 VAYREAAAEGKPLY 231

Length = 259

>gnl|CDD|131024 TIGR01969, minD_arch, cell division ATPase MinD, archaeal

 Score = 56.7 bits (137), Expect = 2e-09
 Identities = 46/176 (26%), Positives = 80/176 (45%), Gaps = 21/176 (11%)

Query: 2   IASSKGGVGKSTTTVNLATAMKICYPDKEIGILDADVFGPSIPILMNLPDTPLLNKDNL- 60
           IAS KGG GK+T T NL  A+      K++  LDAD+   ++ +++ + D P+   D L 
Sbjct: 5   IASGKGGTGKTTITANLGVALAKL--GKKVLALDADITMANLELILGMEDKPVTLHDVLA 62

Query: 61  -------MIPLVNYGVKCLSMG-NLITEKSAAIWRGLMVMQALNKLTVQVQWGPCDILFI 112
                   I    +GVK +  G +L   + A   +   V++ +   T        D L I
Sbjct: 63  GEADIKDAIYEGPFGVKVIPAGVSLEGLRKADPDKLEDVLKEIIDDT--------DFLLI 114

Query: 113 DTPPGTGDTHLSLIQNLFIDTAIIITIPDTMSLQVAQRGYTMFKKLNIPVAGLVMN 168
           D P G     ++ +     D  +++  P+  S+  A +   + +KL   + G+V+N
Sbjct: 115 DAPAGLERDAVTAL--AAADELLLVVNPEISSITDALKTKIVAEKLGTAILGVVLN 168

This model represents the archaeal branch of the MinD family. MinD, a weak ATPase, works in bacteria with MinC as a generalized cell division inhibitor and, through interaction with MinE, prevents septum placement inappropriate sites. Often several members of this family are found in archaeal genomes, and the function is uncharacterized. More distantly related proteins include flagellar biosynthesis proteins and ParA chromosome partitioning proteins. The exact roles of the various archaeal MinD homologs are unknown. Length = 251

>gnl|CDD|239384 cd03110, Fer4_NifH_child, This protein family's function is unkown

 Score = 54.9 bits (133), Expect = 2e-09
 Identities = 41/172 (23%), Positives = 70/172 (40%), Gaps = 29/172 (16%)

Query: 2   IASSKGGVGKSTTTVNLATAMKICYPDKEIGILDADVFGPSIPILMN-----LPDTPLLN 56
           + S KGG GK+T T  LA  +      K + + D DV  P++ + +        D  +  
Sbjct: 4   VISGKGGTGKTTVTAALAALL------KNVVLADCDVDAPNLHLFLKPEIEEEEDFIVGG 57

Query: 57  KDNLMIPLVNYGVKCLSMGNLITEKSAAIWRGLMVMQALNKLTVQVQWGPCDILFIDTPP 116
           K  ++ P +     C   G L+TE                      +    +++ ID PP
Sbjct: 58  KKAVIDPELCIS--CGLCGKLVTEVR-------------KHAKEIAKAEGAELIIIDGPP 102

Query: 117 GTGDTHLSLIQNLFIDTAIIITIPDTMSLQVAQRGYTMFKKLNIPVAGLVMN 168
           G G   ++ +     D A+++T P    L   +R   + +   IPV G+V+N
Sbjct: 103 GIGCPVIASLTG--ADAALLVTEPTPSGLHDLERAVELVRHFGIPV-GVVIN 151

It contains nucleotide binding site. It uses NTP as energy source to transfer electron or ion. Length = 179

>gnl|CDD|216631 pfam01656, CbiA, CobQ/CobB/MinD/ParA nucleotide binding domain

 Score = 50.9 bits (122), Expect = 1e-07
 Identities = 42/188 (22%), Positives = 74/188 (39%), Gaps = 29/188 (15%)

Query: 1   MIASSKGGVGKSTTTVNLATAMKICYPDKEIGILDADVFGPSIPILMNLPDTPLLNKDNL 60
            IA +KGGVGK+T   NLA A+        + ++D D    +   L  + +      + +
Sbjct: 2   AIAGTKGGVGKTTLAANLARALAKR--GYRVLLIDLDPQANNSSYLGKVEEVLPEGLEIV 59

Query: 61  ----------------MIPLVNYGVKCLSMGNLITEKSAAIWRGLMVMQALNKLTVQVQW 104
                            +  +      LS+ N  +E      R   +  AL  L      
Sbjct: 60  DAQALQAIAAAIVPSRNLDPLLLIPSNLSLENFESELIVEGKRESRLRAALESLIKLA-- 117

Query: 105 GPCDILFIDTPPGTGDTHLSLIQNLFI--DTAIIITIPDTMSLQVAQRGYTMFKKLNIP- 161
              D + ID PPG G+    L  N  +  D  ++   P+ ++++ AQR   + + L +  
Sbjct: 118 --YDYVIIDGPPGLGE----LTANALVAADILVVPIEPEGVAVEGAQRLLELIEDLGVLD 171

Query: 162 VAGLVMNM 169
           + G+V+N 
Sbjct: 172 ILGVVLNK 179

This family consists of various cobyrinic acid a,c-diamide synthases. These include CbiA and CbiP from S.typhimurium, and CobQ from R. capsulatus. These amidases catalyze amidations to various side chains of hydrogenobyrinic acid or cobyrinic acid a,c-diamide in the biosynthesis of cobalamin (vitamin B12) from uroporphyrinogen III. Vitamin B12 is an important cofactor and an essential nutrient for many plants and animals and is primarily produced by bacteria. The family also contains dethiobiotin synthetases as well as the plasmid partitioning proteins of the MinD/ParA family. Length = 217

>gnl|CDD|224071 COG1149, COG1149, MinD superfamily P-loop ATPase containing an inserted ferredoxin domain [Energy production and conversion]

 Score = 50.4 bits (121), Expect = 2e-07
 Identities = 22/75 (29%), Positives = 36/75 (48%), Gaps = 4/75 (5%)

Query: 2  IASSKGGVGKSTTTVNLATAMKICYPDKEIGILDADVFGPSIPILMNLPDTPLLNKDNLM 61
          +AS KGG GK+T   NLA  +   Y   ++ + D DV  P++ +L+ +            
Sbjct: 6  VASGKGGTGKTTVAANLAVLLGDKY---KLVLADCDVEAPNLHLLLGVEVLEEEEVIRGE 62

Query: 62 IPLVNYGVKCLSMGN 76
          IP ++   KC+  G 
Sbjct: 63 IPEIDPE-KCIRCGK 76

Length = 284

>gnl|CDD|238997 cd02042, ParA, ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation

 Score = 43.3 bits (103), Expect = 7e-06
 Identities = 17/36 (47%), Positives = 24/36 (66%), Gaps = 2/36 (5%)

Query: 2  IASSKGGVGKSTTTVNLATAMKICYPDKEIGILDAD 37
          +A+ KGGVGK+TT VNLA A+      K + ++D D
Sbjct: 4  VANQKGGVGKTTTAVNLAAAL--ARRGKRVLLIDLD 37

ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the initiation of DNA replication. ParB regulates the ParA ATPase activity by promoting nucleotide exchange in a fashion reminiscent of the exchange factors of eukaryotic G proteins. ADP-bound ParA binds single-stranded DNA, whereas the ATP-bound form dissociates ParB from its DNA binding sites. Increasing the fraction of ParA-ADP in the cell inhibits cell division, suggesting that this simple nucleotide switch may regulate cytokinesis. ParA shares sequence similarity to a conserved and widespread family of ATPases which includes the repA protein of the repABC operon in R. etli Sym plasmid. This operon is involved in the plasmid replication and partition. Length = 104

>gnl|CDD|238941 cd01983, Fer4_NifH, The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain

 Score = 42.4 bits (100), Expect = 2e-05
 Identities = 21/64 (32%), Positives = 32/64 (50%), Gaps = 5/64 (7%)

Query: 4  SSKGGVGKSTTTVNLATAMKICYPDKEIGILDADVF---GPSIPILMNLPDTPLLNKDNL 60
          + KGGVGK+T   NLA A+      K + ++D  V     P + +L+ L    LL  D +
Sbjct: 5  TGKGGVGKTTLAANLAAALA--KRGKRVLLIDDYVLIDTPPGLGLLVLLCLLALLAADLV 62

Query: 61 MIPL 64
          +I  
Sbjct: 63 IIVT 66

Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion. Length = 99

>gnl|CDD|238941 cd01983, Fer4_NifH, The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain

 Score = 41.2 bits (97), Expect = 4e-05
 Identities = 22/65 (33%), Positives = 35/65 (53%), Gaps = 4/65 (6%)

Query: 108 DILFIDTPPGTGD-THLSLIQNLFIDTAIIITIPDTMSLQVAQRGYTMFKKL---NIPVA 163
           D + IDTPPG G    L L+  L  D  II+T P+ +++  A+R   +  +L    +   
Sbjct: 35  DYVLIDTPPGLGLLVLLCLLALLAADLVIIVTTPEALAVLGARRLTEVVLELAIEGLRPV 94

Query: 164 GLVMN 168
           G+V+N
Sbjct: 95  GVVVN 99

Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion. Length = 99

>gnl|CDD|131023 TIGR01968, minD_bact, septum site-determining protein MinD

 Score = 43.5 bits (103), Expect = 4e-05
 Identities = 20/42 (47%), Positives = 27/42 (64%), Gaps = 5/42 (11%)

Query: 2  IASSKGGVGKSTTTVNLATAM-----KICYPDKEIGILDADV 38
          I S KGGVGK+TTT NL TA+     K+   D +IG+ + D+
Sbjct: 6  ITSGKGGVGKTTTTANLGTALARLGKKVVLIDADIGLRNLDL 47

This model describes the bacterial and chloroplast form of MinD, a multifunctional cell division protein that guides correct placement of the septum. The homologous archaeal MinD proteins, with many archaeal genomes having two or more forms, are described by a separate model [Cellular processes, Cell division]. Length = 261

>gnl|CDD|225447 COG2894, MinD, Septum formation inhibitor-activating ATPase [Cell division and chromosome partitioning]

 Score = 43.0 bits (102), Expect = 5e-05
 Identities = 18/42 (42%), Positives = 27/42 (64%), Gaps = 5/42 (11%)

Query: 2  IASSKGGVGKSTTTVNLATAM-----KICYPDKEIGILDADV 38
          + S KGGVGK+TTT N+ TA+     K+   D +IG+ + D+
Sbjct: 7  VTSGKGGVGKTTTTANIGTALAQLGKKVVLIDFDIGLRNLDL 48

Length = 272

>gnl|CDD|132063 TIGR03018, pepcterm_TyrKin, exopolysaccharide/PEP-CTERM locus tyrosine autokinase

 Score = 41.1 bits (97), Expect = 2e-04
 Identities = 22/55 (40%), Positives = 32/55 (58%), Gaps = 1/55 (1%)

Query: 1  MIASSKGGVGKSTTTVNLATAMKICYPDKEIGILDADVFGPSIPILMNLPDTPLL 55
          M+ SS  G GKS T +NLA ++   Y DK + ++DAD+  PS+   + L   P L
Sbjct: 39 MVTSSLPGEGKSFTAINLAISLAQEY-DKTVLLIDADLRRPSLHRTLGLEAEPGL 92

Members of this protein family are related to a known protein-tyrosine autokinase and to numerous homologs from exopolysaccharide biosynthesis region proteins, many of which are designated as chain length determinants. Most members of this family contain a short region, immediately C-terminal to the region modeled here, with an abundance of Tyr residues. These C-terminal tyrosine residues are likely to be autophosphorylation sites. Some members of this family are fusion proteins. Length = 207

>gnl|CDD|238995 cd02038, FleN-like, FleN is a member of the Fer4_NifH superfamily

 Score = 39.4 bits (93), Expect = 3e-04
 Identities = 18/52 (34%), Positives = 24/52 (46%), Gaps = 5/52 (9%)

Query: 108 DILFIDTPPGTGDTHLSLIQNLFIDTAIIITIPDTMSLQVAQRGYTMFKKLN 159
           D + IDT  G  D  L     L  D  I++T P+  S+  A   Y + KKL 
Sbjct: 46  DYIIIDTGAGISDNVLDF--FLAADEVIVVTTPEPTSITDA---YALIKKLA 92

It shares the common function as an ATPase, with the ATP-binding domain at the N-terminus. In Pseudomonas aeruginosa, FleN gene is involved in regulating the number of flagella and chemotactic motility by influencing FleQ activity. Length = 139

>gnl|CDD|224071 COG1149, COG1149, MinD superfamily P-loop ATPase containing an inserted ferredoxin domain [Energy production and conversion]

 Score = 40.0 bits (94), Expect = 6e-04
 Identities = 19/62 (30%), Positives = 32/62 (51%), Gaps = 3/62 (4%)

Query: 107 CDILFIDTPPGTGDTHLSLIQNLFIDTAIIITIPDTMSLQVAQRGYTMFKKLNIPVAGLV 166
            D+L ID+  GTG   ++ ++    D AI++T P    L   +R   + +   IP  G+V
Sbjct: 164 ADLLIIDSAAGTGCPVIASLKG--ADLAILVTEPTPFGLHDLKRALELVEHFGIPT-GIV 220

Query: 167 MN 168
           +N
Sbjct: 221 IN 222

Length = 284

>gnl|CDD|238995 cd02038, FleN-like, FleN is a member of the Fer4_NifH superfamily

 Score = 38.7 bits (91), Expect = 7e-04
 Identities = 16/36 (44%), Positives = 22/36 (61%), Gaps = 2/36 (5%)

Query: 2  IASSKGGVGKSTTTVNLATAMKICYPDKEIGILDAD 37
          + S KGGVGK+  + NLA A+      K + +LDAD
Sbjct: 4  VTSGKGGVGKTNISANLALALAKL--GKRVLLLDAD 37

It shares the common function as an ATPase, with the ATP-binding domain at the N-terminus. In Pseudomonas aeruginosa, FleN gene is involved in regulating the number of flagella and chemotactic motility by influencing FleQ activity. Length = 139

>gnl|CDD|214385 CHL00175, minD, septum-site determining protein; Validated

 Score = 37.8 bits (88), Expect = 0.003
 Identities = 44/169 (26%), Positives = 72/169 (42%), Gaps = 38/169 (22%)

Query: 1   MIASSKGGVGKSTTTVNLATAMKICYPDKEIGILDADVFGPSIPILMNLPDTPLLNKDNL 60
           +I S KGGVGK+TTT NL   M I      + ++DAD+   ++ +L+ L +  L    ++
Sbjct: 19  VITSGKGGVGKTTTTANL--GMSIARLGYRVALIDADIGLRNLDLLLGLENRVLYTAMDV 76

Query: 61  MIPLVNYGVKCLSMGNLITEKSAAIWRGLMVMQA-------------LNKLTVQVQWGPC 107
           +      G   L    LI +K    W+ L ++               +N L   ++    
Sbjct: 77  L-----EGECRLDQA-LIRDKR---WKNLSLLAISKNRQRYNVTRKNMNMLVDSLKNRGY 127

Query: 108 DILFIDTPPGTGDTHLSLIQNLFI------DTAIIITIPDTMSLQVAQR 150
           D + ID P G        I   FI        AI++T P+  +++ A R
Sbjct: 128 DYILIDCPAG--------IDVGFINAIAPAQEAIVVTTPEITAIRDADR 168

Length = 281

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	261
KOG3022|consensus	300		100.0
PRK11670	369	antiporter inner membrane protein; Provisional	100.0
PRK13869	405	plasmid-partitioning protein RepA; Provisional	100.0
TIGR01969	251	minD_arch cell division ATPase MinD, archaeal. Thi	99.98
TIGR03453	387	partition_RepA plasmid partitioning protein RepA.	99.97
PRK13705	388	plasmid-partitioning protein SopA; Provisional	99.97
PHA02519	387	plasmid partition protein SopA; Reviewed	99.97
PF06564	243	YhjQ: YhjQ protein; InterPro: IPR017746 The YhjQ p	99.97
PRK10037	250	cell division protein; Provisional	99.97
TIGR03371	246	cellulose_yhjQ cellulose synthase operon protein Y	99.97
CHL00175	281	minD septum-site determining protein; Validated	99.97
TIGR01968	261	minD_bact septum site-determining protein MinD. Th	99.97
PRK13232	273	nifH nitrogenase reductase; Reviewed	99.97
COG1192	259	Soj ATPases involved in chromosome partitioning [C	99.97
COG2894	272	MinD Septum formation inhibitor-activating ATPase	99.97
CHL00072	290	chlL photochlorophyllide reductase subunit L	99.97
PRK13233	275	nifH nitrogenase reductase; Reviewed	99.97
PHA02518	211	ParA-like protein; Provisional	99.97
PRK13235	274	nifH nitrogenase reductase; Reviewed	99.96
PRK13185	270	chlL protochlorophyllide reductase iron-sulfur ATP	99.96
cd02032	267	Bchl_like This family of proteins contains bchL an	99.96
cd02037	169	MRP-like MRP (Multiple Resistance and pH adaptatio	99.96
cd02036	179	MinD Bacterial cell division requires the formatio	99.96
TIGR01287	275	nifH nitrogenase iron protein. This model describe	99.96
TIGR01281	268	DPOR_bchL light-independent protochlorophyllide re	99.96
PRK10818	270	cell division inhibitor MinD; Provisional	99.96
cd02040	270	NifH NifH gene encodes component II (iron protein)	99.96
cd02117	212	NifH_like This family contains the NifH (iron prot	99.96
PRK13236	296	nitrogenase reductase; Reviewed	99.96
PRK13230	279	nitrogenase reductase-like protein; Reviewed	99.96
COG0489	265	Mrp ATPases involved in chromosome partitioning [C	99.95
PRK13234	295	nifH nitrogenase reductase; Reviewed	99.95
TIGR03018	207	pepcterm_TyrKin exopolysaccharide/PEPCTERM locus t	99.95
COG0455	262	flhG Antiactivator of flagellar biosynthesis FleN,	99.95
TIGR03815	322	CpaE_hom_Actino helicase/secretion neighborhood Cp	99.95
PRK13849	231	putative crown gall tumor protein VirC1; Provision	99.95
TIGR01007	204	eps_fam capsular exopolysaccharide family. This mo	99.95
PRK13231	264	nitrogenase reductase-like protein; Reviewed	99.95
TIGR03029	274	EpsG chain length determinant protein tyrosine kin	99.94
PF01656	195	CbiA: CobQ/CobB/MinD/ParA nucleotide binding domai	99.94
cd03110	179	Fer4_NifH_child This protein family's function is	99.94
COG3640	255	CooC CO dehydrogenase maturation factor [Cell divi	99.93
TIGR01005	754	eps_transp_fam exopolysaccharide transport protein	99.91
PRK11519	719	tyrosine kinase; Provisional	99.91
PRK09841	726	cryptic autophosphorylating protein tyrosine kinas	99.91
cd03111	106	CpaE_like This protein family consists of proteins	99.91
TIGR02016	296	BchX chlorophyllide reductase iron protein subunit	99.91
COG1149	284	MinD superfamily P-loop ATPase containing an inser	99.9
PF07015	231	VirC1: VirC1 protein; InterPro: IPR009744 This fam	99.88
cd00550	254	ArsA_ATPase Oxyanion-translocating ATPase (ArsA).	99.88
cd02033	329	BchX Chlorophyllide reductase converts chlorophyll	99.88
cd02035	217	ArsA ArsA ATPase functionas as an efflux pump loca	99.87
cd02038	139	FleN-like FleN is a member of the Fer4_NifH superf	99.87
cd02042	104	ParA ParA and ParB of Caulobacter crescentus belon	99.87
PF00142	273	Fer4_NifH: 4Fe-4S iron sulfur cluster binding prot	99.86
COG1348	278	NifH Nitrogenase subunit NifH (ATPase) [Inorganic	99.85
PF09140	261	MipZ: ATPase MipZ; InterPro: IPR015223 Cell divisi	99.84
COG4963	366	CpaE Flp pilus assembly protein, ATPase CpaE [Intr	99.78
PF13614	157	AAA_31: AAA domain; PDB: 2VED_B 2PH1_A 3EA0_B 3FKQ	99.77
PF02374	305	ArsA_ATPase: Anion-transporting ATPase; PDB: 2WOO_	99.74
cd03114	148	ArgK-like The function of this protein family is u	99.69
COG0003	322	ArsA Predicted ATPase involved in chromosome parti	99.64
cd02034	116	CooC The accessory protein CooC, which contains a	99.62
KOG2825|consensus	323		99.58
TIGR00347	166	bioD dethiobiotin synthase. Dethiobiotin synthase	99.53
cd01983	99	Fer4_NifH The Fer4_NifH superfamily contains a var	99.52
PF10609	81	ParA: ParA/MinD ATPase like; InterPro: IPR019591 T	99.46
TIGR00064	272	ftsY signal recognition particle-docking protein F	99.44
PRK13886	241	conjugal transfer protein TraL; Provisional	99.44
cd03115	173	SRP The signal recognition particle (SRP) mediates	99.4
PRK10867	433	signal recognition particle protein; Provisional	99.37
PRK13768	253	GTPase; Provisional	99.36
TIGR00959	428	ffh signal recognition particle protein. This mode	99.32
PRK00090	222	bioD dithiobiotin synthetase; Reviewed	99.3
TIGR01425	429	SRP54_euk signal recognition particle protein SRP5	99.29
PRK10416	318	signal recognition particle-docking protein FtsY;	99.24
PRK00771	437	signal recognition particle protein Srp54; Provisi	99.21
TIGR00345	284	arsA arsenite-activated ATPase (arsA). The N-termi	99.19
PRK11889	436	flhF flagellar biosynthesis regulator FlhF; Provis	99.14
TIGR00750	300	lao LAO/AO transport system ATPase. Mutations have	99.13
PRK12726	407	flagellar biosynthesis regulator FlhF; Provisional	99.1
cd03109	134	DTBS Dethiobiotin synthetase (DTBS) is the penulti	99.01
COG0541	451	Ffh Signal recognition particle GTPase [Intracellu	99.01
PRK12727	559	flagellar biosynthesis regulator FlhF; Provisional	98.98
PRK09435	332	membrane ATPase/protein kinase; Provisional	98.95
COG1703	323	ArgK Putative periplasmic protein kinase ArgK and	98.95
PRK05703	424	flhF flagellar biosynthesis regulator FlhF; Valida	98.94
PRK14974	336	cell division protein FtsY; Provisional	98.9
PRK14493	274	putative bifunctional molybdopterin-guanine dinucl	98.89
PRK12724	432	flagellar biosynthesis regulator FlhF; Provisional	98.88
PF00448	196	SRP54: SRP54-type protein, GTPase domain; InterPro	98.86
PRK01077	451	cobyrinic acid a,c-diamide synthase; Validated	98.85
PRK12723	388	flagellar biosynthesis regulator FlhF; Provisional	98.82
TIGR00313	475	cobQ cobyric acid synthase CobQ.	98.73
PF03308	266	ArgK: ArgK protein; InterPro: IPR005129 Bacterial	98.68
PRK06731	270	flhF flagellar biosynthesis regulator FlhF; Valida	98.66
PRK12374	231	putative dithiobiotin synthetase; Provisional	98.65
PF13500	199	AAA_26: AAA domain; PDB: 3OF5_A 2IOJ_A 4A0G_B 4A0R	98.64
TIGR03499	282	FlhF flagellar biosynthetic protein FlhF.	98.62
PRK05632	684	phosphate acetyltransferase; Reviewed	98.62
COG0132	223	BioD Dethiobiotin synthetase [Coenzyme metabolism]	98.53
PRK14723	767	flhF flagellar biosynthesis regulator FlhF; Provis	98.46
TIGR00379	449	cobB cobyrinic acid a,c-diamide synthase. This mod	98.44
PRK00784	488	cobyric acid synthase; Provisional	98.43
COG1341	398	Predicted GTPase or GTP-binding protein [General f	98.43
PF03029	238	ATP_bind_1: Conserved hypothetical ATP binding pro	98.4
COG0552	340	FtsY Signal recognition particle GTPase [Intracell	98.28
PRK14722	374	flhF flagellar biosynthesis regulator FlhF; Provis	98.24
cd04170	268	EF-G_bact Elongation factor G (EF-G) subfamily. Tr	98.22
KOG0781|consensus	587		98.16
KOG0780|consensus	483		98.15
KOG1532|consensus	366		98.15
PRK06995	484	flhF flagellar biosynthesis regulator FlhF; Valida	98.15
COG1797	451	CobB Cobyrinic acid a,c-diamide synthase [Coenzyme	98.12
KOG1533|consensus	290		98.05
cd04168	237	TetM_like Tet(M)-like subfamily. Tet(M), Tet(O), T	97.86
PRK12740	668	elongation factor G; Reviewed	97.85
cd01886	270	EF-G Elongation factor G (EF-G) subfamily. Translo	97.84
PRK13896	433	cobyrinic acid a,c-diamide synthase; Provisional	97.78
cd04169	267	RF3 RF3 subfamily. Peptide chain release factor 3	97.75
cd01884	195	EF_Tu EF-Tu subfamily. This subfamily includes ort	97.71
cd01894	157	EngA1 EngA1 subfamily. This CD represents the firs	97.68
cd01120	165	RecA-like_NTPases RecA-like NTPases. This family i	97.6
COG1419	407	FlhF Flagellar GTP-binding protein [Cell motility	97.59
PRK06278	476	cobyrinic acid a,c-diamide synthase; Validated	97.56
KOG2749|consensus	415		97.56
PRK09361	225	radB DNA repair and recombination protein RadB; Pr	97.55
cd01124	187	KaiC KaiC is a circadian clock protein primarily f	97.53
PRK00741	526	prfC peptide chain release factor 3; Provisional	97.51
cd04167	213	Snu114p Snu114p subfamily. Snu114p is one of sever	97.5
PRK13505	557	formate--tetrahydrofolate ligase; Provisional	97.48
cd00881	189	GTP_translation_factor GTP translation factor fami	97.46
cd00561	159	CobA_CobO_BtuR ATP:corrinoid adenosyltransferase B	97.46
PRK08233	182	hypothetical protein; Provisional	97.42
TIGR00503	527	prfC peptide chain release factor 3. This translat	97.37
cd04163	168	Era Era subfamily. Era (E. coli Ras-like protein)	97.34
PRK00089	292	era GTPase Era; Reviewed	97.33
cd02027	149	APSK Adenosine 5'-phosphosulfate kinase (APSK) cat	97.3
cd00477	524	FTHFS Formyltetrahydrofolate synthetase (FTHFS) ca	97.28
KOG1534|consensus	273		97.26
TIGR00708	173	cobA cob(I)alamin adenosyltransferase. Alternate n	97.23
PF03205	140	MobB: Molybdopterin guanine dinucleotide synthesis	97.23
PRK00889	175	adenylylsulfate kinase; Provisional	97.21
COG0050	394	TufB GTPases - translation elongation factors [Tra	97.2
PRK07952	244	DNA replication protein DnaC; Validated	97.2
cd01394	218	radB RadB. The archaeal protein radB shares simila	97.19
PLN03127	447	Elongation factor Tu; Provisional	97.17
PRK13506	578	formate--tetrahydrofolate ligase; Provisional	97.14
cd04165	224	GTPBP1_like GTPBP1-like. Mammalian GTP binding pro	97.14
PRK14721	420	flhF flagellar biosynthesis regulator FlhF; Provis	97.11
TIGR00490	720	aEF-2 translation elongation factor aEF-2. This mo	97.09
PRK07667	193	uridine kinase; Provisional	97.04
cd03112	158	CobW_like The function of this protein family is u	97.03
PF01583	156	APS_kinase: Adenylylsulphate kinase; InterPro: IPR	97.02
PRK05986	191	cob(I)alamin adenolsyltransferase/cobinamide ATP-d	97.01
PRK05973	237	replicative DNA helicase; Provisional	97.01
PRK00049	396	elongation factor Tu; Reviewed	96.99
TIGR00436	270	era GTP-binding protein Era. Era is an essential G	96.97
cd00880	163	Era_like Era (E. coli Ras-like protein)-like. This	96.95
PLN02974	817	adenosylmethionine-8-amino-7-oxononanoate transami	96.94
PRK06067	234	flagellar accessory protein FlaH; Validated	96.94
COG0529	197	CysC Adenylylsulfate kinase and related kinases [I	96.93
cd00983	325	recA RecA is a bacterial enzyme which has roles in	96.92
smart00382	148	AAA ATPases associated with a variety of cellular	96.92
PRK08533	230	flagellar accessory protein FlaH; Reviewed	96.91
PRK00007	693	elongation factor G; Reviewed	96.9
TIGR00176	155	mobB molybdopterin-guanine dinucleotide biosynthes	96.87
COG1159	298	Era GTPase [General function prediction only]	96.85
PRK00093	435	GTP-binding protein Der; Reviewed	96.83
TIGR02012	321	tigrfam_recA protein RecA. This model describes or	96.83
PRK12739	691	elongation factor G; Reviewed	96.75
PRK15494	339	era GTPase Era; Provisional	96.73
PRK04296	190	thymidine kinase; Provisional	96.72
PRK00652	325	lpxK tetraacyldisaccharide 4'-kinase; Reviewed	96.69
PF13481	193	AAA_25: AAA domain; PDB: 1G8Y_J 1OLO_A 1NLF_C.	96.68
TIGR02237	209	recomb_radB DNA repair and recombination protein R	96.68
PHA02542	473	41 41 helicase; Provisional	96.65
PF13479	213	AAA_24: AAA domain	96.65
PRK06696	223	uridine kinase; Validated	96.64
TIGR01618	220	phage_P_loop phage nucleotide-binding protein. Thi	96.61
cd02028	179	UMPK_like Uridine monophosphate kinase_like (UMPK_	96.61
PLN03126	478	Elongation factor Tu; Provisional	96.59
KOG0744|consensus	423		96.57
TIGR00485	394	EF-Tu translation elongation factor TU. This align	96.57
cd01891	194	TypA_BipA TypA (tyrosine phosphorylated protein A)	96.57
PRK14494	229	putative molybdopterin-guanine dinucleotide biosyn	96.57
PRK12736	394	elongation factor Tu; Reviewed	96.55
PRK03846	198	adenylylsulfate kinase; Provisional	96.55
PRK11823	446	DNA repair protein RadA; Provisional	96.54
CHL00071	409	tufA elongation factor Tu	96.54
TIGR03574	249	selen_PSTK L-seryl-tRNA(Sec) kinase, archaeal. Mem	96.51
cd04171	164	SelB SelB subfamily. SelB is an elongation factor	96.5
PF06745	226	KaiC: KaiC; InterPro: IPR014774 This entry represe	96.48
cd01122	271	GP4d_helicase GP4d_helicase is a homohexameric 5'-	96.46
PRK08939	306	primosomal protein DnaI; Reviewed	96.43
TIGR03877	237	thermo_KaiC_1 KaiC domain protein, Ph0284 family.	96.41
COG1492	486	CobQ Cobyric acid synthase [Coenzyme metabolism]	96.39
PRK12735	396	elongation factor Tu; Reviewed	96.38
cd01895	174	EngA2 EngA2 subfamily. This CD represents the seco	96.36
PHA00729	226	NTP-binding motif containing protein	96.36
PRK13351	687	elongation factor G; Reviewed	96.34
TIGR01394	594	TypA_BipA GTP-binding protein TypA/BipA. This bact	96.34
PF02606	326	LpxK: Tetraacyldisaccharide-1-P 4'-kinase; InterPr	96.31
TIGR03878	259	thermo_KaiC_2 KaiC domain protein, AF_0795 family.	96.3
TIGR00484	689	EF-G translation elongation factor EF-G. After pep	96.3
PF01926	116	MMR_HSR1: 50S ribosome-binding GTPase; InterPro: I	96.29
COG1484	254	DnaC DNA replication protein [DNA replication, rec	96.29
PLN00043	447	elongation factor 1-alpha; Provisional	96.28
TIGR03575	340	selen_PSTK_euk L-seryl-tRNA(Sec) kinase, eukaryoti	96.28
TIGR02655	484	circ_KaiC circadian clock protein KaiC. Members of	96.28
PF13207	121	AAA_17: AAA domain; PDB: 3AKC_A 3AKE_A 3AKD_A 2QL6	96.27
PF13245	76	AAA_19: Part of AAA domain	96.26
cd00984	242	DnaB_C DnaB helicase C terminal domain. The hexame	96.23
cd01898	170	Obg Obg subfamily. The Obg nucleotide binding prot	96.22
cd03116	159	MobB Molybdenum is an essential trace element in t	96.2
TIGR00682	311	lpxK tetraacyldisaccharide 4'-kinase. Also called	96.19
cd01123	235	Rad51_DMC1_radA Rad51_DMC1_radA,B. This group of r	96.18
PRK06526	254	transposase; Provisional	96.17
PRK10218	607	GTP-binding protein; Provisional	96.16
PF02492	178	cobW: CobW/HypB/UreG, nucleotide-binding domain; I	96.14
PF01695	178	IstB_IS21: IstB-like ATP binding protein; InterPro	96.14
TIGR03594	429	GTPase_EngA ribosome-associated GTPase EngA. EngA	96.11
COG3598	402	RepA RecA-family ATPase [DNA replication, recombin	96.11
COG1066	456	Sms Predicted ATP-dependent serine protease [Postt	96.11
PF00009	188	GTP_EFTU: Elongation factor Tu GTP binding domain;	96.1
PRK04328	249	hypothetical protein; Provisional	96.1
TIGR02238	313	recomb_DMC1 meiotic recombinase Dmc1. This model d	96.1
PRK07414	178	cob(I)yrinic acid a,c-diamide adenosyltransferase;	96.09
cd01125	239	repA Hexameric Replicative Helicase RepA. RepA is	96.06
cd01879	158	FeoB Ferrous iron transport protein B (FeoB) subfa	96.06
cd02029	277	PRK_like Phosphoribulokinase-like (PRK-like) is a	96.0
COG0523	323	Putative GTPases (G3E family) [General function pr	95.99
cd01864	165	Rab19 Rab19 subfamily. Rab19 proteins are associat	95.98
cd01393	226	recA_like RecA is a bacterial enzyme which has rol	95.97
PF03796	259	DnaB_C: DnaB-like helicase C terminal domain; Inte	95.97
PF02572	172	CobA_CobO_BtuR: ATP:corrinoid adenosyltransferase	95.94
PRK03003	472	GTP-binding protein Der; Reviewed	95.86
PLN03187	344	meiotic recombination protein DMC1 homolog; Provis	95.78
PRK14495	452	putative molybdopterin-guanine dinucleotide biosyn	95.76
PTZ00416	836	elongation factor 2; Provisional	95.75
TIGR03420	226	DnaA_homol_Hda DnaA regulatory inactivator Hda. Me	95.73
TIGR03600	421	phage_DnaB phage replicative helicase, DnaB family	95.73
cd04148	221	RGK RGK subfamily. The RGK (Rem, Rem2, Rad, Gem/Ki	95.72
KOG0635|consensus	207		95.7
cd00544	169	CobU Adenosylcobinamide kinase / adenosylcobinamid	95.7
cd04137	180	RheB Rheb (Ras Homolog Enriched in Brain) subfamil	95.69
cd04120	202	Rab12 Rab12 subfamily. Rab12 was first identified	95.69
PRK05480	209	uridine/cytidine kinase; Provisional	95.68
cd04142	198	RRP22 RRP22 subfamily. RRP22 (Ras-related protein	95.67
COG1763	161	MobB Molybdopterin-guanine dinucleotide biosynthes	95.63
PF08433	270	KTI12: Chromatin associated protein KTI12 ; InterP	95.62
PRK04301	317	radA DNA repair and recombination protein RadA; Va	95.62
cd04101	164	RabL4 RabL4 (Rab-like4) subfamily. RabL4s are nove	95.61
TIGR02236	310	recomb_radA DNA repair and recombination protein R	95.61
PRK05433	600	GTP-binding protein LepA; Provisional	95.58
PRK05642	234	DNA replication initiation factor; Validated	95.57
PRK09302	509	circadian clock protein KaiC; Reviewed	95.56
PRK12377	248	putative replication protein; Provisional	95.55
cd04110	199	Rab35 Rab35 subfamily. Rab35 is one of several Rab	95.55
PF00485	194	PRK: Phosphoribulokinase / Uridine kinase family;	95.54
PRK09519	790	recA DNA recombination protein RecA; Reviewed	95.5
PRK08727	233	hypothetical protein; Validated	95.49
TIGR00073	207	hypB hydrogenase accessory protein HypB. HypB is i	95.48
PRK15453	290	phosphoribulokinase; Provisional	95.45
cd01887	168	IF2_eIF5B IF2/eIF5B (initiation factors 2/ eukaryo	95.45
TIGR03881	229	KaiC_arch_4 KaiC domain protein, PAE1156 family. M	95.45
TIGR00455	184	apsK adenylylsulfate kinase (apsK). Important resi	95.44
PRK14088	440	dnaA chromosomal replication initiation protein; P	95.44
KOG0460|consensus	449		95.43
PRK06835	329	DNA replication protein DnaC; Validated	95.42
cd02025	220	PanK Pantothenate kinase (PanK) catalyzes the phos	95.4
COG2874	235	FlaH Predicted ATPases involved in biogenesis of a	95.39
PRK09183	259	transposase/IS protein; Provisional	95.38
PRK06762	166	hypothetical protein; Provisional	95.36
PRK08903	227	DnaA regulatory inactivator Hda; Validated	95.35
PRK05541	176	adenylylsulfate kinase; Provisional	95.3
cd02019	69	NK Nucleoside/nucleotide kinase (NK) is a protein	95.27
cd04125	188	RabA_like RabA-like subfamily. RabA was first iden	95.26
PRK05595	444	replicative DNA helicase; Provisional	95.25
cd00009	151	AAA The AAA+ (ATPases Associated with a wide varie	95.24
TIGR00475	581	selB selenocysteine-specific elongation factor Sel	95.22
cd04108	170	Rab36_Rab34 Rab34/Rab36 subfamily. Rab34, found pr	95.22
PRK08506	472	replicative DNA helicase; Provisional	95.18
TIGR01393	595	lepA GTP-binding protein LepA. LepA (GUF1 in Sacca	95.16
PRK08760	476	replicative DNA helicase; Provisional	95.15
TIGR03880	224	KaiC_arch_3 KaiC domain protein, AF_0351 family. T	95.12
PRK06893	229	DNA replication initiation factor; Validated	95.12
cd01121	372	Sms Sms (bacterial radA) DNA repair protein. This	95.12
PTZ00035	337	Rad51 protein; Provisional	95.11
cd01869	166	Rab1_Ypt1 Rab1/Ypt1 subfamily. Rab1 is found in ev	95.11
cd04109	215	Rab28 Rab28 subfamily. First identified in maize,	95.1
cd02023	198	UMPK Uridine monophosphate kinase (UMPK, EC 2.7.1.	95.09
PRK09302	509	circadian clock protein KaiC; Reviewed	95.09
PF05729	166	NACHT: NACHT domain	95.08
PRK00093	435	GTP-binding protein Der; Reviewed	95.06
PLN03186	342	DNA repair protein RAD51 homolog; Provisional	95.06
cd01861	161	Rab6 Rab6 subfamily. Rab6 is involved in microtubu	95.04
PRK08116	268	hypothetical protein; Validated	95.0
TIGR03594	429	GTPase_EngA ribosome-associated GTPase EngA. EngA	94.98
PRK05439	311	pantothenate kinase; Provisional	94.97
PRK06749	428	replicative DNA helicase; Provisional	94.95
PF13173	128	AAA_14: AAA domain	94.93
cd01868	165	Rab11_like Rab11-like. Rab11a, Rab11b, and Rab25 a	94.93
PF08423	256	Rad51: Rad51; InterPro: IPR013632 This domain is f	94.93
COG4088	261	Predicted nucleotide kinase [Nucleotide transport	94.93
smart00175	164	RAB Rab subfamily of small GTPases. Rab GTPases ar	94.91
TIGR00101	199	ureG urease accessory protein UreG. This model rep	94.91
KOG1423|consensus	379		94.91
PRK08181	269	transposase; Validated	94.9
PRK09354	349	recA recombinase A; Provisional	94.89
TIGR00416	454	sms DNA repair protein RadA. The gene protuct code	94.86
PRK08084	235	DNA replication initiation factor; Provisional	94.84
PF13401	131	AAA_22: AAA domain; PDB: 2QBY_B 1FNN_B 1W5T_A 1W5S	94.81
KOG0395|consensus	196		94.72
PRK07933	213	thymidylate kinase; Validated	94.7
TIGR00665	434	DnaB replicative DNA helicase. This model describe	94.69
cd01867	167	Rab8_Rab10_Rab13_like Rab8/Sec4/Ypt2. Rab8/Sec4/Yp	94.65
PRK01906	338	tetraacyldisaccharide 4'-kinase; Provisional	94.64
TIGR02475	341	CobW cobalamin biosynthesis protein CobW. A broade	94.6
PRK07560	731	elongation factor EF-2; Reviewed	94.59
cd01885	222	EF2 EF2 (for archaea and eukarya). Translocation r	94.57
COG1618	179	Predicted nucleotide kinase [Nucleotide transport	94.55
PF12846	304	AAA_10: AAA-like domain	94.54
cd04119	168	RJL RJL (RabJ-Like) subfamily. RJLs are found in m	94.48
PRK06217	183	hypothetical protein; Validated	94.47
PRK08006	471	replicative DNA helicase; Provisional	94.47
PRK06904	472	replicative DNA helicase; Validated	94.46
PRK10751	173	molybdopterin-guanine dinucleotide biosynthesis pr	94.45
PRK06921	266	hypothetical protein; Provisional	94.43
PF07755	301	DUF1611: Protein of unknown function (DUF1611); In	94.42
PRK05748	448	replicative DNA helicase; Provisional	94.41
COG2109	198	BtuR ATP:corrinoid adenosyltransferase [Coenzyme m	94.38
COG0467	260	RAD55 RecA-superfamily ATPases implicated in signa	94.38
cd04115	170	Rab33B_Rab33A Rab33B/Rab33A subfamily. Rab33B is u	94.36
PF00154	322	RecA: recA bacterial DNA recombination protein; In	94.34
PRK09518	712	bifunctional cytidylate kinase/GTPase Der; Reviewe	94.32
TIGR02239	316	recomb_RAD51 DNA repair protein RAD51. This eukary	94.3
PRK08840	464	replicative DNA helicase; Provisional	94.3
KOG0078|consensus	207		94.21
cd04175	164	Rap1 Rap1 subgroup. The Rap1 subgroup is part of t	94.18
PLN03118	211	Rab family protein; Provisional	94.17
COG4240	300	Predicted kinase [General function prediction only	94.15
PRK06321	472	replicative DNA helicase; Provisional	94.14
PRK09270	229	nucleoside triphosphate hydrolase domain-containin	94.14
cd01131	198	PilT Pilus retraction ATPase PilT. PilT is a nucle	94.05
PTZ00141	446	elongation factor 1- alpha; Provisional	94.03
cd04114	169	Rab30 Rab30 subfamily. Rab30 appears to be associa	94.01
cd01129	264	PulE-GspE PulE/GspE The type II secretory pathway	94.0
cd04152	183	Arl4_Arl7 Arl4/Arl7 subfamily. Arl4 (Arf-like 4) i	93.92
PRK09165	497	replicative DNA helicase; Provisional	93.89
TIGR03172	232	probable selenium-dependent hydroxylase accessory	93.88
PLN03071	219	GTP-binding nuclear protein Ran; Provisional	93.84
PRK08118	167	topology modulation protein; Reviewed	93.81
PTZ00301	210	uridine kinase; Provisional	93.81
PF00910	107	RNA_helicase: RNA helicase; InterPro: IPR000605 He	93.79
cd01853	249	Toc34_like Toc34-like (Translocon at the Outer-env	93.77
cd01672	200	TMPK Thymidine monophosphate kinase (TMPK), also k	93.76
COG5623	424	CLP1 Predicted GTPase subunit of the pre-mRNA clea	93.75
PRK05636	505	replicative DNA helicase; Provisional	93.74
PF13238	129	AAA_18: AAA domain; PDB: 3IIK_A 3IIJ_A 3IIL_A 1RKB	93.67
PF02223	186	Thymidylate_kin: Thymidylate kinase; InterPro: IPR	93.65
TIGR00041	195	DTMP_kinase thymidylate kinase. Function: phosphor	93.63
cd04128	182	Spg1 Spg1p. Spg1p (septum-promoting GTPase) was fi	93.61
cd04166	208	CysN_ATPS CysN_ATPS subfamily. CysN, together with	93.6
PF01935	229	DUF87: Domain of unknown function DUF87; InterPro:	93.56
COG3367	339	Uncharacterized conserved protein [Function unknow	93.53
cd04116	170	Rab9 Rab9 subfamily. Rab9 is found in late endosom	93.5
COG1102	179	Cmk Cytidylate kinase [Nucleotide transport and me	93.48
cd04117	161	Rab15 Rab15 subfamily. Rab15 colocalizes with the	93.46
cd02024	187	NRK1 Nicotinamide riboside kinase (NRK) is an enzy	93.44
PF00004	132	AAA: ATPase family associated with various cellula	93.44
PF00308	219	Bac_DnaA: Bacterial dnaA protein; InterPro: IPR013	93.43
TIGR00554	290	panK_bact pantothenate kinase, bacterial type. Sho	93.4
PRK05800	170	cobU adenosylcobinamide kinase/adenosylcobinamide-	93.36
PRK07261	171	topology modulation protein; Provisional	93.36
PRK13973	213	thymidylate kinase; Provisional	93.36
cd04164	157	trmE TrmE (MnmE, ThdF, MSS1) is a 3-domain protein	93.35
PRK07413	382	hypothetical protein; Validated	93.3
PRK11537	318	putative GTP-binding protein YjiA; Provisional	93.28
PRK07004	460	replicative DNA helicase; Provisional	93.26
COG1160	444	Predicted GTPases [General function prediction onl	93.24
PF13191	185	AAA_16: AAA ATPase domain; PDB: 2V1U_A.	93.15
COG2403	449	Predicted GTPase [General function prediction only	93.14
PLN02796	347	D-glycerate 3-kinase	92.98
COG0468	279	RecA RecA/RadA recombinase [DNA replication, recom	92.92
PF13604	196	AAA_30: AAA domain; PDB: 1W36_G 3K70_G 3UPU_B 3GPL	92.87
cd01882	225	BMS1 Bms1. Bms1 is an essential, evolutionarily co	92.84
PF00931	287	NB-ARC: NB-ARC domain; InterPro: IPR002182 This is	92.75
PLN03046	460	D-glycerate 3-kinase; Provisional	92.69
PF05970	364	PIF1: PIF1-like helicase; InterPro: IPR010285 This	92.61
cd04177	168	RSR1 RSR1 subgroup. RSR1/Bud1p is a member of the	92.59
cd04173	222	Rnd2_Rho7 Rnd2/Rho7 subfamily. Rnd2/Rho7 is a memb	92.54
TIGR00362	405	DnaA chromosomal replication initiator protein Dna	92.45
PRK00131	175	aroK shikimate kinase; Reviewed	92.4
PF03266	168	NTPase_1: NTPase; InterPro: IPR004948 This entry r	92.39
COG0125	208	Tmk Thymidylate kinase [Nucleotide transport and m	92.36
PRK05537	568	bifunctional sulfate adenylyltransferase subunit 1	92.34
PRK03003	472	GTP-binding protein Der; Reviewed	92.33
cd00882	157	Ras_like_GTPase Ras-like GTPase superfamily. The R	92.29
PRK10463	290	hydrogenase nickel incorporation protein HypB; Pro	92.26
PRK05506	632	bifunctional sulfate adenylyltransferase subunit 1	92.23
PLN00023	334	GTP-binding protein; Provisional	92.23
KOG3062|consensus	281		92.22
PF13086	236	AAA_11: AAA domain; PDB: 2XZL_A 2XZO_A 2WJY_A 2WJV	92.2
PLN02924	220	thymidylate kinase	92.18
cd00046	144	DEXDc DEAD-like helicases superfamily. A diverse f	92.07
PF07728	139	AAA_5: AAA domain (dynein-related subfamily); Inte	92.06
TIGR02782	299	TrbB_P P-type conjugative transfer ATPase TrbB. Th	92.05
cd01883	219	EF1_alpha Eukaryotic elongation factor 1 (EF1) alp	92.02
PRK13507	587	formate--tetrahydrofolate ligase; Provisional	91.97
PRK13946	184	shikimate kinase; Provisional	91.9
PLN02759	637	Formate--tetrahydrofolate ligase	91.86
PF01580	205	FtsK_SpoIIIE: FtsK/SpoIIIE family; InterPro: IPR00	91.86
PRK00149	450	dnaA chromosomal replication initiation protein; R	91.75
TIGR02640	262	gas_vesic_GvpN gas vesicle protein GvpN. Members o	91.72
TIGR02655	484	circ_KaiC circadian clock protein KaiC. Members of	91.72
PRK05124	474	cysN sulfate adenylyltransferase subunit 1; Provis	91.68
TIGR02034	406	CysN sulfate adenylyltransferase, large subunit. H	91.68
PRK12422	445	chromosomal replication initiation protein; Provis	91.58
cd01888	203	eIF2_gamma eIF2-gamma (gamma subunit of initiation	91.49
PF02421	156	FeoB_N: Ferrous iron transport protein B; InterPro	91.4
PRK06547	172	hypothetical protein; Provisional	91.4
PRK07773	886	replicative DNA helicase; Validated	91.4
PF06414	199	Zeta_toxin: Zeta toxin; InterPro: IPR010488 This e	91.35
COG0572	218	Udk Uridine kinase [Nucleotide transport and metab	91.32
PRK00411	394	cdc6 cell division control protein 6; Reviewed	91.31
PRK06851	367	hypothetical protein; Provisional	91.29
PRK14489	366	putative bifunctional molybdopterin-guanine dinucl	91.27
PRK06761	282	hypothetical protein; Provisional	91.24
KOG0461|consensus	522		91.24
PTZ00132	215	GTP-binding nuclear protein Ran; Provisional	91.19
TIGR00235	207	udk uridine kinase. Model contains a number of lon	91.11
PRK12339	197	2-phosphoglycerate kinase; Provisional	91.06
TIGR02880	284	cbbX_cfxQ probable Rubsico expression protein CbbX	91.02
COG1855	604	ATPase (PilT family) [General function prediction	91.01
COG1663	336	LpxK Tetraacyldisaccharide-1-P 4'-kinase [Cell env	90.95
TIGR01313	163	therm_gnt_kin carbohydrate kinase, thermoresistant	90.94
PF00437	270	T2SE: Type II/IV secretion system protein; InterPr	90.92
PF01268	557	FTHFS: Formate--tetrahydrofolate ligase; InterPro:	90.86
COG2074	299	2-phosphoglycerate kinase [Carbohydrate transport	90.81
cd03113	255	CTGs CTP synthetase (CTPs) is a two-domain protein	90.79
PRK14087	450	dnaA chromosomal replication initiation protein; P	90.75
TIGR00437	591	feoB ferrous iron transporter FeoB. FeoB (773 amin	90.71
cd01852	196	AIG1 AIG1 (avrRpt2-induced gene 1). This represent	90.71
cd01890	179	LepA LepA subfamily. LepA belongs to the GTPase fa	90.69
PF13671	143	AAA_33: AAA domain; PDB: 1LTQ_A 2IA5_K 1RC8_A 1LY1	90.6
PRK00698	205	tmk thymidylate kinase; Validated	90.59
cd02021	150	GntK Gluconate kinase (GntK) catalyzes the phospho	90.59
PTZ00327	460	eukaryotic translation initiation factor 2 gamma s	90.57
COG0305	435	DnaB Replicative DNA helicase [DNA replication, re	90.34
PRK12317	425	elongation factor 1-alpha; Reviewed	90.3
COG2759	554	MIS1 Formyltetrahydrofolate synthetase [Nucleotide	90.25
PRK13695	174	putative NTPase; Provisional	90.2
cd02020	147	CMPK Cytidine monophosphate kinase (CMPK) catalyze	90.17
PRK13764	602	ATPase; Provisional	90.14
PRK12338	319	hypothetical protein; Provisional	90.01
PF08303	168	tRNA_lig_kinase: tRNA ligase kinase domain; InterP	90.01
KOG0462|consensus	650		89.99
PRK14491	597	putative bifunctional molybdopterin-guanine dinucl	89.89
COG1100	219	GTPase SAR1 and related small G proteins [General	89.79
PRK13976	209	thymidylate kinase; Provisional	89.78
TIGR03783	829	Bac_Flav_CT_G Bacteroides conjugation system ATPas	89.75
PRK04220	301	2-phosphoglycerate kinase; Provisional	89.73
PLN02348	395	phosphoribulokinase	89.7
cd02026	273	PRK Phosphoribulokinase (PRK) is an enzyme involve	89.69
CHL00181	287	cbbX CbbX; Provisional	89.56
PTZ00386	625	formyl tetrahydrofolate synthetase; Provisional	89.52
cd01889	192	SelB_euk SelB subfamily. SelB is an elongation fac	89.49
PF00350	168	Dynamin_N: Dynamin family; InterPro: IPR001401 Mem	89.36
PRK14086	617	dnaA chromosomal replication initiation protein; P	89.36
PF07726	131	AAA_3: ATPase family associated with various cellu	89.34
PRK13948	182	shikimate kinase; Provisional	89.32
PF07724	171	AAA_2: AAA domain (Cdc48 subfamily); InterPro: IPR	89.32
smart00053	240	DYNc Dynamin, GTPase. Large GTPases that mediate v	89.29
PF01202	158	SKI: Shikimate kinase; InterPro: IPR000623 Shikima	89.24
COG3854	308	SpoIIIAA ncharacterized protein conserved in bacte	89.24
PF10662	143	PduV-EutP: Ethanolamine utilisation - propanediol	89.23
cd00227	175	CPT Chloramphenicol (Cm) phosphotransferase (CPT).	89.12
PRK05506	632	bifunctional sulfate adenylyltransferase subunit 1	89.09
cd04103	158	Centaurin_gamma Centaurin gamma. The centaurins (a	89.05
TIGR01420	343	pilT_fam pilus retraction protein PilT. This model	89.04
PRK07413	382	hypothetical protein; Validated	88.98
COG0480	697	FusA Translation elongation factors (GTPases) [Tra	88.9
PF02367	123	UPF0079: Uncharacterised P-loop hydrolase UPF0079;	88.64
PF13521	163	AAA_28: AAA domain; PDB: 1LW7_A.	88.64
PRK05306	787	infB translation initiation factor IF-2; Validated	88.59
PRK10512	614	selenocysteinyl-tRNA-specific translation factor;	88.57
PRK13833	323	conjugal transfer protein TrbB; Provisional	88.5
TIGR00376	637	DNA helicase, putative. The gene product may repre	88.45
TIGR03015	269	pepcterm_ATPase putative secretion ATPase, PEP-CTE	88.44
TIGR02881	261	spore_V_K stage V sporulation protein K. Members o	88.4
COG0532	509	InfB Translation initiation factor 2 (IF-2; GTPase	88.38
PRK09866	741	hypothetical protein; Provisional	88.32
PF09848	352	DUF2075: Uncharacterized conserved protein (DUF207	88.25
PRK11058	426	GTPase HflX; Provisional	88.24
PRK13894	319	conjugal transfer ATPase TrbB; Provisional	88.22
PF02562	205	PhoH: PhoH-like protein; InterPro: IPR003714 PhoH	88.1
PRK10646	153	ADP-binding protein; Provisional	88.08
TIGR02788	308	VirB11 P-type DNA transfer ATPase VirB11. The VirB	88.0
PHA02530	300	pseT polynucleotide kinase; Provisional	87.96

>KOG3022|consensus

Probab=100.00  E-value=2.1e-35  Score=236.68  Aligned_cols=225  Identities=37%  Similarity=0.618  Sum_probs=197.3

Q ss_pred             CcccCCCCCcHHHHHHHHHHHHHhcCCCCeEEEEecCCCCCCcccccCCCCCCCCCcCCcccc-ccccCceeecCCCCcc
Q psy14655          1 MIASSKGGVGKSTTTVNLATAMKICYPDKEIGILDADVFGPSIPILMNLPDTPLLNKDNLMIP-LVNYGVKCLSMGNLIT   79 (261)
Q Consensus         1 ~v~s~KGGvGKTT~a~~lA~~la~~g~~~~VllvD~D~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~l~~~~~~~~~~   79 (261)
                      +|.|+||||||||+|+|||..||+.|  .+|.++|.|..++++..++|.+.+.-....+.+.| ....++.++..|+...
T Consensus        51 ~VlSGKGGVGKSTvt~nla~~La~~g--~~vglLD~Dl~GPSiP~m~g~e~~~~~~~~~g~~Pv~~~~~l~~mS~gfLl~  128 (300)
T KOG3022|consen   51 LVLSGKGGVGKSTVTVNLALALASEG--KKVGLLDADLCGPSIPRMMGLEGEVVHQSDNGWIPVVVNKNLKLMSMGFLLK  128 (300)
T ss_pred             EEEeCCCCCchhHHHHHHHHHHhcCC--CcEEEEeecccCCCchhhcCCCCceeeecCCCceeeeecCCeEEEEeeeecC
Confidence            58899999999999999999999999  99999999999999999999998876666777777 6788999999999887


Q ss_pred             c-chhhhhhchHHHHHHHHHHHHhccCCCCEEEEeCCCCCChhHHHHhhhcC-CCeEEEEeCCCcchHHHHHHHHHHHHh
Q psy14655         80 E-KSAAIWRGLMVMQALNKLTVQVQWGPCDILFIDTPPGTGDTHLSLIQNLF-IDTAIIITIPDTMSLQVAQRGYTMFKK  157 (261)
Q Consensus        80 ~-~~~~~~~~~~~~~~l~~~l~~l~~~~yd~IiiD~~~~~~~~~~~~~~~~~-ad~viiv~~~~~~s~~~~~~~~~~l~~  157 (261)
                      . .....|++......|++++....+.+.||+|||||||.++....+...+. +|..++|++|...++.++.+-++++++
T Consensus       129 ~~~~~vIwRGpkk~~~I~qflk~vdwg~lDyLviDtPPGtsDehls~~~~~~~~~gAviVTTPQ~vAl~Dv~K~i~fc~K  208 (300)
T KOG3022|consen  129 PRDDSVIWRGPKKNSMIKQFLKDVDWGELDYLVIDTPPGTSDEHLSLVQFLRESDGAVIVTTPQEVALQDVRKEIDFCRK  208 (300)
T ss_pred             CCCccceeechHHHHHHHHHHhcCCCCCcCEEEEeCCCCCChhhhheeecccccCceEEEeCchhhhhHHHHhhhhhhhh
Confidence            5 66888999999999999999999999999999999999988777776544 377999999999999999999999999


Q ss_pred             CCCCeEEEEEcCCCCCCCCCCcccccccc-hhHHHHHhhhhhhhhhhhhcccccccccCcchhhhhhhccccCCCCCCCC
Q psy14655        158 LNIPVAGLVMNMNSVLCPSCNHMFELYEN-NLHQFEAKNFLKSYERKLYGIHMWNFLIPLCNLIIKIRNVAYGNSHGHGN  236 (261)
Q Consensus       158 ~~~~~~giv~N~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~g~~~~~~~ip~~~~~~~~~~~~~~~a~~~g~  236 (261)
                      .+++++|+|-||....|+.|.+.+++|.. +.+++.++          +|.+.+. .||        -+..+.++.+.|.
T Consensus       209 ~~I~ilGvVENMs~f~Cp~C~~~~~iF~~gGg~~l~~~----------~glp~Lg-~iP--------ld~~i~~~~d~G~  269 (300)
T KOG3022|consen  209 AGIPILGVVENMSGFVCPKCGHSTNIFGSGGGERLAEE----------LGLPLLG-SLP--------LDPLIAESSDSGV  269 (300)
T ss_pred             cCCceEEEEeccccccCCCCCCcceeccCccHHHHHHH----------cCCCeEe-ecC--------CCHHHHHhccCCC
Confidence            99999999999999999999999999984 55666555          5655555 499        7888999999999


Q ss_pred             cchhhhhhhh
Q psy14655        237 TVHHHHVLNL  246 (261)
Q Consensus       237 ~v~~~~~~~~  246 (261)
                      |+.+..+.+.
T Consensus       270 ~~v~~~p~s~  279 (300)
T KOG3022|consen  270 PFVEEYPDSP  279 (300)
T ss_pred             eeEecCCCch
Confidence            8765544433

>PRK11670 antiporter inner membrane protein; Provisional

Probab=100.00  E-value=1.6e-35  Score=256.50  Aligned_cols=226  Identities=34%  Similarity=0.613  Sum_probs=164.0

Q ss_pred             CcccCCCCCcHHHHHHHHHHHHHhcCCCCeEEEEecCCCCCCcccccCCCCC-CCCCcCCccccccccCceeecCCCCcc
Q psy14655          1 MIASSKGGVGKSTTTVNLATAMKICYPDKEIGILDADVFGPSIPILMNLPDT-PLLNKDNLMIPLVNYGVKCLSMGNLIT   79 (261)
Q Consensus         1 ~v~s~KGGvGKTT~a~~lA~~la~~g~~~~VllvD~D~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~l~~~~~~~~~~   79 (261)
                      +|+|+||||||||+|+|||.+||+.|  +||++||+|+|+++++.+||.+.. +.......+.+....++...+.+....
T Consensus       111 aV~S~KGGVGKTT~avNLA~aLA~~G--~rVlLID~D~qgps~~~~lg~~~~~~~~~~~~~i~p~~~~g~~~~~~~~l~~  188 (369)
T PRK11670        111 AVSSGKGGVGKSSTAVNLALALAAEG--AKVGILDADIYGPSIPTMLGAEDQRPTSPDGTHMAPIMAHGLATNSIGYLVT  188 (369)
T ss_pred             EEeCCCCCCCHHHHHHHHHHHHHHCC--CcEEEEeCCCCCCCcchhcCCcccCCcccCCceeeeeeccCcccccHHHhcC
Confidence            48999999999999999999999999  999999999999998888887532 221112222232222332222222111


Q ss_pred             cchhhhhhchHHHHHHHHHHH-HhccCCCCEEEEeCCCCCChhHHHHhhhcCCCeEEEEeCCCcchHHHHHHHHHHHHhC
Q psy14655         80 EKSAAIWRGLMVMQALNKLTV-QVQWGPCDILFIDTPPGTGDTHLSLIQNLFIDTAIIITIPDTMSLQVAQRGYTMFKKL  158 (261)
Q Consensus        80 ~~~~~~~~~~~~~~~l~~~l~-~l~~~~yd~IiiD~~~~~~~~~~~~~~~~~ad~viiv~~~~~~s~~~~~~~~~~l~~~  158 (261)
                      ......+.+......+.+.+. .+. ++||||||||||+.++.........++|.+++|+.|+..++.++.+.++++.+.
T Consensus       189 ~~~~~i~~g~~~~~~l~~~l~~~~~-~~yDyvIID~PPg~gd~~l~~~~l~aad~viiV~tp~~~s~~da~~~i~~~~~~  267 (369)
T PRK11670        189 DDNAMVWRGPMASKALMQMLQETLW-PDLDYLVLDMPPGTGDIQLTLAQNIPVTGAVVVTTPQDIALIDAKKGIVMFEKV  267 (369)
T ss_pred             cCcceeecCcchHHHHHHHHHHHhh-ccCCEEEEeCCCCCchHHHHHhhhccCCeEEEEecCchhHHHHHHHHHHHHhcc
Confidence            122223344444556777764 445 889999999999998765444333348999999999999999999999999999


Q ss_pred             CCCeEEEEEcCCCCCCCCCCcccccccch-hHHHHHhhhhhhhhhhhhcccccccccCcchhhhhhhccccCCCCCCCCc
Q psy14655        159 NIPVAGLVMNMNSVLCPSCNHMFELYENN-LHQFEAKNFLKSYERKLYGIHMWNFLIPLCNLIIKIRNVAYGNSHGHGNT  237 (261)
Q Consensus       159 ~~~~~giv~N~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~g~~~~~~~ip~~~~~~~~~~~~~~~a~~~g~~  237 (261)
                      +++++|+|.||+...|+.|.+...+|... ...+.++          +|.+++. .||        ++..+.+|...|+|
T Consensus       268 ~~~ilGiV~Nm~~~~~~~~~~~~~if~~~~~~~lae~----------~~~~ll~-~IP--------~~~~I~ea~~~G~P  328 (369)
T PRK11670        268 EVPVLGIVENMSMHICSNCGHHEPIFGTGGAEKLAEK----------YHTQLLG-QMP--------LHISLREDLDRGTP  328 (369)
T ss_pred             CCCeEEEEEcCCccccCCccchhhhcccchHHHHHHH----------cCCcEEE-EeC--------CChHHHHHHHCCCc
Confidence            99999999999998888888777777633 3333332          5666665 599        99999999999999


Q ss_pred             chhhhhhhhcc
Q psy14655        238 VHHHHVLNLIG  248 (261)
Q Consensus       238 v~~~~~~~~~~  248 (261)
                      +..+++.+.++
T Consensus       329 v~~~~p~s~~a  339 (369)
T PRK11670        329 TVVSRPESEFT  339 (369)
T ss_pred             EEEeCCCCHHH
Confidence            98776544443

>PRK13869 plasmid-partitioning protein RepA; Provisional

Probab=100.00  E-value=4e-33  Score=244.65  Aligned_cols=213  Identities=16%  Similarity=0.155  Sum_probs=157.0

Q ss_pred             CcccCCCCCcHHHHHHHHHHHHHhcCCCCeEEEEecCCCCCCcccccCCCCCCCC-----------------CcCCcccc
Q psy14655          1 MIASSKGGVGKSTTTVNLATAMKICYPDKEIGILDADVFGPSIPILMNLPDTPLL-----------------NKDNLMIP   63 (261)
Q Consensus         1 ~v~s~KGGvGKTT~a~~lA~~la~~g~~~~VllvD~D~~~~~~~~~~~~~~~~~~-----------------~~~~~~~~   63 (261)
                      +|+|.||||||||+|+|||..||+.|  +|||+||+|||+ +++.+||..+....                 ...+++.+
T Consensus       125 av~n~KGGvGKTTta~nLA~~LA~~G--~rVLlIDlDpQ~-~lt~~~g~~~~~~~~~~~tl~~~l~~~~~~~~~~~~i~~  201 (405)
T PRK13869        125 AVTNFKGGSGKTTTSAHLAQYLALQG--YRVLAVDLDPQA-SLSALLGVLPETDVGANETLYAAIRYDDTRRPLRDVIRP  201 (405)
T ss_pred             EEEcCCCCCCHHHHHHHHHHHHHhcC--CceEEEcCCCCC-CHHHHcCCCccccccccccHHHHHhccccCCCHHHheec
Confidence            47899999999999999999999999  999999999996 56778886542211                 11123334


Q ss_pred             ccccCceeecCCCCcccchhhhh--------hchHHHHHHHHHHHHhccCCCCEEEEeCCCCCChhHHHHhhhcCCCeEE
Q psy14655         64 LVNYGVKCLSMGNLITEKSAAIW--------RGLMVMQALNKLTVQVQWGPCDILFIDTPPGTGDTHLSLIQNLFIDTAI  135 (261)
Q Consensus        64 ~~~~~l~~~~~~~~~~~~~~~~~--------~~~~~~~~l~~~l~~l~~~~yd~IiiD~~~~~~~~~~~~~~~~~ad~vi  135 (261)
                      ...+|++++|++..+........        ........|++.++.+. ++||||||||||+++..+.+++.+  ||.+|
T Consensus       202 t~~~~ldliPa~~~l~~~e~~~~~~~~~~~~~~~~~~~~L~~~L~~~~-~~yD~IiIDtpP~l~~~t~~al~a--Ad~vi  278 (405)
T PRK13869        202 TYFDGLHLVPGNLELMEFEHTTPKALSDKGTRDGLFFTRVAQAFDEVA-DDYDVVVIDCPPQLGFLTLSGLCA--ATSMV  278 (405)
T ss_pred             cCCCCeeEecCCHHHHHHHHHhHHHHhhhcccchhHHHHHHHHHHHhh-ccCCEEEEECCCchhHHHHHHHHH--cCEEE
Confidence            45678999998765432221110        00011245788888888 899999999999999999888887  99999


Q ss_pred             EEeCCCcchHHHHHHHHHHH-------HhC--C--CCeEEEEEcCCCCCCCCCCcccccccchhHHHHHhhhhhhhhhhh
Q psy14655        136 IITIPDTMSLQVAQRGYTMF-------KKL--N--IPVAGLVMNMNSVLCPSCNHMFELYENNLHQFEAKNFLKSYERKL  204 (261)
Q Consensus       136 iv~~~~~~s~~~~~~~~~~l-------~~~--~--~~~~giv~N~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  204 (261)
                      +|+.|+..++.++..+++++       .+.  +  +..+++|+|+++.       +.....          .+.+..++.
T Consensus       279 iPv~p~~~~~~~~~~~l~~~~~~~~~i~~~~~~~~~~~~~il~t~~~~-------~~~~~~----------~~~~~l~~~  341 (405)
T PRK13869        279 ITVHPQMLDIASMSQFLLMTRDLLGVVKEAGGNLQYDFIRYLLTRYEP-------QDAPQT----------KVAALLRNM  341 (405)
T ss_pred             EecCCcHHHHHHHHHHHHHHHHHHHHHHHhCCCCCcceeEEEEEeECC-------CCcHHH----------HHHHHHHHH
Confidence            99999999999998887632       222  2  3467899999542       111111          122234555


Q ss_pred             hcccccccccCcchhhhhhhccccCCCCCCCCcchhhhhh
Q psy14655        205 YGIHMWNFLIPLCNLIIKIRNVAYGNSHGHGNTVHHHHVL  244 (261)
Q Consensus       205 ~g~~~~~~~ip~~~~~~~~~~~~~~~a~~~g~~v~~~~~~  244 (261)
                      +|..++.+.||        ++.++.+|...|+||+++++.
T Consensus       342 ~~~~vl~~~I~--------~s~ai~~a~~~~~tv~e~~~~  373 (405)
T PRK13869        342 FEDHVLTNPMV--------KSAAVSDAGLTKQTLYEIGRE  373 (405)
T ss_pred             hhhhhccCcCc--------chHHHHhhHhcCCChhhcCCC
Confidence            78888888999        999999999999999998755

>TIGR01969 minD_arch cell division ATPase MinD, archaeal

Probab=99.98  E-value=1.1e-31  Score=222.93  Aligned_cols=204  Identities=22%  Similarity=0.319  Sum_probs=152.4

Q ss_pred             CcccCCCCCcHHHHHHHHHHHHHhcCCCCeEEEEecCCCCCCcccccCCCCCC-CCC--------cCCccccccccCcee
Q psy14655          1 MIASSKGGVGKSTTTVNLATAMKICYPDKEIGILDADVFGPSIPILMNLPDTP-LLN--------KDNLMIPLVNYGVKC   71 (261)
Q Consensus         1 ~v~s~KGGvGKTT~a~~lA~~la~~g~~~~VllvD~D~~~~~~~~~~~~~~~~-~~~--------~~~~~~~~~~~~l~~   71 (261)
                      +|+|+||||||||+|+|||.+|+++|  ++|++||+|+|+++++.++|.+... .+.        ..+.+.. ...++++
T Consensus         4 ~v~~~KGGvGKTt~a~~LA~~la~~g--~~VlliD~D~~~~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~-~~~~l~~   80 (251)
T TIGR01969         4 TIASGKGGTGKTTITANLGVALAKLG--KKVLALDADITMANLELILGMEDKPVTLHDVLAGEADIKDAIYE-GPFGVKV   80 (251)
T ss_pred             EEEcCCCCCcHHHHHHHHHHHHHHCC--CeEEEEeCCCCCccceeEeCCCCCCCCHHHHhcCCCCHHHheEe-CCCCEEE
Confidence            48899999999999999999999999  9999999999887888899886431 111        0111111 2357899


Q ss_pred             ecCCCCcccchhhhhhchHHHHHHHHHHHHhccCCCCEEEEeCCCCCChhHHHHhhhcCCCeEEEEeCCCcchHHHHHHH
Q psy14655         72 LSMGNLITEKSAAIWRGLMVMQALNKLTVQVQWGPCDILFIDTPPGTGDTHLSLIQNLFIDTAIIITIPDTMSLQVAQRG  151 (261)
Q Consensus        72 ~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~l~~~~yd~IiiD~~~~~~~~~~~~~~~~~ad~viiv~~~~~~s~~~~~~~  151 (261)
                      +|++.......      ......+.+.+..+. .+||||||||||+.+.....++..  ||.+++|+.|+..++..+.++
T Consensus        81 lp~~~~~~~~~------~~~~~~l~~~l~~l~-~~yD~VIiD~p~~~~~~~~~~l~~--ad~vliv~~~~~~s~~~~~~~  151 (251)
T TIGR01969        81 IPAGVSLEGLR------KADPDKLEDVLKEII-DDTDFLLIDAPAGLERDAVTALAA--ADELLLVVNPEISSITDALKT  151 (251)
T ss_pred             EeCCCCHHHHh------hcCHHHHHHHHHHHH-hhCCEEEEeCCCccCHHHHHHHHh--CCeEEEEECCCCchHHHHHHH
Confidence            98775432111      112345778888887 899999999999999888887776  999999999999999998888


Q ss_pred             HHHHHhCCCCeEEEEEcCCCCCCCCCCcccccccchhHHHHHhhhhhhhhhhhhcccccccccCcchhhhhhhccccCCC
Q psy14655        152 YTMFKKLNIPVAGLVMNMNSVLCPSCNHMFELYENNLHQFEAKNFLKSYERKLYGIHMWNFLIPLCNLIIKIRNVAYGNS  231 (261)
Q Consensus       152 ~~~l~~~~~~~~giv~N~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~ip~~~~~~~~~~~~~~~a  231 (261)
                      ++.+...+.+.+++|+|+++..              ......+     ...+.+|.+++ ..||        ++..+.+|
T Consensus       152 ~~~~~~~~~~~~~vv~N~~~~~--------------~~~~~~~-----~l~~~~~~~~l-~~Ip--------~~~~~~~a  203 (251)
T TIGR01969       152 KIVAEKLGTAILGVVLNRVTRD--------------KTELGRE-----EIETILEVPVL-GVVP--------EDPEVRRA  203 (251)
T ss_pred             HHHHHhcCCceEEEEEECCCch--------------hhhhHHH-----HHHHhhCCcEE-EEec--------CCHhHHHH
Confidence            8888877888899999995421              0011111     12233566666 3589        88899999


Q ss_pred             CCCCCcchhhhhh
Q psy14655        232 HGHGNTVHHHHVL  244 (261)
Q Consensus       232 ~~~g~~v~~~~~~  244 (261)
                      ...|+|++++.+.
T Consensus       204 ~~~g~~v~~~~~~  216 (251)
T TIGR01969       204 AAFGEPVVIYNPN  216 (251)
T ss_pred             HHcCCceEEeCCC
Confidence            9999999876544

This model represents the archaeal branch of the MinD family. MinD, a weak ATPase, works in bacteria with MinC as a generalized cell division inhibitor and, through interaction with MinE, prevents septum placement inappropriate sites. Often several members of this family are found in archaeal genomes, and the function is uncharacterized. More distantly related proteins include flagellar biosynthesis proteins and ParA chromosome partitioning proteins. The exact roles of the various archaeal MinD homologs are unknown.

>TIGR03453 partition_RepA plasmid partitioning protein RepA

Probab=99.97  E-value=8.7e-32  Score=236.12  Aligned_cols=213  Identities=16%  Similarity=0.162  Sum_probs=154.1

Q ss_pred             CcccCCCCCcHHHHHHHHHHHHHhcCCCCeEEEEecCCCCCCcccccCCCCCCCC-----------------CcCCcccc
Q psy14655          1 MIASSKGGVGKSTTTVNLATAMKICYPDKEIGILDADVFGPSIPILMNLPDTPLL-----------------NKDNLMIP   63 (261)
Q Consensus         1 ~v~s~KGGvGKTT~a~~lA~~la~~g~~~~VllvD~D~~~~~~~~~~~~~~~~~~-----------------~~~~~~~~   63 (261)
                      +|+|.||||||||+|+|||.+||+.|  +|||+||+|+|+ +++.++|..+...+                 ...+.+.+
T Consensus       108 ~v~n~KGGvGKTT~a~nLA~~La~~G--~rVLlID~DpQ~-~ls~~~g~~~~~~~~~~~~~~~~~~~~~~~~~l~~~i~~  184 (387)
T TIGR03453       108 AVTNFKGGSGKTTTAAHLAQYLALRG--YRVLAIDLDPQA-SLSALFGYQPEFDVGENETLYGAIRYDDERRPLSEIIRK  184 (387)
T ss_pred             EEEccCCCcCHHHHHHHHHHHHHhcC--CCEEEEecCCCC-CHHHHcCCCcccccccCccHHHHHhccccccCHHhhccc
Confidence            47899999999999999999999999  999999999996 57778876543211                 11223334


Q ss_pred             ccccCceeecCCCCcccchhhhh----h----chHHHHHHHHHHHHhccCCCCEEEEeCCCCCChhHHHHhhhcCCCeEE
Q psy14655         64 LVNYGVKCLSMGNLITEKSAAIW----R----GLMVMQALNKLTVQVQWGPCDILFIDTPPGTGDTHLSLIQNLFIDTAI  135 (261)
Q Consensus        64 ~~~~~l~~~~~~~~~~~~~~~~~----~----~~~~~~~l~~~l~~l~~~~yd~IiiD~~~~~~~~~~~~~~~~~ad~vi  135 (261)
                      ...++++++|++...........    .    .......+.+.++.+. ++||||||||||+.+....+++.+  ||.+|
T Consensus       185 ~~~~~l~lip~~~~l~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~l~-~~yD~IiiD~pp~~~~~~~~al~a--ad~vi  261 (387)
T TIGR03453       185 TYFPGLDLVPGNLELMEFEHETPRALSRGQGGDTIFFARVGEALAEVE-DDYDVVVIDCPPQLGFLTLSALCA--ATGVL  261 (387)
T ss_pred             CCCCCeEEEeCCHHHHHHHHHHHHHHHhcccccchHHHHHHHHHHHHH-hcCCEEEEeCCccHhHHHHHHHHH--cCeeE
Confidence            45578999997754432111110    0    0111245788888888 899999999999999988888887  99999


Q ss_pred             EEeCCCcchHHHHHHHHHHH-------HhC----CCCeEEEEEcCCCCCCCCCCcccccccchhHHHHHhhhhhhhhhhh
Q psy14655        136 IITIPDTMSLQVAQRGYTMF-------KKL----NIPVAGLVMNMNSVLCPSCNHMFELYENNLHQFEAKNFLKSYERKL  204 (261)
Q Consensus       136 iv~~~~~~s~~~~~~~~~~l-------~~~----~~~~~giv~N~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  204 (261)
                      +|+.|+..++.++..+++.+       ...    ++..+++|+|+++.       +.....          ...+..++.
T Consensus       262 ipv~p~~~d~~s~~~~~~~~~~~~~~~~~~~~~~~~~~~~il~~~~~~-------~~~~~~----------~~~~~l~~~  324 (387)
T TIGR03453       262 ITVHPQMLDVMSMSQFLLMTGDLLGVVREAGGNLSYDFMRYLVTRYEP-------NDGPQA----------QMVAFLRSL  324 (387)
T ss_pred             EcCCCchhhHHHHHHHHHHHHHHHHHHHHhcCCCCCceeEEEEeeECC-------CCccHH----------HHHHHHHHH
Confidence            99999999888877655433       222    24568899999542       111111          122234555


Q ss_pred             hcccccccccCcchhhhhhhccccCCCCCCCCcchhhhhh
Q psy14655        205 YGIHMWNFLIPLCNLIIKIRNVAYGNSHGHGNTVHHHHVL  244 (261)
Q Consensus       205 ~g~~~~~~~ip~~~~~~~~~~~~~~~a~~~g~~v~~~~~~  244 (261)
                      +|..++.+.||        ++..+.+|...|.||+++.+.
T Consensus       325 ~~~~vl~~~I~--------~~~~~~~a~~~g~~V~e~~~~  356 (387)
T TIGR03453       325 FGDHVLTNPML--------KSTAISDAGLTKQTLYEVERS  356 (387)
T ss_pred             hcccccccccc--------ccHHHHhhhhcCCCcEEECCC
Confidence            78888889999        999999999999999988654

Members of this family are the RepA (or ParA) protein involved in replicon partitioning. All known examples occur in bacterial species with two or more replicons, on a plasmid or the smaller chromosome. Note that an apparent exception may be seen as a pseudomolecule from assembly of an incompletely sequenced genome. Members of this family belong to a larger family that also includes the enzyme cobyrinic acid a,c-diamide synthase, but assignment of that name to members of this family would be in error.

>PRK13705 plasmid-partitioning protein SopA; Provisional

Probab=99.97  E-value=1.3e-31  Score=233.79  Aligned_cols=213  Identities=15%  Similarity=0.205  Sum_probs=154.4

Q ss_pred             CcccCCCCCcHHHHHHHHHHHHHhcCCCCeEEEEec-CCCCCCcccccCCCCCCCC---------------CcCCccccc
Q psy14655          1 MIASSKGGVGKSTTTVNLATAMKICYPDKEIGILDA-DVFGPSIPILMNLPDTPLL---------------NKDNLMIPL   64 (261)
Q Consensus         1 ~v~s~KGGvGKTT~a~~lA~~la~~g~~~~VllvD~-D~~~~~~~~~~~~~~~~~~---------------~~~~~~~~~   64 (261)
                      +|+|.||||||||+|+|||.+||++|  +|||+||+ |||++ ++.++|..+....               .....+.+.
T Consensus       110 ai~n~KGGVGKTT~a~nLA~~LA~~G--~rVLlID~~DpQ~n-lt~~~g~~~~~~~~~~~~l~~~~~~~~~~~~~~i~~t  186 (388)
T PRK13705        110 GVAAHKGGVYKTSVSVHLAQDLALKG--LRVLLVEGNDPQGT-ASMYHGWVPDLHIHAEDTLLPFYLGEKDDATYAIKPT  186 (388)
T ss_pred             EEECCCCCchHHHHHHHHHHHHHhcC--CCeEEEcCCCCCCc-hhhhcCcCccccccccccHHHHHhcCCCchhhheecC
Confidence            47899999999999999999999999  99999996 99985 5567776432110               012233444


Q ss_pred             cccCceeecCCCCcccchhhhhhch-------HHHHHHHHHHHHhccCCCCEEEEeCCCCCChhHHHHhhhcCCCeEEEE
Q psy14655         65 VNYGVKCLSMGNLITEKSAAIWRGL-------MVMQALNKLTVQVQWGPCDILFIDTPPGTGDTHLSLIQNLFIDTAIII  137 (261)
Q Consensus        65 ~~~~l~~~~~~~~~~~~~~~~~~~~-------~~~~~l~~~l~~l~~~~yd~IiiD~~~~~~~~~~~~~~~~~ad~viiv  137 (261)
                      ..++++++|++..+...........       .....+++.++.++ ++||||||||||+++..+.+++.+  ||.+|+|
T Consensus       187 ~~~~ldliPa~~~l~~~e~~l~~~~~~~~~~~~~~~~L~~~l~~l~-~~YD~IiIDtpP~l~~~t~nal~A--aD~viiP  263 (388)
T PRK13705        187 CWPGLDIIPSCLALHRIETELMGKFDEGKLPTDPHLMLRLAIETVA-HDYDVIVIDSAPNLGIGTINVVCA--ADVLIVP  263 (388)
T ss_pred             CCCCEEEEeCCHHHHHHHHHHHHhhhcccccccHHHHHHHHHHhhh-ccCCEEEEECCCchhHHHHHHHHH--cCEEEEe
Confidence            5679999998765432221111100       12345777888888 899999999999999999988887  9999999


Q ss_pred             eCCCcchHHHHHHHHHHHHhC-------C-CCeEEEEEcCCCCCCCCCCcccccccchhHHHHHhhhhhhhhhhhhcccc
Q psy14655        138 TIPDTMSLQVAQRGYTMFKKL-------N-IPVAGLVMNMNSVLCPSCNHMFELYENNLHQFEAKNFLKSYERKLYGIHM  209 (261)
Q Consensus       138 ~~~~~~s~~~~~~~~~~l~~~-------~-~~~~giv~N~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~  209 (261)
                      +.|+..++.++..+++.+...       + -+.+.+++|+++.       +..       . . ...+.+..++.||..+
T Consensus       264 ~~~~~~s~~g~~~~~~~i~~~~~~~~~~~~~~~l~il~t~~~~-------~~~-------~-~-~~~~~~~l~~~~~~~v  327 (388)
T PRK13705        264 TPAELFDYTSALQFFDMLRDLLKNVDLKGFEPDVRILLTKYSN-------SNG-------S-Q-SPWMEEQIRDAWGSMV  327 (388)
T ss_pred             cCCcHHHHHHHHHHHHHHHHHHHHHhhccCCCCeEEEEEEecC-------CCc-------h-H-HHHHHHHHHHHhcccc
Confidence            999999999988877666532       1 1346688998442       100       0 0 0112233455688889


Q ss_pred             cccccCcchhhhhhhccccCCCCCCCCcchhhhh
Q psy14655        210 WNFLIPLCNLIIKIRNVAYGNSHGHGNTVHHHHV  243 (261)
Q Consensus       210 ~~~~ip~~~~~~~~~~~~~~~a~~~g~~v~~~~~  243 (261)
                      +.+.||        ++.++.+|...++++++++.
T Consensus       328 l~~~I~--------~s~~i~~a~~~~~ti~e~~~  353 (388)
T PRK13705        328 LKNVVR--------ETDEVGKGQIRMRTVFEQAI  353 (388)
T ss_pred             ccccCc--------ccchHhhhhhcCCCceeEcc
Confidence            999999        99999999999999998874

>PHA02519 plasmid partition protein SopA; Reviewed

Probab=99.97  E-value=3.5e-31  Score=230.58  Aligned_cols=215  Identities=16%  Similarity=0.219  Sum_probs=156.0

Q ss_pred             CcccCCCCCcHHHHHHHHHHHHHhcCCCCeEEEEec-CCCCCCcccccCCCCCCCCC---------------cCCccccc
Q psy14655          1 MIASSKGGVGKSTTTVNLATAMKICYPDKEIGILDA-DVFGPSIPILMNLPDTPLLN---------------KDNLMIPL   64 (261)
Q Consensus         1 ~v~s~KGGvGKTT~a~~lA~~la~~g~~~~VllvD~-D~~~~~~~~~~~~~~~~~~~---------------~~~~~~~~   64 (261)
                      +|+|.||||||||+|+|||.+||++|  +|||+||+ |||++ ++.+||..+...+.               ....+.+.
T Consensus       110 av~n~KGGVGKTTta~nLA~~LA~~G--~rVLlIDl~DpQ~n-lt~~~g~~~~~~~~~~~tl~~~~~~~~~~~~~~i~~t  186 (387)
T PHA02519        110 AVMSHKGGVYKTSSAVHTAQWLALQG--HRVLLIEGNDPQGT-ASMYHGYVPDLHIHADDTLLPFYLGERDNAEYAIKPT  186 (387)
T ss_pred             EEecCCCCCcHHHHHHHHHHHHHhCC--CcEEEEeCCCCCCC-cccccCcCccccccccccHHHHHhCCCcchHhheecC
Confidence            47899999999999999999999999  99999996 99985 56777765322111               12233444


Q ss_pred             cccCceeecCCCCcccchhhhhh----c---hHHHHHHHHHHHHhccCCCCEEEEeCCCCCChhHHHHhhhcCCCeEEEE
Q psy14655         65 VNYGVKCLSMGNLITEKSAAIWR----G---LMVMQALNKLTVQVQWGPCDILFIDTPPGTGDTHLSLIQNLFIDTAIII  137 (261)
Q Consensus        65 ~~~~l~~~~~~~~~~~~~~~~~~----~---~~~~~~l~~~l~~l~~~~yd~IiiD~~~~~~~~~~~~~~~~~ad~viiv  137 (261)
                      ..++++++|++..+.........    .   ......|++.++.+. ++||||||||||+++..+.+++.+  ||.+|+|
T Consensus       187 ~~~~ldliPa~~~l~~~e~~l~~~~~~~~~~~~~~~~L~~~L~~l~-~~YD~IlID~pPslg~lt~nAL~A--Ad~vliP  263 (387)
T PHA02519        187 CWPGLDIIPSCLALHRIETDLMQYHDAGKLPHPPHLMLRAAIESVW-DNYDIIVIDSAPNLGTGTINVVCA--ADVIVVA  263 (387)
T ss_pred             CCCCEEEEECChHHHHHHHHHHHhhhccccccCHHHHHHHHHHHhh-ccCCEEEEECCCCccHHHHHHHHH--hCEEEEe
Confidence            56899999987655322111110    0   012245778888888 899999999999999999999887  9999999


Q ss_pred             eCCCcchHHHHHHHHHHHHhC-------C-CCeEEEEEcCCCCCCCCCCcccccccchhHHHHHhhhhhhhhhhhhcccc
Q psy14655        138 TIPDTMSLQVAQRGYTMFKKL-------N-IPVAGLVMNMNSVLCPSCNHMFELYENNLHQFEAKNFLKSYERKLYGIHM  209 (261)
Q Consensus       138 ~~~~~~s~~~~~~~~~~l~~~-------~-~~~~giv~N~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~  209 (261)
                      +.|+..++.++..+++.+...       + .+.+.+++|+++..            ..  ...  ..+.+..++.||..+
T Consensus       264 v~~~~~s~~s~~~~~~~i~~~~~~~~~~~~~~~l~il~t~~~~~------------~~--~~~--~~i~~~l~~~~g~~v  327 (387)
T PHA02519        264 TPAELFDYVSVLQFFTMLLDLLATVDLGGFEPVVRLLLTKYSLT------------VG--NQS--RWMEEQIRNTWGSMV  327 (387)
T ss_pred             cCCcHHHHHHHHHHHHHHHHHHHHHHhcccCCCeEEEEeeECCC------------Cc--hHH--HHHHHHHHHHhcccc
Confidence            999999998888766655321       1 23466899985421            00  000  112234566689999


Q ss_pred             cccccCcchhhhhhhccccCCCCCCCCcchhhhhhh
Q psy14655        210 WNFLIPLCNLIIKIRNVAYGNSHGHGNTVHHHHVLN  245 (261)
Q Consensus       210 ~~~~ip~~~~~~~~~~~~~~~a~~~g~~v~~~~~~~  245 (261)
                      +.+.||        .+.++.+|...++++++++...
T Consensus       328 l~~~I~--------~s~~i~~a~~~~~ti~e~~~~~  355 (387)
T PHA02519        328 LRQVVR--------VTDEVGKGQIKMRTVFEQAANQ  355 (387)
T ss_pred             ccccCc--------CcchHhhchhcCCChhhCcccc
Confidence            999999        9999999999999999876544

>PF06564 YhjQ: YhjQ protein; InterPro: IPR017746 The YhjQ protein is encoded immediately upstream of bacterial cellulose synthase (bcs) genes in a broad range of bacteria, including both copies of the bcs locus in Klebsiella pneumoniae, and in several species is clearly part of the bcs operon

Probab=99.97  E-value=4.1e-32  Score=219.38  Aligned_cols=220  Identities=24%  Similarity=0.261  Sum_probs=163.1

Q ss_pred             CcccCCCCCcHHHHHHHHHHHHHhcCCCCeEEEEecCCCCCCcccccCCCCCC--CC-----CcCCccc--cccccCcee
Q psy14655          1 MIASSKGGVGKSTTTVNLATAMKICYPDKEIGILDADVFGPSIPILMNLPDTP--LL-----NKDNLMI--PLVNYGVKC   71 (261)
Q Consensus         1 ~v~s~KGGvGKTT~a~~lA~~la~~g~~~~VllvD~D~~~~~~~~~~~~~~~~--~~-----~~~~~~~--~~~~~~l~~   71 (261)
                      +|.|.||||||||+|+|||..|++.|  ++|++||+|||+ .+...||++...  ++     ....+..  -....++.+
T Consensus         5 ai~s~kGGvG~TTltAnLA~aL~~~G--~~VlaID~dpqN-~Lrlhfg~~~~~~~G~a~a~l~~~~W~~~~~~~~~g~~~   81 (243)
T PF06564_consen    5 AIVSPKGGVGKTTLTANLAWALARLG--ESVLAIDLDPQN-LLRLHFGLPLDDRDGWARALLDGADWQQAAYRYSDGVDF   81 (243)
T ss_pred             EEecCCCCCCHHHHHHHHHHHHHHCC--CcEEEEeCCcHH-HHHHhcCCCCcccccHHHHHhCCCCHHHHhhccCCCCEE
Confidence            47899999999999999999999999  999999999995 788999987432  22     1122222  124579999


Q ss_pred             ecCCCCcccchhhhhhchHHHHHHHHHHHHhc-cCCCCEEEEeCCCCCChhHHHHhhhcCCCeEEEEeCCCcchHHHHHH
Q psy14655         72 LSMGNLITEKSAAIWRGLMVMQALNKLTVQVQ-WGPCDILFIDTPPGTGDTHLSLIQNLFIDTAIIITIPDTMSLQVAQR  150 (261)
Q Consensus        72 ~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~l~-~~~yd~IiiD~~~~~~~~~~~~~~~~~ad~viiv~~~~~~s~~~~~~  150 (261)
                      +|+|...................+.+.+..+. ...||+||+|+|++.+.....++..  ||.+++|+.|+..+...+.+
T Consensus        82 LPfG~l~~~~~~~~~~l~~~~~~l~~~l~~l~~~~~~~~iliD~P~g~~~~~~~al~~--aD~vL~V~~~Da~s~~~L~q  159 (243)
T PF06564_consen   82 LPFGQLTEAEREAFEQLAQDPQWLARALAALKALGPYDWILIDTPPGPSPYTRQALAA--ADLVLVVVNPDAASHARLHQ  159 (243)
T ss_pred             EcCCCCCHHHHHHHHHhhcCHHHHHHHHHHHhccCCCCEEEEeCCCCCcHHHHHHHHh--CCeEEEEeCCCHHHHHHHHH
Confidence            99998776443322222233456677777776 6789999999999999999988887  99999999999998755443


Q ss_pred             HHHHHHhCCCCeEEEEEcCCCCCCCCCCcccccccchhHHHHHhhhhhhhhhhhhcccccccccCcchhhhhhhccccCC
Q psy14655        151 GYTMFKKLNIPVAGLVMNMNSVLCPSCNHMFELYENNLHQFEAKNFLKSYERKLYGIHMWNFLIPLCNLIIKIRNVAYGN  230 (261)
Q Consensus       151 ~~~~l~~~~~~~~giv~N~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~ip~~~~~~~~~~~~~~~  230 (261)
                         .  ... ....+|+|+++       +.+.+.++...          ..++.+| ..++..|+        +++++.|
T Consensus       160 ---~--~l~-~~~~~liNq~~-------~~s~l~~D~~~----------~~~~~l~-~llp~~IH--------rDeAv~E  207 (243)
T PF06564_consen  160 ---R--ALP-AGHRFLINQYD-------PASQLQRDLLQ----------VWRQSLG-RLLPGVIH--------RDEAVAE  207 (243)
T ss_pred             ---h--ccc-CCcEEEEeccC-------ccchHHHHHHH----------HHHHhhc-cccceeee--------cchHHHH
Confidence               1  111 13578999944       34433332221          2233344 45566788        9999999


Q ss_pred             CCCCCCcchhhhhhhhccccccccCCC
Q psy14655        231 SHGHGNTVHHHHVLNLIGEEDQKSGPY  257 (261)
Q Consensus       231 a~~~g~~v~~~~~~~~~~~~~~~~~~~  257 (261)
                      |...|.|+.+|++.++++++.+..++|
T Consensus       208 AlA~~~~v~~yaP~S~Aa~D~~~LA~W  234 (243)
T PF06564_consen  208 ALASGQPVGEYAPHSQAAEDIQTLANW  234 (243)
T ss_pred             HHhcCCCccccCccCHHHHHHHHHHHH
Confidence            999999999999999999998876666

It is identified as a probable component of the bacterial cellulose metabolic process not only by gene location, but also by partial phylogenetic profiling, or Haft-Selengut algorithm [], based on a bacterial cellulose biosynthesis genome property profile. Cellulose plays an important role in biofilm formation and structural integrity in some bacteria. Mutants in yhjQ in Escherichia coli, show altered morphology an growth, but the function of YhjQ has not yet been determined.

>PRK10037 cell division protein; Provisional

Probab=99.97  E-value=9e-32  Score=223.06  Aligned_cols=213  Identities=15%  Similarity=0.140  Sum_probs=140.8

Q ss_pred             CcccCCCCCcHHHHHHHHHHHHHhcCCCCeEEEEecCCCCCCcccccCCCCCCCC----------CcCCccccccccCce
Q psy14655          1 MIASSKGGVGKSTTTVNLATAMKICYPDKEIGILDADVFGPSIPILMNLPDTPLL----------NKDNLMIPLVNYGVK   70 (261)
Q Consensus         1 ~v~s~KGGvGKTT~a~~lA~~la~~g~~~~VllvD~D~~~~~~~~~~~~~~~~~~----------~~~~~~~~~~~~~l~   70 (261)
                      +|+|.||||||||+|.|||.+||++|  +|||+||+|+|+ +++.+||.......          ...+.+.+. .++++
T Consensus         5 av~n~KGGvGKTT~a~nLA~~La~~G--~rVLlID~D~q~-~~s~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~l~   80 (250)
T PRK10037          5 GLQGVRGGVGTTSITAALAWSLQMLG--ENVLVIDACPDN-LLRLSFNVDFTHRQGWARALLDGQDWRDAGLRY-TSQLD   80 (250)
T ss_pred             EEecCCCCccHHHHHHHHHHHHHhcC--CcEEEEeCChhh-hHHHHhCCCccccchHHHHHhcCCCchhhhccc-cCCeE
Confidence            48899999999999999999999999  999999999997 55666776432211          111122222 46899


Q ss_pred             eecCCCCcccchhhhhhchHHHHHHHHHHHHhc-cCCCCEEEEeCCCCCChhHHHHhhhcCCCeEEEEeCCCcchHHHHH
Q psy14655         71 CLSMGNLITEKSAAIWRGLMVMQALNKLTVQVQ-WGPCDILFIDTPPGTGDTHLSLIQNLFIDTAIIITIPDTMSLQVAQ  149 (261)
Q Consensus        71 ~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~l~-~~~yd~IiiD~~~~~~~~~~~~~~~~~ad~viiv~~~~~~s~~~~~  149 (261)
                      ++|++...................|.+.++.++ ..+||||||||||+.+.....++.+  ||.+++|+.|+..+.    
T Consensus        81 iip~~~~~~~~~~~~~~~~~~~~~l~~~l~~l~~~~~yD~iiIDtpp~~~~~~~~al~a--aD~vlvpv~~~~~~~----  154 (250)
T PRK10037         81 LLPFGQLSIEEQENPQHWQTRLGDICSALQQLKASGRYQWILLDLPRGASPLTRQLLSL--CDHSLAIVNVDANCH----  154 (250)
T ss_pred             EEcCCCCCHHHHHHHHHHHHhHHHHHHHHHHhcccCCCCEEEEECCCCccHHHHHHHHh--CCEEEEEcCcCHHHH----
Confidence            999873322111111110111234666777664 1589999999999999988888887  999999999986653    


Q ss_pred             HHHHHHHhCCCCeEEEEEcCCCCCCCCCCcccccccchhHHHHHhhhhhhhhhhhhcccccccccCcchhhhhhhccccC
Q psy14655        150 RGYTMFKKLNIPVAGLVMNMNSVLCPSCNHMFELYENNLHQFEAKNFLKSYERKLYGIHMWNFLIPLCNLIIKIRNVAYG  229 (261)
Q Consensus       150 ~~~~~l~~~~~~~~giv~N~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~ip~~~~~~~~~~~~~~  229 (261)
                        ++..+......+.+++|+++.           ..+....+.+     .+  ...+.+++++.||        +++++.
T Consensus       155 --i~~~~~~~~~~~~i~~n~~~~-----------~~~~~~~~~~-----~~--~~~~~~~l~~~I~--------~~~~~~  206 (250)
T PRK10037        155 --IRLHQQALPAGAHILINDLRI-----------GSQLQDDLYQ-----LW--LQSQRRLLPMLIH--------RDEAMA  206 (250)
T ss_pred             --HhhhccccCCCeEEEEecCCc-----------ccHHHHHHHH-----HH--HHhcccccCcccc--------CchhHH
Confidence              333332212235678887431           1111111111     01  1114567777899        999999


Q ss_pred             CCCCCCCcchhhhhhhhccccc
Q psy14655        230 NSHGHGNTVHHHHVLNLIGEED  251 (261)
Q Consensus       230 ~a~~~g~~v~~~~~~~~~~~~~  251 (261)
                      +|...|+|++++.+.+.++++.
T Consensus       207 ~a~~~g~~v~~~~~~s~aa~~~  228 (250)
T PRK10037        207 ECLAAKQPLGEYRSDSLAAEEI  228 (250)
T ss_pred             HHHhcCCcchhcCCcCHHHHHH
Confidence            9999999999998777665553

>TIGR03371 cellulose_yhjQ cellulose synthase operon protein YhjQ

Probab=99.97  E-value=1e-31  Score=222.43  Aligned_cols=218  Identities=20%  Similarity=0.227  Sum_probs=153.0

Q ss_pred             CcccCCCCCcHHHHHHHHHHHHHhcCCCCeEEEEecCCCCCCcccccCCCCCCCCCc----------CCccccccccCce
Q psy14655          1 MIASSKGGVGKSTTTVNLATAMKICYPDKEIGILDADVFGPSIPILMNLPDTPLLNK----------DNLMIPLVNYGVK   70 (261)
Q Consensus         1 ~v~s~KGGvGKTT~a~~lA~~la~~g~~~~VllvD~D~~~~~~~~~~~~~~~~~~~~----------~~~~~~~~~~~l~   70 (261)
                      +|+|+|||+||||+|.|||..||++|  +|||+||+|+|+ +++..++.+.......          .+.+. ...++++
T Consensus         5 ~v~s~KGGvGKTt~a~nla~~la~~g--~~VlliD~D~q~-~l~~~~~~~~~~~~~l~~~~~~~~~~~~~~~-~~~~~l~   80 (246)
T TIGR03371         5 AIVGVKGGVGKTTLTANLASALKLLG--EPVLAIDLDPQN-LLRLHFGMDWSVRDGWARALLNGEPWAAAAY-RSSDGVL   80 (246)
T ss_pred             EEEeCCCCccHHHHHHHHHHHHHhCC--CcEEEEeCCCcc-hHHHHhCCCCccCCcHHHHHhcCCChHHhHh-hcCCCeE
Confidence            47899999999999999999999999  999999999997 4667777654322110          11111 1346889


Q ss_pred             eecCCCCcccchhhhhhchHHHHHHHHHHHHhccCCCCEEEEeCCCCCChhHHHHhhhcCCCeEEEEeCCCcchHHHHHH
Q psy14655         71 CLSMGNLITEKSAAIWRGLMVMQALNKLTVQVQWGPCDILFIDTPPGTGDTHLSLIQNLFIDTAIIITIPDTMSLQVAQR  150 (261)
Q Consensus        71 ~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~l~~~~yd~IiiD~~~~~~~~~~~~~~~~~ad~viiv~~~~~~s~~~~~~  150 (261)
                      ++|.+..........  .......+++.++.+....||||||||||+.+.....++..  ||.+++|+.|+..++..+.+
T Consensus        81 ~ip~~~~~~~~~~~~--~~~~~~~l~~~l~~l~~~~~D~viiD~pp~~~~~~~~~l~~--ad~vii~~~~~~~s~~~~~~  156 (246)
T TIGR03371        81 FLPFGDLSADEREAY--QAHDAGWLARLLQQLDLAARDWVLIDVPRGPSPITRQALAA--ADLVLVVVNADAACYATLHQ  156 (246)
T ss_pred             EecCCCCcHHHHHHH--hhcCHHHHHHHHHhcccCCCCEEEEECCCCchHHHHHHHHh--CCeEEEEeCCCHHHHHHHHH
Confidence            999765442221111  11123457788888863346999999999999988888887  99999999999999999984


Q ss_pred             -HHHHHHhCCC-CeEEEEEcCCCCCCCCCCcccccccchhHHHHHhhhhhhhhhhhhcccccccccCcchhhhhhhcccc
Q psy14655        151 -GYTMFKKLNI-PVAGLVMNMNSVLCPSCNHMFELYENNLHQFEAKNFLKSYERKLYGIHMWNFLIPLCNLIIKIRNVAY  228 (261)
Q Consensus       151 -~~~~l~~~~~-~~~giv~N~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~ip~~~~~~~~~~~~~  228 (261)
                       +.+.+..... ..+++|+|+++.       +...        ..  ...+...+.+|..++.+.||        ++..+
T Consensus       157 ~~~~l~~~~~~~~~~~iv~n~~~~-------~~~~--------~~--~~~~~~~~~~~~~~~~~~I~--------~~~~~  211 (246)
T TIGR03371       157 QALALFAGSGPRIGPHFLINQFDP-------ARQL--------SR--DVRAVLRQTLGSRLLPFVIH--------RDEAV  211 (246)
T ss_pred             HHHHHhhcccccccceEEeeccCc-------chhh--------HH--HHHHHHHHHhcccccCCccc--------chhhH
Confidence             4445543322 247899999542       1111        11  12223344567767778899        99999


Q ss_pred             CCCCCCCCcchhhhhhhhccccc
Q psy14655        229 GNSHGHGNTVHHHHVLNLIGEED  251 (261)
Q Consensus       229 ~~a~~~g~~v~~~~~~~~~~~~~  251 (261)
                      .+|...|+|++++.+.+.+.+..
T Consensus       212 ~~a~~~g~pv~~~~~~s~~~~~~  234 (246)
T TIGR03371       212 SEALARGTPVLNYAPHSQAAHDI  234 (246)
T ss_pred             HHHHHcCCCccccCCcCHHHHHH
Confidence            99999999999887665555443

Members of this family are the YhjQ protein, found immediately upsteam of bacterial cellulose synthase (bcs) genes in a broad range of bacteria, including both copies of the bcs locus in Klebsiella pneumoniae. In several species it is seen clearly as part of the bcs operon. It is identified as a probable component of the bacterial cellulose metabolic process not only by gene location, but also by partial phylogenetic profiling, or Haft-Selengut algorithm (PubMed:16930487), based on a bacterial cellulose biosynthesis genome property profile. Cellulose plays an important role in biofilm formation and structural integrity in some bacteria. Mutants in yhjQ in Escherichia coli, show altered morphology an growth, but the function of YhjQ has not yet been determined.

>CHL00175 minD septum-site determining protein; Validated

Probab=99.97  E-value=1e-30  Score=220.55  Aligned_cols=207  Identities=21%  Similarity=0.265  Sum_probs=153.0

Q ss_pred             CcccCCCCCcHHHHHHHHHHHHHhcCCCCeEEEEecCCCCCCcccccCCCCCCCCCc----------CCcc-ccccccCc
Q psy14655          1 MIASSKGGVGKSTTTVNLATAMKICYPDKEIGILDADVFGPSIPILMNLPDTPLLNK----------DNLM-IPLVNYGV   69 (261)
Q Consensus         1 ~v~s~KGGvGKTT~a~~lA~~la~~g~~~~VllvD~D~~~~~~~~~~~~~~~~~~~~----------~~~~-~~~~~~~l   69 (261)
                      +|+|+||||||||+|+|||.+|++.|  ++|++||+|+|.++++.+++.+.....+.          .+.+ .....+++
T Consensus        19 ~v~s~KGGvGKTt~a~nLA~~La~~g--~~vlliD~D~~~~~l~~~lg~~~~~~~~~~d~l~~~~~l~~~~~~~~~~~~l   96 (281)
T CHL00175         19 VITSGKGGVGKTTTTANLGMSIARLG--YRVALIDADIGLRNLDLLLGLENRVLYTAMDVLEGECRLDQALIRDKRWKNL   96 (281)
T ss_pred             EEEcCCCCCcHHHHHHHHHHHHHhCC--CeEEEEeCCCCCCChhhhcCCCCCCCCCHHHHHcCCCChhhheeecCCCCCe
Confidence            48999999999999999999999999  99999999999878888888864321111          1111 11234689


Q ss_pred             eeecCCCCcccchhhhhhchHHHHHHHHHHHHhccC-CCCEEEEeCCCCCChhHHHHhhhcCCCeEEEEeCCCcchHHHH
Q psy14655         70 KCLSMGNLITEKSAAIWRGLMVMQALNKLTVQVQWG-PCDILFIDTPPGTGDTHLSLIQNLFIDTAIIITIPDTMSLQVA  148 (261)
Q Consensus        70 ~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~l~~~-~yd~IiiD~~~~~~~~~~~~~~~~~ad~viiv~~~~~~s~~~~  148 (261)
                      +++|++...... .      .....+.++++.++ . +||||||||||+.+.....++..  ||.+++|+.|+..++.++
T Consensus        97 ~~l~~~~~~~~~-~------~~~~~l~~~l~~l~-~~~yD~VIiDtpp~~~~~~~~~l~~--aD~viiV~~p~~~si~~~  166 (281)
T CHL00175         97 SLLAISKNRQRY-N------VTRKNMNMLVDSLK-NRGYDYILIDCPAGIDVGFINAIAP--AQEAIVVTTPEITAIRDA  166 (281)
T ss_pred             EEEeCCCchhhc-c------CCHHHHHHHHHHHH-hCCCCEEEEeCCCCCCHHHHHHHHh--cCeeEEEcCCChHHHHHH
Confidence            999976543211 0      11234778888887 6 89999999999998888777776  999999999999999999


Q ss_pred             HHHHHHHHhCCCCeEEEEEcCCCCCCCCCCcccccccchhHHHHHhhhhhhhhhhhhcccccccccCcchhhhhhhcccc
Q psy14655        149 QRGYTMFKKLNIPVAGLVMNMNSVLCPSCNHMFELYENNLHQFEAKNFLKSYERKLYGIHMWNFLIPLCNLIIKIRNVAY  228 (261)
Q Consensus       149 ~~~~~~l~~~~~~~~giv~N~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~ip~~~~~~~~~~~~~  228 (261)
                      .++++.+...+...+++|+|++...       ...   ....+..     +...+.+|.+++ ..||        ++..+
T Consensus       167 ~~~~~~l~~~~~~~~~lvvN~~~~~-------~~~---~~~~~~~-----~~l~~~~~~~~~-~~Ip--------~d~~v  222 (281)
T CHL00175        167 DRVAGLLEANGIYNVKLLVNRVRPD-------MIQ---ANDMMSV-----RDVQEMLGIPLL-GAIP--------EDENV  222 (281)
T ss_pred             HHHHHHHHHcCCCceEEEEeccChh-------hhh---hhccccH-----HHHHHHhCCCeE-EEcc--------CCHhH
Confidence            9999999988777789999995421       000   0000001     112333566655 4699        88899


Q ss_pred             CCCCCCCCcchhhhh
Q psy14655        229 GNSHGHGNTVHHHHV  243 (261)
Q Consensus       229 ~~a~~~g~~v~~~~~  243 (261)
                      .+|...|+|++++.+
T Consensus       223 ~~a~~~g~~~~~~~~  237 (281)
T CHL00175        223 IISTNRGEPLVLNKK  237 (281)
T ss_pred             HHHHHcCCceEeCCC
Confidence            999999999987654

>TIGR01968 minD_bact septum site-determining protein MinD

Probab=99.97  E-value=8.6e-31  Score=218.62  Aligned_cols=206  Identities=23%  Similarity=0.287  Sum_probs=149.7

Q ss_pred             CcccCCCCCcHHHHHHHHHHHHHhcCCCCeEEEEecCCCCCCcccccCCCCCCCCCc----------CCcccc-ccccCc
Q psy14655          1 MIASSKGGVGKSTTTVNLATAMKICYPDKEIGILDADVFGPSIPILMNLPDTPLLNK----------DNLMIP-LVNYGV   69 (261)
Q Consensus         1 ~v~s~KGGvGKTT~a~~lA~~la~~g~~~~VllvD~D~~~~~~~~~~~~~~~~~~~~----------~~~~~~-~~~~~l   69 (261)
                      +|+|+||||||||+|+|||..|++.|  +||++||+|+|.++++.+++.+.......          .+.+.. ...+++
T Consensus         5 ~v~s~kGGvGKTt~a~~lA~~la~~g--~~vlliD~D~~~~~~~~~lg~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~l   82 (261)
T TIGR01968         5 VITSGKGGVGKTTTTANLGTALARLG--KKVVLIDADIGLRNLDLLLGLENRIVYTLVDVVEGECRLQQALIKDKRLKNL   82 (261)
T ss_pred             EEecCCCCccHHHHHHHHHHHHHHcC--CeEEEEECCCCCCCeeEEeCCCCcCCCCHHHHhcCcCcHHHHhhcCCCCCCe
Confidence            47899999999999999999999999  99999999999778888888764321110          011111 124588


Q ss_pred             eeecCCCCcccchhhhhhchHHHHHHHHHHHHhccCCCCEEEEeCCCCCChhHHHHhhhcCCCeEEEEeCCCcchHHHHH
Q psy14655         70 KCLSMGNLITEKSAAIWRGLMVMQALNKLTVQVQWGPCDILFIDTPPGTGDTHLSLIQNLFIDTAIIITIPDTMSLQVAQ  149 (261)
Q Consensus        70 ~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~l~~~~yd~IiiD~~~~~~~~~~~~~~~~~ad~viiv~~~~~~s~~~~~  149 (261)
                      +++|.+..... .      ......+.+.++.++ ++||||||||||+.+.....++..  +|.+++|+.|+..++.++.
T Consensus        83 ~~l~~~~~~~~-~------~~~~~~l~~~l~~l~-~~~D~viiD~p~~~~~~~~~~l~~--aD~viiv~~~~~~s~~~~~  152 (261)
T TIGR01968        83 YLLPASQTRDK-D------AVTPEQMKKLVNELK-EEFDYVIIDCPAGIESGFRNAVAP--ADEAIVVTTPEVSAVRDAD  152 (261)
T ss_pred             EEEeCCCchhh-h------hCCHHHHHHHHHHHH-HhCCEEEEeCCCCcCHHHHHHHHh--CCeEEEEcCCCcHHHHHHH
Confidence            89987654321 0      112235778888888 899999999999998887777776  9999999999999999999


Q ss_pred             HHHHHHHhCCCCeEEEEEcCCCCCCCCCCcccccccchhHHHHHhhhhhhhhhhhhcccccccccCcchhhhhhhccccC
Q psy14655        150 RGYTMFKKLNIPVAGLVMNMNSVLCPSCNHMFELYENNLHQFEAKNFLKSYERKLYGIHMWNFLIPLCNLIIKIRNVAYG  229 (261)
Q Consensus       150 ~~~~~l~~~~~~~~giv~N~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~ip~~~~~~~~~~~~~~  229 (261)
                      ++++.+...+....++++|++...       .....+.   ..    .. ...+.+|.+++ ..||        ++..+.
T Consensus       153 ~~~~~l~~~~~~~~~iviN~~~~~-------~~~~~~~---~~----~~-~~~~~~~~~~~-~~Ip--------~~~~~~  208 (261)
T TIGR01968       153 RVIGLLEAKGIEKIHLIVNRLRPE-------MVKKGDM---LS----VD-DVLEILSIPLI-GVIP--------EDEAII  208 (261)
T ss_pred             HHHHHHHHcCCCceEEEEeCcCch-------hcccccc---cC----HH-HHHHHhCCcee-EEcc--------CCHHHH
Confidence            999999887766789999996431       0000000   00    00 11223455544 4699        888999


Q ss_pred             CCCCCCCcchhhh
Q psy14655        230 NSHGHGNTVHHHH  242 (261)
Q Consensus       230 ~a~~~g~~v~~~~  242 (261)
                      +|...|++++++.
T Consensus       209 ~a~~~g~~v~~~~  221 (261)
T TIGR01968       209 VSTNKGEPVVLND  221 (261)
T ss_pred             HHHhcCCCeecCC
Confidence            9999999998654

This model describes the bacterial and chloroplast form of MinD, a multifunctional cell division protein that guides correct placement of the septum. The homologous archaeal MinD proteins, with many archaeal genomes having two or more forms, are described by a separate model.

>PRK13232 nifH nitrogenase reductase; Reviewed

Probab=99.97  E-value=6.8e-31  Score=220.60  Aligned_cols=214  Identities=20%  Similarity=0.189  Sum_probs=144.1

Q ss_pred             CcccCCCCCcHHHHHHHHHHHHHhcCCCCeEEEEecCCCCCCcccccCCCCCCCC------------CcCCccccccccC
Q psy14655          1 MIASSKGGVGKSTTTVNLATAMKICYPDKEIGILDADVFGPSIPILMNLPDTPLL------------NKDNLMIPLVNYG   68 (261)
Q Consensus         1 ~v~s~KGGvGKTT~a~~lA~~la~~g~~~~VllvD~D~~~~~~~~~~~~~~~~~~------------~~~~~~~~~~~~~   68 (261)
                      +|+ +||||||||+|.|||.+||++|  +|||+||+|+|++++..++|......+            ...+.+.+. ..+
T Consensus         5 av~-gKGGVGKTT~a~nLA~~La~~G--~rVllvD~Dpq~~~~~~l~g~~~~~~~~d~l~~~~~~~~~~~~~i~~~-~~~   80 (273)
T PRK13232          5 AIY-GKGGIGKSTTTQNLTAALSTMG--NKILLVGCDPKADSTRMLLGGLNQKTVLDTLRSEGDEGVDLDVVMQPG-FGD   80 (273)
T ss_pred             EEE-CCCCCcHHHHHHHHHHHHHhhC--CCeEEEecccccccchhhcCCCCCCcHHHHHHhcCCCCCCHHHEEEeC-CCC
Confidence            367 8999999999999999999999  999999999999888777664322211            111122232 468


Q ss_pred             ceeecCCCCcccchhhhhhchHHHHHHHHHHHHhccCCCCEEEEeCCCCCChh-HHHHhhhcCCCeEEEEeCCCcchHHH
Q psy14655         69 VKCLSMGNLITEKSAAIWRGLMVMQALNKLTVQVQWGPCDILFIDTPPGTGDT-HLSLIQNLFIDTAIIITIPDTMSLQV  147 (261)
Q Consensus        69 l~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~l~~~~yd~IiiD~~~~~~~~-~~~~~~~~~ad~viiv~~~~~~s~~~  147 (261)
                      ++++|++..... ......+......+.+.+..+. ++||||||||+++.... ....+....||.+++|+.|+..++.+
T Consensus        81 i~~i~~~~~~~~-~~~~~~~~~~~~~l~~~l~~~~-~~yD~vlID~~~~~~~~~~~~~~al~aad~vlip~~p~~~sl~~  158 (273)
T PRK13232         81 IKCVESGGPEPG-VGCAGRGIITSIGLLENLGAYT-DDLDYVFYDVLGDVVCGGFAMPIREGKAKEIYIVASGELMAIYA  158 (273)
T ss_pred             eEEEeCCCCCCC-CCCCCCchhHHHHHHHHccccc-ccCCEEEEecCCCeeECCEeccccccccceEEEecCchHHHHHH
Confidence            999998653321 1111222222234667777777 88999999998765311 11111111299999999999999999


Q ss_pred             HHHHHHHHHh---CCCCeEEEEEcCCCCCCCCCCcccccccchhHHHHHhhhhhhhhhhhhcccccccccCcchhhhhhh
Q psy14655        148 AQRGYTMFKK---LNIPVAGLVMNMNSVLCPSCNHMFELYENNLHQFEAKNFLKSYERKLYGIHMWNFLIPLCNLIIKIR  224 (261)
Q Consensus       148 ~~~~~~~l~~---~~~~~~giv~N~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~ip~~~~~~~~~  224 (261)
                      +..+++.++.   .+.++.|+|+|+...             .......      +...+.+|..++. .||        +
T Consensus       159 ~~~~~k~l~~~~~~~l~~~GiV~n~~~~-------------~~~~~~~------e~l~~~~~~~vl~-~Ip--------~  210 (273)
T PRK13232        159 ANNICKGLAKFAKGGARLGGIICNSRNV-------------DGERELL------EAFAKKLGSQLIH-FVP--------R  210 (273)
T ss_pred             HHHHHHHHHHHhCCCCceeEEEEeCCCC-------------CccHHHH------HHHHHHhCCCeEE-ECC--------C
Confidence            9988887775   356788999997321             0001111      1123346665554 799        9


Q ss_pred             ccccCCCCCCCCcchhhhhhhhcc
Q psy14655        225 NVAYGNSHGHGNTVHHHHVLNLIG  248 (261)
Q Consensus       225 ~~~~~~a~~~g~~v~~~~~~~~~~  248 (261)
                      +..+.+|...|+|++++++.+..+
T Consensus       211 ~~~v~~A~~~g~pv~~~~p~s~~a  234 (273)
T PRK13232        211 DNIVQRAEINRKTVIDFDPESNQA  234 (273)
T ss_pred             CHHHHHHHHcCCCeEEeCCCChHH
Confidence            999999999999998876554443

>COG1192 Soj ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]

Probab=99.97  E-value=1.1e-30  Score=217.83  Aligned_cols=217  Identities=24%  Similarity=0.293  Sum_probs=153.1

Q ss_pred             CcccCCCCCcHHHHHHHHHHHHH-hcCCCCeEEEEecCCCCCCcccccCCCCCCCC------C---cC-Cccccc-cccC
Q psy14655          1 MIASSKGGVGKSTTTVNLATAMK-ICYPDKEIGILDADVFGPSIPILMNLPDTPLL------N---KD-NLMIPL-VNYG   68 (261)
Q Consensus         1 ~v~s~KGGvGKTT~a~~lA~~la-~~g~~~~VllvD~D~~~~~~~~~~~~~~~~~~------~---~~-~~~~~~-~~~~   68 (261)
                      +|+|.||||||||+|.|||.+|| ..|  +|||+||+|||+ +++.+++.+.....      .   .. ...... ..++
T Consensus         6 ~v~n~KGGvGKTT~a~nLa~~La~~~~--~kVLliDlDpQ~-s~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   82 (259)
T COG1192           6 AVANQKGGVGKTTTAVNLAAALAKRGG--KKVLLIDLDPQG-SLTSWLGLRPDLEGDLYNLLSGLKERPDILDYTVVIEG   82 (259)
T ss_pred             EEEecCCCccHHHHHHHHHHHHHHhcC--CcEEEEeCCCcc-hhhHhcCCCcccchhHHHHHhcccccccchhcccCCCC
Confidence            47899999999999999999999 666  999999999996 56677777654000      0   00 111111 4578


Q ss_pred             ceeecCCCCcccchhhhhhchHHHHHHHHHHHHhccCCCCEEEEeCCCCCChhHHHHhhhcCCCeEEEEeCCCcchHHHH
Q psy14655         69 VKCLSMGNLITEKSAAIWRGLMVMQALNKLTVQVQWGPCDILFIDTPPGTGDTHLSLIQNLFIDTAIIITIPDTMSLQVA  148 (261)
Q Consensus        69 l~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~l~~~~yd~IiiD~~~~~~~~~~~~~~~~~ad~viiv~~~~~~s~~~~  148 (261)
                      ++++|++...................++..+..+. ++||||||||||+.+....+++.+  +|.+++|+.|+..++.++
T Consensus        83 ld~ips~~~l~~~~~~~~~~~~~~~~l~~~~~~~~-~~yD~iiID~pp~l~~l~~nal~a--sd~vlIP~~~~~~~~~~~  159 (259)
T COG1192          83 LDLIPSNIDLAEGAEIELNAVAKELLLKRLLDPVK-DDYDYIIIDTPPSLGVLTLNALAA--ADHVLIPVQPEFLDLEGL  159 (259)
T ss_pred             ceEecCChHHHhHHHHHHhhhhHHHHHHHHhhhhc-cCCCEEEECCCCchhHHHHHHHHH--cCeeEEecCchHHHHHHH
Confidence            89999876664311111112233445566666666 799999999999999888888887  999999999999999999


Q ss_pred             HHHHHHHHhCC------CCeEEEEEcCCCCCCCCCCcccccccchhHHHHHhhhhhhhhhhhhcccccccccCcchhhhh
Q psy14655        149 QRGYTMFKKLN------IPVAGLVMNMNSVLCPSCNHMFELYENNLHQFEAKNFLKSYERKLYGIHMWNFLIPLCNLIIK  222 (261)
Q Consensus       149 ~~~~~~l~~~~------~~~~giv~N~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~ip~~~~~~~  222 (261)
                      ..+++.+....      ....++++|+...       +.....          ...+...+.++..++.+.||       
T Consensus       160 ~~~~~~i~~~~~~~~~~~~~~~i~~~~~~~-------~~~~~~----------~~~~~~~~~~~~~~~~~~i~-------  215 (259)
T COG1192         160 EQLLNTLEDLLKLRRNKLIVVGILITRFDS-------RTKLAD----------EVLQELKQLLGDPVLKTKIP-------  215 (259)
T ss_pred             HHHHHHHHHHHHhcCCCcceEEEeeceEcC-------CcchHH----------HHHHHHHHHhccccccccCc-------
Confidence            99877766531      2567888898442       111111          11112344456777788899       


Q ss_pred             hhccccCCCCCCCCcchhhhhhhhcc
Q psy14655        223 IRNVAYGNSHGHGNTVHHHHVLNLIG  248 (261)
Q Consensus       223 ~~~~~~~~a~~~g~~v~~~~~~~~~~  248 (261)
                       ++.++.++...|.++..+++....+
T Consensus       216 -~~~~~~~a~~~g~~~~~~~~~~~~~  240 (259)
T COG1192         216 -RRVAYREAAAEGKPLYEYDPKSKAA  240 (259)
T ss_pred             -ccccHHhHHHcCCCceecCCcchHH
Confidence             9999999999999999887664333

>COG2894 MinD Septum formation inhibitor-activating ATPase [Cell division and chromosome partitioning]

Probab=99.97  E-value=2.3e-31  Score=206.50  Aligned_cols=205  Identities=21%  Similarity=0.295  Sum_probs=154.7

Q ss_pred             CcccCCCCCcHHHHHHHHHHHHHhcCCCCeEEEEecCCCCCCcccccCCCCCCCCCcCC-----------ccccccccCc
Q psy14655          1 MIASSKGGVGKSTTTVNLATAMKICYPDKEIGILDADVFGPSIPILMNLPDTPLLNKDN-----------LMIPLVNYGV   69 (261)
Q Consensus         1 ~v~s~KGGvGKTT~a~~lA~~la~~g~~~~VllvD~D~~~~~~~~~~~~~~~~~~~~~~-----------~~~~~~~~~l   69 (261)
                      +|+|+||||||||+++|++..||+.|  +||++||+|.---+++..+|.+..--+...+           .+.....+++
T Consensus         6 VvTSGKGGVGKTTttAnig~aLA~~G--kKv~liD~DiGLRNLDlimGlE~RiVYd~vdVi~g~~~l~QALIkDKr~~nL   83 (272)
T COG2894           6 VVTSGKGGVGKTTTTANIGTALAQLG--KKVVLIDFDIGLRNLDLIMGLENRIVYDLVDVIEGEATLNQALIKDKRLENL   83 (272)
T ss_pred             EEecCCCCcCccchhHHHHHHHHHcC--CeEEEEecCcCchhhhhhhcccceeeeeehhhhcCccchhhHhhccccCCce
Confidence            47999999999999999999999999  9999999999888899999988653332222           2233456788


Q ss_pred             eeecCCCCcccchhhhhhchHHHHHHHHHHHHhccCCCCEEEEeCCCCCChhHHHHhhhcCCCeEEEEeCCCcchHHHHH
Q psy14655         70 KCLSMGNLITEKSAAIWRGLMVMQALNKLTVQVQWGPCDILFIDTPPGTGDTHLSLIQNLFIDTAIIITIPDTMSLQVAQ  149 (261)
Q Consensus        70 ~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~l~~~~yd~IiiD~~~~~~~~~~~~~~~~~ad~viiv~~~~~~s~~~~~  149 (261)
                      .++|+.......       ....+.+..++++++..+|||||||||+|++.-...++..  ||..++|+.|+..|++++-
T Consensus        84 ~lLPAsQtrdKd-------alt~E~v~~vv~eL~~~~fDyIi~DsPAGIE~G~~~A~~~--Ad~AiVVtnPEvSsVRDsD  154 (272)
T COG2894          84 FLLPASQTRDKD-------ALTPEGVKKVVNELKAMDFDYIIIDSPAGIEQGFKNAVYF--ADEAIVVTNPEVSSVRDSD  154 (272)
T ss_pred             EecccccccCcc-------cCCHHHHHHHHHHHHhcCCCEEEecCcchHHHHHHhhhhc--cceEEEEcCCCccccccch
Confidence            899876655321       2234567788888875789999999999999888888776  9999999999999999999


Q ss_pred             HHHHHHHhCC----C---CeEEEEEcCCCCCCCCCCcccccccchhHHHHHhhhhhhhhhhhhcccccccccCcchhhhh
Q psy14655        150 RGYTMFKKLN----I---PVAGLVMNMNSVLCPSCNHMFELYENNLHQFEAKNFLKSYERKLYGIHMWNFLIPLCNLIIK  222 (261)
Q Consensus       150 ~~~~~l~~~~----~---~~~giv~N~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~ip~~~~~~~  222 (261)
                      +.+..++..+    .   +...+++||+++.       .   ....+.++-++++..+...++|      +||       
T Consensus       155 RiiGlLesk~~rae~~~~~~~~llvnR~~p~-------~---v~~GeMlsv~Dv~~iL~i~liG------iiP-------  211 (272)
T COG2894         155 RIIGLLESKSRRAEIGEEPKEHLLLNRYRPE-------M---VKRGEMLSVEDVLEILSIPLIG------VIP-------  211 (272)
T ss_pred             hheeehhcccchhhcCCcccceEEEEccCHH-------H---hccCCcccHHHHHHHhCCceEE------eec-------
Confidence            9999887654    1   2378999996641       0   0222333333333333334444      499       


Q ss_pred             hhccccCCCCCCCCcchh
Q psy14655        223 IRNVAYGNSHGHGNTVHH  240 (261)
Q Consensus       223 ~~~~~~~~a~~~g~~v~~  240 (261)
                       .+..+-.|.+.|.|+.-
T Consensus       212 -ed~~Vi~asN~GePv~l  228 (272)
T COG2894         212 -EDQDVLRASNKGEPVIL  228 (272)
T ss_pred             -CchhhheecCCCCCeEe
Confidence             99999999999999863

>CHL00072 chlL photochlorophyllide reductase subunit L

Probab=99.97  E-value=9.3e-30  Score=214.48  Aligned_cols=205  Identities=20%  Similarity=0.146  Sum_probs=138.7

Q ss_pred             ccCCCCCcHHHHHHHHHHHHHhcCCCCeEEEEecCCCCCCcccccCCCCCCC-------------CCcCCccccccccCc
Q psy14655          3 ASSKGGVGKSTTTVNLATAMKICYPDKEIGILDADVFGPSIPILMNLPDTPL-------------LNKDNLMIPLVNYGV   69 (261)
Q Consensus         3 ~s~KGGvGKTT~a~~lA~~la~~g~~~~VllvD~D~~~~~~~~~~~~~~~~~-------------~~~~~~~~~~~~~~l   69 (261)
                      +++||||||||+|.|||.+||++|  +|||+||+|||++.+..+.+......             ....+.+.+ ..+++
T Consensus         5 ~~gKGGVGKTTta~nLA~~La~~G--~rVLlID~DpQ~n~t~~l~g~~~~~i~~~~~~~~~~~~~~~~~~~i~~-~~~~l   81 (290)
T CHL00072          5 VYGKGGIGKSTTSCNISIALARRG--KKVLQIGCDPKHDSTFTLTGFLIPTIIDTLQSKDYHYEDVWPEDVIYK-GYGGV   81 (290)
T ss_pred             EECCCCCcHHHHHHHHHHHHHHCC--CeEEEEeccCCCcccccccCcCCCCHHHHHhhcccccccCChhheEEe-CCCCe
Confidence            356999999999999999999999  99999999999876544434321110             011222322 25689


Q ss_pred             eeecCCCCcccchhhhhhchHHHHHHHHHHHHhccCCCCEEEEeCCCCCCh-hHHHHhhhcCCCeEEEEeCCCcchHHHH
Q psy14655         70 KCLSMGNLITEKSAAIWRGLMVMQALNKLTVQVQWGPCDILFIDTPPGTGD-THLSLIQNLFIDTAIIITIPDTMSLQVA  148 (261)
Q Consensus        70 ~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~l~~~~yd~IiiD~~~~~~~-~~~~~~~~~~ad~viiv~~~~~~s~~~~  148 (261)
                      +++|++............ ......+.+.+..+  ++||||||||+++... ...+++..  ||.+++|+.|+..++.++
T Consensus        82 ~lip~~~~~~~~~~~~~~-~~~~~~ll~~l~~~--~~yD~IiIDt~~~l~~~a~~aal~~--AD~viIp~~p~~~sl~~~  156 (290)
T CHL00072         82 DCVEAGGPPAGAGCGGYV-VGETVKLLKELNAF--YEYDIILFDVLGDVVCGGFAAPLNY--ADYCIIITDNGFDALFAA  156 (290)
T ss_pred             EEEeCCCCCCccchhhcc-cHHHHHHHHHhhcc--ccCCEEEEecCCcceechhhhhhhc--CCEEEEEecCCHHHHHHH
Confidence            999988765322110000 01111122223322  4799999999887643 23344555  999999999999999999


Q ss_pred             HHHHHHHHhC----CCCeEEEEEcCCCCCCCCCCcccccccchhHHHHHhhhhhhhhhhhhcccccccccCcchhhhhhh
Q psy14655        149 QRGYTMFKKL----NIPVAGLVMNMNSVLCPSCNHMFELYENNLHQFEAKNFLKSYERKLYGIHMWNFLIPLCNLIIKIR  224 (261)
Q Consensus       149 ~~~~~~l~~~----~~~~~giv~N~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~ip~~~~~~~~~  224 (261)
                      .++++.++..    +++..|+|+||++.       +        ..+.+       ..+.+|.+++. .||        +
T Consensus       157 ~~l~~~i~~~~~~~~l~~~gvv~n~~~~-------~--------~~~~~-------~~~~~~~~vl~-~Ip--------~  205 (290)
T CHL00072        157 NRIAASVREKARTHPLRLAGLVGNRTSK-------R--------DLIDK-------YVEACPMPVLE-VLP--------L  205 (290)
T ss_pred             HHHHHHHHHHhccCCCceEEEEEeCCCc-------h--------hHHHH-------HHHHcCCceEE-ECC--------C
Confidence            9998877654    45688999998531       0        01111       12336777777 799        9


Q ss_pred             ccccCCCCCCCCcchhhhhhhh
Q psy14655        225 NVAYGNSHGHGNTVHHHHVLNL  246 (261)
Q Consensus       225 ~~~~~~a~~~g~~v~~~~~~~~  246 (261)
                      +..+.+|...|+|++++++.+.
T Consensus       206 ~~~v~~A~~~g~pv~~~~p~s~  227 (290)
T CHL00072        206 IEDIRVSRVKGKTLFEMVESEP  227 (290)
T ss_pred             ChHHHHHHhCCCceEEeCCCCc
Confidence            9999999999999998877544

>PRK13233 nifH nitrogenase reductase; Reviewed

Probab=99.97  E-value=4.5e-31  Score=222.01  Aligned_cols=211  Identities=18%  Similarity=0.169  Sum_probs=140.4

Q ss_pred             CcccCCCCCcHHHHHHHHHHHHHh-cCCCCeEEEEecCCCCCCcccccCCCCCCCCCc-----------CCccccccccC
Q psy14655          1 MIASSKGGVGKSTTTVNLATAMKI-CYPDKEIGILDADVFGPSIPILMNLPDTPLLNK-----------DNLMIPLVNYG   68 (261)
Q Consensus         1 ~v~s~KGGvGKTT~a~~lA~~la~-~g~~~~VllvD~D~~~~~~~~~~~~~~~~~~~~-----------~~~~~~~~~~~   68 (261)
                      +|+ +||||||||+|.|||.+||+ .|  +|||+||+|||++++..++|.....++.+           .+.+.....++
T Consensus         6 av~-~KGGVGKTT~a~nLA~~La~~~G--~rvLliD~Dpq~~~t~~~~g~~~~~~l~~~l~~~~~~~~~~~~~~~~~~~~   82 (275)
T PRK13233          6 AIY-GKGGIGKSTTTQNTAAAMAYFHD--KKVFIHGCDPKADSTRLILGGKPQTTMMDTLRELGEEKVTPDKVIKTGFKD   82 (275)
T ss_pred             EEE-cCCCCcHHHHHHHHHHHHHHhcC--CeEEEeccCcCcChHHHHhCCCCCCcHHHHHHHhCCCCCCHHHHeeeCCCC
Confidence            366 79999999999999999997 59  99999999999987655566543322110           11122233578


Q ss_pred             ceeecCCCCcccchhhhhhchHHHHHHHHHHHHhccCCCCEEEEeCCCCCChhHHHHhhh----cCCCeEEEEeCCCcch
Q psy14655         69 VKCLSMGNLITEKSAAIWRGLMVMQALNKLTVQVQWGPCDILFIDTPPGTGDTHLSLIQN----LFIDTAIIITIPDTMS  144 (261)
Q Consensus        69 l~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~l~~~~yd~IiiD~~~~~~~~~~~~~~~----~~ad~viiv~~~~~~s  144 (261)
                      ++++|++...... ............+.+.++.+. ++||||||||++..   +.+++..    ..||++++|++|+..+
T Consensus        83 l~~ipa~~~~~~~-~~~~~~~~~~~~l~~~l~~~~-~~yD~iliD~~~~~---~~~al~~~~~~~aad~viIp~~p~~~s  157 (275)
T PRK13233         83 IRCVESGGPEPGV-GCAGRGVITAIDLMEENGAYT-DDLDFVFFDVLGDV---VCGGFAMPIRDGKAQEVYIVASGEMMA  157 (275)
T ss_pred             cEEEECCCCCCCC-CCCCcchhHHHHHHHHcCCcc-CCCCEEEEecCCce---eeccccccchhccCceEEEeccccHHH
Confidence            9999988654321 111111111122556666676 88999999995432   2223220    1299999999999999


Q ss_pred             HHHHHHHHHHHH----hCCCCeEEEEEcCCCCCCCCCCcccccccchhHHHHHhhhhhhhhhhhhcccccccccCcchhh
Q psy14655        145 LQVAQRGYTMFK----KLNIPVAGLVMNMNSVLCPSCNHMFELYENNLHQFEAKNFLKSYERKLYGIHMWNFLIPLCNLI  220 (261)
Q Consensus       145 ~~~~~~~~~~l~----~~~~~~~giv~N~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~ip~~~~~  220 (261)
                      +.++.++++.+.    +.++++.|+|+|+...             .......      +...+.+|..++. .||     
T Consensus       158 l~g~~~l~~~i~~~~~~~~l~~~Giv~n~~~~-------------~~~~~~~------e~l~~~~~~~~l~-~Ip-----  212 (275)
T PRK13233        158 IYAANNICKGLVKYAEQSGVRLGGIICNSRNV-------------DGELELL------EEFTDAIGTQMIH-FVP-----  212 (275)
T ss_pred             HHHHHHHHHHHHHHHhcCCCceeEEEeeCCCC-------------CcHHHHH------HHHHHHcCCceee-ecC-----
Confidence            999999877663    4567789999997320             0111111      1123346666664 799     


Q ss_pred             hhhhccccCCCCCCCCcchhhhhhhhc
Q psy14655        221 IKIRNVAYGNSHGHGNTVHHHHVLNLI  247 (261)
Q Consensus       221 ~~~~~~~~~~a~~~g~~v~~~~~~~~~  247 (261)
                         ++..+.+|...|+|++++++.+.+
T Consensus       213 ---~~~~v~~A~~~g~pv~~~~~~s~~  236 (275)
T PRK13233        213 ---RDNIVQKAEFNKKTVVEFDPDCNQ  236 (275)
T ss_pred             ---cchHHHHHHHcCCCEEEECCCCHH
Confidence               999999999999999987654433

>PHA02518 ParA-like protein; Provisional

Probab=99.97  E-value=3.2e-30  Score=208.60  Aligned_cols=189  Identities=17%  Similarity=0.209  Sum_probs=135.5

Q ss_pred             CcccCCCCCcHHHHHHHHHHHHHhcCCCCeEEEEecCCCCCCcccccCCCCCCCCCcCCccccccccCceeecCCCCccc
Q psy14655          1 MIASSKGGVGKSTTTVNLATAMKICYPDKEIGILDADVFGPSIPILMNLPDTPLLNKDNLMIPLVNYGVKCLSMGNLITE   80 (261)
Q Consensus         1 ~v~s~KGGvGKTT~a~~lA~~la~~g~~~~VllvD~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~   80 (261)
                      +|+|.||||||||+|+|||.+|+++|  ++|++||+|+|++.. .|++......               ..+|....   
T Consensus         4 ~v~~~KGGvGKTT~a~~la~~la~~g--~~vlliD~D~q~~~~-~~~~~~~~~~---------------~~i~~~~~---   62 (211)
T PHA02518          4 AVLNQKGGAGKTTVATNLASWLHADG--HKVLLVDLDPQGSST-DWAEAREEGE---------------PLIPVVRM---   62 (211)
T ss_pred             EEEcCCCCCCHHHHHHHHHHHHHhCC--CeEEEEeCCCCCChH-HHHHhcccCC---------------CCCchhhc---
Confidence            47899999999999999999999999  999999999998654 4443321100               11111100   


Q ss_pred             chhhhhhchHHHHHHHHHHHHhccCCCCEEEEeCCCCCChhHHHHhhhcCCCeEEEEeCCCcchHHHHHHHHHHHHhC--
Q psy14655         81 KSAAIWRGLMVMQALNKLTVQVQWGPCDILFIDTPPGTGDTHLSLIQNLFIDTAIIITIPDTMSLQVAQRGYTMFKKL--  158 (261)
Q Consensus        81 ~~~~~~~~~~~~~~l~~~l~~l~~~~yd~IiiD~~~~~~~~~~~~~~~~~ad~viiv~~~~~~s~~~~~~~~~~l~~~--  158 (261)
                                 ...+.+.+..+. ..||||||||||+.+.....++..  ||.||+|+.|+..++..+.++++.+...  
T Consensus        63 -----------~~~~~~~l~~~~-~~~d~viiD~p~~~~~~~~~~l~~--aD~viip~~ps~~~~~~~~~~~~~~~~~~~  128 (211)
T PHA02518         63 -----------GKSIRADLPKVA-SGYDYVVVDGAPQDSELARAALRI--ADMVLIPVQPSPFDIWAAPDLVELIKARQE  128 (211)
T ss_pred             -----------cHHHHHHHHHHh-ccCCEEEEeCCCCccHHHHHHHHH--CCEEEEEeCCChhhHHHHHHHHHHHHHHHh
Confidence                       123555666676 899999999999999888888887  9999999999999999999888776642  


Q ss_pred             ---CCCeEEEEEcCCCCCCCCCCcccccccchhHHHHHhhhhhhhhhhhhcccccccccCcchhhhhhhccccCCCCCCC
Q psy14655        159 ---NIPVAGLVMNMNSVLCPSCNHMFELYENNLHQFEAKNFLKSYERKLYGIHMWNFLIPLCNLIIKIRNVAYGNSHGHG  235 (261)
Q Consensus       159 ---~~~~~giv~N~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~ip~~~~~~~~~~~~~~~a~~~g  235 (261)
                         +.+..+++.|+...       +...        ..  .+.+...+ +|.+++.+.+|        ++..+.+|.+.|
T Consensus       129 ~~~~~~~~~iv~n~~~~-------~~~~--------~~--~~~~~l~~-~~~~~~~~~i~--------~~~~~~~a~~~g  182 (211)
T PHA02518        129 VTDGLPKFAFIISRAIK-------NTQL--------YR--EARKALAG-YGLPILRNGTT--------QRVAYADAAEAG  182 (211)
T ss_pred             hCCCCceEEEEEeccCC-------cchH--------HH--HHHHHHHH-cCchhhhchhh--------hHHHHHHHHhcC
Confidence               45677888898431       1111        11  11122222 36566677777        888999999999


Q ss_pred             Ccchhhhhhhhcccc
Q psy14655        236 NTVHHHHVLNLIGEE  250 (261)
Q Consensus       236 ~~v~~~~~~~~~~~~  250 (261)
                      ++++++.+.+.+.++
T Consensus       183 ~~v~~~~~~~~a~~~  197 (211)
T PHA02518        183 GSVLELPEDDKAAEE  197 (211)
T ss_pred             CceEecCCCchHHHH
Confidence            999988665444433

>PRK13235 nifH nitrogenase reductase; Reviewed

Probab=99.96  E-value=2.1e-30  Score=217.74  Aligned_cols=215  Identities=19%  Similarity=0.137  Sum_probs=134.0

Q ss_pred             CcccCCCCCcHHHHHHHHHHHHHhcCCCCeEEEEecCCCCCCcccccCCCCCCCC----------CcCCccccccccCce
Q psy14655          1 MIASSKGGVGKSTTTVNLATAMKICYPDKEIGILDADVFGPSIPILMNLPDTPLL----------NKDNLMIPLVNYGVK   70 (261)
Q Consensus         1 ~v~s~KGGvGKTT~a~~lA~~la~~g~~~~VllvD~D~~~~~~~~~~~~~~~~~~----------~~~~~~~~~~~~~l~   70 (261)
                      +|+ +||||||||+|.|||.+||++|  +|||+||+|||++++..+++......+          .....+.....++++
T Consensus         5 av~-~KGGVGKTT~~~nLA~~La~~G--~rVLlID~Dpq~~~t~~l~~~~~~~~~~~~l~~~~~~~~~~~i~~~~~~~l~   81 (274)
T PRK13235          5 AIY-GKGGIGKSTTTQNTVAGLAEMG--KKVMVVGCDPKADSTRLLLGGLAQKTVLDTLREEGEDVELEDIRKEGYGGTR   81 (274)
T ss_pred             EEe-CCCCccHHHHHHHHHHHHHHCC--CcEEEEecCCcccccccccCCCCCccHHHHHHhcCCCCCHHHHhhcCCCCCE
Confidence            356 6999999999999999999999  999999999999876665543322211          000112223356889


Q ss_pred             eecCCCCcccchhhhhhchHHHHHHHHHHHHhc-cCCCCEEEEeCCCCCCh-hHHHHhhhcCCCeEEEEeCCCcchHHHH
Q psy14655         71 CLSMGNLITEKSAAIWRGLMVMQALNKLTVQVQ-WGPCDILFIDTPPGTGD-THLSLIQNLFIDTAIIITIPDTMSLQVA  148 (261)
Q Consensus        71 ~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~l~-~~~yd~IiiD~~~~~~~-~~~~~~~~~~ad~viiv~~~~~~s~~~~  148 (261)
                      ++|++....... ...........+.+.++.+. .++||||||||++.... .....+...+||++++|+.|+..|+.++
T Consensus        82 ~ip~~~~~~~~~-~~~~~~~~~~~~~~~l~~~~~~~~yD~ilID~~~~~~~~~l~~~~a~~aad~vlIp~~~e~~sl~g~  160 (274)
T PRK13235         82 CTESGGPEPGVG-CAGRGIITSVNLLEQLGAYDDEWNLDYVFYDVLGDVVCGGFAMPIRDGKAEEIYIVCSGEMMAMYAA  160 (274)
T ss_pred             EEeCCCCCCCCC-CCCCceeehhHHHHhhchhhccCCCCEEEEECCCCCccCCcccccccccccEEEEEecCchhHHHHH
Confidence            998764333110 00000000001222222221 26799999999765421 1111111012999999999999999999


Q ss_pred             HHHHHHHHh----CCCCeEEEEEcCCCCCCCCCCcccccccchhHHHHHhhhhhhhhhhhhcccccccccCcchhhhhhh
Q psy14655        149 QRGYTMFKK----LNIPVAGLVMNMNSVLCPSCNHMFELYENNLHQFEAKNFLKSYERKLYGIHMWNFLIPLCNLIIKIR  224 (261)
Q Consensus       149 ~~~~~~l~~----~~~~~~giv~N~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~ip~~~~~~~~~  224 (261)
                      ..+++.+..    .++++.|+|+|+...             .......      +...+.+|..++ +.||        +
T Consensus       161 ~~ll~~i~~~~~~~~l~i~giv~n~~~~-------------~~~~e~~------~~l~~~~~~~ll-~~Ip--------~  212 (274)
T PRK13235        161 NNICKGILKYADAGGVRLGGLICNSRKV-------------DNEREMI------EELARKIGTQMI-HFVP--------R  212 (274)
T ss_pred             HHHHHHHHHHhhcCCCceeEEEEecCCC-------------CchHHHH------HHHHHHcCCceE-EeCC--------C
Confidence            998877654    356677999996220             0111111      112334666565 4799        9


Q ss_pred             ccccCCCCCCCCcchhhhhhhhc
Q psy14655        225 NVAYGNSHGHGNTVHHHHVLNLI  247 (261)
Q Consensus       225 ~~~~~~a~~~g~~v~~~~~~~~~  247 (261)
                      +..+.+|...|+|++++++.+.+
T Consensus       213 ~~~v~~A~~~g~pv~~~~p~s~~  235 (274)
T PRK13235        213 DNFVQRAEINRKTVIEYDPTHPQ  235 (274)
T ss_pred             CHHHHHHHhcCCcEEEECCCCHH
Confidence            99999999999999987754433

>PRK13185 chlL protochlorophyllide reductase iron-sulfur ATP-binding protein; Provisional

Probab=99.96  E-value=2.6e-29  Score=210.78  Aligned_cols=202  Identities=20%  Similarity=0.241  Sum_probs=134.5

Q ss_pred             cccCCCCCcHHHHHHHHHHHHHhcCCCCeEEEEecCCCCCCcccccCCCCCCCC--------------CcCCcccccccc
Q psy14655          2 IASSKGGVGKSTTTVNLATAMKICYPDKEIGILDADVFGPSIPILMNLPDTPLL--------------NKDNLMIPLVNY   67 (261)
Q Consensus         2 v~s~KGGvGKTT~a~~lA~~la~~g~~~~VllvD~D~~~~~~~~~~~~~~~~~~--------------~~~~~~~~~~~~   67 (261)
                      |+ +||||||||+|.|||.+||++|  +|||+||+|||++. ..+++......+              ...+.+. ...+
T Consensus         7 v~-~KGGVGKTT~~~nLA~~la~~G--~kVLliD~Dpq~~~-t~~l~~~~~~~~~~~l~~~~~~~~~~~~~~~i~-~~~~   81 (270)
T PRK13185          7 VY-GKGGIGKSTTSSNLSAAFAKLG--KKVLQIGCDPKHDS-TFTLTGKLVPTVIDILEEVDFHSEELRPEDFVY-EGYN   81 (270)
T ss_pred             EE-CCCCCCHHHHHHHHHHHHHHCC--CeEEEEeccCCcch-hhhhcCCCCCcHHHHHHhccccccCCCHHHhee-eCCC
Confidence            55 6999999999999999999999  99999999999865 445543222111              1111222 2246


Q ss_pred             CceeecCCCCcccchhhhhhchHHHHHHHHHHHHhccCCCCEEEEeCCCCCCh-hHHHHhhhcCCCeEEEEeCCCcchHH
Q psy14655         68 GVKCLSMGNLITEKSAAIWRGLMVMQALNKLTVQVQWGPCDILFIDTPPGTGD-THLSLIQNLFIDTAIIITIPDTMSLQ  146 (261)
Q Consensus        68 ~l~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~l~~~~yd~IiiD~~~~~~~-~~~~~~~~~~ad~viiv~~~~~~s~~  146 (261)
                      |++++|++...................++. + .+. ++||||||||+++... ....++..  ||.+++|+.|+..++.
T Consensus        82 ~l~~ip~~~~~~~~~~~~~~~~~~~~~l~~-~-~~~-~~yD~viIDt~g~~~~~~~~~~l~~--AD~viip~~~~~~sl~  156 (270)
T PRK13185         82 GVDCVEAGGPPAGTGCGGYVVGETVKLLKE-H-HLL-DDYDVILFDVLGDVVCGGFAAPLQY--ADYALIVTANDFDSIF  156 (270)
T ss_pred             CcEEEECCCCCCCCCccchhHHHHHHHHHh-c-Ccc-ccCCEEEEecCCCcccCcccchhhh--CcEEEEEecCchhhHH
Confidence            999999887543211100000111112222 1 234 7899999999876642 22334545  9999999999999999


Q ss_pred             HHHHHHHHHHh----CCCCeEEEEEcCCCCCCCCCCcccccccchhHHHHHhhhhhhhhhhhhcccccccccCcchhhhh
Q psy14655        147 VAQRGYTMFKK----LNIPVAGLVMNMNSVLCPSCNHMFELYENNLHQFEAKNFLKSYERKLYGIHMWNFLIPLCNLIIK  222 (261)
Q Consensus       147 ~~~~~~~~l~~----~~~~~~giv~N~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~ip~~~~~~~  222 (261)
                      ++.++++.++.    .+++..|+|+|+++.               ...      .+++ .+.+|..++. .||       
T Consensus       157 ~~~~~~~~i~~~~~~~~l~i~giv~N~~~~---------------~~~------~~~~-~~~~g~~vl~-~Ip-------  206 (270)
T PRK13185        157 AANRIAAAIQAKAKNYKVRLAGVIANRSAG---------------TDL------IDKF-NEAVGLKVLA-HVP-------  206 (270)
T ss_pred             HHHHHHHHHHhhhhccCCCceEEEEeccCh---------------HHH------HHHH-HHHcCCCEEE-ECC-------
Confidence            99998887653    456678999998431               011      1111 2235666665 589       


Q ss_pred             hhccccCCCCCCCCcchhhhhh
Q psy14655        223 IRNVAYGNSHGHGNTVHHHHVL  244 (261)
Q Consensus       223 ~~~~~~~~a~~~g~~v~~~~~~  244 (261)
                       ++..+.+|...|+|++++.+.
T Consensus       207 -~~~~i~~A~~~G~pv~~~~~~  227 (270)
T PRK13185        207 -DLDAIRRSRLKGKTLFEMEET  227 (270)
T ss_pred             -CCcccChHHHcCCcHhhhCcC
Confidence             899999999999999987663

>cd02032 Bchl_like This family of proteins contains bchL and chlL

Probab=99.96  E-value=3.9e-29  Score=209.34  Aligned_cols=204  Identities=19%  Similarity=0.201  Sum_probs=137.5

Q ss_pred             cccCCCCCcHHHHHHHHHHHHHhcCCCCeEEEEecCCCCCCcccccCCCCCCCC--------------CcCCcccccccc
Q psy14655          2 IASSKGGVGKSTTTVNLATAMKICYPDKEIGILDADVFGPSIPILMNLPDTPLL--------------NKDNLMIPLVNY   67 (261)
Q Consensus         2 v~s~KGGvGKTT~a~~lA~~la~~g~~~~VllvD~D~~~~~~~~~~~~~~~~~~--------------~~~~~~~~~~~~   67 (261)
                      |+ +||||||||+|+|||.+||++|  +|||+||+|||++. ...++.....++              ...+.+. ...+
T Consensus         5 v~-gKGGvGKTT~a~nLA~~la~~G--~rvlliD~Dpq~~~-~~~l~~~~~~~l~~~~~~~~~~~~~~~~~~~i~-~~~~   79 (267)
T cd02032           5 VY-GKGGIGKSTTSSNLSVALAKRG--KKVLQIGCDPKHDS-TFTLTGFLIPTVIDILEEVDFHYEELWPEDVIY-EGYG   79 (267)
T ss_pred             Ee-cCCCCCHHHHHHHHHHHHHHCC--CcEEEEecCCCCCc-ceeccCCCCCCHHHHHHhccccccCCChhheEE-ECCC
Confidence            44 6999999999999999999999  99999999999754 444543221111              1122232 2346


Q ss_pred             CceeecCCCCcccch-hhhhhchHHHHHHHHHHHHhccCCCCEEEEeCCCCCChh-HHHHhhhcCCCeEEEEeCCCcchH
Q psy14655         68 GVKCLSMGNLITEKS-AAIWRGLMVMQALNKLTVQVQWGPCDILFIDTPPGTGDT-HLSLIQNLFIDTAIIITIPDTMSL  145 (261)
Q Consensus        68 ~l~~~~~~~~~~~~~-~~~~~~~~~~~~l~~~l~~l~~~~yd~IiiD~~~~~~~~-~~~~~~~~~ad~viiv~~~~~~s~  145 (261)
                      +++++|++....... ..... ......+++ +. +. .+||||||||+++.... ...++..  ||.+++|+.|+..++
T Consensus        80 ~l~~i~~~~~~~~~~~~~~~~-~~~~~~~~~-~~-~~-~~yD~vIIDt~g~~~~~~~~~al~~--aD~vlip~~p~~~~l  153 (267)
T cd02032          80 GVDCVEAGGPPAGAGCGGYVV-GETVKLLKE-LN-LF-EEYDVILFDVLGDVVCGGFAAPLNY--ADYALIVTDNDFDSI  153 (267)
T ss_pred             CcEEEEcCCCCCCccccchHH-HHHHHHHHH-cc-cc-ccCCEEEEeCCCCcccccchhhhhh--cCEEEEEecCCcccH
Confidence            899999876443211 00001 111122333 21 34 68999999998876533 3445555  999999999999999


Q ss_pred             HHHHHHHHHHHh----CCCCeEEEEEcCCCCCCCCCCcccccccchhHHHHHhhhhhhhhhhhhcccccccccCcchhhh
Q psy14655        146 QVAQRGYTMFKK----LNIPVAGLVMNMNSVLCPSCNHMFELYENNLHQFEAKNFLKSYERKLYGIHMWNFLIPLCNLII  221 (261)
Q Consensus       146 ~~~~~~~~~l~~----~~~~~~giv~N~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~ip~~~~~~  221 (261)
                      .++.++++.++.    .+++..++|+||++.               ...      .++. .+.+|.+++. .||      
T Consensus       154 ~~~~~~~~~i~~~~~~~~l~~~giV~Nr~~~---------------~~~------i~~~-~~~~~~~vl~-~Ip------  204 (267)
T cd02032         154 FAANRIAAAVREKAKTYKVRLAGLIANRTDK---------------TDL------IDKF-VEAVGMPVLA-VLP------  204 (267)
T ss_pred             HHHHHHHHHHHHHhhccCCceEEEEEeCCCH---------------HHH------HHHH-HHhCCCCEEE-Eec------
Confidence            999998877653    356678999999541               001      1111 2235766776 499      


Q ss_pred             hhhccccCCCCCCCCcchhhhhhhhc
Q psy14655        222 KIRNVAYGNSHGHGNTVHHHHVLNLI  247 (261)
Q Consensus       222 ~~~~~~~~~a~~~g~~v~~~~~~~~~  247 (261)
                        ++..+.+|...|+|++++++...+
T Consensus       205 --~~~~v~~A~~~G~~v~e~~~~~~~  228 (267)
T cd02032         205 --LIEDIRRSRVKGKTLFEMDESDEE  228 (267)
T ss_pred             --CCccccHHHHcCCCHHHhCccccc
Confidence              999999999999999998765543

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.

>cd02037 MRP-like MRP (Multiple Resistance and pH adaptation) is a homologue of the Fer4_NifH superfamily

Probab=99.96  E-value=1.3e-28  Score=192.36  Aligned_cols=144  Identities=46%  Similarity=0.797  Sum_probs=115.1

Q ss_pred             CcccCCCCCcHHHHHHHHHHHHHhcCCCCeEEEEecCCCCCCcccccCCCCCCCCCcCCccccccccCceeecCCCCccc
Q psy14655          1 MIASSKGGVGKSTTTVNLATAMKICYPDKEIGILDADVFGPSIPILMNLPDTPLLNKDNLMIPLVNYGVKCLSMGNLITE   80 (261)
Q Consensus         1 ~v~s~KGGvGKTT~a~~lA~~la~~g~~~~VllvD~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~   80 (261)
                      +|+|+|||+||||+|.|||.++|+.|  +||++||+|+|++++.++...                               
T Consensus         3 ~v~s~kgG~GKTt~a~~LA~~la~~g--~~vllvD~D~q~~~~~~~~~~-------------------------------   49 (169)
T cd02037           3 AVMSGKGGVGKSTVAVNLALALAKLG--YKVGLLDADIYGPSIPKMWRG-------------------------------   49 (169)
T ss_pred             EEecCCCcCChhHHHHHHHHHHHHcC--CcEEEEeCCCCCCCchHHHhC-------------------------------
Confidence            47899999999999999999999999  999999999998765433100                               


Q ss_pred             chhhhhhchHHHHHHHHHHHHhccCCCCEEEEeCCCCCChhHHHHhhhcCCCeEEEEeCCCcchHHHHHHHHHHHHhCCC
Q psy14655         81 KSAAIWRGLMVMQALNKLTVQVQWGPCDILFIDTPPGTGDTHLSLIQNLFIDTAIIITIPDTMSLQVAQRGYTMFKKLNI  160 (261)
Q Consensus        81 ~~~~~~~~~~~~~~l~~~l~~l~~~~yd~IiiD~~~~~~~~~~~~~~~~~ad~viiv~~~~~~s~~~~~~~~~~l~~~~~  160 (261)
                              ......++..++.+...+|||||+||||+.+...........+|.+++|+.|+..++.++.++++.+++.+.
T Consensus        50 --------~~~~~~l~~~~~~~~~~~yD~VIiD~pp~~~~~~~~~~~~~~ad~viiV~~p~~~s~~~~~~~~~~l~~~~~  121 (169)
T cd02037          50 --------PMKMGAIKQFLTDVDWGELDYLVIDMPPGTGDEHLTLAQSLPIDGAVIVTTPQEVALDDVRKAIDMFKKVNI  121 (169)
T ss_pred             --------cchHHHHHHHHHHhhcCCCCEEEEeCCCCCcHHHHHHHhccCCCeEEEEECCchhhHHHHHHHHHHHHhcCC
Confidence                    001123555555553378999999999998776554442122999999999999999999999999999999


Q ss_pred             CeEEEEEcCCCCCCCCCCccccccc
Q psy14655        161 PVAGLVMNMNSVLCPSCNHMFELYE  185 (261)
Q Consensus       161 ~~~giv~N~~~~~~~~~~~~~~~~~  185 (261)
                      +..|+|+||+...++.|.++...+.
T Consensus       122 ~~~gvv~N~~~~~~~~~~~~~~~~~  146 (169)
T cd02037         122 PILGVVENMSYFVCPHCGKKIYIFG  146 (169)
T ss_pred             CeEEEEEcCCcccCCCCCCcccccC
Confidence            9999999999887777777766654

Like the other members of the superfamily, MRP contains a ATP-binding domain at the N-termini. It is found in bacteria as a membrane-spanning protein and functions as a Na+/H+ antiporter.

>cd02036 MinD Bacterial cell division requires the formation of a septum at mid-cell

Probab=99.96  E-value=3.5e-29  Score=197.31  Aligned_cols=174  Identities=26%  Similarity=0.385  Sum_probs=132.4

Q ss_pred             CcccCCCCCcHHHHHHHHHHHHHhcCCCCeEEEEecCCCCCCcccccCCCCCCCCCcCCccccccccCceeecCCCCccc
Q psy14655          1 MIASSKGGVGKSTTTVNLATAMKICYPDKEIGILDADVFGPSIPILMNLPDTPLLNKDNLMIPLVNYGVKCLSMGNLITE   80 (261)
Q Consensus         1 ~v~s~KGGvGKTT~a~~lA~~la~~g~~~~VllvD~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~   80 (261)
                      +|+|+|||+||||+|+|||..|+++|  ++|++||+|+|+++++.+++.+.....            +            
T Consensus         3 ~v~~~kgG~GKtt~a~~la~~l~~~g--~~vllvD~D~~~~~~~~~~~~~~~~~~------------~------------   56 (179)
T cd02036           3 VVTSGKGGVGKTTTTANLGTALAQLG--YKVVLIDADLGLRNLDLILGLENRVVY------------T------------   56 (179)
T ss_pred             EEeeCCCCCCHHHHHHHHHHHHHhCC--CeEEEEeCCCCCCCchhhccccccCCc------------c------------
Confidence            47899999999999999999999999  999999999998787777665432110            0            


Q ss_pred             chhhhhhchHHHHHHHHHHHHhccCCCCEEEEeCCCCCChhHHHHhhhcCCCeEEEEeCCCcchHHHHHHHHHHHHhCCC
Q psy14655         81 KSAAIWRGLMVMQALNKLTVQVQWGPCDILFIDTPPGTGDTHLSLIQNLFIDTAIIITIPDTMSLQVAQRGYTMFKKLNI  160 (261)
Q Consensus        81 ~~~~~~~~~~~~~~l~~~l~~l~~~~yd~IiiD~~~~~~~~~~~~~~~~~ad~viiv~~~~~~s~~~~~~~~~~l~~~~~  160 (261)
                                    +.+.   +. .  |||||||||+.+......+..  ||.+++|+.|+..++..+.++++.++..+.
T Consensus        57 --------------~~~~---~~-~--d~viiD~p~~~~~~~~~~l~~--ad~viiv~~~~~~s~~~~~~~~~~~~~~~~  114 (179)
T cd02036          57 --------------LHDV---LA-G--DYILIDSPAGIERGFITAIAP--ADEALLVTTPEISSLRDADRVKGLLEALGI  114 (179)
T ss_pred             --------------hhhc---cc-C--CEEEEECCCCCcHHHHHHHHh--CCcEEEEeCCCcchHHHHHHHHHHHHHcCC
Confidence                          0011   01 1  999999999998887777776  999999999999999999999999998888


Q ss_pred             CeEEEEEcCCCCCCCCCCcccccccchhHHHHHhhhhhhhhhhhhcccccccccCcchhhhhhhccccCCCCCCCCcchh
Q psy14655        161 PVAGLVMNMNSVLCPSCNHMFELYENNLHQFEAKNFLKSYERKLYGIHMWNFLIPLCNLIIKIRNVAYGNSHGHGNTVHH  240 (261)
Q Consensus       161 ~~~giv~N~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~ip~~~~~~~~~~~~~~~a~~~g~~v~~  240 (261)
                      +..++|+|+++..       .....    ..      .+...+.+|.+++ ..||        ++..+.++...|+++++
T Consensus       115 ~~~~iv~N~~~~~-------~~~~~----~~------~~~~~~~~~~~v~-~~Ip--------~~~~~~~a~~~G~~v~~  168 (179)
T cd02036         115 KVVGVIVNRVRPD-------MVEGG----DM------VEDIEEILGVPLL-GVIP--------EDPAVIRATNRGEPVVL  168 (179)
T ss_pred             ceEEEEEeCCccc-------ccchh----hH------HHHHHHHhCCCEE-EEec--------CCHHHHHHHhcCCceEe
Confidence            8899999996531       11111    10      1112333566655 4699        88899999999999998


Q ss_pred             hhhhhhcc
Q psy14655        241 HHVLNLIG  248 (261)
Q Consensus       241 ~~~~~~~~  248 (261)
                      +.+...++
T Consensus       169 ~~~~~~~~  176 (179)
T cd02036         169 NKPKSPAA  176 (179)
T ss_pred             cCCCChhh
Confidence            87665543

The site is determined by the min operon products MinC, MinD and MinE. MinC is a nonspecific inhibitor of the septum protein FtsZ. MinE is the supressor of MinC. MinD plays a pivotal role, selecting the mid-cell over other sites through the activation and regulation of MinC and MinE. MinD is a membrane-associated ATPase, related to nitrogenase iron protein. More distantly related proteins include flagellar biosynthesis proteins and ParA chromosome partitioning proteins. MinD is a monomer.

>TIGR01287 nifH nitrogenase iron protein

Probab=99.96  E-value=1.5e-29  Score=212.84  Aligned_cols=210  Identities=20%  Similarity=0.201  Sum_probs=134.6

Q ss_pred             cCCCCCcHHHHHHHHHHHHHhcCCCCeEEEEecCCCCCCcccccCCCCCCCC------------CcCCccccccccCcee
Q psy14655          4 SSKGGVGKSTTTVNLATAMKICYPDKEIGILDADVFGPSIPILMNLPDTPLL------------NKDNLMIPLVNYGVKC   71 (261)
Q Consensus         4 s~KGGvGKTT~a~~lA~~la~~g~~~~VllvD~D~~~~~~~~~~~~~~~~~~------------~~~~~~~~~~~~~l~~   71 (261)
                      ++||||||||+|.|||.+||++|  +|||+||+|+|++++..+++......+            ...+.+. ....++++
T Consensus         6 ~gKGGVGKTT~a~nLA~~La~~G--~~VlliD~D~q~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~i~-~~~~~l~~   82 (275)
T TIGR01287         6 YGKGGIGKSTTTQNIAAALAEMG--KKVMIVGCDPKADSTRLLLGGKAQPTVLDVLREKGAEDLELEDVIK-EGFGGIRC   82 (275)
T ss_pred             eCCCcCcHHHHHHHHHHHHHHCC--CeEEEEeCCCCCCccccccCCCCCCCHHHHHhhcCCCCCCHHHeee-eCCCCEEE
Confidence            46999999999999999999999  999999999999876555453332221            1112221 23568999


Q ss_pred             ecCCCCcccchhhhhhchHHHHHHHHHHHHhccCCCCEEEEeCCCCCCh-hHH--HHhhhcCCCeEEEEeCCCcchHHHH
Q psy14655         72 LSMGNLITEKSAAIWRGLMVMQALNKLTVQVQWGPCDILFIDTPPGTGD-THL--SLIQNLFIDTAIIITIPDTMSLQVA  148 (261)
Q Consensus        72 ~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~l~~~~yd~IiiD~~~~~~~-~~~--~~~~~~~ad~viiv~~~~~~s~~~~  148 (261)
                      +|++...... ............+.+.+..+. ++||||||||++.... ...  ....+  ||.+|+|+.|+..++.++
T Consensus        83 i~~~~~~~~~-~~~~~~~~~~~~~~~~l~~l~-~~yD~iiIDt~~~~~~~~~~~~~~~~a--AD~viip~~p~~~sl~~~  158 (275)
T TIGR01287        83 VESGGPEPGV-GCAGRGVITAINLLEELGAYE-DDLDFVFYDVLGDVVCGGFAMPIREGK--AQEIYIVTSGEMMALYAA  158 (275)
T ss_pred             EeCCCCCccC-CCccchhhhHHHHHHHhhhhh-ccCCEEEEeccCcceecceeecccccc--ccEEEEEecchHHHHHHH
Confidence            9987544321 111111111111233345566 7899999999764421 110  11123  999999999999999999


Q ss_pred             HHHHHHHHh----CCCCeEEEEEcCCCCCCCCCCcccccccchhHHHHHhhhhhhhhhhhhcccccccccCcchhhhhhh
Q psy14655        149 QRGYTMFKK----LNIPVAGLVMNMNSVLCPSCNHMFELYENNLHQFEAKNFLKSYERKLYGIHMWNFLIPLCNLIIKIR  224 (261)
Q Consensus       149 ~~~~~~l~~----~~~~~~giv~N~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~ip~~~~~~~~~  224 (261)
                      .++++.+..    .+.+..++|.|+.+.             .......     + ...+.+|..++. .||        +
T Consensus       159 ~~l~~~i~~~~~~~~~~~~giv~n~~~~-------------~~~~~~~-----e-~l~~~~~~~vl~-~Ip--------~  210 (275)
T TIGR01287       159 NNICKGILKYAKSGGVRLGGLICNSRNV-------------DDEKELI-----D-EFAKKLGTQLIH-FVP--------R  210 (275)
T ss_pred             HHHHHHHHHHHhcCCCeeeEEEEcCCCC-------------chHHHHH-----H-HHHHHhCCceEE-ECC--------C
Confidence            888765543    356677888886210             0111111     1 122335655554 799        9


Q ss_pred             ccccCCCCCCCCcchhhhhhhhcc
Q psy14655        225 NVAYGNSHGHGNTVHHHHVLNLIG  248 (261)
Q Consensus       225 ~~~~~~a~~~g~~v~~~~~~~~~~  248 (261)
                      +..+.+|...|+|++++.+...++
T Consensus       211 ~~~v~~A~~~g~pv~~~~p~s~~a  234 (275)
T TIGR01287       211 SNIVQKAEIRKMTVIEYDPESEQA  234 (275)
T ss_pred             ChHHHHHHHcCCceEEeCCCCHHH
Confidence            999999999999999887655443

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.

>TIGR01281 DPOR_bchL light-independent protochlorophyllide reductase, iron-sulfur ATP-binding protein

Probab=99.96  E-value=4.9e-29  Score=208.90  Aligned_cols=201  Identities=18%  Similarity=0.229  Sum_probs=134.0

Q ss_pred             cCCCCCcHHHHHHHHHHHHHhcCCCCeEEEEecCCCCCCcccccCCCCCCCC--------------CcCCccccccccCc
Q psy14655          4 SSKGGVGKSTTTVNLATAMKICYPDKEIGILDADVFGPSIPILMNLPDTPLL--------------NKDNLMIPLVNYGV   69 (261)
Q Consensus         4 s~KGGvGKTT~a~~lA~~la~~g~~~~VllvD~D~~~~~~~~~~~~~~~~~~--------------~~~~~~~~~~~~~l   69 (261)
                      ++||||||||+|+|||.+||++|  +|||+||+|+|++.+ .+++.....++              ...+.+. ...+++
T Consensus         6 ~gKGGVGKTT~~~nLA~~La~~g--~rVLliD~D~q~~~~-~~l~~~~~~~i~~~~~~~~~~~~~~~~~~~i~-~~~~~l   81 (268)
T TIGR01281         6 YGKGGIGKSTTSSNLSVAFAKLG--KRVLQIGCDPKHDST-FTLTGRLIPTVIDVLQAVNYHYEDVRPEDVIY-TGYGGV   81 (268)
T ss_pred             EcCCcCcHHHHHHHHHHHHHhCC--CeEEEEecCcccccc-ceecCCCCCcHHHHHHhccccccCCCHHHeeE-eCCCCe
Confidence            37999999999999999999999  999999999998654 44432221111              1112222 234689


Q ss_pred             eeecCCCCcccchhhhhhchHHHHHHHHHHHHhccCCCCEEEEeCCCCCCh-hHHHHhhhcCCCeEEEEeCCCcchHHHH
Q psy14655         70 KCLSMGNLITEKSAAIWRGLMVMQALNKLTVQVQWGPCDILFIDTPPGTGD-THLSLIQNLFIDTAIIITIPDTMSLQVA  148 (261)
Q Consensus        70 ~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~l~~~~yd~IiiD~~~~~~~-~~~~~~~~~~ad~viiv~~~~~~s~~~~  148 (261)
                      +++|++...................+++ + .+. ++||||||||+++... ....++..  ||.+++|+.|+..++.++
T Consensus        82 ~~i~~~~~~~~~~~~~~~~~~~~~~l~~-~-~~~-~~yD~ViID~~~~~~~~~~~~~l~a--AD~vlip~~~~~~sl~~~  156 (268)
T TIGR01281        82 DCVEAGGPPAGSGCGGYVVGETVKLLKE-H-HIL-DDYDVILFDVLGDVVCGGFATPLQY--ADYALVVAANDFDALFAA  156 (268)
T ss_pred             EEEecCCCCCCCcccceehhhhHHHhhh-c-ccc-ccCCEEEEecCCccccCccccchhh--cCEEEEEecCchhHHHHH
Confidence            9999876543211000000111122222 1 234 6899999999876642 22234444  999999999999999999


Q ss_pred             HHHHHHHHh----CCCCeEEEEEcCCCCCCCCCCcccccccchhHHHHHhhhhhhhhhhhhcccccccccCcchhhhhhh
Q psy14655        149 QRGYTMFKK----LNIPVAGLVMNMNSVLCPSCNHMFELYENNLHQFEAKNFLKSYERKLYGIHMWNFLIPLCNLIIKIR  224 (261)
Q Consensus       149 ~~~~~~l~~----~~~~~~giv~N~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~ip~~~~~~~~~  224 (261)
                      .++++.+..    .+++..++|+||++.       +         .     ..++ ..+.+|.+++. .||        +
T Consensus       157 ~~l~~~i~~~~~~~~l~~~gIV~N~~~~-------~---------~-----~~~~-~~~~~~~~vl~-~I~--------~  205 (268)
T TIGR01281       157 NRIAASVQEKAKNYDVRLAGIIGNRSDA-------T---------D-----LIER-FNERVGMPVLG-VVP--------D  205 (268)
T ss_pred             HHHHHHHHHHhhcCCCceEEEEEeCCCh-------H---------H-----HHHH-HHHHcCCCEEE-EcC--------C
Confidence            998887764    356788999999542       1         1     1111 12335766765 589        8


Q ss_pred             ccccCCCCCCCCcchhhhhh
Q psy14655        225 NVAYGNSHGHGNTVHHHHVL  244 (261)
Q Consensus       225 ~~~~~~a~~~g~~v~~~~~~  244 (261)
                      +..+.+|...|+|++++.+.
T Consensus       206 ~~~v~~A~~~G~pV~~~~~~  225 (268)
T TIGR01281       206 LEVIRRSRVKGKTLFEMEES  225 (268)
T ss_pred             ChHHHHHHHCCCCHHHhCcc
Confidence            99999999999999988653

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.

>PRK10818 cell division inhibitor MinD; Provisional

Probab=99.96  E-value=7.6e-29  Score=207.97  Aligned_cols=204  Identities=18%  Similarity=0.226  Sum_probs=144.3

Q ss_pred             CcccCCCCCcHHHHHHHHHHHHHhcCCCCeEEEEecCCCCCCcccccCCCCCCCCCc----------CCcccc-ccccCc
Q psy14655          1 MIASSKGGVGKSTTTVNLATAMKICYPDKEIGILDADVFGPSIPILMNLPDTPLLNK----------DNLMIP-LVNYGV   69 (261)
Q Consensus         1 ~v~s~KGGvGKTT~a~~lA~~la~~g~~~~VllvD~D~~~~~~~~~~~~~~~~~~~~----------~~~~~~-~~~~~l   69 (261)
                      +|+|+||||||||+|+|||.+||++|  ++|++||+|+|.++++.++|.+.......          .+.+.. ....++
T Consensus         6 av~s~KGGvGKTt~a~nlA~~la~~g--~~vllvD~D~~~~~~~~~lg~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   83 (270)
T PRK10818          6 VVTSGKGGVGKTTSSAAIATGLAQKG--KKTVVIDFDIGLRNLDLIMGCERRVVYDFVNVIQGDATLNQALIKDKRTENL   83 (270)
T ss_pred             EEEeCCCCCcHHHHHHHHHHHHHHCC--CeEEEEECCCCCCChhhhhCCCcccccCHHHHhcCCCcHHHhccccCCcCCE
Confidence            48899999999999999999999999  99999999999878888888764321111          111111 135689


Q ss_pred             eeecCCCCcccchhhhhhchHHHHHHHHHHHHhccCCCCEEEEeCCCCCChhHHHHhhhcCCCeEEEEeCCCcchHHHHH
Q psy14655         70 KCLSMGNLITEKSAAIWRGLMVMQALNKLTVQVQWGPCDILFIDTPPGTGDTHLSLIQNLFIDTAIIITIPDTMSLQVAQ  149 (261)
Q Consensus        70 ~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~l~~~~yd~IiiD~~~~~~~~~~~~~~~~~ad~viiv~~~~~~s~~~~~  149 (261)
                      +++|.+..... ..      .....+.++++.++..+||||||||||+.+.....++..  +|.+++|+.|+..++.++.
T Consensus        84 ~~lp~~~~~~~-~~------~~~~~~~~~l~~l~~~~yd~viiD~p~~~~~~~~~~l~~--ad~vivv~~p~~~sl~~~~  154 (270)
T PRK10818         84 YILPASQTRDK-DA------LTREGVAKVLDDLKAMDFEFIVCDSPAGIETGALMALYF--ADEAIITTNPEVSSVRDSD  154 (270)
T ss_pred             EEecCCCCcch-hh------hCHHHHHHHHHHHhhcCCCEEEEeCCCCccHHHHHHHHh--CCeEEEEcCCCchHHHhHH
Confidence            99998754321 11      112345667777752489999999999999888888776  9999999999999999999


Q ss_pred             HHHHHHHhC-------CCC-eEEEEEcCCCCCCCCCCcccccccchhHHHHHhhhhhhhhhhhhcccccccccCcchhhh
Q psy14655        150 RGYTMFKKL-------NIP-VAGLVMNMNSVLCPSCNHMFELYENNLHQFEAKNFLKSYERKLYGIHMWNFLIPLCNLII  221 (261)
Q Consensus       150 ~~~~~l~~~-------~~~-~~giv~N~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~ip~~~~~~  221 (261)
                      ++++.+...       ..+ ..++|+|++..       +.....   ...    ..++ ..+.+|..++ ..||      
T Consensus       155 ~~l~~i~~~~~~~~~~~~~~~~~vv~n~~~~-------~~~~~~---~~~----~~~~-~~~~~g~~~~-~~Ip------  212 (270)
T PRK10818        155 RILGILASKSRRAENGEEPIKEHLLLTRYNP-------GRVSRG---DML----SMED-VLEILRIKLV-GVIP------  212 (270)
T ss_pred             HHHHHHHHhhccccccccccceEEEEeccCH-------hhhhhc---ccc----cHHH-HHHHhCCcEE-EEec------
Confidence            999987632       112 25789998542       110000   000    1111 1233566554 5699      


Q ss_pred             hhhccccCCCCCCCCcch
Q psy14655        222 KIRNVAYGNSHGHGNTVH  239 (261)
Q Consensus       222 ~~~~~~~~~a~~~g~~v~  239 (261)
                        ++..+.+|...|+|++
T Consensus       213 --~~~~v~~a~~~G~~v~  228 (270)
T PRK10818        213 --EDQSVLRASNQGEPVI  228 (270)
T ss_pred             --CCHHHHHHHHcCCeeE
Confidence              8999999999999986

>cd02040 NifH NifH gene encodes component II (iron protein) of nitrogenase

Probab=99.96  E-value=1.1e-29  Score=212.98  Aligned_cols=213  Identities=22%  Similarity=0.238  Sum_probs=134.7

Q ss_pred             cccCCCCCcHHHHHHHHHHHHHhcCCCCeEEEEecCCCCCCcccccCCCCCCCC------------CcCCccccccccCc
Q psy14655          2 IASSKGGVGKSTTTVNLATAMKICYPDKEIGILDADVFGPSIPILMNLPDTPLL------------NKDNLMIPLVNYGV   69 (261)
Q Consensus         2 v~s~KGGvGKTT~a~~lA~~la~~g~~~~VllvD~D~~~~~~~~~~~~~~~~~~------------~~~~~~~~~~~~~l   69 (261)
                      |+ +||||||||+|+|||.+||++|  +|||+||+|+|++++..+++......+            ...+.+. ...+++
T Consensus         6 v~-~KGGvGKTT~~~nLA~~La~~G--~kVlliD~Dpq~n~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~-~~~~~l   81 (270)
T cd02040           6 IY-GKGGIGKSTTTQNLSAALAEMG--KKVMIVGCDPKADSTRLLLGGKAIPTVLDTLREKGEVELELEDVIF-EGFGGI   81 (270)
T ss_pred             EE-eCCcCCHHHHHHHHHHHHHhCC--CeEEEEEcCCCCCchhhhcCCCCCCcHHHHHHhhcccccchhhhee-ecCCCe
Confidence            55 6999999999999999999999  999999999998766555443221111            1111222 234689


Q ss_pred             eeecCCCCcccchhhhhhchHHHHHHHHHHHHhccCCCCEEEEeCCCCCChh-HHHHhhhcCCCeEEEEeCCCcchHHHH
Q psy14655         70 KCLSMGNLITEKSAAIWRGLMVMQALNKLTVQVQWGPCDILFIDTPPGTGDT-HLSLIQNLFIDTAIIITIPDTMSLQVA  148 (261)
Q Consensus        70 ~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~l~~~~yd~IiiD~~~~~~~~-~~~~~~~~~ad~viiv~~~~~~s~~~~  148 (261)
                      +++|++....... ...........+.+.+..+. ++||||||||++..... .........||.+++|+.|+..++.++
T Consensus        82 ~~ip~~~~~~~~~-~~~~~~~~~~~~l~~l~~~~-~~yD~viID~~g~~~~~~~~~~~~~~aaD~vlip~~p~~~sl~~~  159 (270)
T cd02040          82 KCVESGGPEPGVG-CAGRGVITAINLLEELGAYE-DDLDFVIYDVLGDVVCGGFAMPIREGKAQEIYIVTSGEMMALYAA  159 (270)
T ss_pred             EEEeCCCCCCCCC-CcCcchhhHHHHHHhcCccc-cCCCEEEEecccCcccCCcccccccccccEEEEEecCchHHHHHH
Confidence            9999876553211 11111111111223344455 78999999998654211 111111112999999999999999999


Q ss_pred             HHHHHHHHhC----CCCeEEEEEcCCCCCCCCCCcccccccchhHHHHHhhhhhhhhhhhhcccccccccCcchhhhhhh
Q psy14655        149 QRGYTMFKKL----NIPVAGLVMNMNSVLCPSCNHMFELYENNLHQFEAKNFLKSYERKLYGIHMWNFLIPLCNLIIKIR  224 (261)
Q Consensus       149 ~~~~~~l~~~----~~~~~giv~N~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~ip~~~~~~~~~  224 (261)
                      .++++.+...    +.++.++|.|+...             .....     ...+ ..+.+|..++. .||        +
T Consensus       160 ~~l~~~i~~~~~~~~~~l~gVv~n~~~~-------------~~~~~-----~~~~-l~~~~g~~vl~-~Ip--------~  211 (270)
T cd02040         160 NNICKGILKYAKSGGVRLGGLICNSRNT-------------DREDE-----LIDA-FAKRLGTQMIH-FVP--------R  211 (270)
T ss_pred             HHHHHHHHHhCccCCCceEEEEEecCCC-------------hhHHH-----HHHH-HHHHcCCCeEe-ecC--------C
Confidence            8888776543    56778888886221             00011     1111 12235666554 699        8


Q ss_pred             ccccCCCCCCCCcchhhhhhhhcc
Q psy14655        225 NVAYGNSHGHGNTVHHHHVLNLIG  248 (261)
Q Consensus       225 ~~~~~~a~~~g~~v~~~~~~~~~~  248 (261)
                      +..+.+|...|++++++.+...++
T Consensus       212 ~~~v~~A~~~g~pv~~~~p~~~aa  235 (270)
T cd02040         212 DNVVQRAELRGKTVIEYDPESKQA  235 (270)
T ss_pred             cHHHHHHHHcCCceEEecCCCHHH
Confidence            889999999999999877654433

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.

>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=99.96  E-value=4.3e-28  Score=196.24  Aligned_cols=163  Identities=23%  Similarity=0.254  Sum_probs=112.4

Q ss_pred             cccCCCCCcHHHHHHHHHHHHHhcCCCCeEEEEecCCCCCCcccccCCCCCCCC-------------CcCCccccccccC
Q psy14655          2 IASSKGGVGKSTTTVNLATAMKICYPDKEIGILDADVFGPSIPILMNLPDTPLL-------------NKDNLMIPLVNYG   68 (261)
Q Consensus         2 v~s~KGGvGKTT~a~~lA~~la~~g~~~~VllvD~D~~~~~~~~~~~~~~~~~~-------------~~~~~~~~~~~~~   68 (261)
                      |+| ||||||||+|+|||.+||+.|  +|||+||+|+|++++..+++.+....+             ...+.+. ...+|
T Consensus         5 v~g-KGGvGKTt~~~nLA~~la~~G--~rvLliD~D~q~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~   80 (212)
T cd02117           5 IYG-KGGIGKSTTSQNLSAALAEMG--KKVLQVGCDPKADSTRLLLGGKAPTTILELAAEDGHVEDLELEDVIF-EGFGG   80 (212)
T ss_pred             EEC-CCcCcHHHHHHHHHHHHHHCC--CcEEEEeCCCCCCccccccCCCCCCCHHHHHhhhCCcCCcChhHeeE-eCCCC
Confidence            564 999999999999999999999  999999999999776666554432221             1112222 23579


Q ss_pred             ceeecCCCCcccchhhhhhchH-HHHHHHHHHHHhccCCCCEEEEeCCCCCCh-hHHHHhhhcCCCeEEEEeCCCcchHH
Q psy14655         69 VKCLSMGNLITEKSAAIWRGLM-VMQALNKLTVQVQWGPCDILFIDTPPGTGD-THLSLIQNLFIDTAIIITIPDTMSLQ  146 (261)
Q Consensus        69 l~~~~~~~~~~~~~~~~~~~~~-~~~~l~~~l~~l~~~~yd~IiiD~~~~~~~-~~~~~~~~~~ad~viiv~~~~~~s~~  146 (261)
                      ++++|++........ ...... ....++ .++.+. ++||||||||++.... .....+....||.+++|++|+..++.
T Consensus        81 l~vlp~~~~~~~~~~-~~~~~~~~~~~l~-~l~~~~-~~yD~ilID~~g~~~~~~~~~~l~~~~ad~vliv~~p~~~sl~  157 (212)
T cd02117          81 VKCVESGGPEPGVGC-AGRGVITAVNLLE-KEGFAE-DDLDVVLYDVLGDVVCGGFAMPIREGKADEIYIVTSGEFMALY  157 (212)
T ss_pred             cEEEeCCCCCCCccc-CCcchhhHHHHHH-hccccc-cCCCEEEEecCCCceecccccccccccCcEEEEEecccHHHHH
Confidence            999998876643221 111111 112233 566666 8999999999765521 11111220129999999999999999


Q ss_pred             HHHHHHHHHHhC----CCCeEEEEEcCCC
Q psy14655        147 VAQRGYTMFKKL----NIPVAGLVMNMNS  171 (261)
Q Consensus       147 ~~~~~~~~l~~~----~~~~~giv~N~~~  171 (261)
                      ++.++++.++..    +.+..|+|+||+.
T Consensus       158 ~~~~l~~~i~~~~~~~~~~~~gvv~N~~~  186 (212)
T cd02117         158 AANNICKGIRKYAKSGGVRLGGLICNSRN  186 (212)
T ss_pred             HHHHHHHHHHHhCcccCCcEEEEEEeCCC
Confidence            999988888764    5568899999955

Members of this family use energey from ATP hydrolysis and transfer electrons through a Fe4-S4 cluster to other subunit for reduction of substrate.

>PRK13236 nitrogenase reductase; Reviewed

Probab=99.96  E-value=3.1e-29  Score=212.23  Aligned_cols=213  Identities=21%  Similarity=0.195  Sum_probs=138.1

Q ss_pred             cCCCCCcHHHHHHHHHHHHHhcCCCCeEEEEecCCCCCCcccccCCCCCCCCCc-------------CCccccccccCce
Q psy14655          4 SSKGGVGKSTTTVNLATAMKICYPDKEIGILDADVFGPSIPILMNLPDTPLLNK-------------DNLMIPLVNYGVK   70 (261)
Q Consensus         4 s~KGGvGKTT~a~~lA~~la~~g~~~~VllvD~D~~~~~~~~~~~~~~~~~~~~-------------~~~~~~~~~~~l~   70 (261)
                      ++||||||||+|+|||..||++|  +|||+||+|+|++++..+++.....++.+             .+++. ....|++
T Consensus        12 ~GKGGVGKTt~a~NLA~~La~~G--~rVLliD~D~q~~~~~~l~~~~~~~tl~d~~~~~~~~~~~~l~~~i~-~~~~gv~   88 (296)
T PRK13236         12 YGKGGIGKSTTSQNTLAAMAEMG--QRILIVGCDPKADSTRLMLHSKAQTTVLHLAAERGAVEDLELHEVML-TGFRGVK   88 (296)
T ss_pred             ECCCcCCHHHHHHHHHHHHHHCC--CcEEEEEccCCCCccchhccCCCCCCHHHHHHhcCCccCCCHHHhhe-eCCCCeE
Confidence            78999999999999999999999  99999999999999888887654322211             11222 3356999


Q ss_pred             eecCCCCcccchhhhhhchHHHHHHHHHHHHhccCCCCEEEEeCCCCCCh-hHHHHhhhcCCCeEEEEeCCCcchHHHHH
Q psy14655         71 CLSMGNLITEKSAAIWRGLMVMQALNKLTVQVQWGPCDILFIDTPPGTGD-THLSLIQNLFIDTAIIITIPDTMSLQVAQ  149 (261)
Q Consensus        71 ~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~l~~~~yd~IiiD~~~~~~~-~~~~~~~~~~ad~viiv~~~~~~s~~~~~  149 (261)
                      ++|++......   ...+......+..+.....+++||||+|||++.... .....+...+||.+|+|+.|+..++.++.
T Consensus        89 llpa~~~~~~~---~~~~~~~~~~l~~~~~~~~~~~yD~vliD~~~~~~~~~~~~~~~l~aAD~vIIvttpe~~sl~g~~  165 (296)
T PRK13236         89 CVESGGPEPGV---GCAGRGIITAINFLEENGAYQDLDFVSYDVLGDVVCGGFAMPIREGKAQEIYIVTSGEMMAMYAAN  165 (296)
T ss_pred             EEECCCCCCCC---CCcceeehhhhHHHHhcCccccCCEEEEeccccceeccccccchhccCCEEEEecCcchHHHHHHH
Confidence            99987433221   111111111233332222236899999999743321 11111111129999999999999999888


Q ss_pred             HHHHHH----HhCCCCeEEEEEcCCCCCCCCCCcccccccchhHHHHHhhhhhhhhhhhhcccccccccCcchhhhhhhc
Q psy14655        150 RGYTMF----KKLNIPVAGLVMNMNSVLCPSCNHMFELYENNLHQFEAKNFLKSYERKLYGIHMWNFLIPLCNLIIKIRN  225 (261)
Q Consensus       150 ~~~~~l----~~~~~~~~giv~N~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~ip~~~~~~~~~~  225 (261)
                      ++++.+    .+.+++..|+|+||.+.     .      .+ . .+.+      ...+.+|..++. .||        ++
T Consensus       166 ~~~~~l~k~~~~~~l~i~gIv~Nr~~~-----~------~~-~-~ile------~l~~~~g~~vl~-~Ip--------~~  217 (296)
T PRK13236        166 NIARGILKYAHTGGVRLGGLICNSRNV-----D------RE-I-ELIE------TLAKRLNTQMIH-FVP--------RD  217 (296)
T ss_pred             HHHHHHHHHhhCCCceeEEEEecCCCC-----c------ch-H-HHHH------HHHHHhCcccee-eCC--------CC
Confidence            654433    34467889999998321     0      00 0 1111      122336766665 799        99


Q ss_pred             cccCCCCCCCCcchhhhhhhhcccc
Q psy14655        226 VAYGNSHGHGNTVHHHHVLNLIGEE  250 (261)
Q Consensus       226 ~~~~~a~~~g~~v~~~~~~~~~~~~  250 (261)
                      ..+.+|...|+|++.+++.+.++..
T Consensus       218 ~~v~eA~~~~~Pv~~~~p~s~~a~~  242 (296)
T PRK13236        218 NIVQHAELRRMTVNEYAPDSNQGNE  242 (296)
T ss_pred             hHHHHHHHcCCChhhcCCCCHHHHH
Confidence            9999999999999988765544433

>PRK13230 nitrogenase reductase-like protein; Reviewed

Probab=99.96  E-value=3.7e-29  Score=210.72  Aligned_cols=208  Identities=21%  Similarity=0.167  Sum_probs=130.3

Q ss_pred             cccCCCCCcHHHHHHHHHHHHHhcCCCCeEEEEecCCCCCCcccccCCCCCCC------------CCcCCccccccccCc
Q psy14655          2 IASSKGGVGKSTTTVNLATAMKICYPDKEIGILDADVFGPSIPILMNLPDTPL------------LNKDNLMIPLVNYGV   69 (261)
Q Consensus         2 v~s~KGGvGKTT~a~~lA~~la~~g~~~~VllvD~D~~~~~~~~~~~~~~~~~------------~~~~~~~~~~~~~~l   69 (261)
                      |+ +||||||||+|.|||..||++|  +|||+||+|||++.+..+.+ ....+            ....+.+.+ ..+++
T Consensus         6 ~~-gKGGVGKTT~a~nLA~~La~~G--~rVLliD~Dpq~n~t~~l~~-~~~~~l~d~~~~~~~~~~~~~~~i~~-~~~~l   80 (279)
T PRK13230          6 FY-GKGGIGKSTTVCNIAAALAESG--KKVLVVGCDPKADCTRNLVG-EKIPTVLDVLREKGIDNLGLEDIIYE-GFNGI   80 (279)
T ss_pred             EE-CCCCCcHHHHHHHHHHHHHhCC--CEEEEEeeCCcccccccccC-ccCCCHHHHHHhcCCCCCCHHHheee-CCCCc
Confidence            44 7999999999999999999999  99999999999876554433 21111            111222332 35789


Q ss_pred             eeecCCCCcccchhhhhhchHHHHHHHHHHHHhccCCCCEEEEeCCCCCCh-h--HHHHhhhcCCCeEEEEeCCCcchHH
Q psy14655         70 KCLSMGNLITEKSAAIWRGLMVMQALNKLTVQVQWGPCDILFIDTPPGTGD-T--HLSLIQNLFIDTAIIITIPDTMSLQ  146 (261)
Q Consensus        70 ~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~l~~~~yd~IiiD~~~~~~~-~--~~~~~~~~~ad~viiv~~~~~~s~~  146 (261)
                      +++|++....... ...........+.+.+..+...+||||||||+++... .  ....+.+  ||.+|+|+.|+..++.
T Consensus        81 ~lipa~~~~~~~~-~~~~~~~~~~~~~~~~~~l~~~~yD~viID~~~~~~~~~l~~~~~~~a--AD~vlIp~~p~~~si~  157 (279)
T PRK13230         81 YCVESGGPEPGYG-CAGRGVITAIDLLKKLGVFEELGPDVVIYDILGDVVCGGFAMPLQKGL--ADDVYIVTTCDPMAIY  157 (279)
T ss_pred             EEEECCCCCCCCC-cCCcchhhHHHHHHHcCcccccCCCEEEEecCCccccCCccccccccc--cceEEEeccchHHHHH
Confidence            9999876543210 0000000001112222233324799999999765421 1  1112233  8999999999999999


Q ss_pred             HHHHHHHHHHh----CCCCeEEEEEcCCCCCCCCCCcccccccchhHHHHHhhhhhhhhhhhhcccccccccCcchhhhh
Q psy14655        147 VAQRGYTMFKK----LNIPVAGLVMNMNSVLCPSCNHMFELYENNLHQFEAKNFLKSYERKLYGIHMWNFLIPLCNLIIK  222 (261)
Q Consensus       147 ~~~~~~~~l~~----~~~~~~giv~N~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~ip~~~~~~~  222 (261)
                      ++..+++.+..    .+.++.|++.|+...          ..   ....     .+ ...+.+|..++ +.||       
T Consensus       158 ~~~~ll~~i~~~~~~~~~~i~gIv~n~r~~----------~~---~~~~-----~e-~l~~~~g~~vl-~~Ip-------  210 (279)
T PRK13230        158 AANNICKGIKRFAKRGKSALGGIIYNGRSV----------ID---APDI-----VE-EFAKKIGTNVI-GKIP-------  210 (279)
T ss_pred             HHHHHHHHHHHHhhcCCCcceEEEEeccCC----------Cc---hhHH-----HH-HHHHHhCCcEE-EECC-------
Confidence            99988776653    355667777663110          00   0011     11 12334676666 4799       


Q ss_pred             hhccccCCCCCCCCcchhhhhhh
Q psy14655        223 IRNVAYGNSHGHGNTVHHHHVLN  245 (261)
Q Consensus       223 ~~~~~~~~a~~~g~~v~~~~~~~  245 (261)
                       ++..+.+|...|+|+.++++..
T Consensus       211 -~~~~v~eA~~~g~pv~~~~p~~  232 (279)
T PRK13230        211 -MSNIITEAEIYGKTVIEYAPDS  232 (279)
T ss_pred             -CChHHHHHHHcCCeEEEeCCCC
Confidence             9999999999999999776543

>COG0489 Mrp ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]

Probab=99.95  E-value=1.6e-27  Score=197.94  Aligned_cols=170  Identities=39%  Similarity=0.638  Sum_probs=142.4

Q ss_pred             CcccCCCCCcHHHHHHHHHHHHHhcCCCCeEEEEecCCCCCCcccccCCCCCCCC---CcCCcccc----ccccCceeec
Q psy14655          1 MIASSKGGVGKSTTTVNLATAMKICYPDKEIGILDADVFGPSIPILMNLPDTPLL---NKDNLMIP----LVNYGVKCLS   73 (261)
Q Consensus         1 ~v~s~KGGvGKTT~a~~lA~~la~~g~~~~VllvD~D~~~~~~~~~~~~~~~~~~---~~~~~~~~----~~~~~l~~~~   73 (261)
                      +|+|+|||+||||+|+|||..+|+.|  +||++||+|..+++.+.+|+.+....+   .....+.+    ....++++++
T Consensus        61 ~V~S~kgGvGKStva~nLA~alA~~G--~rVlliDaD~~gps~~~~l~~~~~~g~~~~~~g~~~~~~~~~~~~~~lsi~~  138 (265)
T COG0489          61 AVTSGKGGVGKSTVAVNLAAALAQLG--KRVLLLDADLRGPSIPRMLGLENLPGLTELLAGEALEPVIQHDGIKVLSILP  138 (265)
T ss_pred             EEEeCCCCCcHHHHHHHHHHHHHhcC--CcEEEEeCcCCCCchHHHhCCCCCCCcccccCCCccccceecCccceEEEEe
Confidence            47899999999999999999999999  999999999999999999999753322   11111333    2245677777


Q ss_pred             CCCCcccchhhhhhchHHHHHHHHHHHHhccCCCCEEEEeCCCCCChhHHHHhhhcCCCeEEEEeCCCcchHHHHHHHHH
Q psy14655         74 MGNLITEKSAAIWRGLMVMQALNKLTVQVQWGPCDILFIDTPPGTGDTHLSLIQNLFIDTAIIITIPDTMSLQVAQRGYT  153 (261)
Q Consensus        74 ~~~~~~~~~~~~~~~~~~~~~l~~~l~~l~~~~yd~IiiD~~~~~~~~~~~~~~~~~ad~viiv~~~~~~s~~~~~~~~~  153 (261)
                      .+.     ....+.+......+++++..+++.+|||||||+||+.+......+... +|.+++|+.|+..+...+.+.++
T Consensus       139 ~~~-----~p~~~r~~l~s~~~~qll~~~~~~~~D~vIID~PP~~g~~d~~i~~~~-~~g~viVt~p~~~~~~~v~ka~~  212 (265)
T COG0489         139 LGP-----VPVIPRGLLGSKAMLQLLEDVLWGEYDYVIIDTPPGTGDADATVLQRI-PDGVVIVTTPGKTALEDVKKAID  212 (265)
T ss_pred             cCC-----CCCCChHhhhhHHHHHHHHHHhccCCCEEEEeCCCCchHHHHHHHhcc-CCeEEEEeCCccchHHHHHHHHH
Confidence            766     334455667788899999999966699999999999998887777755 88999999999999999999999


Q ss_pred             HHHhCCCCeEEEEEcCCCCCCCCCC
Q psy14655        154 MFKKLNIPVAGLVMNMNSVLCPSCN  178 (261)
Q Consensus       154 ~l~~~~~~~~giv~N~~~~~~~~~~  178 (261)
                      ++++.+.+++|+|.||.+..|++|.
T Consensus       213 ~~~~~~~~vlGvv~Nm~~~~~~~~~  237 (265)
T COG0489         213 MLEKAGIPVLGVVENMSYFICPRCG  237 (265)
T ss_pred             HHHhcCCceEEEEecCccCcccccC
Confidence            9999999999999999998888775

>PRK13234 nifH nitrogenase reductase; Reviewed

Probab=99.95  E-value=1.2e-28  Score=208.56  Aligned_cols=208  Identities=17%  Similarity=0.155  Sum_probs=138.0

Q ss_pred             cccCCCCCcHHHHHHHHHHHHHhcCCCCeEEEEecCCCCCCcccccCCCCCCCC-------------CcCCccccccccC
Q psy14655          2 IASSKGGVGKSTTTVNLATAMKICYPDKEIGILDADVFGPSIPILMNLPDTPLL-------------NKDNLMIPLVNYG   68 (261)
Q Consensus         2 v~s~KGGvGKTT~a~~lA~~la~~g~~~~VllvD~D~~~~~~~~~~~~~~~~~~-------------~~~~~~~~~~~~~   68 (261)
                      |+ +||||||||+++|||..|+++|  +|||+||+|+|++++..+++.....++             ...+.+ ....+|
T Consensus         9 i~-~KGGvGKTt~~~nLa~~la~~g--~kVLliD~D~q~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i-~~~~~g   84 (295)
T PRK13234          9 FY-GKGGIGKSTTSQNTLAALVEMG--QKILIVGCDPKADSTRLILNAKAQDTVLSLAAEAGSVEDLELEDVM-KIGYKG   84 (295)
T ss_pred             EE-CCCCccHHHHHHHHHHHHHHCC--CeEEEEecccccccccccccCCCCCcHHHHHHhcCCcccccHHHHh-eecCCC
Confidence            55 9999999999999999999999  999999999999887656554332221             011112 133579


Q ss_pred             ceeecCCCCcccchhhhhhchHHHHHHH-HHHHHhc-cCCCCEEEEeCCCCCC-hhHHHHhhhcCCCeEEEEeCCCcchH
Q psy14655         69 VKCLSMGNLITEKSAAIWRGLMVMQALN-KLTVQVQ-WGPCDILFIDTPPGTG-DTHLSLIQNLFIDTAIIITIPDTMSL  145 (261)
Q Consensus        69 l~~~~~~~~~~~~~~~~~~~~~~~~~l~-~~l~~l~-~~~yd~IiiD~~~~~~-~~~~~~~~~~~ad~viiv~~~~~~s~  145 (261)
                      ++++|++...... .    .......++ ..++.+. .++||||||||+++.. ......+....||.+|+|+.|+..++
T Consensus        85 l~lipa~~~~~~~-~----~~~~~~~l~~~~l~~~~~~~~yD~IlID~~~~~~~nal~~~~~~~aAD~vIIPv~pe~~Sl  159 (295)
T PRK13234         85 IKCVESGGPEPGV-G----CAGRGVITSINFLEENGAYDDVDYVSYDVLGDVVCGGFAMPIRENKAQEIYIVMSGEMMAL  159 (295)
T ss_pred             eEEEECCCCCCCC-C----CCcceeeeHHHHHHHcCCCccCCEEEEEcCCCceECCCccccccccCceEEEecCccHHHH
Confidence            9999987544321 0    111112233 2455532 2689999999965432 12211111012999999999999999


Q ss_pred             HHHHHHHHHHHhC----CCCeEEEEEcCCCCCCCCCCcccccccchhHHHHHhhhhhhhhhhhhcccccccccCcchhhh
Q psy14655        146 QVAQRGYTMFKKL----NIPVAGLVMNMNSVLCPSCNHMFELYENNLHQFEAKNFLKSYERKLYGIHMWNFLIPLCNLII  221 (261)
Q Consensus       146 ~~~~~~~~~l~~~----~~~~~giv~N~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~ip~~~~~~  221 (261)
                      .++.++++.+.+.    +++..|+|+|+.+.             .......      +...+.+|.+++. .||      
T Consensus       160 ~gl~~l~~~i~~~~~~~~l~~~gIV~N~~rt-------------~~~~~~~------e~l~e~~g~~ll~-~Ip------  213 (295)
T PRK13234        160 YAANNIAKGILKYANSGGVRLGGLICNERQT-------------DRELELA------EALAARLGSKLIH-FVP------  213 (295)
T ss_pred             HHHHHHHHHHHHHhcCCCCeEEEEEecCCCC-------------chHHHHH------HHHHHHhCCceEE-ECC------
Confidence            9999998877653    46688999996331             1111111      1223346766664 799      


Q ss_pred             hhhccccCCCCCCCCcchhhhhhhh
Q psy14655        222 KIRNVAYGNSHGHGNTVHHHHVLNL  246 (261)
Q Consensus       222 ~~~~~~~~~a~~~g~~v~~~~~~~~  246 (261)
                        ++..+.+|...|+|++++++.+.
T Consensus       214 --~d~~V~eA~~~g~pv~~~~p~s~  236 (295)
T PRK13234        214 --RDNIVQHAELRRMTVIEYAPDSK  236 (295)
T ss_pred             --CchHHHHHHHcCCceEEECCCCH
Confidence              99999999999999998765443

>TIGR03018 pepcterm_TyrKin exopolysaccharide/PEPCTERM locus tyrosine autokinase

Probab=99.95  E-value=2.9e-27  Score=190.61  Aligned_cols=156  Identities=23%  Similarity=0.334  Sum_probs=123.5

Q ss_pred             CcccCCCCCcHHHHHHHHHHHHHh-cCCCCeEEEEecCCCCCCcccccCCCCCCCCCc---------CCccccccccCce
Q psy14655          1 MIASSKGGVGKSTTTVNLATAMKI-CYPDKEIGILDADVFGPSIPILMNLPDTPLLNK---------DNLMIPLVNYGVK   70 (261)
Q Consensus         1 ~v~s~KGGvGKTT~a~~lA~~la~-~g~~~~VllvD~D~~~~~~~~~~~~~~~~~~~~---------~~~~~~~~~~~l~   70 (261)
                      +|+|.|||+||||+|+|||.+||+ .|  +|||+||+|++.++++.+++.+...++.+         .+.+.....++++
T Consensus        39 ~v~s~kgG~GkSt~a~nLA~~la~~~g--~~VLlvD~D~~~~~~~~~~~~~~~~~l~~~l~~~~~~l~~~i~~~~~~~l~  116 (207)
T TIGR03018        39 MVTSSLPGEGKSFTAINLAISLAQEYD--KTVLLIDADLRRPSLHRTLGLEAEPGLSDCLLDPVLDLADVLVPTNIGRLS  116 (207)
T ss_pred             EEECCCCCCCHHHHHHHHHHHHHHhcC--CeEEEEECCCCChhhhheeCCCCCCCHHHHHcCCCCCHHHHhccCCCCCEE
Confidence            478999999999999999999997 58  99999999999988888888876544321         1222333457899


Q ss_pred             eecCCCCcccchhhhhhchHHHHHHHHHHHHhccCCC--CEEEEeCCCCCChh-HHHHhhhcCCCeEEEEeCCCcchHHH
Q psy14655         71 CLSMGNLITEKSAAIWRGLMVMQALNKLTVQVQWGPC--DILFIDTPPGTGDT-HLSLIQNLFIDTAIIITIPDTMSLQV  147 (261)
Q Consensus        71 ~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~l~~~~y--d~IiiD~~~~~~~~-~~~~~~~~~ad~viiv~~~~~~s~~~  147 (261)
                      ++|.+.........     .....+.++++.++ ++|  ||||||+||+.+.. ...+...  ||.+|+|++++..+...
T Consensus       117 vl~~g~~~~~~~~~-----~~~~~l~~~l~~l~-~~y~~D~IiiD~pp~~~~~~~~~l~~~--aD~viiV~~~~~~~~~~  188 (207)
T TIGR03018       117 LLPAGRRHPNPTEL-----LASQRMRSLLHELA-RRYPDRIIIIDTPPLLVFSEARALARL--VGQIVLVVEEGRTTQEA  188 (207)
T ss_pred             EEeCCCCCCCHHHH-----hCcHHHHHHHHHHH-hhCCCCEEEEECCCCcchhHHHHHHHh--CCEEEEEEECCCCCHHH
Confidence            99988776432221     12346788888888 788  99999999998644 3344445  99999999999999999


Q ss_pred             HHHHHHHHHhCCCCeEEEEEc
Q psy14655        148 AQRGYTMFKKLNIPVAGLVMN  168 (261)
Q Consensus       148 ~~~~~~~l~~~~~~~~giv~N  168 (261)
                      +.++++.++  +.+++|+|+|
T Consensus       189 ~~~~~~~l~--~~~~~G~v~N  207 (207)
T TIGR03018       189 VKEALSALE--SCKVLGVVLN  207 (207)
T ss_pred             HHHHHHHhc--CCCeEEEEeC
Confidence            999999999  6688999998

Members of this protein family are related to a known protein-tyrosine autokinase and to numerous homologs from exopolysaccharide biosynthesis region proteins, many of which are designated as chain length determinants. Most members of this family contain a short region, immediately C-terminal to the region modeled here, with an abundance of Tyr residues. These C-terminal tyrosine residues are likely to be autophosphorylation sites. Some members of this family are fusion proteins.

>COG0455 flhG Antiactivator of flagellar biosynthesis FleN, an ATPase [Cell motility]

Probab=99.95  E-value=1.1e-27  Score=197.29  Aligned_cols=211  Identities=22%  Similarity=0.339  Sum_probs=154.1

Q ss_pred             CcccCCCCCcHHHHHHHHHHHHH-hcCCCCeEEEEecCCCCCCcccccCCCCCCC-CCc--------CCccccccccCce
Q psy14655          1 MIASSKGGVGKSTTTVNLATAMK-ICYPDKEIGILDADVFGPSIPILMNLPDTPL-LNK--------DNLMIPLVNYGVK   70 (261)
Q Consensus         1 ~v~s~KGGvGKTT~a~~lA~~la-~~g~~~~VllvD~D~~~~~~~~~~~~~~~~~-~~~--------~~~~~~~~~~~l~   70 (261)
                      +|+|+|||+||||+|+||+..++ .+|  ++|++||+|...++++.+||.++.+. +.+        .+.+......|++
T Consensus         6 av~SgKGGvGKTtitanlga~~~~~~~--k~V~~iDaD~g~~nL~~~~g~~~~~~~l~dvL~~~~~~~Di~~~~~~~gl~   83 (262)
T COG0455           6 AVVSGKGGVGKTTITANLGAALAALGG--KVVLLIDADLGLGNLSLLLGVESKPTTLHDVLAGEASIEDIIYETPQDGLY   83 (262)
T ss_pred             EEEecCCCccHHHHHHhHHHHHHhhCC--CeEEEEecCCCCCcHHHHhCCCCCcccHHHHHhCCCCHhHeeeecCcCCEE
Confidence            47899999999999999955555 555  88899999999999999999988655 321        2333334348999


Q ss_pred             eecCCCCcccchhhhhhchHHHHHHHHHHHHhccCCCCEEEEeCCCCCChhHHHHhhhcCCCeEEEEeCCCcchHHHHHH
Q psy14655         71 CLSMGNLITEKSAAIWRGLMVMQALNKLTVQVQWGPCDILFIDTPPGTGDTHLSLIQNLFIDTAIIITIPDTMSLQVAQR  150 (261)
Q Consensus        71 ~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~l~~~~yd~IiiD~~~~~~~~~~~~~~~~~ad~viiv~~~~~~s~~~~~~  150 (261)
                      ++|.+........      ...+.+..+++.+. ..|||||+|||+|++......+..  +|.+|+|+.|+..++.++..
T Consensus        84 vipg~~~~~~~~~------~~~~~~~~~~~~l~-~~~D~iliD~~aGl~~~~~~~~~~--sd~~viVt~pe~~si~~A~~  154 (262)
T COG0455          84 VLPGGSGLEDLAK------LDPEDLEDVIKELE-ELYDYILIDTGAGLSRDTLSFILS--SDELVIVTTPEPTSITDAYK  154 (262)
T ss_pred             EeeCCCChHHHhh------cCHHHHHHHHHHHH-hcCCEEEEeCCCCccHHHHHHHHh--cCcEEEEeCCCcchHHHHHH
Confidence            9998876643322      23445777888888 888999999999999888888776  89999999999999999999


Q ss_pred             HHHHHHhCCCCeEE--EEEcCCCCCCCCCCcccccccchhHHHHHhhhhhhhhhhhhcccccccccCcchhhhhhhcccc
Q psy14655        151 GYTMFKKLNIPVAG--LVMNMNSVLCPSCNHMFELYENNLHQFEAKNFLKSYERKLYGIHMWNFLIPLCNLIIKIRNVAY  228 (261)
Q Consensus       151 ~~~~l~~~~~~~~g--iv~N~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~ip~~~~~~~~~~~~~  228 (261)
                      +++.+.+.+.+..+  +|+||++..           .+......   ...+...+..   .+. .+|        ....+
T Consensus       155 ~i~~~~~~~~~~~~~~vV~N~v~~~-----------~e~~~~~~---~~~~~~~~~~---~~~-~i~--------~~~~v  208 (262)
T COG0455         155 TIKILSKLGLDLLGRRVVLNRVRST-----------KEGVDVAA---LLIQVVKQVP---VLQ-VIP--------FDPEV  208 (262)
T ss_pred             HHHHHHHcCCccccceEEEEecccc-----------cchhHHHH---HHHHHHHhCC---cee-Eec--------cChHH
Confidence            99999999988777  999996531           11111110   0111111111   112 377        66677


Q ss_pred             CCCCCCCCcchhhhhhhhcc
Q psy14655        229 GNSHGHGNTVHHHHVLNLIG  248 (261)
Q Consensus       229 ~~a~~~g~~v~~~~~~~~~~  248 (261)
                      .++...|.|+..+.+.+.++
T Consensus       209 ~~a~~~g~p~~~~~p~s~as  228 (262)
T COG0455         209 RRALAEGKPIVLYSPNSKAS  228 (262)
T ss_pred             HHHhhcCCcEEEeCCCCHHH
Confidence            88889999988766555443

>TIGR03815 CpaE_hom_Actino helicase/secretion neighborhood CpaE-like protein

Probab=99.95  E-value=4.9e-27  Score=201.59  Aligned_cols=194  Identities=18%  Similarity=0.219  Sum_probs=145.7

Q ss_pred             CcccCCCCCcHHHHHHHHHHHHHhcCCCCeEEEEecCCCCCCcccccCCCCCCCCCcCC------c--------cccccc
Q psy14655          1 MIASSKGGVGKSTTTVNLATAMKICYPDKEIGILDADVFGPSIPILMNLPDTPLLNKDN------L--------MIPLVN   66 (261)
Q Consensus         1 ~v~s~KGGvGKTT~a~~lA~~la~~g~~~~VllvD~D~~~~~~~~~~~~~~~~~~~~~~------~--------~~~~~~   66 (261)
                      +|+|+|||+||||+|+|||..|+++|  ++|++||+|+|++++..++|.+..+.+...+      .        ..+ ..
T Consensus        97 av~~~KGGvGkTT~a~nLA~~la~~g--~~VlLvD~D~~~~~~~~~lg~~~~~~~~~~~~~~~~~~~~~~~l~~~~~-~~  173 (322)
T TIGR03815        97 AVIGGRGGAGASTLAAALALAAARHG--LRTLLVDADPWGGGLDLLLGAEDVPGLRWPDLSQARGRLPAGALRDALP-RR  173 (322)
T ss_pred             EEEcCCCCCcHHHHHHHHHHHHHhcC--CCEEEEecCCCCCCeeeeecCCCCCCcCHHHHhhcCCCcCHHHHHHhCC-Cc
Confidence            47899999999999999999999999  9999999999999888888887654432100      0        011 24


Q ss_pred             cCceeecCCCCcccchhhhhhchHHHHHHHHHHHHhccCCCCEEEEeCCCCCChhHHHHhhhcCCCeEEEEeCCCcchHH
Q psy14655         67 YGVKCLSMGNLITEKSAAIWRGLMVMQALNKLTVQVQWGPCDILFIDTPPGTGDTHLSLIQNLFIDTAIIITIPDTMSLQ  146 (261)
Q Consensus        67 ~~l~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~l~~~~yd~IiiD~~~~~~~~~~~~~~~~~ad~viiv~~~~~~s~~  146 (261)
                      .++.+++.+.....        ......++.+++.++ ++|||||||||++.+.....++..  ||.+++|+.++..++.
T Consensus       174 ~~l~vl~~~~~~~~--------~~~~~~l~~~l~~l~-~~~D~VIID~p~~~~~~~~~~L~~--AD~vliV~~~~~~sl~  242 (322)
T TIGR03815       174 GGLSVLSWGRAVGA--------ALPPAAVRAVLDAAR-RGGDLVVVDLPRRLTPAAETALES--ADLVLVVVPADVRAVA  242 (322)
T ss_pred             CCeEEEecCCCCcC--------CCCHHHHHHHHHHHH-hcCCEEEEeCCCCCCHHHHHHHHH--CCEEEEEcCCcHHHHH
Confidence            57888887654311        122455788888888 899999999999998887788877  9999999999999999


Q ss_pred             HHHHHHHHHHhCCCCeEEEEEcCCCCCCCCCCcccccccchhHHHHHhhhhhhhhhhhhcccccccccCcchhhhhhhcc
Q psy14655        147 VAQRGYTMFKKLNIPVAGLVMNMNSVLCPSCNHMFELYENNLHQFEAKNFLKSYERKLYGIHMWNFLIPLCNLIIKIRNV  226 (261)
Q Consensus       147 ~~~~~~~~l~~~~~~~~giv~N~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~ip~~~~~~~~~~~  226 (261)
                      .+.++++.+...+. .+.+|+|+...           .......          ..+.+|.+++. .||        ++.
T Consensus       243 ~a~r~l~~l~~~~~-~~~lVv~~~~~-----------~~~~~~~----------i~~~lg~~v~~-~Ip--------~d~  291 (322)
T TIGR03815       243 AAARVCPELGRRNP-DLRLVVRGPAP-----------AGLDPEE----------IAESLGLPLLG-EVR--------DQR  291 (322)
T ss_pred             HHHHHHHHHhhhCC-CeEEEEeCCCC-----------CCCCHHH----------HHHHhCCCcee-eCC--------CCh
Confidence            99999998887654 36677776221           0001111          22335666655 589        888


Q ss_pred             ccCCCCCCCCcch
Q psy14655        227 AYGNSHGHGNTVH  239 (261)
Q Consensus       227 ~~~~a~~~g~~v~  239 (261)
                      .+.++.++|+++.
T Consensus       292 ~v~~a~~~G~~~~  304 (322)
T TIGR03815       292 GLARALERGGLPA  304 (322)
T ss_pred             hHHHHHhCCCCcC
Confidence            8999999999876

Members of this protein family belong to the MinD/ParA family of P-loop NTPases, and in particular show homology to the CpaE family of pilus assembly proteins (see PubMed:12370432). Nearly all members are found, not only in a gene context consistent with pilus biogenesis or a pilus-like secretion apparatus, but also near a DEAD/DEAH-box helicase, suggesting an involvement in DNA transfer activity. The model describes a clade restricted to the Actinobacteria.

>PRK13849 putative crown gall tumor protein VirC1; Provisional

Probab=99.95  E-value=1.7e-27  Score=194.06  Aligned_cols=183  Identities=16%  Similarity=0.163  Sum_probs=124.9

Q ss_pred             CcccCCCCCcHHHHHHHHHHHHHhcCCCCeEEEEecCCCCCCcccccCCCCCCCCCcCCccccccccCceeecCCCCccc
Q psy14655          1 MIASSKGGVGKSTTTVNLATAMKICYPDKEIGILDADVFGPSIPILMNLPDTPLLNKDNLMIPLVNYGVKCLSMGNLITE   80 (261)
Q Consensus         1 ~v~s~KGGvGKTT~a~~lA~~la~~g~~~~VllvD~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~   80 (261)
                      +|+|.||||||||+|.|||.+|+++|  ++|++||+|+|++. ..|++.......     ..    .......       
T Consensus         5 ~v~n~KGGvGKTT~a~nLA~~la~~G--~~VlliD~DpQ~s~-~~w~~~~~~~~~-----~~----~~~~~~~-------   65 (231)
T PRK13849          5 TFCSFKGGAGKTTALMGLCAALASDG--KRVALFEADENRPL-TRWKENALRSNT-----WD----PACEVYA-------   65 (231)
T ss_pred             EEECCCCCccHHHHHHHHHHHHHhCC--CcEEEEeCCCCCCH-HHHHHhhccccC-----CC----ccceecC-------
Confidence            47899999999999999999999999  99999999999854 455543211100     00    0000000       


Q ss_pred             chhhhhhchHHHHHHHHHHHHhccCCCCEEEEeCCCCCChhHHHHhhhcCCCeEEEEeCCCcchHHHHHHHHHHHHh---
Q psy14655         81 KSAAIWRGLMVMQALNKLTVQVQWGPCDILFIDTPPGTGDTHLSLIQNLFIDTAIIITIPDTMSLQVAQRGYTMFKK---  157 (261)
Q Consensus        81 ~~~~~~~~~~~~~~l~~~l~~l~~~~yd~IiiD~~~~~~~~~~~~~~~~~ad~viiv~~~~~~s~~~~~~~~~~l~~---  157 (261)
                              ......++..++.+..++||||||||||+.+.....++..  ||.+|+|+.|+..++..+.++++.+.+   
T Consensus        66 --------~~~~~~l~~~l~~~~~~~yD~iiID~pp~~~~~~~~al~~--aD~vliP~~ps~~d~~~~~~~~~~v~~~~~  135 (231)
T PRK13849         66 --------ADELPLLEAAYEDAELQGFDYALADTHGGSSELNNTIIAS--SNLLLIPTMLTPLDIDEALSTYRYVIELLL  135 (231)
T ss_pred             --------CCHHHHHHHHHHHHhhCCCCEEEEeCCCCccHHHHHHHHH--CCEEEEeccCcHHHHHHHHHHHHHHHHHHH
Confidence                    0011235556666543679999999999999888888877  999999999999999988888765543   


Q ss_pred             ---CCCCeEEEEEcCCCCCCCCCCcccccccchhHHHHHhhhhhhhhhhhhcccccccccCcchhhhhhhccccCCCCCC
Q psy14655        158 ---LNIPVAGLVMNMNSVLCPSCNHMFELYENNLHQFEAKNFLKSYERKLYGIHMWNFLIPLCNLIIKIRNVAYGNSHGH  234 (261)
Q Consensus       158 ---~~~~~~giv~N~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~ip~~~~~~~~~~~~~~~a~~~  234 (261)
                         .+++ ..+++||+...      +.     .   ...+ .+++...   +..++.+.||        ++.+|.++...
T Consensus       136 ~~~~~l~-~~iv~~~~~~~------~~-----~---~~~~-~~~~~~~---~~~vl~t~I~--------~r~~~~~a~~~  188 (231)
T PRK13849        136 SENLAIP-TAILRQRVPVG------RL-----T---TSQR-AMSDMLE---SLPVVDSPMH--------ERDAFAAMKER  188 (231)
T ss_pred             HhCCCCC-eEEEEEecccc------cC-----C---HHHH-HHHHHHh---cCCCCCcccc--------chHHHHHHHhc
Confidence               2444 45999985420      00     0   0000 1222221   3347788888        88899999999


Q ss_pred             CCcch
Q psy14655        235 GNTVH  239 (261)
Q Consensus       235 g~~v~  239 (261)
                      |.+..
T Consensus       189 G~~~~  193 (231)
T PRK13849        189 GMLHL  193 (231)
T ss_pred             CCccc
Confidence            98654

>TIGR01007 eps_fam capsular exopolysaccharide family

Probab=99.95  E-value=9.1e-27  Score=187.51  Aligned_cols=162  Identities=19%  Similarity=0.235  Sum_probs=125.5

Q ss_pred             CcccCCCCCcHHHHHHHHHHHHHhcCCCCeEEEEecCCCCCCcccccCCCC-CCCCCc--------CCccccccccCcee
Q psy14655          1 MIASSKGGVGKSTTTVNLATAMKICYPDKEIGILDADVFGPSIPILMNLPD-TPLLNK--------DNLMIPLVNYGVKC   71 (261)
Q Consensus         1 ~v~s~KGGvGKTT~a~~lA~~la~~g~~~~VllvD~D~~~~~~~~~~~~~~-~~~~~~--------~~~~~~~~~~~l~~   71 (261)
                      +|+|+|||+||||+|.|||..||+.|  +|||+||+|++.+++..+++.+. ..++.+        .+.+.....+++++
T Consensus        21 ~v~s~kgG~GKTt~a~~LA~~la~~G--~rVllID~D~~~~~l~~~~~~~~~~~~l~~~l~~~~~l~~~i~~~~~~~l~~   98 (204)
T TIGR01007        21 LITSVKPGEGKSTTSANIAVAFAQAG--YKTLLIDGDMRNSVMSGTFKSQNKITGLTNFLSGTTDLSDAICDTNIENLFV   98 (204)
T ss_pred             EEecCCCCCCHHHHHHHHHHHHHhCC--CeEEEEeCCCCChhHHHHhCCCCCCCCHHHHhcCCCCHHHhcccCCCCCEEE
Confidence            47899999999999999999999999  99999999999988777777654 222211        12222233478999


Q ss_pred             ecCCCCcccchhhhhhchHHHHHHHHHHHHhccCCCCEEEEeCCCCCChhH-HHHhhhcCCCeEEEEeCCCcchHHHHHH
Q psy14655         72 LSMGNLITEKSAAIWRGLMVMQALNKLTVQVQWGPCDILFIDTPPGTGDTH-LSLIQNLFIDTAIIITIPDTMSLQVAQR  150 (261)
Q Consensus        72 ~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~l~~~~yd~IiiD~~~~~~~~~-~~~~~~~~ad~viiv~~~~~~s~~~~~~  150 (261)
                      +|.+..........     ....++++++.++ .+|||||||+||...... ......  ||.+++|+.|+..+...+.+
T Consensus        99 l~~g~~~~~~~~~l-----~~~~l~~~l~~l~-~~yD~ViiD~pp~~~~~~~~~~~~~--~D~vilV~~~~~~~~~~~~~  170 (204)
T TIGR01007        99 ITSGPVPPNPTELL-----QSSNFKTLIETLR-KYFDYIIIDTPPIGTVTDAAIIARA--CDASILVTDAGEIKKRDVQK  170 (204)
T ss_pred             EeCCCCCCCHHHHh-----CcHHHHHHHHHHH-hcCCEEEEeCCCccccchHHHHHHh--CCeEEEEEECCCCCHHHHHH
Confidence            99887654322221     2345788888888 899999999999433222 222333  99999999999999999999


Q ss_pred             HHHHHHhCCCCeEEEEEcCCCC
Q psy14655        151 GYTMFKKLNIPVAGLVMNMNSV  172 (261)
Q Consensus       151 ~~~~l~~~~~~~~giv~N~~~~  172 (261)
                      .++.+++.+.+++|+|+|+++.
T Consensus       171 ~~~~l~~~~~~~~gvVlN~~~~  192 (204)
T TIGR01007       171 AKEQLEQTGSNFLGVVLNKVDI  192 (204)
T ss_pred             HHHHHHhCCCCEEEEEEeCccc
Confidence            9999999999999999999764

This model describes the capsular exopolysaccharide proteins in bacteria. The exopolysaccharide gene cluster consists of several genes which encode a number of proteins which regulate the exoploysaccharide biosynthesis(EPS). Atleast 13 genes espA to espM in streptococcus species seem to direct the EPS proteins and all of which share high homology. Functional roles were characterized by gene disruption experiments which resulted in exopolysaccharide-deficient phenotypes.

>PRK13231 nitrogenase reductase-like protein; Reviewed

Probab=99.95  E-value=3.8e-28  Score=203.05  Aligned_cols=206  Identities=21%  Similarity=0.203  Sum_probs=133.9

Q ss_pred             cccCCCCCcHHHHHHHHHHHHHhcCCCCeEEEEecCCCCCCcccccCCCCCCCC----------CcCCccccccccCcee
Q psy14655          2 IASSKGGVGKSTTTVNLATAMKICYPDKEIGILDADVFGPSIPILMNLPDTPLL----------NKDNLMIPLVNYGVKC   71 (261)
Q Consensus         2 v~s~KGGvGKTT~a~~lA~~la~~g~~~~VllvD~D~~~~~~~~~~~~~~~~~~----------~~~~~~~~~~~~~l~~   71 (261)
                      |+ +||||||||+|+|||.+||+.|   |||+||+|+|++.+..+++... ..+          .....+ ....+++++
T Consensus         7 v~-~KGGvGKTT~a~nLA~~La~~G---rVLliD~Dpq~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~-~~~~~~l~~   80 (264)
T PRK13231          7 IY-GKGGIGKSTTVSNMAAAYSNDH---RVLVIGCDPKADTTRTLCGKRI-PTVLDTLKDNRKPELEDII-HEGFNGILC   80 (264)
T ss_pred             EE-CCCCCcHHHHHHHHhcccCCCC---EEEEEeEccCcccchhhhcCCc-cHHHHHHhhcCCCChhHhh-eeCCCCeEE
Confidence            56 5999999999999999999864   7999999999876655554322 111          001111 223568889


Q ss_pred             ecCCCCcccchhhhhhchHHHHHHHHHHHHhccCCCCEEEEeCCCCCChhHH--H-HhhhcCCCeEEEEeCCCcchHHHH
Q psy14655         72 LSMGNLITEKSAAIWRGLMVMQALNKLTVQVQWGPCDILFIDTPPGTGDTHL--S-LIQNLFIDTAIIITIPDTMSLQVA  148 (261)
Q Consensus        72 ~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~l~~~~yd~IiiD~~~~~~~~~~--~-~~~~~~ad~viiv~~~~~~s~~~~  148 (261)
                      +|++...... ............+.+.++.+. ++||||||||++.......  . ...+  ||.+++|+.|+..++.++
T Consensus        81 i~~~~~~~~~-~~~~~~~~~~~~~~~~l~~l~-~~yD~ViIDt~~~~~~~~~~~~~~~~a--aD~vlip~~p~~~si~~~  156 (264)
T PRK13231         81 VESGGPEPGV-GCAGRGVIVAMNLLENLGVFD-EDIDVVIYDVLGDVVCGGFSVPLREDY--ADEVYIVTSGEYMSLYAA  156 (264)
T ss_pred             EEcCCCCCCC-CCcCceeeehhhhHHhhcccc-CCCCEEEEecCCCceEccccccccccc--cceeEEEecCchhHHHHH
Confidence            9877543211 100111001112445556666 8899999999875421111  0 1123  999999999999999999


Q ss_pred             HHHHHHHHhCCCCeEEEEEcCCCCCCCCCCcccccccchhHHHHHhhhhhhhhhhhhcccccccccCcchhhhhhhcccc
Q psy14655        149 QRGYTMFKKLNIPVAGLVMNMNSVLCPSCNHMFELYENNLHQFEAKNFLKSYERKLYGIHMWNFLIPLCNLIIKIRNVAY  228 (261)
Q Consensus       149 ~~~~~~l~~~~~~~~giv~N~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~ip~~~~~~~~~~~~~  228 (261)
                      .++++.++..+.+..+++.|+...             .....     .+.+ ..+.+|..++ ..||        ++.++
T Consensus       157 ~~~~~~i~~~~~~~~~vv~~~~~~-------------~~~~~-----~~~~-l~~~~~~~vl-~~I~--------~~~~v  208 (264)
T PRK13231        157 NNIARGIKKLKGKLGGIICNCRGI-------------DNEVE-----IVSE-FASRIGSRII-GVIP--------RSNLV  208 (264)
T ss_pred             HHHHHHHHHcCCcceEEEEcCCCC-------------ccHHH-----HHHH-HHHHhCCCeE-EeCC--------CCHHH
Confidence            999999987766667888886321             00001     1111 2233566666 4699        99999


Q ss_pred             CCCCCCCCcchhhhhhh
Q psy14655        229 GNSHGHGNTVHHHHVLN  245 (261)
Q Consensus       229 ~~a~~~g~~v~~~~~~~  245 (261)
                      .+|...|+|++++.+..
T Consensus       209 ~~a~~~g~~v~~~~~~~  225 (264)
T PRK13231        209 QESELDAKTVVETFPES  225 (264)
T ss_pred             HHHHHcCCceeEeCCCC
Confidence            99999999998776543

>TIGR03029 EpsG chain length determinant protein tyrosine kinase EpsG

Probab=99.94  E-value=1.6e-26  Score=194.28  Aligned_cols=159  Identities=18%  Similarity=0.233  Sum_probs=126.8

Q ss_pred             CcccCCCCCcHHHHHHHHHHHHHhcCCCCeEEEEecCCCCCCcccccCCCCCCCCCc-------CCccc-cccccCceee
Q psy14655          1 MIASSKGGVGKSTTTVNLATAMKICYPDKEIGILDADVFGPSIPILMNLPDTPLLNK-------DNLMI-PLVNYGVKCL   72 (261)
Q Consensus         1 ~v~s~KGGvGKTT~a~~lA~~la~~g~~~~VllvD~D~~~~~~~~~~~~~~~~~~~~-------~~~~~-~~~~~~l~~~   72 (261)
                      +|+|+|||+||||+|.|||..+|+.|  +|||+||+|++.+.+..+++.+..+++.+       .+.+. ....++++++
T Consensus       107 ~vts~~~g~Gktt~a~nLA~~la~~g--~~VllID~D~~~~~~~~~~~~~~~~gl~~~l~~~~~~~~i~~~~~~~~l~~l  184 (274)
T TIGR03029       107 AVVSAKSGEGCSYIAANLAIVFSQLG--EKTLLIDANLRDPVQHRNFKLSEQRGLSDILAGRSDLEVITHIPALENLSVL  184 (274)
T ss_pred             EEECCCCCCCHHHHHHHHHHHHHhcC--CeEEEEeCCCCCccHHHhcCCCCCCCHHHHhCCCCCHHHeeecCCCCCEEEE
Confidence            48999999999999999999999999  99999999999988888888766554422       11111 1234689999


Q ss_pred             cCCCCcccchhhhhhchHHHHHHHHHHHHhccCCCCEEEEeCCCCCChh-HHHHhhhcCCCeEEEEeCCCcchHHHHHHH
Q psy14655         73 SMGNLITEKSAAIWRGLMVMQALNKLTVQVQWGPCDILFIDTPPGTGDT-HLSLIQNLFIDTAIIITIPDTMSLQVAQRG  151 (261)
Q Consensus        73 ~~~~~~~~~~~~~~~~~~~~~~l~~~l~~l~~~~yd~IiiD~~~~~~~~-~~~~~~~~~ad~viiv~~~~~~s~~~~~~~  151 (261)
                      |+|..........     ....+..+++.++ +.||||||||||..... ...+...  +|.+++|+.++..+..++.+.
T Consensus       185 p~g~~~~~~~~~~-----~~~~~~~~l~~l~-~~yD~ViiD~pp~~~~~d~~~~~~~--~d~vilV~~~~~t~~~~~~~~  256 (274)
T TIGR03029       185 PAGAIPPNPQELL-----ARPAFTDLLNKVM-GDYDVVIVDTPSAEHSSDAQIVATR--ARGTLIVSRVNETRLHELTSL  256 (274)
T ss_pred             eCcCCCCCHHHHh-----CcHHHHHHHHHHH-hcCCEEEEeCCCcccccHHHHHHHh--CCeEEEEEECCCCCHHHHHHH
Confidence            9998764333322     1235788888888 89999999999986433 3333333  999999999999999999999


Q ss_pred             HHHHHhCCCCeEEEEEcC
Q psy14655        152 YTMFKKLNIPVAGLVMNM  169 (261)
Q Consensus       152 ~~~l~~~~~~~~giv~N~  169 (261)
                      ++.+++.+.+++|+|+|+
T Consensus       257 ~~~l~~~~~~~~G~VlN~  274 (274)
T TIGR03029       257 KEHLSGVGVRVVGAVLNQ  274 (274)
T ss_pred             HHHHHhCCCCEEEEEeCC
Confidence            999999999999999995

The proteins in this family are homologs of the EpsG protein found in Methylobacillus strain 12S and are generally found in operons with other Eps homologs. The protein is believed to function as the protein tyrosine kinase component of the chain length regulator (along with the transmembrane component EpsF).

>PF01656 CbiA: CobQ/CobB/MinD/ParA nucleotide binding domain; InterPro: IPR002586 This entry consists of various cobyrinic acid a,c-diamide synthases

Probab=99.94  E-value=7.2e-27  Score=186.57  Aligned_cols=155  Identities=27%  Similarity=0.358  Sum_probs=111.7

Q ss_pred             CcccCCCCCcHHHHHHHHHHHHHhcCCCCeEEEEecCCCCCCcccccCCCCCCCCCcCCccccccccCceeecCCCCccc
Q psy14655          1 MIASSKGGVGKSTTTVNLATAMKICYPDKEIGILDADVFGPSIPILMNLPDTPLLNKDNLMIPLVNYGVKCLSMGNLITE   80 (261)
Q Consensus         1 ~v~s~KGGvGKTT~a~~lA~~la~~g~~~~VllvD~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~   80 (261)
                      +|+|+|||+||||+|++||.+|+++|  ++||+||+|+|.+.+..+++...............         +..  . .
T Consensus         2 ~v~~~kGG~GKTt~a~~la~~la~~g--~~VlliD~D~~~~~~~~~~~~~~~~~~~~~~~~~~---------~~~--~-~   67 (195)
T PF01656_consen    2 AVTSGKGGVGKTTIAANLAQALARKG--KKVLLIDLDPQAPNLSILFGVYDILREGLENANAI---------LKN--F-E   67 (195)
T ss_dssp             EEEESSTTSSHHHHHHHHHHHHHHTT--S-EEEEEESTTSHHHHHHTTCHHHHTTSSHGHHCH---------HES--C-C
T ss_pred             EEEcCCCCccHHHHHHHHHhcccccc--ccccccccCcccccHHHHhcchhhccccceehhhh---------hhc--c-c
Confidence            48899999999999999999999999  99999999999987766665410000000000000         000  0 0


Q ss_pred             chhhhhh-chHHHHHHHHHHHHhccCCCCEEEEeCCCCCChhHHHHhhhcCCCeEEEEeCCCcchHHHHHHHHHHHHhCC
Q psy14655         81 KSAAIWR-GLMVMQALNKLTVQVQWGPCDILFIDTPPGTGDTHLSLIQNLFIDTAIIITIPDTMSLQVAQRGYTMFKKLN  159 (261)
Q Consensus        81 ~~~~~~~-~~~~~~~l~~~l~~l~~~~yd~IiiD~~~~~~~~~~~~~~~~~ad~viiv~~~~~~s~~~~~~~~~~l~~~~  159 (261)
                      ....... .......++++++.+....||||||||||+.+.....++..  +|.+|+|+.|+..++.++..+++.+++.+
T Consensus        68 ~~~~~~~~~~~~~~~l~~~l~~l~~~~yD~iiiD~~~~~~~~~~~~l~~--ad~viv~~~~~~~~i~~~~~~~~~l~~~~  145 (195)
T PF01656_consen   68 SQDIYQGEEYLDPELLREILESLIKSDYDYIIIDTPPGLSDPVRNALAA--ADYVIVPIEPDPSSIEGAERLIELLKRLG  145 (195)
T ss_dssp             HHHHHHHCHCHHHHHHHHHHHHHHHTTSSEEEEEECSSSSHHHHHHHHT--SSEEEEEEESSHHHHHHHHHHHHHHHHHT
T ss_pred             hhhhhhhhhhhHHHHHHHHHHHhhhccccceeecccccccHHHHHHHHh--CceeeeecCCcHHHHHHHHHHHHHHHHhc
Confidence            0000000 00345568888888652459999999999999888878877  99999999999999999999999999876


Q ss_pred             --CCeEEEEEcCCC
Q psy14655        160 --IPVAGLVMNMNS  171 (261)
Q Consensus       160 --~~~~giv~N~~~  171 (261)
                        .+.+++|+||+.
T Consensus       146 ~~~~~~~vv~N~v~  159 (195)
T PF01656_consen  146 KKLKIIGVVINRVD  159 (195)
T ss_dssp             HTEEEEEEEEEEET
T ss_pred             cccceEEEEEeeeC
Confidence              457999999954

These include CbiA and CbiP from Salmonella typhimurium []., and CobQ from Rhodobacter capsulatus []. These amidases catalyse amidations to various side chains of hydrogenobyrinic acid or cobyrinic acid a,c-diamide in the biosynthesis of cobalamin (vitamin B12) from uroporphyrinogen III. Vitamin B12 is an important cofactor and an essential nutrient for many plants and animals and is primarily produced by bacteria [].; PDB: 3K9G_A 3K9H_B 3EZ9_B 3EZF_A 3EZ2_B 3EZ6_A 3EZ7_A 1G3Q_A 1G3R_A 1DTS_A ....

>cd03110 Fer4_NifH_child This protein family's function is unkown

Probab=99.94  E-value=1.9e-25  Score=176.21  Aligned_cols=151  Identities=25%  Similarity=0.370  Sum_probs=107.9

Q ss_pred             CcccCCCCCcHHHHHHHHHHHHHhcCCCCeEEEEecCCCCCCcccccCCCCCCCCCcCCccccccccCceeecCCCCccc
Q psy14655          1 MIASSKGGVGKSTTTVNLATAMKICYPDKEIGILDADVFGPSIPILMNLPDTPLLNKDNLMIPLVNYGVKCLSMGNLITE   80 (261)
Q Consensus         1 ~v~s~KGGvGKTT~a~~lA~~la~~g~~~~VllvD~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~   80 (261)
                      +|+|+|||+||||+|+|||..|      ++|++||+|++.++++.+|+.+....................+.+.+..   
T Consensus         3 ~v~s~kgG~GKSt~a~nLA~~l------~~vlliD~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~---   73 (179)
T cd03110           3 AVISGKGGTGKTTVTAALAALL------KNVVLADCDVDAPNLHLFLKPEIEEEEDFIVGGKKAVIDPELCISCGLC---   73 (179)
T ss_pred             EEEcCCCCCCHHHHHHHHHHHH------hCcEEEECCCCCCchhhhcCCCccccccceecCCceEEchhhhccccch---
Confidence            4789999999999999999999      5899999999999999999987654321110000001111111111111   


Q ss_pred             chhhhhhchHHHHHHHHHHHHh-ccCCCCEEEEeCCCCCChhHHHHhhhcCCCeEEEEeCCCcchHHHHHHHHHHHHhCC
Q psy14655         81 KSAAIWRGLMVMQALNKLTVQV-QWGPCDILFIDTPPGTGDTHLSLIQNLFIDTAIIITIPDTMSLQVAQRGYTMFKKLN  159 (261)
Q Consensus        81 ~~~~~~~~~~~~~~l~~~l~~l-~~~~yd~IiiD~~~~~~~~~~~~~~~~~ad~viiv~~~~~~s~~~~~~~~~~l~~~~  159 (261)
                              ......+.+.+..+ ...+|||||+||||+.+......+..  ||.+++|+.|+..++.++.++++.+++.+
T Consensus        74 --------~~~~~~~~~~~~~~~~~~~~d~viiDtpp~~~~~~~~~l~~--aD~vliv~~~~~~~~~~~~~~~~~l~~~~  143 (179)
T cd03110          74 --------GKLVTEVRKHAKEIAKAEGAELIIIDGPPGIGCPVIASLTG--ADAALLVTEPTPSGLHDLERAVELVRHFG  143 (179)
T ss_pred             --------HHHHHHHHHHHHHhhhhcCCCEEEEECcCCCcHHHHHHHHc--CCEEEEEecCCcccHHHHHHHHHHHHHcC
Confidence                    11112233332211 13789999999999998877777766  99999999999999999999999999888


Q ss_pred             CCeEEEEEcCCC
Q psy14655        160 IPVAGLVMNMNS  171 (261)
Q Consensus       160 ~~~~giv~N~~~  171 (261)
                      .+ +++|+|+++
T Consensus       144 ~~-~~vV~N~~~  154 (179)
T cd03110         144 IP-VGVVINKYD  154 (179)
T ss_pred             CC-EEEEEeCCC
Confidence            76 689999965

It contains nucleotide binding site. It uses NTP as energy source to transfer electron or ion.

>COG3640 CooC CO dehydrogenase maturation factor [Cell division and chromosome partitioning]

Probab=99.93  E-value=2.2e-25  Score=175.65  Aligned_cols=204  Identities=19%  Similarity=0.257  Sum_probs=151.7

Q ss_pred             cccCCCCCcHHHHHHHHHHHHHhcCCCCeEEEEecCCCCCCcccccCCCCC-CCCCc----------------------C
Q psy14655          2 IASSKGGVGKSTTTVNLATAMKICYPDKEIGILDADVFGPSIPILMNLPDT-PLLNK----------------------D   58 (261)
Q Consensus         2 v~s~KGGvGKTT~a~~lA~~la~~g~~~~VllvD~D~~~~~~~~~~~~~~~-~~~~~----------------------~   58 (261)
                      -+++|||+||||+|+.|+..+.+++ +++||+||+|+. .+++..+|++.. ..+..                      .
T Consensus         4 aI~GKGG~GKTtiaalll~~l~~~~-~~~VLvVDaDpd-~nL~~~LGve~~~~~lg~~~e~~~k~~~a~~~~~~~~~fk~   81 (255)
T COG3640           4 AITGKGGVGKTTIAALLLKRLLSKG-GYNVLVVDADPD-SNLPEALGVEEPMKYLGGKRELLKKRTGAEPGGPPGEMFKE   81 (255)
T ss_pred             EEecCCCccHHHHHHHHHHHHHhcC-CceEEEEeCCCC-CChHHhcCCCCCCcccccHHHHHHHHhccCCCCCccccccc
Confidence            3689999999999999776666554 499999999995 578999998863 11111                      0


Q ss_pred             Ccc-------ccccccCceeecCCCCcccchhhhhhchHHHHHHHHHHHHhccCCCCEEEEeCCCCCChhHHHHhhhcCC
Q psy14655         59 NLM-------IPLVNYGVKCLSMGNLITEKSAAIWRGLMVMQALNKLTVQVQWGPCDILFIDTPPGTGDTHLSLIQNLFI  131 (261)
Q Consensus        59 ~~~-------~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~l~~~~yd~IiiD~~~~~~~~~~~~~~~~~a  131 (261)
                      ++.       .....++++.+-.|........+.++   ....++.+++++..++||+||+||.+|+.+.-+.....  +
T Consensus        82 ~~~~~di~~e~~~e~~~~~LLvmGkie~~GeGC~Cp---~~allR~~l~~l~~~~~e~VivDtEAGiEHfgRg~~~~--v  156 (255)
T COG3640          82 NPLVSDLPDEYLVENGDIDLLVMGKIEEGGEGCACP---MNALLRRLLRHLILNRYEVVIVDTEAGIEHFGRGTIEG--V  156 (255)
T ss_pred             CcchhhhhHHHhhhcCCccEEEeccccCCCCcccch---HHHHHHHHHHHHhcccCcEEEEecccchhhhccccccC--C
Confidence            000       01223456666667766666666555   33568889999986779999999999999999998888  9


Q ss_pred             CeEEEEeCCCcchHHHHHHHHHHHHhCCCCeEEEEEcCCCCCCCCCCcccccccchhHHHHHhhhhhhhhhhhhcccccc
Q psy14655        132 DTAIIITIPDTMSLQVAQRGYTMFKKLNIPVAGLVMNMNSVLCPSCNHMFELYENNLHQFEAKNFLKSYERKLYGIHMWN  211 (261)
Q Consensus       132 d~viiv~~~~~~s~~~~~~~~~~l~~~~~~~~giv~N~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~  211 (261)
                      |.+++|++|+..|+..+++..+...+.+.+.+++|+|++..              ....+...  .     .-.|..++.
T Consensus       157 D~vivVvDpS~~sl~taeri~~L~~elg~k~i~~V~NKv~e--------------~e~~~~~~--~-----~~~~~~vlg  215 (255)
T COG3640         157 DLVIVVVDPSYKSLRTAERIKELAEELGIKRIFVVLNKVDE--------------EEELLREL--A-----EELGLEVLG  215 (255)
T ss_pred             CEEEEEeCCcHHHHHHHHHHHHHHHHhCCceEEEEEeeccc--------------hhHHHHhh--h-----hccCCeEEE
Confidence            99999999999999999999999999998999999999552              11111110  1     112333333


Q ss_pred             cccCcchhhhhhhccccCCCCCCCCcchhhh
Q psy14655        212 FLIPLCNLIIKIRNVAYGNSHGHGNTVHHHH  242 (261)
Q Consensus       212 ~~ip~~~~~~~~~~~~~~~a~~~g~~v~~~~  242 (261)
                       .||        ++..+.++...|.|+..+.
T Consensus       216 -~iP--------~d~~v~~~dl~G~pl~~~~  237 (255)
T COG3640         216 -VIP--------YDPEVVEADLKGEPLNEEP  237 (255)
T ss_pred             -Ecc--------CCHHHHhccccCCccccch
Confidence             599        8999999999999998773

>TIGR01005 eps_transp_fam exopolysaccharide transport protein family

Probab=99.91  E-value=4.5e-24  Score=202.24  Aligned_cols=163  Identities=15%  Similarity=0.119  Sum_probs=130.3

Q ss_pred             CcccCCCCCcHHHHHHHHHHHHHhcCCCCeEEEEecCCCCCCcccccCCCCCCCCCc--------CCccccccccCceee
Q psy14655          1 MIASSKGGVGKSTTTVNLATAMKICYPDKEIGILDADVFGPSIPILMNLPDTPLLNK--------DNLMIPLVNYGVKCL   72 (261)
Q Consensus         1 ~v~s~KGGvGKTT~a~~lA~~la~~g~~~~VllvD~D~~~~~~~~~~~~~~~~~~~~--------~~~~~~~~~~~l~~~   72 (261)
                      +|+|.|||+||||+|+|||..||+.|  +|||+||+|+++++++.+|+....+++.+        ...+.....++++++
T Consensus       550 ~vts~~~G~GKTt~a~nLA~~lA~~g--~rvLlID~D~~~~~l~~~~~~~~~~gl~~~l~~~~~~~~~i~~~~~~~l~~l  627 (754)
T TIGR01005       550 ETQRPRPVLGKSDIEANAAALIASGG--KRALLIDADGRKAALSQILVAREVSGLLDLLAGLRSLLLDLTASGAASLPML  627 (754)
T ss_pred             EeecCCCCCChhHHHHHHHHHHHhCC--CeEEEEeCCCCchhHHHHhCCcccCChHHHHcCCccHHHHhccCCCCCeeEe
Confidence            48999999999999999999999999  99999999999888888898876655422        222334456799999


Q ss_pred             cCCCCcccchhhhhhchHHHHHHHHHHHHhccCCCCEEEEeCCCCCChhHHHHhhhcCCCeEEEEeCCCcchHHHHHHHH
Q psy14655         73 SMGNLITEKSAAIWRGLMVMQALNKLTVQVQWGPCDILFIDTPPGTGDTHLSLIQNLFIDTAIIITIPDTMSLQVAQRGY  152 (261)
Q Consensus        73 ~~~~~~~~~~~~~~~~~~~~~~l~~~l~~l~~~~yd~IiiD~~~~~~~~~~~~~~~~~ad~viiv~~~~~~s~~~~~~~~  152 (261)
                      |+|..........     ....+.++++.++ ++||||||||||..+......+... +|.+++|+.++..+...+.+.+
T Consensus       628 ~~g~~~~~~~~ll-----~~~~~~~~l~~l~-~~yD~IiID~pp~~~~~d~~~l~~~-~D~vl~v~~~~~~~~~~~~~~~  700 (754)
T TIGR01005       628 DSGLFPHGITELL-----ASPAMFSLVIHAR-LYSDCVVVDVGTADPVRDMRAAARL-AIIMLLVTAYDRVVVECGRADA  700 (754)
T ss_pred             cCCCCCCCHHHHh-----ccHHHHHHHHHHH-hhCCEEEEcCCCcchhHHHHHhhhh-CCeEEEEEEeCceeHHHHHHHH
Confidence            9986543322221     2245677888888 8999999999998875554444322 8999999999999999999999


Q ss_pred             HHHHhCCCCeEEEEEcCCCC
Q psy14655        153 TMFKKLNIPVAGLVMNMNSV  172 (261)
Q Consensus       153 ~~l~~~~~~~~giv~N~~~~  172 (261)
                      +.+...+.++.|+|+|+++.
T Consensus       701 ~~l~~~~~~~~GvvlN~~~~  720 (754)
T TIGR01005       701 QGISRLNGEVTGVFLNMLDP  720 (754)
T ss_pred             HHHHhcCCceEEEEecCCCh
Confidence            99999898999999999653

The model describes the exopolysaccharide transport protein family in bacteria. The transport protein is part of a large genetic locus which is associated with exopolysaccharide (EPS) biosynthesis. Detailed molecular characterization and gene fusion analysis revealed atleast seven gene products are involved in the overall regulation, which among other things, include exopolysaccharide biosynthesis, property of conferring virulence and exopolysaccharide export.

>PRK11519 tyrosine kinase; Provisional

Probab=99.91  E-value=1.7e-23  Score=196.38  Aligned_cols=162  Identities=19%  Similarity=0.281  Sum_probs=132.5

Q ss_pred             CcccCCCCCcHHHHHHHHHHHHHhcCCCCeEEEEecCCCCCCcccccCCCCCCCCCc--------CCccccccccCceee
Q psy14655          1 MIASSKGGVGKSTTTVNLATAMKICYPDKEIGILDADVFGPSIPILMNLPDTPLLNK--------DNLMIPLVNYGVKCL   72 (261)
Q Consensus         1 ~v~s~KGGvGKTT~a~~lA~~la~~g~~~~VllvD~D~~~~~~~~~~~~~~~~~~~~--------~~~~~~~~~~~l~~~   72 (261)
                      +|+|.+||+||||+|.|||..+|..|  +|||+||+|++.++++.+++.....++.+        .+.+.+...++++++
T Consensus       530 ~vts~~~geGKTt~a~nLA~~la~~g--~rvLlID~Dlr~~~~~~~~~~~~~~gl~~~l~~~~~l~~~i~~~~~~~l~~l  607 (719)
T PRK11519        530 MMTGVSPSIGKTFVCANLAAVISQTN--KRVLLIDCDMRKGYTHELLGTNNVNGLSDILIGQGDITTAAKPTSIANFDLI  607 (719)
T ss_pred             EEECCCCCCCHHHHHHHHHHHHHhCC--CcEEEEeCCCCCCcHHHHhCCCCCCCHHHHhCCCCCHHHhecccCcCCEEEE
Confidence            47899999999999999999999999  99999999999998888888876655532        233444456899999


Q ss_pred             cCCCCcccchhhhhhchHHHHHHHHHHHHhccCCCCEEEEeCCCCCChhHHHHhhhcCCCeEEEEeCCCcchHHHHHHHH
Q psy14655         73 SMGNLITEKSAAIWRGLMVMQALNKLTVQVQWGPCDILFIDTPPGTGDTHLSLIQNLFIDTAIIITIPDTMSLQVAQRGY  152 (261)
Q Consensus        73 ~~~~~~~~~~~~~~~~~~~~~~l~~~l~~l~~~~yd~IiiD~~~~~~~~~~~~~~~~~ad~viiv~~~~~~s~~~~~~~~  152 (261)
                      |+|...+.....     .....+.++++.++ .+||||||||||.........+.. .||.+++|+.++......+...+
T Consensus       608 p~g~~~~~~~el-----l~s~~~~~ll~~l~-~~yD~ViiDtpP~~~v~Da~~l~~-~~d~~l~Vvr~~~t~~~~~~~~~  680 (719)
T PRK11519        608 PRGQVPPNPSEL-----LMSERFAELVNWAS-KNYDLVLIDTPPILAVTDAAIVGR-HVGTTLMVARYAVNTLKEVETSL  680 (719)
T ss_pred             eCCCCCCCHHHH-----hhHHHHHHHHHHHH-hcCCEEEEeCCCcccchHHHHHHH-HCCeEEEEEeCCCCCHHHHHHHH
Confidence            999866543332     23456888999998 899999999999765433333322 29999999999999999999999


Q ss_pred             HHHHhCCCCeEEEEEcCCC
Q psy14655        153 TMFKKLNIPVAGLVMNMNS  171 (261)
Q Consensus       153 ~~l~~~~~~~~giv~N~~~  171 (261)
                      +.+++.+.+++|+|+|++.
T Consensus       681 ~~l~~~~~~~~G~VlN~v~  699 (719)
T PRK11519        681 SRFEQNGIPVKGVILNSIF  699 (719)
T ss_pred             HHHHhCCCCeEEEEEeCCc
Confidence            9999999999999999964

>PRK09841 cryptic autophosphorylating protein tyrosine kinase Etk; Provisional

Probab=99.91  E-value=1.8e-23  Score=196.43  Aligned_cols=162  Identities=14%  Similarity=0.234  Sum_probs=130.2

Q ss_pred             CcccCCCCCcHHHHHHHHHHHHHhcCCCCeEEEEecCCCCCCcccccCCCCCCCCCc--------CCccccccccCceee
Q psy14655          1 MIASSKGGVGKSTTTVNLATAMKICYPDKEIGILDADVFGPSIPILMNLPDTPLLNK--------DNLMIPLVNYGVKCL   72 (261)
Q Consensus         1 ~v~s~KGGvGKTT~a~~lA~~la~~g~~~~VllvD~D~~~~~~~~~~~~~~~~~~~~--------~~~~~~~~~~~l~~~   72 (261)
                      +|+|.+||+||||+|.|||..+|..|  +|||+||+|++.+.++.+|+.....++.+        .+.+.+...++++++
T Consensus       535 ~vtS~~~g~GKTtva~nLA~~la~~G--~rVLlID~D~r~~~l~~~~~~~~~~gl~~~l~~~~~~~~~i~~~~~~~l~vl  612 (726)
T PRK09841        535 MITGATPDSGKTFVSSTLAAVIAQSD--QKVLFIDADLRRGYSHNLFTVSNEHGLSEYLAGKDELNKVIQHFGKGGFDVI  612 (726)
T ss_pred             EEecCCCCCCHHHHHHHHHHHHHhCC--CeEEEEeCCCCCCcHHHHcCCCCCCCHHHHhCCCCCHHHheeccCCCCEEEE
Confidence            47899999999999999999999999  99999999999988888888776554422        233344445799999


Q ss_pred             cCCCCcccchhhhhhchHHHHHHHHHHHHhccCCCCEEEEeCCCCCChhHHHHhhhcCCCeEEEEeCCCcchHHHHHHHH
Q psy14655         73 SMGNLITEKSAAIWRGLMVMQALNKLTVQVQWGPCDILFIDTPPGTGDTHLSLIQNLFIDTAIIITIPDTMSLQVAQRGY  152 (261)
Q Consensus        73 ~~~~~~~~~~~~~~~~~~~~~~l~~~l~~l~~~~yd~IiiD~~~~~~~~~~~~~~~~~ad~viiv~~~~~~s~~~~~~~~  152 (261)
                      |+|..........     ....+..+++.++ ++||||||||||.........+.. .||.+++|+.++..+...+...+
T Consensus       613 ~~g~~~~~p~ell-----~~~~~~~ll~~l~-~~yD~IIIDtPP~~~~~Da~~la~-~ad~~llVvr~~~t~~~~~~~~~  685 (726)
T PRK09841        613 TRGQVPPNPSELL-----MRDRMRQLLEWAN-DHYDLVIVDTPPMLAVSDAAVVGR-SVGTSLLVARFGLNTAKEVSLSM  685 (726)
T ss_pred             eCCCCCCCHHHHh-----CcHHHHHHHHHHH-hcCCEEEEeCCCccccchHHHHHH-hCCeEEEEEeCCCCCHHHHHHHH
Confidence            9988664333322     2346888888888 899999999999876433223222 29999999999999999999999


Q ss_pred             HHHHhCCCCeEEEEEcCCC
Q psy14655        153 TMFKKLNIPVAGLVMNMNS  171 (261)
Q Consensus       153 ~~l~~~~~~~~giv~N~~~  171 (261)
                      +.+.+.+.+++|+|+|+++
T Consensus       686 ~~l~~~~~~~~G~VlN~~~  704 (726)
T PRK09841        686 QRLEQAGVNIKGAILNGVI  704 (726)
T ss_pred             HHHHhCCCceEEEEEeCcc
Confidence            9999999999999999965

>cd03111 CpaE_like This protein family consists of proteins similar to the cpaE protein of the Caulobacter pilus assembly and the orf4 protein of Actinobacillus pilus formation gene cluster

Probab=99.91  E-value=3e-23  Score=149.24  Aligned_cols=100  Identities=25%  Similarity=0.351  Sum_probs=91.2

Q ss_pred             CcccCCCCCcHHHHHHHHHHHHHhc-CCCCeEEEEecCCCCCCcccccCCCCCCCCCcCCccccccccCceeecCCCCcc
Q psy14655          1 MIASSKGGVGKSTTTVNLATAMKIC-YPDKEIGILDADVFGPSIPILMNLPDTPLLNKDNLMIPLVNYGVKCLSMGNLIT   79 (261)
Q Consensus         1 ~v~s~KGGvGKTT~a~~lA~~la~~-g~~~~VllvD~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~   79 (261)
                      +++|+|||+||||++.|||.++++. |  ++|+++|+|+|.++                                     
T Consensus         3 ~~~~~kgg~gkt~~~~~la~~~~~~~~--~~~~l~d~d~~~~~-------------------------------------   43 (106)
T cd03111           3 AFIGAKGGVGATTLAANLAVALAKEAG--RRVLLVDLDLQFGD-------------------------------------   43 (106)
T ss_pred             EEECCCCCCcHHHHHHHHHHHHHhcCC--CcEEEEECCCCCCC-------------------------------------
Confidence            4789999999999999999999998 9  99999999999753                                     


Q ss_pred             cchhhhhhchHHHHHHHHHHHHhccCCCCEEEEeCCCCCChhHHHHhhhcCCCeEEEEeCCCcchHHHHHHHHHHHHhCC
Q psy14655         80 EKSAAIWRGLMVMQALNKLTVQVQWGPCDILFIDTPPGTGDTHLSLIQNLFIDTAIIITIPDTMSLQVAQRGYTMFKKLN  159 (261)
Q Consensus        80 ~~~~~~~~~~~~~~~l~~~l~~l~~~~yd~IiiD~~~~~~~~~~~~~~~~~ad~viiv~~~~~~s~~~~~~~~~~l~~~~  159 (261)
                                                  ||||+||||+.+.....++..  ||.+++|+.|+..++..+.++++.+++.+
T Consensus        44 ----------------------------D~IIiDtpp~~~~~~~~~l~~--aD~vlvvv~~~~~s~~~~~~~~~~l~~~~   93 (106)
T cd03111          44 ----------------------------DYVVVDLGRSLDEVSLAALDQ--ADRVFLVTQQDLPSIRNAKRLLELLRVLD   93 (106)
T ss_pred             ----------------------------CEEEEeCCCCcCHHHHHHHHH--cCeEEEEecCChHHHHHHHHHHHHHHHcC
Confidence                                        999999999999888888877  99999999999999999999999998876


Q ss_pred             C---CeEEEEEcC
Q psy14655        160 I---PVAGLVMNM  169 (261)
Q Consensus       160 ~---~~~giv~N~  169 (261)
                      .   ....+|+||
T Consensus        94 ~~~~~~~~lVvNr  106 (106)
T cd03111          94 YSLPAKIELVLNR  106 (106)
T ss_pred             CCCcCceEEEecC
Confidence            4   378889986

The function of these proteins are unkown. The Caulobacter pilus assembly contains 7 genes: pilA, cpaA, cpaB, cpaC, cpaD, cpaE and cpaF. These genes are clustered together on chromosome.

>TIGR02016 BchX chlorophyllide reductase iron protein subunit X

Probab=99.91  E-value=2.3e-23  Score=176.08  Aligned_cols=160  Identities=25%  Similarity=0.201  Sum_probs=95.3

Q ss_pred             cccCCCCCcHHHHHHHHHHHHHhcCCCCeEEEEecCCCCCCcccccCCCCCCCCCc--------------CCcccccccc
Q psy14655          2 IASSKGGVGKSTTTVNLATAMKICYPDKEIGILDADVFGPSIPILMNLPDTPLLNK--------------DNLMIPLVNY   67 (261)
Q Consensus         2 v~s~KGGvGKTT~a~~lA~~la~~g~~~~VllvD~D~~~~~~~~~~~~~~~~~~~~--------------~~~~~~~~~~   67 (261)
                      |+ +||||||||+|+|||.+||++|  +|||+||+|+|.+++..+++.....++.+              .+++......
T Consensus         5 v~-gKGGvGKTT~a~nLA~~La~~g--~rVLlID~Dpq~~~~~~l~g~~~~~~l~dv~~~~~~~~~~~~~~~vi~~~~~~   81 (296)
T TIGR02016         5 IY-GKGGSGKSFTTTNLSHMMAEMG--KRVLQLGCDPKHDSTSLLFGGISLPTIIEVATEKKLAGEEVKVGDVCFKTTIM   81 (296)
T ss_pred             EE-CCCCCCHHHHHHHHHHHHHHCC--CeEEEEEecCCCCccchhccCCCCCCHHHHHHhhccccCCCCHHHheeecccc
Confidence            56 8999999999999999999999  99999999999988877766332222211              0011111000


Q ss_pred             CceeecCCCCcccchh-hhh---hchHHHHHHHHHHHH---hccCCCCEEEEeCCCCC---ChhHHHHhhhcCCCeEEEE
Q psy14655         68 GVKCLSMGNLITEKSA-AIW---RGLMVMQALNKLTVQ---VQWGPCDILFIDTPPGT---GDTHLSLIQNLFIDTAIII  137 (261)
Q Consensus        68 ~l~~~~~~~~~~~~~~-~~~---~~~~~~~~l~~~l~~---l~~~~yd~IiiD~~~~~---~~~~~~~~~~~~ad~viiv  137 (261)
                      +.   +.+........ ...   .+. ........++.   +. .+||||||||++..   +.........  ||.+++|
T Consensus        82 ~~---~~~~~~~e~~~~~~~~gc~~~-~~~~~~~~l~~l~~~~-~~yD~IliD~~~~~~~~g~~~~~a~~~--Ad~viVv  154 (296)
T TIGR02016        82 NG---SGGVYGMELGGPEVGRGCGGR-GIIHGFDLLEKLGFHD-WDFDFVLMDFLGDVVCGGFATPLARSL--AEEVIVI  154 (296)
T ss_pred             Cc---CCCcceeecCCCCcccccCcc-hhhHHHHHHHHhhhhc-ccCCEEEEecCCCccccccccchhhhh--CCeEEEE
Confidence            10   10000000000 000   000 00111233333   33 58999999997543   1111122233  9999999


Q ss_pred             eCCCcchHHHHHHHHH---HHHhCC--CCeEEEEEcCCC
Q psy14655        138 TIPDTMSLQVAQRGYT---MFKKLN--IPVAGLVMNMNS  171 (261)
Q Consensus       138 ~~~~~~s~~~~~~~~~---~l~~~~--~~~~giv~N~~~  171 (261)
                      +.|+..++.++..+.+   ++++.+  .+++|+|+||+.
T Consensus       155 t~~e~~sl~~a~~l~k~v~~~~~~~~~v~i~GVV~N~~~  193 (296)
T TIGR02016       155 GSNDRQSLYVANNICNAVEYFRKLGGRVGLLGLVVNRDD  193 (296)
T ss_pred             ecchHHHHHHHHHHHHHHHHHHHcCCCCcceEEEEeCCC
Confidence            9999999987776655   444553  668999999953

This model represents the X subunit of the three-subunit enzyme, (bacterio)chlorophyllide reductase. This enzyme is responsible for the reduction of the chlorin B-ring and is closely related to the protochlorophyllide reductase complex which reduces the D-ring. Both of these complexes in turn are homologous to nitrogenase. This subunit is homologous to the nitrogenase component II, or "iron" protein.

>COG1149 MinD superfamily P-loop ATPase containing an inserted ferredoxin domain [Energy production and conversion]

Probab=99.90  E-value=1.1e-23  Score=169.49  Aligned_cols=203  Identities=23%  Similarity=0.382  Sum_probs=133.5

Q ss_pred             CcccCCCCCcHHHHHHHHHHHHHhcCCCCeEEEEecCCCCCCcccccCCCCCC----------CCCcC------------
Q psy14655          1 MIASSKGGVGKSTTTVNLATAMKICYPDKEIGILDADVFGPSIPILMNLPDTP----------LLNKD------------   58 (261)
Q Consensus         1 ~v~s~KGGvGKTT~a~~lA~~la~~g~~~~VllvD~D~~~~~~~~~~~~~~~~----------~~~~~------------   58 (261)
                      +|+|+|||+||||+|+|||..|+..   ++++++|||...|+++.+|+.+...          .+...            
T Consensus         5 AV~sGKGGtGKTTva~~la~~l~~~---~~~~l~DcDVe~PNl~l~l~~e~~~~~e~~~~~~p~i~~e~C~~CG~C~~vC   81 (284)
T COG1149           5 AVASGKGGTGKTTVAANLAVLLGDK---YKLVLADCDVEAPNLHLLLGVEVLEEEEVIRGEIPEIDPEKCIRCGKCAEVC   81 (284)
T ss_pred             EEeecCCCCChhhHHHHHHHHhccc---cceEEEecCCCCCCcceEeccchhhhhHHHHhhccccChhhccccCcHHHhC
Confidence            5899999999999999999999887   7999999999999999999876432          11110            


Q ss_pred             --Cccc--ccccc--------------------Cceeec--CCCCcccchh--------hhhhchHHHHH-HHHHHHHhc
Q psy14655         59 --NLMI--PLVNY--------------------GVKCLS--MGNLITEKSA--------AIWRGLMVMQA-LNKLTVQVQ  103 (261)
Q Consensus        59 --~~~~--~~~~~--------------------~l~~~~--~~~~~~~~~~--------~~~~~~~~~~~-l~~~l~~l~  103 (261)
                        +.+.  +...+                    -+...+  .|........        .+..+...... +..+....+
T Consensus        82 ~f~Ai~~~~~~~~~~~~~lC~GCgaC~~~CP~~AI~~~~~~~G~i~~~k~~~g~~li~g~l~vGe~~s~~lV~~~kk~a~  161 (284)
T COG1149          82 RFGAIVVLPGGKPVLNPDLCEGCGACSIVCPEPAIEEEPVVIGKIYESKTDYGFPLISGRLNVGEEESGKLVTALKKHAK  161 (284)
T ss_pred             CCCeEEEcCCCceecCcccccCcccceeeCCCcccccccceeeEEEEEEcCCCceeEEeeccCCccccchHHHHHHHhhh
Confidence              0010  00000                    000000  0000000000        00011111111 222222333


Q ss_pred             cCCCCEEEEeCCCCCChhHHHHhhhcCCCeEEEEeCCCcchHHHHHHHHHHHHhCCCCeEEEEEcCCCCCCCCCCccccc
Q psy14655        104 WGPCDILFIDTPPGTGDTHLSLIQNLFIDTAIIITIPDTMSLQVAQRGYTMFKKLNIPVAGLVMNMNSVLCPSCNHMFEL  183 (261)
Q Consensus       104 ~~~yd~IiiD~~~~~~~~~~~~~~~~~ad~viiv~~~~~~s~~~~~~~~~~l~~~~~~~~giv~N~~~~~~~~~~~~~~~  183 (261)
                       +.-|++|||+|||.+..+...+..  +|.+|+|++|+..+++++++.++..+.++++ .++|+||+..           
T Consensus       162 -E~~~~~IIDsaaG~gCpVi~sl~~--aD~ai~VTEPTp~glhD~kr~~el~~~f~ip-~~iViNr~~~-----------  226 (284)
T COG1149         162 -ELADLLIIDSAAGTGCPVIASLKG--ADLAILVTEPTPFGLHDLKRALELVEHFGIP-TGIVINRYNL-----------  226 (284)
T ss_pred             -hhcceeEEecCCCCCChHHHhhcc--CCEEEEEecCCccchhHHHHHHHHHHHhCCc-eEEEEecCCC-----------
Confidence             336999999999999999999988  9999999999999999999999999999998 7799999531           


Q ss_pred             ccchhHHHHHhhhhhhhhhhhhcccccccccCcchhhhhhhccccCCCCCCCCcchh
Q psy14655        184 YENNLHQFEAKNFLKSYERKLYGIHMWNFLIPLCNLIIKIRNVAYGNSHGHGNTVHH  240 (261)
Q Consensus       184 ~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~ip~~~~~~~~~~~~~~~a~~~g~~v~~  240 (261)
                       ...  .+.+  ..++.     |.+++. .||        ++..+.++...|.++.+
T Consensus       227 -g~s--~ie~--~~~e~-----gi~il~-~IP--------yd~~i~~~~~~g~~~~~  264 (284)
T COG1149         227 -GDS--EIEE--YCEEE-----GIPILG-EIP--------YDKDIPEAYVNGEPFVE  264 (284)
T ss_pred             -Cch--HHHH--HHHHc-----CCCeeE-ECC--------cchhHHHHHhCCCcccc
Confidence             111  1111  22222     333333 499        89999999999999987

>PF07015 VirC1: VirC1 protein; InterPro: IPR009744 This family consists of several bacterial VirC1 proteins

Probab=99.88  E-value=3e-22  Score=159.66  Aligned_cols=141  Identities=21%  Similarity=0.283  Sum_probs=103.8

Q ss_pred             CcccCCCCCcHHHHHHHHHHHHHhcCCCCeEEEEecCCCCCCcccccCCCCCCCCCcCCccccccccCceeecCCCCccc
Q psy14655          1 MIASSKGGVGKSTTTVNLATAMKICYPDKEIGILDADVFGPSIPILMNLPDTPLLNKDNLMIPLVNYGVKCLSMGNLITE   80 (261)
Q Consensus         1 ~v~s~KGGvGKTT~a~~lA~~la~~g~~~~VllvD~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~   80 (261)
                      +|+|.|||+||||.+..||.+|+++|  .+|.+||+||+++...|.-.......+          ..++.+...      
T Consensus         5 tf~s~KGGaGKTT~~~~LAs~la~~G--~~V~lIDaDpn~pl~~W~~~a~~~~~~----------~~~~~V~~~------   66 (231)
T PF07015_consen    5 TFASSKGGAGKTTAAMALASELAARG--ARVALIDADPNQPLAKWAENAQRPGAW----------PDRIEVYEA------   66 (231)
T ss_pred             EEecCCCCCcHHHHHHHHHHHHHHCC--CeEEEEeCCCCCcHHHHHHhccccCCC----------CCCeeEEec------
Confidence            47899999999999999999999999  999999999999765443222111111          112222111      


Q ss_pred             chhhhhhchHHHHHHHHHHHHhccCCCCEEEEeCCCCCChhHHHHhhhcCCCeEEEEeCCCcchHHHHHHHHHHHHhC--
Q psy14655         81 KSAAIWRGLMVMQALNKLTVQVQWGPCDILFIDTPPGTGDTHLSLIQNLFIDTAIIITIPDTMSLQVAQRGYTMFKKL--  158 (261)
Q Consensus        81 ~~~~~~~~~~~~~~l~~~l~~l~~~~yd~IiiD~~~~~~~~~~~~~~~~~ad~viiv~~~~~~s~~~~~~~~~~l~~~--  158 (261)
                               .....+...++......|||||+|+.++-+.....++..  +|.|++|+.++..+..++.++++.+.+.  
T Consensus        67 ---------~e~~~l~~~~e~a~~~~~d~VlvDleG~as~~~~~aia~--sDlVlIP~~~s~lD~~eA~~t~~~v~~~~~  135 (231)
T PF07015_consen   67 ---------DELTILEDAYEAAEASGFDFVLVDLEGGASELNDYAIAR--SDLVLIPMQPSQLDADEAAKTFKWVRRLEK  135 (231)
T ss_pred             ---------cchhhHHHHHHHHHhcCCCEEEEeCCCCCchhHHHHHHH--CCEEEECCCCChHHHHHHHHHHHHHHHHHH
Confidence                     111235666666543569999999999888887777776  9999999999999999999988877653  


Q ss_pred             ----CCCeEEEEEcCCC
Q psy14655        159 ----NIPVAGLVMNMNS  171 (261)
Q Consensus       159 ----~~~~~giv~N~~~  171 (261)
                          +++ ..++++|++
T Consensus       136 ~~~~~ip-~~Vl~Tr~~  151 (231)
T PF07015_consen  136 AERRDIP-AAVLFTRVP  151 (231)
T ss_pred             hhCCCCC-eeEEEecCC
Confidence                334 568888854

In Agrobacterium tumefaciens, a cis-active 24-base-pair sequence adjacent to the right border of the T-DNA, called overdrive, stimulates tumour formation by increasing the level of T-DNA processing. It is thought that the virC operon, which enhances T-DNA processing probably, does so because the VirC1 protein interacts with overdrive. It has now been shown that the virC1 gene product binds to overdrive but not to the right border of T-DNA [].

>cd00550 ArsA_ATPase Oxyanion-translocating ATPase (ArsA)

Probab=99.88  E-value=7.6e-23  Score=169.59  Aligned_cols=168  Identities=18%  Similarity=0.209  Sum_probs=108.6

Q ss_pred             CcccCCCCCcHHHHHHHHHHHHHhcCCCCeEEEEecCCCCCCcccccCCCC------CCCCCcC--------Cccccccc
Q psy14655          1 MIASSKGGVGKSTTTVNLATAMKICYPDKEIGILDADVFGPSIPILMNLPD------TPLLNKD--------NLMIPLVN   66 (261)
Q Consensus         1 ~v~s~KGGvGKTT~a~~lA~~la~~g~~~~VllvD~D~~~~~~~~~~~~~~------~~~~~~~--------~~~~~~~~   66 (261)
                      +++++|||+||||+|+++|..+|+.|  +|||+||+|++ ++++.+|+.+-      ......-        ..+.....
T Consensus         3 ~~~~gkgG~GKtt~a~~la~~~a~~g--~~vLlvd~D~~-~sl~~~~~~~~~~~~~~~~g~~~L~~~~id~~~~~~~~~~   79 (254)
T cd00550           3 IFFGGKGGVGKTTISAATAVRLAEQG--KKVLLVSTDPA-HSLSDSFNQEFGKGPTPVKGVENLSAMEIDPQEALEEYRQ   79 (254)
T ss_pred             EEEECCCCchHHHHHHHHHHHHHHCC--CCceEEeCCCc-ccHHHHhCCccCCCCcccccCCCceEEecCHHHHHHHHHH
Confidence            37899999999999999999999999  99999999998 58888888762      1111100        00000001


Q ss_pred             cCceeecCCCCcccc-----hhhhhhchHHHHHHHHHHHHhccCCCCEEEEeCCCCCChhH------------HHHhhhc
Q psy14655         67 YGVKCLSMGNLITEK-----SAAIWRGLMVMQALNKLTVQVQWGPCDILFIDTPPGTGDTH------------LSLIQNL  129 (261)
Q Consensus        67 ~~l~~~~~~~~~~~~-----~~~~~~~~~~~~~l~~~l~~l~~~~yd~IiiD~~~~~~~~~------------~~~~~~~  129 (261)
                      ..++.+..+......     .....++....-.+.++.+.+...+||+||+||||. ++..            ...+...
T Consensus        80 ~~~~~~~~~~~~~~~~~~~~~~~~~Pg~~e~l~~~~~~~~l~~~~yD~VVvDtpPt-g~tlrlL~lp~~l~~~~~~l~d~  158 (254)
T cd00550          80 EVLEPIEANLLLEMLKGILEEELESPGIEEIAAFDEFSRYIDEAEYDVVVFDTAPT-GHTLRLLSLPTVLSWAREILSDP  158 (254)
T ss_pred             HHHHHHHhhccchhHHHHHHHHhcCCCHHHHHHHHHHHHHHhcCCCCEEEECCCCc-HHHHHHHHhHHHHHHHHHHhcCC
Confidence            111122211000000     000112222233344454555446899999999994 3321            1122222


Q ss_pred             CCCeEEEEeCCCcchHHHHHHHHHHHHhCCCCeEEEEEcCCCC
Q psy14655        130 FIDTAIIITIPDTMSLQVAQRGYTMFKKLNIPVAGLVMNMNSV  172 (261)
Q Consensus       130 ~ad~viiv~~~~~~s~~~~~~~~~~l~~~~~~~~giv~N~~~~  172 (261)
                      .++.+++|+.|+..++.++.++++.+...+.+..|+|+|++..
T Consensus       159 ~~~~~vlV~~p~~~~~~e~~r~~~~L~~~g~~v~gvV~N~v~~  201 (254)
T cd00550         159 ERTSFRLVCIPEKMSLYETERAIQELAKYGIDVDAVIVNQLLP  201 (254)
T ss_pred             cceEEEEEeCCChhHHHHHHHHHHHHHHCCCCCCEEEEecCcc
Confidence            2458999999999999999999999999999999999999765

This ATPase is involved in transport of arsenite, antimonite or other oxyanions across biological membranes in all three kingdoms of life. ArsA contains a highly conserved AAA motif present in the AAA+ ATPase superfamily associated with a variety of cellular activities. To form a functional ATP-driven pump, ArsA interacts with the permease ArsB, which is a channel-forming integral membrane protein. One of the most interesting features of ArsA is the allosteric activation by its transport substrates. A divalent cation, typically Mg2+, is required for its enzymatic activity.

>cd02033 BchX Chlorophyllide reductase converts chlorophylls into bacteriochlorophylls by reducing the chlorin B-ring

Probab=99.88  E-value=4.2e-22  Score=169.20  Aligned_cols=194  Identities=23%  Similarity=0.280  Sum_probs=121.4

Q ss_pred             cCCCCCcHHHHHHHHHHHHHhcCCCCeEEEEecCCCCCCcccccCCCCCCCCCcC---Cccc---------cccccCcee
Q psy14655          4 SSKGGVGKSTTTVNLATAMKICYPDKEIGILDADVFGPSIPILMNLPDTPLLNKD---NLMI---------PLVNYGVKC   71 (261)
Q Consensus         4 s~KGGvGKTT~a~~lA~~la~~g~~~~VllvD~D~~~~~~~~~~~~~~~~~~~~~---~~~~---------~~~~~~l~~   71 (261)
                      .+|||+||||+++|||.+||++|  +||++||+|++++++..+||....+.+.+.   ..+.         .....|+.+
T Consensus        37 ~gkgG~GKSt~a~nLa~~la~~g--~rVllid~D~~~~~~~~~~g~~~~~~i~d~~~~~~l~~~~~~~~dv~~~~~gv~~  114 (329)
T cd02033          37 YGKGGIGKSFTLANLSYMMAQQG--KRVLLIGCDPKSDTTSLLFGGKACPTIIETSAKKKLAGEEVQIGDVCFKRDGVFA  114 (329)
T ss_pred             ECCCCCCHHHHHHHHHHHHHHCC--CcEEEEEeeecccccchhccccCCCcccccccccccCcccceeeceEEEeCCEEE
Confidence            46999999999999999999999  999999999999999999987654433211   0000         111235555


Q ss_pred             ecCCCCcccchhhhhhchHH--HHHHHHHHHHh---ccCCCCEEEEeCCCCCC--hhHHHHhhhcCCCeEEEEeCCCcch
Q psy14655         72 LSMGNLITEKSAAIWRGLMV--MQALNKLTVQV---QWGPCDILFIDTPPGTG--DTHLSLIQNLFIDTAIIITIPDTMS  144 (261)
Q Consensus        72 ~~~~~~~~~~~~~~~~~~~~--~~~l~~~l~~l---~~~~yd~IiiD~~~~~~--~~~~~~~~~~~ad~viiv~~~~~~s  144 (261)
                      +..+...      .+.+...  .....++++.+   . .+|||||+||++...  .......... +|.+++|+.|+..+
T Consensus       115 ~~~g~p~------~~~G~~~~~~i~~~~~l~~l~~~~-w~~DyVliD~~gdv~~ggf~l~i~~~~-ad~VIVVt~pe~~s  186 (329)
T cd02033         115 MELGGPE------VGRGCGGRGIIHGFELLEKLGFHD-WDFDYVLLDFLGDVVCGGFGLPIARDM-AQKVIVVGSNDLQS  186 (329)
T ss_pred             ecCCCCe------ecccccchHHHHHHHHHHHccCcc-ccCCEEEEecCCcceeccccchhhhcC-CceEEEeCCchHHH
Confidence            5432211      1121111  11122344443   4 379999999977543  2212222222 88999999999999


Q ss_pred             HHHHHH---HHHHHHhC--CCCeEEEEEcCCCCCCCCCCcccccccchhHHHHHhhhhhhhhhhhhcccccccccCcchh
Q psy14655        145 LQVAQR---GYTMFKKL--NIPVAGLVMNMNSVLCPSCNHMFELYENNLHQFEAKNFLKSYERKLYGIHMWNFLIPLCNL  219 (261)
Q Consensus       145 ~~~~~~---~~~~l~~~--~~~~~giv~N~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~ip~~~~  219 (261)
                      +..+.+   .++++++.  +.+++|+|+||+..            ....+.+.+          .+|.+++. .||    
T Consensus       187 i~~A~~v~kai~~~~~lg~~~~i~GlViNr~d~------------~~~ie~~ae----------~lgi~vLg-~IP----  239 (329)
T cd02033         187 LYVANNVCNAVEYFRKLGGNVGVAGMVINKDDG------------TGEAQAFAA----------HAGIPILA-AIP----  239 (329)
T ss_pred             HHHHHHHHHHHHHHHHhCCCCCceEEEEeCcCC------------cchHHHHHH----------HhCCCEEE-ECC----
Confidence            976554   55667666  45689999999531            011112211          14555555 499    


Q ss_pred             hhhhhccccCCCCCCCCcc
Q psy14655        220 IIKIRNVAYGNSHGHGNTV  238 (261)
Q Consensus       220 ~~~~~~~~~~~a~~~g~~v  238 (261)
                          ++..+.++...|+++
T Consensus       240 ----~D~~V~~a~~~g~~~  254 (329)
T cd02033         240 ----ADEELRRKSAAYQIV  254 (329)
T ss_pred             ----CCHHHHHHHHcCCee
Confidence                777777777777643

This family contains the X subunit of this three-subunit enzyme. Sequence and structure similarity between bchX, protochlorophyllide reductase L subunit (bchL and chlL) and nitrogenase Fe protein (nifH gene) suggest their functional similarity. Members of the BchX family serve as the unique electron donors to their respective catalytic subunits (bchN-bchB, bchY-bchZ and nitrogenase component 1). Mechanistically, they hydrolyze ATP and transfer electrons through a Fe4-S4 cluster.

>cd02035 ArsA ArsA ATPase functionas as an efflux pump located on the inner membrane of the cell

Probab=99.87  E-value=3.5e-22  Score=162.11  Aligned_cols=160  Identities=18%  Similarity=0.220  Sum_probs=106.7

Q ss_pred             CcccCCCCCcHHHHHHHHHHHHHhcCCCCeEEEEecCCCCC-------CcccccCCCCCCCCCcCCcccccc--------
Q psy14655          1 MIASSKGGVGKSTTTVNLATAMKICYPDKEIGILDADVFGP-------SIPILMNLPDTPLLNKDNLMIPLV--------   65 (261)
Q Consensus         1 ~v~s~KGGvGKTT~a~~lA~~la~~g~~~~VllvD~D~~~~-------~~~~~~~~~~~~~~~~~~~~~~~~--------   65 (261)
                      +++++|||+||||+++++|..+|+.|  +||++||+|++.+       ++..+++..+.. ...........        
T Consensus         2 ~~~~g~~g~Gkt~~~~~la~~~a~~g--~~~~l~~~d~~~~~~~~~~~~L~~~l~~~~~~-~~~~~~~~~~~~~~~~~~~   78 (217)
T cd02035           2 IFFTGKGGVGKTTIAAATAVRLAEEG--KKVLLVSTDPAHNLSDKGLPNLSDAFIVEDPE-IAPNLYREEVDATRRVERA   78 (217)
T ss_pred             EEEeCCCCchHHHHHHHHHHHHHHCC--CcEEEEECCCCcccccccCCCchhhhccCChH-HHHHHHHHHHHHHHHhhhc
Confidence            37899999999999999999999999  9999999999984       333333321100 00000111100        


Q ss_pred             --ccCceeecCCCCcccchhhhhhchHHHHHHHHHHHHhccCC-CCEEEEeCCCCCChhH---HHHhhhcCCCeEEEEeC
Q psy14655         66 --NYGVKCLSMGNLITEKSAAIWRGLMVMQALNKLTVQVQWGP-CDILFIDTPPGTGDTH---LSLIQNLFIDTAIIITI  139 (261)
Q Consensus        66 --~~~l~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~l~~~~-yd~IiiD~~~~~~~~~---~~~~~~~~ad~viiv~~  139 (261)
                        ..+..+++.+...+..        ...-.+.++++.++ .. ||+||+||||+.....   ...+....+|.+++|+.
T Consensus        79 ~~~~~~~~~~~~~~~p~~--------~ell~~~~l~~~l~-~~~yD~IIiD~pp~~~~~~~l~~~~l~~~~~~~vllV~~  149 (217)
T cd02035          79 WGGEGGLMLELAAALPGI--------EELASLLAVFREFS-EGLYDVIVFDTAPTGHTLRLLVRELLTDPERTSFRLVTL  149 (217)
T ss_pred             ccchhhhHHhHhccCCCH--------HHHHHHHHHHHHHh-cCCCCEEEECCCCchHHHHHHHHHHccCCCceEEEEEeC
Confidence              0122233333322211        11122677777777 55 9999999999743221   12222212478999999


Q ss_pred             CCcchHHHHHHHHHHHHhCCCCeEEEEEcCCCC
Q psy14655        140 PDTMSLQVAQRGYTMFKKLNIPVAGLVMNMNSV  172 (261)
Q Consensus       140 ~~~~s~~~~~~~~~~l~~~~~~~~giv~N~~~~  172 (261)
                      |+..++.++.++++.++..+.+..++|+|++..
T Consensus       150 p~~~s~~~~~~~l~~l~~~~~~~~glVlN~~~~  182 (217)
T cd02035         150 PEKLPLYETERAITELALYGIPVDAVVVNRVLP  182 (217)
T ss_pred             CCccHHHHHHHHHHHHHHCCCCCCEEEEeCCcC
Confidence            999999999999999999999999999999653

This ATP-driven oxyanion pump catalyzes the extrusion of arsenite, antimonite and arsenate. Maintenance of a low intracellular concentration of oxyanion produces resistance to the toxic agents. The pump is composed of two subunits, the catalytic ArsA subunit and the membrane subunit ArsB, which are encoded by arsA and arsB genes respectively. Arsenic efflux in bacteria is catalyzed by either ArsB alone or by ArsAB complex. The ATP-coupled pump, however, is more efficient. ArsA is composed of two homologous halves, A1 and A2, connected by a short linker sequence.

>cd02038 FleN-like FleN is a member of the Fer4_NifH superfamily

Probab=99.87  E-value=5e-21  Score=144.59  Aligned_cols=105  Identities=30%  Similarity=0.389  Sum_probs=93.0

Q ss_pred             CcccCCCCCcHHHHHHHHHHHHHhcCCCCeEEEEecCCCCCCcccccCCCCCCCCCcCCccccccccCceeecCCCCccc
Q psy14655          1 MIASSKGGVGKSTTTVNLATAMKICYPDKEIGILDADVFGPSIPILMNLPDTPLLNKDNLMIPLVNYGVKCLSMGNLITE   80 (261)
Q Consensus         1 ~v~s~KGGvGKTT~a~~lA~~la~~g~~~~VllvD~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~   80 (261)
                      +|.|+|||+||||++.++|..++++|  ++|++||+|+|++++.                                    
T Consensus         3 ~~~~~kgg~gkt~~~~~~a~~~~~~~--~~~~~vd~D~~~~~~~------------------------------------   44 (139)
T cd02038           3 AVTSGKGGVGKTNISANLALALAKLG--KRVLLLDADLGLANLD------------------------------------   44 (139)
T ss_pred             EEEcCCCCCcHHHHHHHHHHHHHHCC--CcEEEEECCCCCCCCC------------------------------------
Confidence            47899999999999999999999999  9999999999876431                                    


Q ss_pred             chhhhhhchHHHHHHHHHHHHhccCCCCEEEEeCCCCCChhHHHHhhhcCCCeEEEEeCCCcchHHHHHHHHHHHHhC-C
Q psy14655         81 KSAAIWRGLMVMQALNKLTVQVQWGPCDILFIDTPPGTGDTHLSLIQNLFIDTAIIITIPDTMSLQVAQRGYTMFKKL-N  159 (261)
Q Consensus        81 ~~~~~~~~~~~~~~l~~~l~~l~~~~yd~IiiD~~~~~~~~~~~~~~~~~ad~viiv~~~~~~s~~~~~~~~~~l~~~-~  159 (261)
                                                |||||+|+||+.+.....++..  ||.+++|+.|+..++..+.++++.+.+. +
T Consensus        45 --------------------------yd~VIiD~p~~~~~~~~~~l~~--aD~vviv~~~~~~s~~~~~~~l~~l~~~~~   96 (139)
T cd02038          45 --------------------------YDYIIIDTGAGISDNVLDFFLA--ADEVIVVTTPEPTSITDAYALIKKLAKQLR   96 (139)
T ss_pred             --------------------------CCEEEEECCCCCCHHHHHHHHh--CCeEEEEcCCChhHHHHHHHHHHHHHHhcC
Confidence                                      9999999999999888888887  9999999999999999999999887653 4


Q ss_pred             CCeEEEEEcCCC
Q psy14655        160 IPVAGLVMNMNS  171 (261)
Q Consensus       160 ~~~~giv~N~~~  171 (261)
                      ...+++|+|++.
T Consensus        97 ~~~~~lVvN~~~  108 (139)
T cd02038          97 VLNFRVVVNRAE  108 (139)
T ss_pred             CCCEEEEEeCCC
Confidence            457889999954

It shares the common function as an ATPase, with the ATP-binding domain at the N-terminus. In Pseudomonas aeruginosa, FleN gene is involved in regulating the number of flagella and chemotactic motility by influencing FleQ activity.

>cd02042 ParA ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation

Probab=99.87  E-value=2.8e-21  Score=138.81  Aligned_cols=97  Identities=30%  Similarity=0.449  Sum_probs=86.0

Q ss_pred             CcccCCCCCcHHHHHHHHHHHHHhcCCCCeEEEEecCCCCCCcccccCCCCCCCCCcCCccccccccCceeecCCCCccc
Q psy14655          1 MIASSKGGVGKSTTTVNLATAMKICYPDKEIGILDADVFGPSIPILMNLPDTPLLNKDNLMIPLVNYGVKCLSMGNLITE   80 (261)
Q Consensus         1 ~v~s~KGGvGKTT~a~~lA~~la~~g~~~~VllvD~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~   80 (261)
                      +|.|.|||+||||+|.+||..++++|  .+|+++|+|++                                         
T Consensus         3 ~~~~~kgG~Gkst~~~~la~~~~~~~--~~vl~~d~d~~-----------------------------------------   39 (104)
T cd02042           3 AVANQKGGVGKTTTAVNLAAALARRG--KRVLLIDLDPQ-----------------------------------------   39 (104)
T ss_pred             EEEeCCCCcCHHHHHHHHHHHHHhCC--CcEEEEeCCCC-----------------------------------------
Confidence            47899999999999999999999998  99999999998                                         


Q ss_pred             chhhhhhchHHHHHHHHHHHHhccCCCCEEEEeCCCCCChhHHHHhhhcCCCeEEEEeCCCcchHHHHHHHHH---HHHh
Q psy14655         81 KSAAIWRGLMVMQALNKLTVQVQWGPCDILFIDTPPGTGDTHLSLIQNLFIDTAIIITIPDTMSLQVAQRGYT---MFKK  157 (261)
Q Consensus        81 ~~~~~~~~~~~~~~l~~~l~~l~~~~yd~IiiD~~~~~~~~~~~~~~~~~ad~viiv~~~~~~s~~~~~~~~~---~l~~  157 (261)
                                                ||+||||+||+.+.....++..  ||.+++|+.++..++..+.++++   ..+.
T Consensus        40 --------------------------~d~viiD~p~~~~~~~~~~l~~--ad~viv~~~~~~~s~~~~~~~~~~~~~~~~   91 (104)
T cd02042          40 --------------------------YDYIIIDTPPSLGLLTRNALAA--ADLVLIPVQPSPLDLDGLEKLLETLILEDR   91 (104)
T ss_pred             --------------------------CCEEEEeCcCCCCHHHHHHHHH--CCEEEEeccCCHHHHHHHHHHHHHHHHHHh
Confidence                                      8999999999998888778877  99999999999999999999887   3332


Q ss_pred             --CCCCeEEEEEc
Q psy14655        158 --LNIPVAGLVMN  168 (261)
Q Consensus       158 --~~~~~~giv~N  168 (261)
                        ...+..++|+|
T Consensus        92 ~~~~~~~~~vv~n  104 (104)
T cd02042          92 LNPDLDILGILPT  104 (104)
T ss_pred             cCCCCceEEEEeC
Confidence              24557888876

ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the initiation of DNA replication. ParB regulates the ParA ATPase activity by promoting nucleotide exchange in a fashion reminiscent of the exchange factors of eukaryotic G proteins. ADP-bound ParA binds single-stranded DNA, whereas the ATP-bound form dissociates ParB from its DNA binding sites. Increasing the fraction of ParA-ADP in the cell inhibits cell division, suggesting that this simple nucleotide switch may regulate cytokinesis. ParA shares sequence similarity to a conserved and widespread family of ATPases which includes the repA protein of the repABC operon in R. etli Sym plasmid. This operon is involved in the plasmid replication and partition.

>PF00142 Fer4_NifH: 4Fe-4S iron sulfur cluster binding proteins, NifH/frxC family; InterPro: IPR000392 This entry represents members of the NifH/BchL/ChlL family

Probab=99.86  E-value=1.7e-22  Score=163.12  Aligned_cols=212  Identities=22%  Similarity=0.260  Sum_probs=130.1

Q ss_pred             cCCCCCcHHHHHHHHHHHHHhcCCCCeEEEEecCCCCCCcccccCCCCCCCCCc---------C---CccccccccCcee
Q psy14655          4 SSKGGVGKSTTTVNLATAMKICYPDKEIGILDADVFGPSIPILMNLPDTPLLNK---------D---NLMIPLVNYGVKC   71 (261)
Q Consensus         4 s~KGGvGKTT~a~~lA~~la~~g~~~~VllvD~D~~~~~~~~~~~~~~~~~~~~---------~---~~~~~~~~~~l~~   71 (261)
                      =+|||+||||+++||+.+||++|  +|||.|.|||...|+..+++....+++-+         .   +.+......++.+
T Consensus         6 YGKGGIGKST~~~Nlsaala~~G--~kVl~iGCDPK~DST~~ll~g~~~~Tvld~~~~~~~~e~~~ledvv~~G~~gi~C   83 (273)
T PF00142_consen    6 YGKGGIGKSTTASNLSAALAEMG--KKVLQIGCDPKADSTRLLLGGKAIPTVLDLLREKGSVEDLELEDVVKEGFKGILC   83 (273)
T ss_dssp             EESTTSSHHHHHHHHHHHHHHTT----EEEEEESSSSTSSCHHHTTSS-SBHHHHHHHHCTGGGS-HHHHSEEEGGGEEE
T ss_pred             EcCCCcccChhhhHHHHHHHhcc--ceeeEecccCCCccceeccCCccchhHHHHHhhccccccCCCCcEEEeccCCcee
Confidence            47999999999999999999999  99999999999988877777655433311         0   0112234568888


Q ss_pred             ecCCCCcccchhhhhhchHHHHHHHHHHHHhc--cCCCCEEEEeCCCCC--ChhHHHHhhhcCCCeEEEEeCCCcchHHH
Q psy14655         72 LSMGNLITEKSAAIWRGLMVMQALNKLTVQVQ--WGPCDILFIDTPPGT--GDTHLSLIQNLFIDTAIIITIPDTMSLQV  147 (261)
Q Consensus        72 ~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~l~--~~~yd~IiiD~~~~~--~~~~~~~~~~~~ad~viiv~~~~~~s~~~  147 (261)
                      +.+|...+ ...+..++-..   ..++++++.  ..+||+|++|.-+-.  +... +-+..-.|+.+++|++.+.+|+..
T Consensus        84 vEsGGPeP-GvGCaGRGI~~---a~~~L~~~~~~~~~~D~v~yDVLGDVVCGGFa-mPir~g~a~evyIVtSge~mslyA  158 (273)
T PF00142_consen   84 VESGGPEP-GVGCAGRGIIT---ALELLEELGAYEDDYDFVLYDVLGDVVCGGFA-MPIREGYAQEVYIVTSGEFMSLYA  158 (273)
T ss_dssp             EE---SCT-TSSBHHHHHHH---HHHHHHHTTTSTSTSSEEEEEEESSSSCTTTT-HHHHTTS-SEEEEEEBSSHHHHHH
T ss_pred             eccCCCcc-cccccccchhh---hhhhHHhhhhhhcCCceEEEEEEeeeEEeeee-hhhhhccCCEEEEEecCcHHHHHH
Confidence            88776542 22222222111   223334332  156999999985322  1111 222322399999999999999999


Q ss_pred             HHHHHHHHHhC----CCCeEEEEEcCCCCCCCCCCcccccccchhHHHHHhhhhhhhhhhhhcccccccccCcchhhhhh
Q psy14655        148 AQRGYTMFKKL----NIPVAGLVMNMNSVLCPSCNHMFELYENNLHQFEAKNFLKSYERKLYGIHMWNFLIPLCNLIIKI  223 (261)
Q Consensus       148 ~~~~~~~l~~~----~~~~~giv~N~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~ip~~~~~~~~  223 (261)
                      +.++.+.++++    +.++.|+|.|....             .....+.++ +.++     .|.+++. .||        
T Consensus       159 ANNI~~~i~~~~~~g~~~l~GiI~N~r~~-------------~~e~~~v~~-fa~~-----~g~~i~~-~iP--------  210 (273)
T PF00142_consen  159 ANNICKAIKNFADRGGARLGGIICNSRNV-------------DDEEEIVED-FAER-----IGTPIIA-FIP--------  210 (273)
T ss_dssp             HHHHHHHHHHHCTTSS-EEEEEEEE-SSS-------------TTHHHHHHH-HHHH-----HTSEEEE-EE---------
T ss_pred             HHHHHHHHHHHhccCCCceEEEEecCCCC-------------CCchHHHHH-HHHH-----cCCcEEE-ecC--------
Confidence            99999988865    34689999995221             112222221 2222     4555555 499        


Q ss_pred             hccccCCCCCCCCcchhhhhhhhcccc
Q psy14655        224 RNVAYGNSHGHGNTVHHHHVLNLIGEE  250 (261)
Q Consensus       224 ~~~~~~~a~~~g~~v~~~~~~~~~~~~  250 (261)
                      ++..+.+|...|+||+++++.+..+..
T Consensus       211 r~~~v~~ae~~~~TVie~~P~s~~a~~  237 (273)
T PF00142_consen  211 RSEIVQRAELYGKTVIEAAPDSEQAQE  237 (273)
T ss_dssp             --HHHHHHHHCTS-CCCC-TTSHHHHH
T ss_pred             chHHHHHHHHcCCEEEEeCCCcHHHHH
Confidence            999999999999999998877765544

Nitrogen fixing bacteria possess a nitrogenase enzyme complex that catalyses the reduction of molecular nitrogen to ammonia [, , ]. The nitrogenase enzyme complex consists of two components: Component I is nitrogenase MoFe protein or dinitrogenase, which contains 2 molecules each of 2 non-identical subunits. Component II is nitrogenase Fe protein or dinitrogenase reductase, which is a homodimer. The monomer is encoded by the nifH gene []. Component II has 2 ATP-binding domains and one 4Fe-4S cluster per homodimer: it supplies energy by ATP hydrolysis, and transfers electrons from reduced ferredoxin or flavodoxin to component I for the reduction of molecular nitrogen to ammonia []. There are a number of conserved regions in the sequence of these proteins: in the N-terminal section there is an ATP-binding site motif 'A' (P-loop) IPR001687 from INTERPRO and in the central section there are two conserved cysteines which have been shown, in nifH, to be the ligands of the 4Fe-4S cluster. Protochlorophyllide reductase is involved in light-independent chlorophyll biosynthesis. The light-independent reaction uses Mg-ATP and reduced ferredoxin to reduce ring D of protochlorophyllide (Pchlide) to form chlorophyllide a (Chlide). This enzyme complex is composed of three subunits: ChlL, ChlN and ChlB. ChlL is present as a homodimer, and binds one 4Fe-4S cluster per dimer. The conserved domains, including the ATP-binding motif and the Fe-S binding motif found in the three subunits, are similar to those in nitrogenases []. ; GO: 0005524 ATP binding, 0016491 oxidoreductase activity, 0055114 oxidation-reduction process; PDB: 1CP2_A 2AFI_F 1N2C_F 1FP6_C 2AFK_G 1M34_M 1XD8_A 1NIP_A 1M1Y_N 1G21_H ....

>COG1348 NifH Nitrogenase subunit NifH (ATPase) [Inorganic ion transport and metabolism]

Probab=99.85  E-value=1.6e-21  Score=153.05  Aligned_cols=211  Identities=24%  Similarity=0.299  Sum_probs=141.1

Q ss_pred             cCCCCCcHHHHHHHHHHHHHhcCCCCeEEEEecCCCCCCcccccCCCCCCCCCc------------CCccccccccCcee
Q psy14655          4 SSKGGVGKSTTTVNLATAMKICYPDKEIGILDADVFGPSIPILMNLPDTPLLNK------------DNLMIPLVNYGVKC   71 (261)
Q Consensus         4 s~KGGvGKTT~a~~lA~~la~~g~~~~VllvD~D~~~~~~~~~~~~~~~~~~~~------------~~~~~~~~~~~l~~   71 (261)
                      =+|||.||||++.|+|++||+.|  +||++|-|||...++..++|....+++-+            .+.+......++.|
T Consensus         7 YGKGGIGKSTts~N~aAAla~~G--kkVl~vGCDPKaDSTr~Llgg~~ipTVld~lre~~~~e~~~ledvi~~Gf~Gv~C   84 (278)
T COG1348           7 YGKGGIGKSTTSQNLAAALAELG--KKVLIVGCDPKADSTRLLLGGKAIPTVLDTLREKGEVEDLELEDVIFTGFGGVKC   84 (278)
T ss_pred             ecCCCcCcchhHHHHHHHHHHcC--CeEEEEcCCCCcchHHHHhCCcccchHHHHHHhcCccccCCHHHheeccCCceEE
Confidence            37999999999999999999999  99999999999988888888444332211            11122234567888


Q ss_pred             ecCCCCcccchhhhhhchHHHHHHHHHHHHhc-c-CCCCEEEEeCCCCCChhHHHH----hhhcCCCeEEEEeCCCcchH
Q psy14655         72 LSMGNLITEKSAAIWRGLMVMQALNKLTVQVQ-W-GPCDILFIDTPPGTGDTHLSL----IQNLFIDTAIIITIPDTMSL  145 (261)
Q Consensus        72 ~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~l~-~-~~yd~IiiD~~~~~~~~~~~~----~~~~~ad~viiv~~~~~~s~  145 (261)
                      +.+|..-+ ...+..++-  ...+ ++++.+. . +..|+||+|..+   +.++..    +.--.||.+++|++.+.+++
T Consensus        85 VEsGGPep-GvGCAGRGV--itai-~~Le~lgaf~~~~DvviyDVLG---DVVCGGFAmPiReg~AdeiyIVtSge~Mal  157 (278)
T COG1348          85 VESGGPEP-GVGCAGRGV--ITAI-NLLEELGAFEEDLDVVIYDVLG---DVVCGGFAMPIREGYADEIYIVTSGEMMAL  157 (278)
T ss_pred             eecCCCCC-CCCcccchH--HHHH-HHHHHhCCccccCCEEEEeccC---ceeecceeeehhcccCcEEEEEecCchHHH
Confidence            87765442 222222222  2222 3333332 1 346999999964   322222    22123999999999999999


Q ss_pred             HHHHHHHHHHHhC----CCCeEEEEEcCCCCCCCCCCcccccccchhHHHHHhhhhhhhhhhhhcccccccccCcchhhh
Q psy14655        146 QVAQRGYTMFKKL----NIPVAGLVMNMNSVLCPSCNHMFELYENNLHQFEAKNFLKSYERKLYGIHMWNFLIPLCNLII  221 (261)
Q Consensus       146 ~~~~~~~~~l~~~----~~~~~giv~N~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~ip~~~~~~  221 (261)
                      ..+.+..+-+.++    +.++-|+|.|....             +....     .+..+ .+.+|.+++. .+|      
T Consensus       158 YAANNI~kgi~k~a~~~~~rLgGiIcNsr~~-------------~~e~e-----~v~~f-a~~igt~li~-~vP------  211 (278)
T COG1348         158 YAANNIAKGIRKYAKTGGVRLGGIICNSRSV-------------DRERE-----LVEAF-AERLGTQLIH-FVP------  211 (278)
T ss_pred             HHHHHHHHHHHHHhhcCCcceeeEEecCCCc-------------ccHHH-----HHHHH-HHHhCCceEe-ecc------
Confidence            9999998887764    46689999996221             11112     22222 2224666655 499      


Q ss_pred             hhhccccCCCCCCCCcchhhhhhhhccccc
Q psy14655        222 KIRNVAYGNSHGHGNTVHHHHVLNLIGEED  251 (261)
Q Consensus       222 ~~~~~~~~~a~~~g~~v~~~~~~~~~~~~~  251 (261)
                        ++..+..|...|+||.++++.+-.++..
T Consensus       212 --r~~ivq~aE~~~kTvie~~P~s~~a~~y  239 (278)
T COG1348         212 --RDNIVQKAELNGKTVIEYAPDSNQAEEY  239 (278)
T ss_pred             --chHHHHHHHHcCcchhhhCcchhHHHHH
Confidence              9999999999999999999877666553

>PF09140 MipZ: ATPase MipZ; InterPro: IPR015223 Cell division in bacteria is facilitated by a polymeric ring structure, the Z ring, composed of tubulin-like FtsZ protofilaments

Probab=99.84  E-value=4.5e-21  Score=153.47  Aligned_cols=132  Identities=27%  Similarity=0.287  Sum_probs=78.8

Q ss_pred             CcccCCCCCcHHHHHHHHHHHHHhcCCCCeEEEEecCCCCCCcccccCCCCCCCCCcCCccccccccCceeecCCCCccc
Q psy14655          1 MIASSKGGVGKSTTTVNLATAMKICYPDKEIGILDADVFGPSIPILMNLPDTPLLNKDNLMIPLVNYGVKCLSMGNLITE   80 (261)
Q Consensus         1 ~v~s~KGGvGKTT~a~~lA~~la~~g~~~~VllvD~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~   80 (261)
                      +|.|+|||+||||+|.|+|.+|+++|  +||.++|+|..++++..+++......  ....+ ....+....++.     .
T Consensus         4 vV~sgKGGvGKSTva~~lA~aLa~~G--~kVg~lD~Di~q~S~~r~l~nr~~~~--~~~gi-~Lp~p~~~~L~~-----~   73 (261)
T PF09140_consen    4 VVGSGKGGVGKSTVAVNLAVALARMG--KKVGLLDLDIRQPSLPRYLENRAAWA--QRDGI-ELPVPSHFFLPP-----D   73 (261)
T ss_dssp             EEE-SSTTTTHHHHHHHHHHHHHCTT----EEEEE--TTT-HHHHHHHHHHHHH--HHHT-------EEE-SSS-----H
T ss_pred             EEecCCCCCcHHHHHHHHHHHHHHCC--CeEEEEecCCCCCCHHHHHhccchhH--HhcCc-ccCCccceeecc-----c
Confidence            47899999999999999999999999  99999999999999888886332110  00000 000111111111     1


Q ss_pred             chhhhhhchHHHHHHHHHHHHhccCCCCEEEEeCCCCCChhHHHHhhhcCCCeEEEEeCCCcchH
Q psy14655         81 KSAAIWRGLMVMQALNKLTVQVQWGPCDILFIDTPPGTGDTHLSLIQNLFIDTAIIITIPDTMSL  145 (261)
Q Consensus        81 ~~~~~~~~~~~~~~l~~~l~~l~~~~yd~IiiD~~~~~~~~~~~~~~~~~ad~viiv~~~~~~s~  145 (261)
                      .......+......|.+++..+. .++||||||||++-+.....+...  ||.++.|+..+..++
T Consensus        74 ~~~v~~~~~~~~~~L~q~l~~l~-~~~DfLVID~PGtd~~lsr~Ahs~--ADtLiTPlNdSfvDf  135 (261)
T PF09140_consen   74 QASVWEGENVEDKRLEQALADLE-GDLDFLVIDTPGTDDRLSRVAHSM--ADTLITPLNDSFVDF  135 (261)
T ss_dssp             HHHTTS-HHHHHHHHHHHHHHHH-HH-SEEEEEE-SSS-HHHHHHHHT---SEEEEEEESSHHHH
T ss_pred             ccccccCcchhHHHHHHHHHHHh-cCCCEEEEeCCCCCcHHHHHHHHh--CCEEEccCchhHHhH
Confidence            11111222233457888888887 899999999996655555555554  999999988776554

Correct positioning of the division plane is a prerequisite for the generation of daughter cells with a normal chromosome complement. In Caulobacter crescentus MipZ, an essential protein, coordinates and regulates the assembly of the FtsZ cytokinetic ring during cell division. MipZ, forms a complex with the partitioning protein ParB near the origin of replication and localizes with the duplicated origin regions to the cell poles. MipZ also directly interferes with FtsZ polymerisation, thereby restricting FtsZ ring formation to mid-cell, the region of lowest MipZ concentration. In eukaryotes members of this entry belong to the Mrp/NBP35 ATP-binding protein family, and specifically the NUBP2/CFD1 subfamily. This includes the cytosolic Fe-S cluster assembly factor Cfd1, which is a component of the cytosolic iron-sulphur (Fe/S) protein assembly machinery. This protein is required for maturation of extra-mitochondrial Fe/S proteins. It may bind and transfer a labile 4Fe-4S cluster to target apoproteins. Cfd1 is also required for biogenesis and export of both ribosomal subunits, suggesting a role in assembly of the Fe/S clusters in RLI1, a protein which performs rRNA processing and ribosome export. ; PDB: 2XIT_B 2XJ4_A 2XJ9_A.

>COG4963 CpaE Flp pilus assembly protein, ATPase CpaE [Intracellular trafficking and secretion]

Probab=99.78  E-value=3e-18  Score=144.82  Aligned_cols=211  Identities=20%  Similarity=0.267  Sum_probs=151.1

Q ss_pred             CcccCCCCCcHHHHHHHHHHHHHhcCCCCeEEEEecCCCCCCcccccCCCCCCCCCcC------------CccccccccC
Q psy14655          1 MIASSKGGVGKSTTTVNLATAMKICYPDKEIGILDADVFGPSIPILMNLPDTPLLNKD------------NLMIPLVNYG   68 (261)
Q Consensus         1 ~v~s~KGGvGKTT~a~~lA~~la~~g~~~~VllvD~D~~~~~~~~~~~~~~~~~~~~~------------~~~~~~~~~~   68 (261)
                      +|++.|||+|-||+|.|+|+.++..- +..|+++|+|.+.++...+|+.+...++.+.            +..-....++
T Consensus       108 afl~akgg~g~stlA~n~a~~l~~~~-~~~v~L~DL~~~~G~~~~~l~~~~a~~i~~~~~~peRLDq~lld~~~~~~~~~  186 (366)
T COG4963         108 AFLGAKGGVGTSTLAHNLAKGLAILS-GAAVLLVDLDLQGGTAALYLDQDPAFGIAEAVKQPERLDQVLLDSLLTRLASG  186 (366)
T ss_pred             EEEeecCCcchHHHHHHHHHHHhhhc-CCcEEEEEcCCCCcchhhhcCCCchhhHHHHhcCHHHhhHHHHHHHHhccCCC
Confidence            47899999999999999999999754 4999999999999988888888766544321            0111122345


Q ss_pred             ceeecCCCCcccchhhhhhchHHHHHHHHHHHHhccCCCCEEEEeCCCCCChhHHHHhhhcCCCeEEEEeCCCcchHHHH
Q psy14655         69 VKCLSMGNLITEKSAAIWRGLMVMQALNKLTVQVQWGPCDILFIDTPPGTGDTHLSLIQNLFIDTAIIITIPDTMSLQVA  148 (261)
Q Consensus        69 l~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~l~~~~yd~IiiD~~~~~~~~~~~~~~~~~ad~viiv~~~~~~s~~~~  148 (261)
                      +.+++.-...      ..........+..++..++ ..||+||+|.|..+.++....+..  +|.+++|++++..+++.+
T Consensus       187 l~ll~a~~~~------~~~~d~~~~~~~~Ll~~~~-~~~~~vV~Dlp~~~~~~t~~vL~~--Sd~iviv~e~sl~slR~a  257 (366)
T COG4963         187 LKLLAAPTEL------AKNYDLKTGAVERLLDLLR-GSFDFVVVDLPNIWTDWTRQVLSG--SDEIVIVAEPSLASLRNA  257 (366)
T ss_pred             ceeecCCcch------hhhcccccchHHHHHHHhh-ccCCeEEEcCCCccchHHHHHHhc--CCeEEEEecccHHHHHHH
Confidence            5555532222      1122233445777888888 899999999998888999888888  999999999999999999


Q ss_pred             HHHHHHHHhCC--CCeEEEEEcCCCCCCCCCCcccccccchhHHHHHhhhhhhhhhhhhcccccccccCcchhhhhhhcc
Q psy14655        149 QRGYTMFKKLN--IPVAGLVMNMNSVLCPSCNHMFELYENNLHQFEAKNFLKSYERKLYGIHMWNFLIPLCNLIIKIRNV  226 (261)
Q Consensus       149 ~~~~~~l~~~~--~~~~giv~N~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~ip~~~~~~~~~~~  226 (261)
                      +++++.+++.+  .+....|+|++....+.         + ...          ..+.+|.+.+. .+|+       +..
T Consensus       258 k~lld~l~~~r~~~~~p~lv~n~~~~~~~~---------~-~~d----------l~~~~~i~~~~-~~p~-------d~~  309 (366)
T COG4963         258 KELLDELKRLRPNDPKPILVLNRVGVPKRP---------E-PSD----------LEEILGIESLL-VLPF-------DPA  309 (366)
T ss_pred             HHHHHHHHHhCCCCCCceEEeeecCCCCCC---------C-HHH----------HHHHhCCchhc-cccC-------Cch
Confidence            99999999864  44788999996532111         1 111          22335555444 3772       333


Q ss_pred             ccCCCCCCCCcchhhhhhhhccc
Q psy14655        227 AYGNSHGHGNTVHHHHVLNLIGE  249 (261)
Q Consensus       227 ~~~~a~~~g~~v~~~~~~~~~~~  249 (261)
                      .+.+|.++|+++.+.++.+..++
T Consensus       310 ~~~~A~n~g~~l~E~~~~~~~~k  332 (366)
T COG4963         310 LFGDAANNGRMLSEVDPGSPAAK  332 (366)
T ss_pred             hhhhhhccCccccccCCCChHHH
Confidence            44789999999998887765543

>PF13614 AAA_31: AAA domain; PDB: 2VED_B 2PH1_A 3EA0_B 3FKQ_A 3KB1_B 1ION_A 3LA6_H 3BFV_B 3CIO_D

Probab=99.77  E-value=4.1e-19  Score=136.94  Aligned_cols=135  Identities=23%  Similarity=0.364  Sum_probs=96.6

Q ss_pred             CcccCCCCCcHHHHHHHHHHHHHhcCCCCeEEEEecCCCCCCcccccCCCCCCCCCc----C-------------Ccccc
Q psy14655          1 MIASSKGGVGKSTTTVNLATAMKICYPDKEIGILDADVFGPSIPILMNLPDTPLLNK----D-------------NLMIP   63 (261)
Q Consensus         1 ~v~s~KGGvGKTT~a~~lA~~la~~g~~~~VllvD~D~~~~~~~~~~~~~~~~~~~~----~-------------~~~~~   63 (261)
                      +|+|.+||+||||+|.|||..||+.|  ++|++||+|...+.+..+++.+...++.+    .             +.+.+
T Consensus         4 ~v~s~~~g~G~t~~a~~lA~~la~~~--~~Vllid~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~~~~~~~~l~~~~~~   81 (157)
T PF13614_consen    4 AVWSPKGGVGKTTLALNLAAALARKG--KKVLLIDFDFFSPSLSRLLGIEPERGLSDLLYDKKSGDENLSERDLSDHIYS   81 (157)
T ss_dssp             EEEESSTTSSHHHHHHHHHHHHHHTT--T-EEEEE--SSS-HHHHHTTSSSSSSHHHHHTTSHC--C-HHHSHHHHHCEE
T ss_pred             EEECCCCCCCHHHHHHHHHHHHHhcC--CCeEEEECCCCCCCcccccccccccchhhHhcCccccccchhhhhHHHHhee
Confidence            47899999999999999999999999  99999999999998888888876533321    0             11111


Q ss_pred             ccccCceeecCCCCcccchhhhhhchHHHHHHHHHHHHhccCCCCEEEEeCCCCCChhHHH-HhhhcCCCeEEEEeCCCc
Q psy14655         64 LVNYGVKCLSMGNLITEKSAAIWRGLMVMQALNKLTVQVQWGPCDILFIDTPPGTGDTHLS-LIQNLFIDTAIIITIPDT  142 (261)
Q Consensus        64 ~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~l~~~~yd~IiiD~~~~~~~~~~~-~~~~~~ad~viiv~~~~~  142 (261)
                      ....++.+++.........      ....+.+..+++.++ +.||+||+|+|+........ ++..  ||.+++|+.++.
T Consensus        82 ~~~~~l~~~~~~~~~~~~~------~~~~~~~~~li~~l~-~~yd~IivD~~~~~~~~~~~~~l~~--~D~ii~v~~~~~  152 (157)
T PF13614_consen   82 DAHDGLDLLPPPSSPEDLE------ELTPEDVEELIDALK-EHYDYIIVDLPSSLSNPDTQAVLEL--ADKIILVVRPDV  152 (157)
T ss_dssp             ESSTTEEEE--SSSSHHHH------HHTSHHHHHHHHHHH-HHSSEEEEEEESTTTHTHHHHHHTT--HSEEEEEEETTH
T ss_pred             ccCCCeEEecCCCCCCchh------hcCHHHHHHHHHHHH-HcCCEEEEECcCCccHHHHHHHHHH--CCEEEEEECCCc
Confidence            1235677776544332211      123456888888888 79999999999998877654 5655  999999999998


Q ss_pred             chHH
Q psy14655        143 MSLQ  146 (261)
Q Consensus       143 ~s~~  146 (261)
                      .+++
T Consensus       153 ~s~~  156 (157)
T PF13614_consen  153 TSIR  156 (157)
T ss_dssp             HHHH
T ss_pred             cccc
Confidence            8875

>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=99.74  E-value=1.6e-17  Score=140.76  Aligned_cols=164  Identities=22%  Similarity=0.249  Sum_probs=105.4

Q ss_pred             CcccCCCCCcHHHHHHHHHHHHHhcCCCCeEEEEecCCCCCCcccccCCCCCCCCCcCCccccccccCceeecCCCCc--
Q psy14655          1 MIASSKGGVGKSTTTVNLATAMKICYPDKEIGILDADVFGPSIPILMNLPDTPLLNKDNLMIPLVNYGVKCLSMGNLI--   78 (261)
Q Consensus         1 ~v~s~KGGvGKTT~a~~lA~~la~~g~~~~VllvD~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~--   78 (261)
                      +|+++||||||||+|+.+|..+|+.|  +|||++..||.. ++...|+.+-.......     ...+|+..+..+...  
T Consensus         4 ~~~~GKGGVGKTT~aaA~A~~~A~~G--~rtLlvS~Dpa~-~L~d~l~~~~~~~~~~v-----~~~~~L~a~eid~~~~~   75 (305)
T PF02374_consen    4 LFFGGKGGVGKTTVAAALALALARRG--KRTLLVSTDPAH-SLSDVLGQKLGGEPTKV-----EGVPNLSAMEIDPEAEL   75 (305)
T ss_dssp             EEEEESTTSSHHHHHHHHHHHHHHTT--S-EEEEESSTTT-HHHHHHTS--BSS-EEE-----TTCSSEEEEE--HHHHH
T ss_pred             EEEecCCCCCcHHHHHHHHHHHhhCC--CCeeEeecCCCc-cHHHHhCCcCCCCCeEe-----cCCCCceeeecCHHHHH
Confidence            37899999999999999999999999  999999999996 67788887422111000     001222222111000  


Q ss_pred             ---------------c--------cchhhhhhchHHHHHHHHHHHHhccCCCCEEEEeCCCCCChhH-------------
Q psy14655         79 ---------------T--------EKSAAIWRGLMVMQALNKLTVQVQWGPCDILFIDTPPGTGDTH-------------  122 (261)
Q Consensus        79 ---------------~--------~~~~~~~~~~~~~~~l~~~l~~l~~~~yd~IiiD~~~~~~~~~-------------  122 (261)
                                     .        .......++....-.+..+.+.+...+||+||+||||.-+-.-             
T Consensus        76 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~PG~~E~~~l~~l~~~~~~~~~D~IVvDt~ptg~tLrlL~lP~~l~~~l~  155 (305)
T PF02374_consen   76 EEYWEEVQKDLSSLLPLIGLERILDEELSSLPGLDELAALLRLADLLESGEYDLIVVDTPPTGHTLRLLSLPERLRWWLD  155 (305)
T ss_dssp             HHHHHHHHHGCSTCHHCHHHHHHHHHHTTSSTTHHHHHHHHHHHHHHHHCSTSEEEEESSSSHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHhhhccchhhhhhHHHHHHHHhcCCcHHHHHHHHHHHHHHHhCCCCEEEECCCCcHHHHHHHhHHHHHHHHHH
Confidence                           0        0000011334444455666666655899999999998543000             


Q ss_pred             -------------------------------------------HHHhhhcCCCeEEEEeCCCcchHHHHHHHHHHHHhCC
Q psy14655        123 -------------------------------------------LSLIQNLFIDTAIIITIPDTMSLQVAQRGYTMFKKLN  159 (261)
Q Consensus       123 -------------------------------------------~~~~~~~~ad~viiv~~~~~~s~~~~~~~~~~l~~~~  159 (261)
                                                                 ...+.......+++|+.|+..++..+.++++.+...+
T Consensus       156 ~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~L~dp~~T~~~lV~~pE~l~i~Et~r~~~~L~~~g  235 (305)
T PF02374_consen  156 RLLKLRRKIRSLARPLSGLGLGAVPLDEILEELEEMRERLERLRELLRDPERTSFRLVTNPEPLAIAETERLLTELKLYG  235 (305)
T ss_dssp             HHHHHHHCHHHHHHHHCHSHCCHHHHHHHHHHHHHHHHHHHHHHHHHTSTTTEEEEEEEESSHHHHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHhhcchhhhhhcccccccchHHHHHHHHHHHHHHHHHHHHhcCCCCcEEEEEecCCcchHHHHHHHHHHHHhcC
Confidence                                                       0111111123589999999999999999999999999


Q ss_pred             CCeEEEEEcCCCC
Q psy14655        160 IPVAGLVMNMNSV  172 (261)
Q Consensus       160 ~~~~giv~N~~~~  172 (261)
                      ++.-++|+|++-+
T Consensus       236 i~v~~vVvNrvlp  248 (305)
T PF02374_consen  236 IPVDAVVVNRVLP  248 (305)
T ss_dssp             -EEEEEEEEEE-T
T ss_pred             CccCeEEEEcccc
Confidence            9999999999643

...

>cd03114 ArgK-like The function of this protein family is unkown

Probab=99.69  E-value=1.1e-15  Score=116.33  Aligned_cols=144  Identities=18%  Similarity=0.216  Sum_probs=89.7

Q ss_pred             cccCCCCCcHHHHHHHHHHHHHhcCCCCeEEEEecCCCCCCc-ccccCCCCCCCCCcCCccccccccCceeecCCCCccc
Q psy14655          2 IASSKGGVGKSTTTVNLATAMKICYPDKEIGILDADVFGPSI-PILMNLPDTPLLNKDNLMIPLVNYGVKCLSMGNLITE   80 (261)
Q Consensus         2 v~s~KGGvGKTT~a~~lA~~la~~g~~~~VllvD~D~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~   80 (261)
                      .+.+|||+||||++.+++..+.+.|  .+|+++|+|++.+.. ...++-  ...+.  +... .....+..+|.+.....
T Consensus         3 ~~~G~~GsGKTt~~~~l~~~~~~~g--~~v~ii~~D~~~~~~~~~~~~~--~~~~~--~~~~-~~~~~~~~~~~~~~~~~   75 (148)
T cd03114           3 GITGVPGAGKSTLIDALITALRARG--KRVAVLAIDPSSPFSGGAILGD--RIRME--RHAS-DPGVFIRSLATRGFLGG   75 (148)
T ss_pred             EEECCCCCcHHHHHHHHHHHHHHCC--CEEEEEEeCCCCCCcccchhcC--ceEhh--heec-CCCceEEEcCCcCcccc
Confidence            3568999999999999999999999  999999999876422 111211  00110  1111 11112344444422211


Q ss_pred             chhhhhhchHHHHHHHHHHHHhccCCCCEEEEeCCCCCChhHHHHhhhcCCCeEEEEeCCCcchHHHHHHHHHHHHhCCC
Q psy14655         81 KSAAIWRGLMVMQALNKLTVQVQWGPCDILFIDTPPGTGDTHLSLIQNLFIDTAIIITIPDTMSLQVAQRGYTMFKKLNI  160 (261)
Q Consensus        81 ~~~~~~~~~~~~~~l~~~l~~l~~~~yd~IiiD~~~~~~~~~~~~~~~~~ad~viiv~~~~~~s~~~~~~~~~~l~~~~~  160 (261)
                      ...          ...+.++.++..+||+||||| +|.+.....++..  ||.+++|+.|+..+-..+.+. .+++..+.
T Consensus        76 ~~~----------~~~~~~~~~~~~~~D~iiIDt-aG~~~~~~~~~~~--Ad~~ivv~tpe~~D~y~~~k~-~~~~~~~~  141 (148)
T cd03114          76 LSR----------ATPEVIRVLDAAGFDVIIVET-VGVGQSEVDIASM--ADTTVVVMAPGAGDDIQAIKA-GIMEIADI  141 (148)
T ss_pred             cch----------hHHHHHHHHHhcCCCEEEEEC-CccChhhhhHHHh--CCEEEEEECCCchhHHHHhhh-hHhhhcCE
Confidence            111          123333444335899999999 6777776667766  999999999996555555553 45555543


Q ss_pred             CeEEEEEcCC
Q psy14655        161 PVAGLVMNMN  170 (261)
Q Consensus       161 ~~~giv~N~~  170 (261)
                          +++|++
T Consensus       142 ----~~~~k~  147 (148)
T cd03114         142 ----VVVNKA  147 (148)
T ss_pred             ----EEEeCC
Confidence                788874

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.

>COG0003 ArsA Predicted ATPase involved in chromosome partitioning [Cell division and chromosome partitioning]

Probab=99.64  E-value=3.1e-15  Score=126.64  Aligned_cols=169  Identities=22%  Similarity=0.258  Sum_probs=110.7

Q ss_pred             CcccCCCCCcHHHHHHHHHHHHHhcCCCCeEEEEecCCCCCCcccccCCC--CCC-----CCCcCCc-----cccc----
Q psy14655          1 MIASSKGGVGKSTTTVNLATAMKICYPDKEIGILDADVFGPSIPILMNLP--DTP-----LLNKDNL-----MIPL----   64 (261)
Q Consensus         1 ~v~s~KGGvGKTT~a~~lA~~la~~g~~~~VllvD~D~~~~~~~~~~~~~--~~~-----~~~~~~~-----~~~~----   64 (261)
                      .++++||||||||+|+.+|..+|+.|  ++||+|-.||.+ ++...|+.+  ..+     ++...+.     +...    
T Consensus         5 v~f~GKGGVGKTT~aaA~A~~lA~~g--~kvLlvStDPAh-sL~d~f~~elg~~~~~I~~nL~a~eiD~~~~l~ey~~~v   81 (322)
T COG0003           5 VFFTGKGGVGKTTIAAATAVKLAESG--KKVLLVSTDPAH-SLGDVFDLELGHDPRKVGPNLDALELDPEKALEEYWDEV   81 (322)
T ss_pred             EEEecCCcccHHHHHHHHHHHHHHcC--CcEEEEEeCCCC-chHhhhccccCCchhhcCCCCceeeecHHHHHHHHHHHH
Confidence            37899999999999999999999999  999999999996 677888773  111     1100000     0000    


Q ss_pred             cccCceeecCCC--CcccchhhhhhchHHHHHHHHHHHHhccCCCCEEEEeCCCCCChh------------HHH------
Q psy14655         65 VNYGVKCLSMGN--LITEKSAAIWRGLMVMQALNKLTVQVQWGPCDILFIDTPPGTGDT------------HLS------  124 (261)
Q Consensus        65 ~~~~l~~~~~~~--~~~~~~~~~~~~~~~~~~l~~~l~~l~~~~yd~IiiD~~~~~~~~------------~~~------  124 (261)
                      ...--..++.+.  ..........++....-.+.++.+.+...+||+||+||+|.-.-.            ...      
T Consensus        82 ~~~~~~~~~~~~l~~~~~~e~~~~PGidE~~~l~~i~e~~~~~~yD~IV~DtaPTG~TLRlL~lP~~~~~~~~~~~~~~~  161 (322)
T COG0003          82 KDYLARLLRTRGLGGIYADELATLPGIDEALALLKILEYYVSGEYDVIVVDTAPTGHTLRLLSLPEVLGWYLEKLFKPRR  161 (322)
T ss_pred             HHHHHhhccccccchhHHHHHhhCCCHHHHHHHHHHHHHHhccCCCEEEEcCCChHHHHHHhccHHHHHHHHHhhhhhHH
Confidence            000001111111  111233344566667777888888887788999999999854300            000      


Q ss_pred             -Hh--------------------------------------hhcCCCeEEEEeCCCcchHHHHHHHHHHHHhCCCCeEEE
Q psy14655        125 -LI--------------------------------------QNLFIDTAIIITIPDTMSLQVAQRGYTMFKKLNIPVAGL  165 (261)
Q Consensus       125 -~~--------------------------------------~~~~ad~viiv~~~~~~s~~~~~~~~~~l~~~~~~~~gi  165 (261)
                       .+                                      ....-..+.+|..|+..++.++.+.++.+...+++.-++
T Consensus       162 ~~~~~~~~~~~~~~~~~~~~~~~~e~L~~~~~~~~~~~~~l~~~~~T~~~lV~~pe~l~l~e~~ra~~~l~~~~i~v~~v  241 (322)
T COG0003         162 KRMVKALKSLSTAAGSPLPDDAVLEALEELKERIADVREVLTNPDGTSFRLVSIPEKLSLYETKRAVERLSLYGIPVDAV  241 (322)
T ss_pred             HHHHHhhhhcccccCCcCcHHHHHHHHHHHHHHHHHHHHHhcCCCCCeEEEEecccccchHHHHHHHHHHHHcCCchhee
Confidence             00                                      000012357777899999999999999999999999999


Q ss_pred             EEcCCCC
Q psy14655        166 VMNMNSV  172 (261)
Q Consensus       166 v~N~~~~  172 (261)
                      ++|++.+
T Consensus       242 i~n~~~p  248 (322)
T COG0003         242 IVNKILP  248 (322)
T ss_pred             eeecccc
Confidence            9998664

>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=99.62  E-value=1.1e-15  Score=111.30  Aligned_cols=113  Identities=21%  Similarity=0.215  Sum_probs=76.6

Q ss_pred             cccCCCCCcHHHHHHHHHHHHHhcCCCCeEEEEecCCCCCCcccccCCCCCCCCCcCCccccccccCceeecCCCCcccc
Q psy14655          2 IASSKGGVGKSTTTVNLATAMKICYPDKEIGILDADVFGPSIPILMNLPDTPLLNKDNLMIPLVNYGVKCLSMGNLITEK   81 (261)
Q Consensus         2 v~s~KGGvGKTT~a~~lA~~la~~g~~~~VllvD~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~   81 (261)
                      ++++|||+||||++.++|..++++|  ++|++||+|+  +++...+.......              ..++-.+......
T Consensus         3 ~~~GkgG~GKTt~a~~la~~l~~~g--~~V~~id~D~--~~~~~~~~~~~~~~--------------~~~i~~g~~~~~~   64 (116)
T cd02034           3 AITGKGGVGKTTIAALLARYLAEKG--KPVLAIDADP--DDLPERLSVEVGEI--------------KLLLVMGMGRPGG   64 (116)
T ss_pred             EEECCCCCCHHHHHHHHHHHHHHCC--CcEEEEECCc--hhhHHHHhhccCCc--------------eEEEEecccccCC
Confidence            5678999999999999999999999  9999999999  23434443332110              0001111111111


Q ss_pred             hhhhhhchHHHHHHHHHHHHhccCCCCEEEEeCCCCCChhHHHHhhhcCCCeEEEE
Q psy14655         82 SAAIWRGLMVMQALNKLTVQVQWGPCDILFIDTPPGTGDTHLSLIQNLFIDTAIII  137 (261)
Q Consensus        82 ~~~~~~~~~~~~~l~~~l~~l~~~~yd~IiiD~~~~~~~~~~~~~~~~~ad~viiv  137 (261)
                      ......   ....+++++.++...+|||+|+||++|+++....+...  +|.+++|
T Consensus        65 ~g~~~~---~n~~~~~~l~~~~~~~~~~vivDt~ag~e~~~~~~~~~--~d~vv~v  115 (116)
T cd02034          65 EGCYCP---ENALLNALLRHLVLTRDEQVVVDTEAGLEHLGRGTAEG--VDLLVVV  115 (116)
T ss_pred             CCCEeh---hhHHHHHHHHHeEccCCCEEEEecHHHHHHHHhhcccc--CCEEEEe
Confidence            111111   01267888888743899999999999999988887776  8988886

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.

>KOG2825|consensus

Probab=99.58  E-value=9.3e-15  Score=116.38  Aligned_cols=166  Identities=20%  Similarity=0.226  Sum_probs=106.8

Q ss_pred             cccCCCCCcHHHHHHHHHHHHHhcCCCCeEEEEecCCCCCCcccccCCCC--CCCC--CcCCccccccccCcee--ec--
Q psy14655          2 IASSKGGVGKSTTTVNLATAMKICYPDKEIGILDADVFGPSIPILMNLPD--TPLL--NKDNLMIPLVNYGVKC--LS--   73 (261)
Q Consensus         2 v~s~KGGvGKTT~a~~lA~~la~~g~~~~VllvD~D~~~~~~~~~~~~~~--~~~~--~~~~~~~~~~~~~l~~--~~--   73 (261)
                      |+++||||||||.++.||..||+.+  .+||+|-.||.. +++..|+.+=  .+..  ..++...-...+++.+  ++  
T Consensus        23 fVGGKGGVGKTTcs~sLAvqla~~r--~~vLiISTDPAH-NlSDAF~qkftk~pt~V~Gf~nLfAMEIDp~~e~~~~~~m   99 (323)
T KOG2825|consen   23 FVGGKGGVGKTTCSCSLAVQLAKVR--ESVLIISTDPAH-NLSDAFSQKFTKTPTKVEGFENLFAMEIDPNVEMGDMPEM   99 (323)
T ss_pred             EEcCcCCcCccchhhHHHHHHhccC--CceEEeecCccc-chHHHHHHHhcCCCccccChhhheeeecCCchhhhhhHHH
Confidence            7899999999999999999999999  999999999997 4555554321  1110  0000000000011000  00  


Q ss_pred             ----------CCCCcccchhhhhhchHHHHHHHHHHHHhccCCCCEEEEeCCCCCChhH---------------------
Q psy14655         74 ----------MGNLITEKSAAIWRGLMVMQALNKLTVQVQWGPCDILFIDTPPGTGDTH---------------------  122 (261)
Q Consensus        74 ----------~~~~~~~~~~~~~~~~~~~~~l~~~l~~l~~~~yd~IiiD~~~~~~~~~---------------------  122 (261)
                                .|...-.......++.+..-.+.+.+..++.-+||.||+||.|.-. ..                     
T Consensus       100 ~~~~~~n~~~~g~g~l~e~~~~~Pgideamsfae~~klvk~~~F~~vVFDTAPTGH-TLRlL~fP~~lek~lgKl~~l~~  178 (323)
T KOG2825|consen  100 FGNAANNEGSDGKGMLQELANAFPGIDEAMSFAEVMKLVKGMNFDVVVFDTAPTGH-TLRLLQFPTTLEKGLGKLLSLKN  178 (323)
T ss_pred             hhcccccccccchhHHHHHHhcCCChhHHHhHHHHHHHhhccccceEEeccCCCcc-eehhhccchHHHHHHHHHHHHHH
Confidence                      0000001111222444555567777777876789999999998432 11                     


Q ss_pred             -------------------------------------HHHhhhcCCCeEEEEeCCCcchHHHHHHHHHHHHhCCCCeEEE
Q psy14655        123 -------------------------------------LSLIQNLFIDTAIIITIPDTMSLQVAQRGYTMFKKLNIPVAGL  165 (261)
Q Consensus       123 -------------------------------------~~~~~~~~ad~viiv~~~~~~s~~~~~~~~~~l~~~~~~~~gi  165 (261)
                                                           ...+....+...|+|..++..|+.+++++++.+.+.+++...+
T Consensus       179 k~~pm~sq~~sm~g~~~~~~~~l~~kle~~~~~i~~vn~qFkdpd~TtFVcVcI~eflslyEteRliqeL~k~~idthnI  258 (323)
T KOG2825|consen  179 KIGPMLSQMGSMFGMEDAGADDLAGKLEELLEVIEKVNEQFKDPDCTTFVCVCIAEFLSLYETERLIQELAKQGIDTHNI  258 (323)
T ss_pred             HHHHHHHHHhhhhccccCCHHHHHHHHHHHHHHHHHHHHHcCCCCCceEEEEEHHHHHhHHHHHHHHHHHHhcCCcccce
Confidence                                                 0001111155678899999999999999999999999999999


Q ss_pred             EEcCCC
Q psy14655        166 VMNMNS  171 (261)
Q Consensus       166 v~N~~~  171 (261)
                      |+|+.-
T Consensus       259 IVNQLL  264 (323)
T KOG2825|consen  259 IVNQLL  264 (323)
T ss_pred             eeeecc
Confidence            999754

>TIGR00347 bioD dethiobiotin synthase

Probab=99.53  E-value=3.5e-13  Score=104.84  Aligned_cols=151  Identities=15%  Similarity=0.152  Sum_probs=94.0

Q ss_pred             cccCCCCCcHHHHHHHHHHHHHhcCCCCeEEEEecCCCCCC--------cccccCCCCCCCCCcCCccccccccCceeec
Q psy14655          2 IASSKGGVGKSTTTVNLATAMKICYPDKEIGILDADVFGPS--------IPILMNLPDTPLLNKDNLMIPLVNYGVKCLS   73 (261)
Q Consensus         2 v~s~KGGvGKTT~a~~lA~~la~~g~~~~VllvD~D~~~~~--------~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~   73 (261)
                      |++..+|+||||++.+||.+|+++|  +||.++..-.....        +...++.....  .      ..   +. +..
T Consensus         2 I~~t~~~~GKT~va~~L~~~l~~~g--~~V~~~kP~~~~~~~~d~d~~~i~~~~~~~~~~--~------~~---~~-~~~   67 (166)
T TIGR00347         2 VTGTDTGVGKTVASSALAAKLKKAG--YSVGYYKPVQTGIEKTNSDALLLQNISGTALDW--D------EV---NP-YAF   67 (166)
T ss_pred             eecCCCCccHHHHHHHHHHHHHHCC--CcEEEEEeeeeCCCCCchHHHHHHHHcCCCCch--h------cc---CC-eee
Confidence            6789999999999999999999999  99999753332211        00011110000  0      00   00 000


Q ss_pred             CCCCcccchhhhhhchHHHHHHHHHHHHhccCCCCEEEEeCCCCCCh------hHHHHhhhcCCCeEEEEeCCCcchHHH
Q psy14655         74 MGNLITEKSAAIWRGLMVMQALNKLTVQVQWGPCDILFIDTPPGTGD------THLSLIQNLFIDTAIIITIPDTMSLQV  147 (261)
Q Consensus        74 ~~~~~~~~~~~~~~~~~~~~~l~~~l~~l~~~~yd~IiiD~~~~~~~------~~~~~~~~~~ad~viiv~~~~~~s~~~  147 (261)
                      .....+...............+.+.++.+. ++||+||||+|++...      .....+... .+.+|+|+.+...++..
T Consensus        68 ~~~~~p~~~~~~~~~~~~~~~i~~~~~~l~-~~~D~viid~~g~~~~~~~~~~~~~dl~~~~-~~~vilV~~~~~~~~~~  145 (166)
T TIGR00347        68 ALPLSPHIAADQEGRPIDLEELSKHLRTLE-QKYDFVLVEGAGGLCVPITEEYTTADLIKLL-QLPVILVVRVKLGTINH  145 (166)
T ss_pred             CCCCChHHHHHHhCCCCCHHHHHHHHHHHH-hcCCEEEEEcCCccccCCCCCCcHHHHHHHh-CCCEEEEECCCCcHHHH
Confidence            110000000110010122234677777777 8999999999977532      122222222 66799999999999999


Q ss_pred             HHHHHHHHHhCCCCeEEEEEc
Q psy14655        148 AQRGYTMFKKLNIPVAGLVMN  168 (261)
Q Consensus       148 ~~~~~~~l~~~~~~~~giv~N  168 (261)
                      +....+.+++.+.++.|+|+|
T Consensus       146 ~~~~~~~l~~~~~~i~gvv~N  166 (166)
T TIGR00347       146 TLLTVEHARQTGLTLAGVILN  166 (166)
T ss_pred             HHHHHHHHHHCCCCeEEEEeC
Confidence            999999999999999999998

Dethiobiotin synthase is involved in biotin biosynthesis and catalyses the reaction (CO2 + 7,8-diaminononanoate + ATP = dethiobiotin + phosphate + ADP). The enzyme binds ATP (see motif in first 12 residues of the SEED alignment) and requires magnesium as a co-factor.

>cd01983 Fer4_NifH The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain

Probab=99.52  E-value=1.7e-13  Score=96.42  Aligned_cols=91  Identities=35%  Similarity=0.515  Sum_probs=75.6

Q ss_pred             cccCCCCCcHHHHHHHHHHHHHhcCCCCeEEEEecCCCCCCcccccCCCCCCCCCcCCccccccccCceeecCCCCcccc
Q psy14655          2 IASSKGGVGKSTTTVNLATAMKICYPDKEIGILDADVFGPSIPILMNLPDTPLLNKDNLMIPLVNYGVKCLSMGNLITEK   81 (261)
Q Consensus         2 v~s~KGGvGKTT~a~~lA~~la~~g~~~~VllvD~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~   81 (261)
                      ++++++|+||||++.++|..|++.|  ++|+++|                                              
T Consensus         3 ~~~g~~G~Gktt~~~~l~~~l~~~g--~~v~~~~----------------------------------------------   34 (99)
T cd01983           3 VVTGKGGVGKTTLAANLAAALAKRG--KRVLLID----------------------------------------------   34 (99)
T ss_pred             EEECCCCCCHHHHHHHHHHHHHHCC--CeEEEEC----------------------------------------------
Confidence            4567789999999999999999999  9999999                                              


Q ss_pred             hhhhhhchHHHHHHHHHHHHhccCCCCEEEEeCCCCCChhH---HHHhhhcCCCeEEEEeCCCcchHHHHHHHHHHHH--
Q psy14655         82 SAAIWRGLMVMQALNKLTVQVQWGPCDILFIDTPPGTGDTH---LSLIQNLFIDTAIIITIPDTMSLQVAQRGYTMFK--  156 (261)
Q Consensus        82 ~~~~~~~~~~~~~l~~~l~~l~~~~yd~IiiD~~~~~~~~~---~~~~~~~~ad~viiv~~~~~~s~~~~~~~~~~l~--  156 (261)
                                                |+||+|++++.+...   ......  +|.+++|+.++..++.......+...  
T Consensus        35 --------------------------d~iivD~~~~~~~~~~~~~~~~~~--~~~vi~v~~~~~~~~~~~~~~~~~~~~~   86 (99)
T cd01983          35 --------------------------DYVLIDTPPGLGLLVLLCLLALLA--ADLVIIVTTPEALAVLGARRLTEVVLEL   86 (99)
T ss_pred             --------------------------CEEEEeCCCCccchhhhhhhhhhh--CCEEEEecCCchhhHHHHHHHHHHHHHh
Confidence                                      999999999988776   455555  99999999999999999998864333  


Q ss_pred             -hCCCCeEEEEEc
Q psy14655        157 -KLNIPVAGLVMN  168 (261)
Q Consensus       157 -~~~~~~~giv~N  168 (261)
                       ..+....++++|
T Consensus        87 ~~~~~~~~~vv~N   99 (99)
T cd01983          87 AIEGLRPVGVVVN   99 (99)
T ss_pred             hccCCceEEEEeC
Confidence             234446777766

Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion.

>PF10609 ParA: ParA/MinD ATPase like; InterPro: IPR019591 This entry represents ATPases involved in plasmid partitioning []

Probab=99.46  E-value=3.3e-13  Score=90.03  Aligned_cols=79  Identities=46%  Similarity=0.864  Sum_probs=63.8

Q ss_pred             CEEEEeCCCCCChhHHHHhhhcCCCeEEEEeCCCcchHHHHHHHHHHHHhCCCCeEEEEEcCCCCCCCCCCcccccccc
Q psy14655        108 DILFIDTPPGTGDTHLSLIQNLFIDTAIIITIPDTMSLQVAQRGYTMFKKLNIPVAGLVMNMNSVLCPSCNHMFELYEN  186 (261)
Q Consensus       108 d~IiiD~~~~~~~~~~~~~~~~~ad~viiv~~~~~~s~~~~~~~~~~l~~~~~~~~giv~N~~~~~~~~~~~~~~~~~~  186 (261)
                      ||+|+|+|||.++.....+...+.+..++|+.|...|...+.+.++++++.+.+++|+|-||....|+.|.+...+|.+
T Consensus         2 D~LiiD~PPGTgD~~l~~~~~~~~~g~ivVTTPq~la~~dv~r~~~~~~~~~vpilGvVENMs~~~Cp~Cg~~~~iFg~   80 (81)
T PF10609_consen    2 DYLIIDLPPGTGDEHLTLMQYLPIDGAIVVTTPQELALADVRRAIDMFRKLNVPILGVVENMSYFVCPHCGERIYIFGK   80 (81)
T ss_dssp             CEEEEE--SCSSSHHHHHHHHH--SEEEEEE-CCC--HHHHHHHHHHHHCTT-EEEEEEECT-EEE-TTT--EEETTTT
T ss_pred             CEEEEeCCCCCCcHHHHHHHhCCCCeEEEEeCCHHHHHHHHHHHHHHHHhcCCCcEEEEECCCccCCCCCCCeecCCCC
Confidence            8999999999999988888887789999999999999999999999999999999999999999999999999999874

It also contains cytosolic Fe-S cluster assembling factors, NBP35 and CFD1 which are required for biogenesis and export of both ribosomal subunits probably through assembling the ISCs in RLI1, a protein which performs rRNA processing and ribosome export [, , ].; PDB: 2PH1_A 3KB1_B.

>TIGR00064 ftsY signal recognition particle-docking protein FtsY

Probab=99.44  E-value=1.8e-12  Score=108.30  Aligned_cols=138  Identities=15%  Similarity=0.168  Sum_probs=81.2

Q ss_pred             CCCCCcHHHHHHHHHHHHHhcCCCCeEEEEecCCCCCCcc-cccCCCCCCCCCcCCccccccccCceeecCCCCcccchh
Q psy14655          5 SKGGVGKSTTTVNLATAMKICYPDKEIGILDADVFGPSIP-ILMNLPDTPLLNKDNLMIPLVNYGVKCLSMGNLITEKSA   83 (261)
Q Consensus         5 ~KGGvGKTT~a~~lA~~la~~g~~~~VllvD~D~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~   83 (261)
                      +++|+||||++++||..+++.|  ++|++||+|++..... .+....              ...++.+++.+....+   
T Consensus        79 G~~G~GKTTt~akLA~~l~~~g--~~V~li~~D~~r~~a~~ql~~~~--------------~~~~i~~~~~~~~~dp---  139 (272)
T TIGR00064        79 GVNGVGKTTTIAKLANKLKKQG--KSVLLAAGDTFRAAAIEQLEEWA--------------KRLGVDVIKQKEGADP---  139 (272)
T ss_pred             CCCCCcHHHHHHHHHHHHHhcC--CEEEEEeCCCCCHHHHHHHHHHH--------------HhCCeEEEeCCCCCCH---
Confidence            7999999999999999999999  9999999998653211 000000              0112333322211100   


Q ss_pred             hhhhchHHHHHHHHHHHHhccCCCCEEEEeCCCCCChhHH------HHhhhc------CCCeEEEEeCCCcchHHHHHHH
Q psy14655         84 AIWRGLMVMQALNKLTVQVQWGPCDILFIDTPPGTGDTHL------SLIQNL------FIDTAIIITIPDTMSLQVAQRG  151 (261)
Q Consensus        84 ~~~~~~~~~~~l~~~l~~l~~~~yd~IiiD~~~~~~~~~~------~~~~~~------~ad~viiv~~~~~~s~~~~~~~  151 (261)
                              .....+.++....++||+|||||||.......      ......      .+|.+++|++.+ .....+...
T Consensus       140 --------~~~~~~~l~~~~~~~~D~ViIDT~G~~~~d~~~~~el~~~~~~~~~~~~~~~~~~~LVl~a~-~~~~~~~~~  210 (272)
T TIGR00064       140 --------AAVAFDAIQKAKARNIDVVLIDTAGRLQNKVNLMDELKKIKRVIKKVDKDAPDEVLLVLDAT-TGQNALEQA  210 (272)
T ss_pred             --------HHHHHHHHHHHHHCCCCEEEEeCCCCCcchHHHHHHHHHHHHHHhcccCCCCceEEEEEECC-CCHHHHHHH
Confidence                    01122223332227899999999986642111      001111      178999999986 455555554


Q ss_pred             HHHHHhCCCCeEEEEEcCCCC
Q psy14655        152 YTMFKKLNIPVAGLVMNMNSV  172 (261)
Q Consensus       152 ~~~l~~~~~~~~giv~N~~~~  172 (261)
                      ....+..  +..|+|+|+.+.
T Consensus       211 ~~f~~~~--~~~g~IlTKlDe  229 (272)
T TIGR00064       211 KVFNEAV--GLTGIILTKLDG  229 (272)
T ss_pred             HHHHhhC--CCCEEEEEccCC
Confidence            4444444  458999999664

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.

>PRK13886 conjugal transfer protein TraL; Provisional

Probab=99.44  E-value=1.9e-12  Score=105.20  Aligned_cols=44  Identities=25%  Similarity=0.255  Sum_probs=39.6

Q ss_pred             CcccCCCCCcHHHHHHHHHHHHHhcCCCCeEEEEecCCCCCCcccc
Q psy14655          1 MIASSKGGVGKSTTTVNLATAMKICYPDKEIGILDADVFGPSIPIL   46 (261)
Q Consensus         1 ~v~s~KGGvGKTT~a~~lA~~la~~g~~~~VllvD~D~~~~~~~~~   46 (261)
                      +|.++||||||||+|++||.++++.|  ++|++||+||+++++..+
T Consensus         6 ~i~~~KGGvGKSt~a~~la~~l~~~g--~~vl~iD~D~~n~~~~~~   49 (241)
T PRK13886          6 MVLQGKGGVGKSFIAATIAQYKASKG--QKPLCIDTDPVNATFEGY   49 (241)
T ss_pred             EEecCCCCCcHHHHHHHHHHHHHhCC--CCEEEEECCCCCchhhhH
Confidence            36789999999999999999999999  999999999998765444

>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=99.40  E-value=8.1e-12  Score=97.82  Aligned_cols=142  Identities=15%  Similarity=0.180  Sum_probs=84.8

Q ss_pred             cccCCCCCcHHHHHHHHHHHHHhcCCCCeEEEEecCCCCCCcccccCCCCCCCCCcCCccccccccCceeecCCCCcccc
Q psy14655          2 IASSKGGVGKSTTTVNLATAMKICYPDKEIGILDADVFGPSIPILMNLPDTPLLNKDNLMIPLVNYGVKCLSMGNLITEK   81 (261)
Q Consensus         2 v~s~KGGvGKTT~a~~lA~~la~~g~~~~VllvD~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~   81 (261)
                      ++.++.|+||||++.++|..+++.|  .+|++||+|++.+.....+.....             ..++.+++.....   
T Consensus         4 ~~~G~~G~GKTt~~~~la~~~~~~g--~~v~~i~~D~~~~~~~~~l~~~~~-------------~~~~~~~~~~~~~---   65 (173)
T cd03115           4 LLVGLQGVGKTTTAAKLALYLKKKG--KKVLLVAADTYRPAAIEQLRVLGE-------------QVGVPVFEEGEGK---   65 (173)
T ss_pred             EEECCCCCCHHHHHHHHHHHHHHCC--CcEEEEEcCCCChHHHHHHHHhcc-------------cCCeEEEecCCCC---
Confidence            4568999999999999999999999  999999999987654332221000             1133333322111   


Q ss_pred             hhhhhhchHHHHHHHHHHHHhccCCCCEEEEeCCCCCCh--hHHHH----hhhcCCCeEEEEeCCCcchHHHHHHHHHHH
Q psy14655         82 SAAIWRGLMVMQALNKLTVQVQWGPCDILFIDTPPGTGD--THLSL----IQNLFIDTAIIITIPDTMSLQVAQRGYTMF  155 (261)
Q Consensus        82 ~~~~~~~~~~~~~l~~~l~~l~~~~yd~IiiD~~~~~~~--~~~~~----~~~~~ad~viiv~~~~~~s~~~~~~~~~~l  155 (261)
                              ...+.+.+.+......+||+||+|+++....  .....    ......|.+++|+++. ..........+..
T Consensus        66 --------~~~~~~~~~~~~~~~~~~d~viiDt~g~~~~~~~~l~~l~~l~~~~~~~~~~lVv~~~-~~~~~~~~~~~~~  136 (173)
T cd03115          66 --------DPVSIAKRAIEHAREENFDVVIVDTAGRLQIDENLMEELKKIKRVVKPDEVLLVVDAM-TGQDAVNQAKAFN  136 (173)
T ss_pred             --------CHHHHHHHHHHHHHhCCCCEEEEECcccchhhHHHHHHHHHHHhhcCCCeEEEEEECC-CChHHHHHHHHHH
Confidence                    1112233444433337899999999986531  11111    1111278899999874 3333333333333


Q ss_pred             HhCCCCeEEEEEcCCCC
Q psy14655        156 KKLNIPVAGLVMNMNSV  172 (261)
Q Consensus       156 ~~~~~~~~giv~N~~~~  172 (261)
                      +..+  ..++|+|+.+.
T Consensus       137 ~~~~--~~~viltk~D~  151 (173)
T cd03115         137 EALG--ITGVILTKLDG  151 (173)
T ss_pred             hhCC--CCEEEEECCcC
Confidence            4444  58999999663

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.

>PRK10867 signal recognition particle protein; Provisional

Probab=99.37  E-value=6.2e-12  Score=110.87  Aligned_cols=142  Identities=18%  Similarity=0.190  Sum_probs=86.5

Q ss_pred             cccCCCCCcHHHHHHHHHHHHHhc-CCCCeEEEEecCCCCCCcccccCCCCCCCCCcCCccccccccCceeecCCCCccc
Q psy14655          2 IASSKGGVGKSTTTVNLATAMKIC-YPDKEIGILDADVFGPSIPILMNLPDTPLLNKDNLMIPLVNYGVKCLSMGNLITE   80 (261)
Q Consensus         2 v~s~KGGvGKTT~a~~lA~~la~~-g~~~~VllvD~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~   80 (261)
                      ++.+..|+||||++++||.+|+++ |  ++|++||+|.+.+.....+..-.             ...++.+++.+.... 
T Consensus       104 ~~vG~~GsGKTTtaakLA~~l~~~~G--~kV~lV~~D~~R~aa~eQL~~~a-------------~~~gv~v~~~~~~~d-  167 (433)
T PRK10867        104 MMVGLQGAGKTTTAGKLAKYLKKKKK--KKVLLVAADVYRPAAIEQLKTLG-------------EQIGVPVFPSGDGQD-  167 (433)
T ss_pred             EEECCCCCcHHHHHHHHHHHHHHhcC--CcEEEEEccccchHHHHHHHHHH-------------hhcCCeEEecCCCCC-
Confidence            456799999999999999999998 8  99999999999875422221000             112344443321110 


Q ss_pred             chhhhhhchHHHHHHHHHHHHhccCCCCEEEEeCCCCCC--hhHHHH----hhhcCCCeEEEEeCCCcchHHHHHHHHHH
Q psy14655         81 KSAAIWRGLMVMQALNKLTVQVQWGPCDILFIDTPPGTG--DTHLSL----IQNLFIDTAIIITIPDTMSLQVAQRGYTM  154 (261)
Q Consensus        81 ~~~~~~~~~~~~~~l~~~l~~l~~~~yd~IiiD~~~~~~--~~~~~~----~~~~~ad~viiv~~~~~~s~~~~~~~~~~  154 (261)
                                ......+.++..+..+||+|||||++...  ......    ......+.+++|+++..  -.++....+.
T Consensus       168 ----------p~~i~~~a~~~a~~~~~DvVIIDTaGrl~~d~~lm~eL~~i~~~v~p~evllVlda~~--gq~av~~a~~  235 (433)
T PRK10867        168 ----------PVDIAKAALEEAKENGYDVVIVDTAGRLHIDEELMDELKAIKAAVNPDEILLVVDAMT--GQDAVNTAKA  235 (433)
T ss_pred             ----------HHHHHHHHHHHHHhcCCCEEEEeCCCCcccCHHHHHHHHHHHHhhCCCeEEEEEeccc--HHHHHHHHHH
Confidence                      11122344444443689999999998653  221111    11112678899988643  3444455555


Q ss_pred             HHhCCCCeEEEEEcCCCC
Q psy14655        155 FKKLNIPVAGLVMNMNSV  172 (261)
Q Consensus       155 l~~~~~~~~giv~N~~~~  172 (261)
                      +.+ .+++.|+|+|+.+.
T Consensus       236 F~~-~~~i~giIlTKlD~  252 (433)
T PRK10867        236 FNE-ALGLTGVILTKLDG  252 (433)
T ss_pred             HHh-hCCCCEEEEeCccC
Confidence            543 35668999999664

>PRK13768 GTPase; Provisional

Probab=99.36  E-value=6.6e-12  Score=104.08  Aligned_cols=40  Identities=20%  Similarity=0.179  Sum_probs=36.2

Q ss_pred             cccCCCCCcHHHHHHHHHHHHHhcCCCCeEEEEecCCCCCCc
Q psy14655          2 IASSKGGVGKSTTTVNLATAMKICYPDKEIGILDADVFGPSI   43 (261)
Q Consensus         2 v~s~KGGvGKTT~a~~lA~~la~~g~~~~VllvD~D~~~~~~   43 (261)
                      ++.++||+||||++.+++.+++.+|  ++|++||+||+...+
T Consensus         6 ~v~G~~G~GKTt~~~~~~~~l~~~g--~~v~~i~~D~~~~~~   45 (253)
T PRK13768          6 FFLGTAGSGKTTLTKALSDWLEEQG--YDVAIVNLDPAVEYL   45 (253)
T ss_pred             EEECCCCccHHHHHHHHHHHHHhcC--CceEEEECCCccccC
Confidence            5678899999999999999999999  999999999986443

>TIGR00959 ffh signal recognition particle protein

Probab=99.32  E-value=1.5e-11  Score=108.46  Aligned_cols=142  Identities=17%  Similarity=0.206  Sum_probs=84.5

Q ss_pred             cccCCCCCcHHHHHHHHHHHHH-hcCCCCeEEEEecCCCCCCcccccCCCCCCCCCcCCccccccccCceeecCCCCccc
Q psy14655          2 IASSKGGVGKSTTTVNLATAMK-ICYPDKEIGILDADVFGPSIPILMNLPDTPLLNKDNLMIPLVNYGVKCLSMGNLITE   80 (261)
Q Consensus         2 v~s~KGGvGKTT~a~~lA~~la-~~g~~~~VllvD~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~   80 (261)
                      ++++..|+||||++++||.+++ +.|  ++|++||+|.+.+.....+....             ...++.+++.+....+
T Consensus       103 ~~vG~~GsGKTTtaakLA~~l~~~~g--~kV~lV~~D~~R~~a~~QL~~~a-------------~~~gvp~~~~~~~~~P  167 (428)
T TIGR00959       103 LMVGLQGSGKTTTCGKLAYYLKKKQG--KKVLLVACDLYRPAAIEQLKVLG-------------QQVGVPVFALGKGQSP  167 (428)
T ss_pred             EEECCCCCcHHHHHHHHHHHHHHhCC--CeEEEEeccccchHHHHHHHHHH-------------HhcCCceEecCCCCCH
Confidence            5678999999999999999987 578  99999999998865322111100             0112222322110000


Q ss_pred             chhhhhhchHHHHHHHHHHHHhccCCCCEEEEeCCCCCC--hhHHHHh----hhcCCCeEEEEeCCCcchHHHHHHHHHH
Q psy14655         81 KSAAIWRGLMVMQALNKLTVQVQWGPCDILFIDTPPGTG--DTHLSLI----QNLFIDTAIIITIPDTMSLQVAQRGYTM  154 (261)
Q Consensus        81 ~~~~~~~~~~~~~~l~~~l~~l~~~~yd~IiiD~~~~~~--~~~~~~~----~~~~ad~viiv~~~~~~s~~~~~~~~~~  154 (261)
                                 .....+.++.+...+||+|||||++...  .....-+    .....|.+++|+.+.  .-.++....+.
T Consensus       168 -----------~~i~~~al~~~~~~~~DvVIIDTaGr~~~d~~l~~eL~~i~~~~~p~e~lLVvda~--tgq~~~~~a~~  234 (428)
T TIGR00959       168 -----------VEIARRALEYAKENGFDVVIVDTAGRLQIDEELMEELAAIKEILNPDEILLVVDAM--TGQDAVNTAKT  234 (428)
T ss_pred             -----------HHHHHHHHHHHHhcCCCEEEEeCCCccccCHHHHHHHHHHHHhhCCceEEEEEecc--chHHHHHHHHH
Confidence                       1112344444433789999999998652  2221111    112268889999864  23455555555


Q ss_pred             HHhCCCCeEEEEEcCCCC
Q psy14655        155 FKKLNIPVAGLVMNMNSV  172 (261)
Q Consensus       155 l~~~~~~~~giv~N~~~~  172 (261)
                      +.+ .+++.|+|+|+.+.
T Consensus       235 f~~-~v~i~giIlTKlD~  251 (428)
T TIGR00959       235 FNE-RLGLTGVVLTKLDG  251 (428)
T ss_pred             HHh-hCCCCEEEEeCccC
Confidence            542 34568999998663

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

>PRK00090 bioD dithiobiotin synthetase; Reviewed

Probab=99.30  E-value=1.9e-11  Score=99.63  Aligned_cols=159  Identities=13%  Similarity=0.058  Sum_probs=91.0

Q ss_pred             cccCCCCCcHHHHHHHHHHHHHhcCCCCeEEEEecCCCCCCcccccCCCCCCCCCcCCccccc---cc--cCceeec-CC
Q psy14655          2 IASSKGGVGKSTTTVNLATAMKICYPDKEIGILDADVFGPSIPILMNLPDTPLLNKDNLMIPL---VN--YGVKCLS-MG   75 (261)
Q Consensus         2 v~s~KGGvGKTT~a~~lA~~la~~g~~~~VllvD~D~~~~~~~~~~~~~~~~~~~~~~~~~~~---~~--~~l~~~~-~~   75 (261)
                      |++.-.|+|||+++++|+..|+++|  .+|.++-  |......... .+.     +...+...   ..  ..+..+- ..
T Consensus         4 I~~t~t~~GKT~vs~~L~~~l~~~g--~~v~~~K--Pv~~g~~~~~-~~~-----d~~~~~~~~~~~~~~~~~~~~~~~~   73 (222)
T PRK00090          4 VTGTDTDVGKTVVTAALAQALREAG--YSVAGYK--PVQSGCEETD-RNG-----DALALQRLSGLPLDYEDVNPYRFEE   73 (222)
T ss_pred             EEeCCCCcCHHHHHHHHHHHHHHcC--CceEEEe--eEecCCCCCC-CcH-----HHHHHHHHcCCCCChhhcCceeeCC
Confidence            6778899999999999999999999  9998853  2211100000 000     00000000   00  0000000 00


Q ss_pred             CCcccchhhhhhchHHHHHHHHHHHHhccCCCCEEEEeCCCCCChhHHHHhhh-----cCCCeEEEEeCCCcchHHHHHH
Q psy14655         76 NLITEKSAAIWRGLMVMQALNKLTVQVQWGPCDILFIDTPPGTGDTHLSLIQN-----LFIDTAIIITIPDTMSLQVAQR  150 (261)
Q Consensus        76 ~~~~~~~~~~~~~~~~~~~l~~~l~~l~~~~yd~IiiD~~~~~~~~~~~~~~~-----~~ad~viiv~~~~~~s~~~~~~  150 (261)
                      ...+.............+.+.+.++.++ ++||+||||++++........+..     ..-.-+++|+.++..++..+..
T Consensus        74 ~~sp~~a~~~~~~~~~~~~i~~~~~~l~-~~~D~viIEg~gg~~~~~~~~~~~adl~~~l~~pvilV~~~~~~~i~~~~~  152 (222)
T PRK00090         74 PLSPHLAAALEGVAIDLEKISAALRRLA-QQYDLVLVEGAGGLLVPLTEDLTLADLAKQLQLPVILVVGVKLGCINHTLL  152 (222)
T ss_pred             CCCHHHHHHHhCCCCCHHHHHHHHHHHH-hhCCEEEEECCCceeccCCCCCcHHHHHHHhCCCEEEEECCCCcHHHHHHH
Confidence            0000000000111122345677777777 899999999998863221111111     0023488999999999998888


Q ss_pred             HHHHHHhCCCCeEEEEEcCCC
Q psy14655        151 GYTMFKKLNIPVAGLVMNMNS  171 (261)
Q Consensus       151 ~~~~l~~~~~~~~giv~N~~~  171 (261)
                      .++.++..+.++.|+|+|+++
T Consensus       153 ~i~~l~~~~~~i~gvIlN~~~  173 (222)
T PRK00090        153 TLEAIRARGLPLAGWVANGIP  173 (222)
T ss_pred             HHHHHHHCCCCeEEEEEccCC
Confidence            888888888899999999954

>TIGR01425 SRP54_euk signal recognition particle protein SRP54

Probab=99.29  E-value=4e-11  Score=105.23  Aligned_cols=141  Identities=16%  Similarity=0.092  Sum_probs=83.5

Q ss_pred             ccCCCCCcHHHHHHHHHHHHHhcCCCCeEEEEecCCCCCCcccccCCCCCCCCCcCCccccccccCceeecCCCCcccch
Q psy14655          3 ASSKGGVGKSTTTVNLATAMKICYPDKEIGILDADVFGPSIPILMNLPDTPLLNKDNLMIPLVNYGVKCLSMGNLITEKS   82 (261)
Q Consensus         3 ~s~KGGvGKTT~a~~lA~~la~~g~~~~VllvD~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~   82 (261)
                      +.+..|+||||+++.||.++++.|  ++|++|++|++++.....+.....             ..++.+.......    
T Consensus       105 lvG~~GvGKTTtaaKLA~~l~~~G--~kV~lV~~D~~R~aA~eQLk~~a~-------------~~~vp~~~~~~~~----  165 (429)
T TIGR01425       105 FVGLQGSGKTTTCTKLAYYYQRKG--FKPCLVCADTFRAGAFDQLKQNAT-------------KARIPFYGSYTES----  165 (429)
T ss_pred             EECCCCCCHHHHHHHHHHHHHHCC--CCEEEEcCcccchhHHHHHHHHhh-------------ccCCeEEeecCCC----
Confidence            456899999999999999999999  999999999998755443321110             0122222111000    


Q ss_pred             hhhhhchHHHHHHHHHHHHhccCCCCEEEEeCCCCCCh--hHH----HHhhhcCCCeEEEEeCCCcchHHHHHHHHHHHH
Q psy14655         83 AAIWRGLMVMQALNKLTVQVQWGPCDILFIDTPPGTGD--THL----SLIQNLFIDTAIIITIPDTMSLQVAQRGYTMFK  156 (261)
Q Consensus        83 ~~~~~~~~~~~~l~~~l~~l~~~~yd~IiiD~~~~~~~--~~~----~~~~~~~ad~viiv~~~~~~s~~~~~~~~~~l~  156 (261)
                             +......+.++.++..+||+|||||++....  ...    ........|.+++|+++...  ..+....+.+.
T Consensus       166 -------dp~~i~~~~l~~~~~~~~DvViIDTaGr~~~d~~lm~El~~i~~~~~p~e~lLVlda~~G--q~a~~~a~~F~  236 (429)
T TIGR01425       166 -------DPVKIASEGVEKFKKENFDIIIVDTSGRHKQEDSLFEEMLQVAEAIQPDNIIFVMDGSIG--QAAEAQAKAFK  236 (429)
T ss_pred             -------CHHHHHHHHHHHHHhCCCCEEEEECCCCCcchHHHHHHHHHHhhhcCCcEEEEEeccccC--hhHHHHHHHHH
Confidence                   0011123344444436899999999976532  111    11112226789999986432  22233344444


Q ss_pred             hCCCCeEEEEEcCCCC
Q psy14655        157 KLNIPVAGLVMNMNSV  172 (261)
Q Consensus       157 ~~~~~~~giv~N~~~~  172 (261)
                      + ..++.|+|+|+.+.
T Consensus       237 ~-~~~~~g~IlTKlD~  251 (429)
T TIGR01425       237 D-SVDVGSVIITKLDG  251 (429)
T ss_pred             h-ccCCcEEEEECccC
Confidence            3 23568899998775

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.

>PRK10416 signal recognition particle-docking protein FtsY; Provisional

Probab=99.24  E-value=1.5e-10  Score=98.67  Aligned_cols=138  Identities=16%  Similarity=0.164  Sum_probs=79.6

Q ss_pred             CCCCCcHHHHHHHHHHHHHhcCCCCeEEEEecCCCCCCcccccCCCCCCCCCcCCccccccccCceeecCCCCcccchhh
Q psy14655          5 SKGGVGKSTTTVNLATAMKICYPDKEIGILDADVFGPSIPILMNLPDTPLLNKDNLMIPLVNYGVKCLSMGNLITEKSAA   84 (261)
Q Consensus         5 ~KGGvGKTT~a~~lA~~la~~g~~~~VllvD~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~   84 (261)
                      +..|+||||++++||..++..|  .+|+++|+|+++......+..             .....++.+++......+    
T Consensus       121 GpnGsGKTTt~~kLA~~l~~~g--~~V~Li~~D~~r~~a~eql~~-------------~a~~~~i~~~~~~~~~dp----  181 (318)
T PRK10416        121 GVNGVGKTTTIGKLAHKYKAQG--KKVLLAAGDTFRAAAIEQLQV-------------WGERVGVPVIAQKEGADP----  181 (318)
T ss_pred             CCCCCcHHHHHHHHHHHHHhcC--CeEEEEecCccchhhHHHHHH-------------HHHHcCceEEEeCCCCCH----
Confidence            5789999999999999999998  999999999976431110000             001113334433211111    


Q ss_pred             hhhchHHHHHHHHHHHHhccCCCCEEEEeCCCCCChh------HHHHhh------hcCCCeEEEEeCCCcchHHHHHHHH
Q psy14655         85 IWRGLMVMQALNKLTVQVQWGPCDILFIDTPPGTGDT------HLSLIQ------NLFIDTAIIITIPDTMSLQVAQRGY  152 (261)
Q Consensus        85 ~~~~~~~~~~l~~~l~~l~~~~yd~IiiD~~~~~~~~------~~~~~~------~~~ad~viiv~~~~~~s~~~~~~~~  152 (261)
                            .......+..... ++||+|||||||.....      ......      ....+.+++|+.++. ....+....
T Consensus       182 ------a~~v~~~l~~~~~-~~~D~ViIDTaGr~~~~~~l~~eL~~~~~v~~~~~~~~p~~~~LVl~a~~-g~~~~~~a~  253 (318)
T PRK10416        182 ------ASVAFDAIQAAKA-RGIDVLIIDTAGRLHNKTNLMEELKKIKRVIKKADPDAPHEVLLVLDATT-GQNALSQAK  253 (318)
T ss_pred             ------HHHHHHHHHHHHh-CCCCEEEEeCCCCCcCCHHHHHHHHHHHHHHhhhcCCCCceEEEEEECCC-ChHHHHHHH
Confidence                  0111222223334 89999999999865411      111111      112678889988773 344444433


Q ss_pred             HHHHhCCCCeEEEEEcCCC
Q psy14655        153 TMFKKLNIPVAGLVMNMNS  171 (261)
Q Consensus       153 ~~l~~~~~~~~giv~N~~~  171 (261)
                      ...+.  .+..|+|+|+.+
T Consensus       254 ~f~~~--~~~~giIlTKlD  270 (318)
T PRK10416        254 AFHEA--VGLTGIILTKLD  270 (318)
T ss_pred             HHHhh--CCCCEEEEECCC
Confidence            33333  356899999965

>PRK00771 signal recognition particle protein Srp54; Provisional

Probab=99.21  E-value=1e-10  Score=103.45  Aligned_cols=139  Identities=16%  Similarity=0.197  Sum_probs=83.1

Q ss_pred             ccCCCCCcHHHHHHHHHHHHHhcCCCCeEEEEecCCCCCCcccccCCCCCCCCCcCCccccccccCceeecCCCCcccch
Q psy14655          3 ASSKGGVGKSTTTVNLATAMKICYPDKEIGILDADVFGPSIPILMNLPDTPLLNKDNLMIPLVNYGVKCLSMGNLITEKS   82 (261)
Q Consensus         3 ~s~KGGvGKTT~a~~lA~~la~~g~~~~VllvD~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~   82 (261)
                      +.+..|+||||++++||..|.+.|  ++|++|++|...+.....+..-.             ...++.+.....      
T Consensus       100 lvG~~GsGKTTtaakLA~~L~~~g--~kV~lV~~D~~R~aa~eQL~~la-------------~~~gvp~~~~~~------  158 (437)
T PRK00771        100 LVGLQGSGKTTTAAKLARYFKKKG--LKVGLVAADTYRPAAYDQLKQLA-------------EKIGVPFYGDPD------  158 (437)
T ss_pred             EECCCCCcHHHHHHHHHHHHHHcC--CeEEEecCCCCCHHHHHHHHHHH-------------HHcCCcEEecCC------
Confidence            457899999999999999999999  99999999998764322111100             000111111100      


Q ss_pred             hhhhhchHHHHHHHHHHHHhccCCCCEEEEeCCCCCChhH------HHHhhhcCCCeEEEEeCCCcchHHHHHHHHHHHH
Q psy14655         83 AAIWRGLMVMQALNKLTVQVQWGPCDILFIDTPPGTGDTH------LSLIQNLFIDTAIIITIPDTMSLQVAQRGYTMFK  156 (261)
Q Consensus        83 ~~~~~~~~~~~~l~~~l~~l~~~~yd~IiiD~~~~~~~~~------~~~~~~~~ad~viiv~~~~~~s~~~~~~~~~~l~  156 (261)
                           .......+.+.++.+.  .+|+|||||++......      ........+|.+++|++++..  .++....+.+.
T Consensus       159 -----~~d~~~i~~~al~~~~--~~DvVIIDTAGr~~~d~~lm~El~~l~~~~~pdevlLVvda~~g--q~av~~a~~F~  229 (437)
T PRK00771        159 -----NKDAVEIAKEGLEKFK--KADVIIVDTAGRHALEEDLIEEMKEIKEAVKPDEVLLVIDATIG--QQAKNQAKAFH  229 (437)
T ss_pred             -----ccCHHHHHHHHHHHhh--cCCEEEEECCCcccchHHHHHHHHHHHHHhcccceeEEEecccc--HHHHHHHHHHH
Confidence                 0112223455666654  46999999997654211      111112228999999997664  23333344433


Q ss_pred             hCCCCeEEEEEcCCCC
Q psy14655        157 KLNIPVAGLVMNMNSV  172 (261)
Q Consensus       157 ~~~~~~~giv~N~~~~  172 (261)
                      + .+++.|+|+|+.+.
T Consensus       230 ~-~l~i~gvIlTKlD~  244 (437)
T PRK00771        230 E-AVGIGGIIITKLDG  244 (437)
T ss_pred             h-cCCCCEEEEecccC
Confidence            2 24568999999764

>TIGR00345 arsA arsenite-activated ATPase (arsA)

Probab=99.19  E-value=2.5e-10  Score=96.27  Aligned_cols=151  Identities=16%  Similarity=0.203  Sum_probs=93.6

Q ss_pred             HHHHHHHHHHhcCCCCeEEEEecCCCCCCcccccCCCCCCCCCcCCccccccccCceeec--------------------
Q psy14655         14 TTVNLATAMKICYPDKEIGILDADVFGPSIPILMNLPDTPLLNKDNLMIPLVNYGVKCLS--------------------   73 (261)
Q Consensus        14 ~a~~lA~~la~~g~~~~VllvD~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~--------------------   73 (261)
                      +|+++|..+|+.|  +|||+||+||+. ++..+||.+-........     ..+++....                    
T Consensus         1 ~a~a~a~~~a~~g--~~vllv~~Dp~~-~l~~~~~~~~~~~~~~v~-----~~~~L~~~~id~~~~~~~~~~~~~~~~~~   72 (284)
T TIGR00345         1 ISCATAIRLAEQG--KKVLLVSTDPAH-SLSDVFEQEIGHTPTKVT-----GVENLSAVEIDPQAALEEYRAKLVEQIKG   72 (284)
T ss_pred             CHHHHHHHHHHCC--CeEEEEECCCCC-CHHHHhCCccCCCCeecc-----CCCCceEEEcCHHHHHHHHHHHHHHHHhh
Confidence            4789999999999  999999999997 678888764221110000     011222111                    


Q ss_pred             ---CCCCcccc--hhhhhhchHHHHHHHHHHHHhcc--CCCCEEEEeCCCCCChhH------------------------
Q psy14655         74 ---MGNLITEK--SAAIWRGLMVMQALNKLTVQVQW--GPCDILFIDTPPGTGDTH------------------------  122 (261)
Q Consensus        74 ---~~~~~~~~--~~~~~~~~~~~~~l~~~l~~l~~--~~yd~IiiD~~~~~~~~~------------------------  122 (261)
                         .+......  .....++....-.+.++.+.+..  .+||+||+||||.-+-.-                        
T Consensus        73 ~~~~~~~~~~~~~~~~~~PG~~E~~~l~~l~~~~~~~~~~yD~iVvDtaPtghtLrlL~lP~~l~~~l~~~~~~~~~~~~  152 (284)
T TIGR00345        73 NLPDGDMLGDQLEGAALSPGIDEIAAFDEFLKHMTDAENEFDVVIFDTAPTGHTLRLLQLPEVLSSFLEKFIKIRSKLGP  152 (284)
T ss_pred             hccccccHHHHHhcCCCCCCHHHHHHHHHHHHHHHHhhccCCEEEECCCChHHHHHHHhhHHHHHHHHHHHHHHHHHHHH
Confidence               11000000  00012344444445555555542  689999999998543000                        


Q ss_pred             ----------------------------HHHhhhcCCCeEEEEeCCCcchHHHHHHHHHHHHhCCCCeEEEEEcCCCC
Q psy14655        123 ----------------------------LSLIQNLFIDTAIIITIPDTMSLQVAQRGYTMFKKLNIPVAGLVMNMNSV  172 (261)
Q Consensus       123 ----------------------------~~~~~~~~ad~viiv~~~~~~s~~~~~~~~~~l~~~~~~~~giv~N~~~~  172 (261)
                                                  ...+.......+++|+.|+..++.++.++++.+...+.+..++|+|++..
T Consensus       153 ~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~L~dp~~t~~vlV~~pe~~si~e~~rl~~~L~~~g~~~~~lvvN~v~~  230 (284)
T TIGR00345       153 MLKLFMGAGESDEALEKLEELKEQIEAAREILSDPERTSFVLVVIPEKMSLYESERAHKELAKYGIKVDAVIVNQVLP  230 (284)
T ss_pred             HHHHhcCCCcchHHHHHHHHHHHHHHHHHHHhcCCCceEEEEEECCCCCcHHHHHHHHHHHHhCCCCCCEEEEeCCcC
Confidence                                        00011110234899999999999999999999999999999999999664

The N-terminal 50 amino acids hits Pfam families NB-ARC and fer4_NifH. residues 4-11 of the seed alignment contain a potential ATP binding site. The function of the gene product is to catalyze the extrusion of the oxyanions arsenite, antimonite and arsenate for detoxification. Some members of this family contain a duplication so the model finds hits twice.

>PRK11889 flhF flagellar biosynthesis regulator FlhF; Provisional

Probab=99.14  E-value=2.8e-10  Score=98.15  Aligned_cols=135  Identities=18%  Similarity=0.164  Sum_probs=83.3

Q ss_pred             cCCCCCcHHHHHHHHHHHHHhcCCCCeEEEEecCCCCCCc-ccccCCCCCCCCCcCCccccccccCceeecCCCCcccch
Q psy14655          4 SSKGGVGKSTTTVNLATAMKICYPDKEIGILDADVFGPSI-PILMNLPDTPLLNKDNLMIPLVNYGVKCLSMGNLITEKS   82 (261)
Q Consensus         4 s~KGGvGKTT~a~~lA~~la~~g~~~~VllvD~D~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~   82 (261)
                      -+.+|+||||+++.||..+..+|  ++|+++++|+++... ..+....              ...++.++...       
T Consensus       247 VGptGvGKTTTiaKLA~~L~~~G--kkVglI~aDt~RiaAvEQLk~ya--------------e~lgipv~v~~-------  303 (436)
T PRK11889        247 IGPTGVGKTTTLAKMAWQFHGKK--KTVGFITTDHSRIGTVQQLQDYV--------------KTIGFEVIAVR-------  303 (436)
T ss_pred             ECCCCCcHHHHHHHHHHHHHHcC--CcEEEEecCCcchHHHHHHHHHh--------------hhcCCcEEecC-------
Confidence            45699999999999999999999  999999999986322 1111100              01122222211       


Q ss_pred             hhhhhchHHHHHHHHHHHHhcc-CCCCEEEEeCCCCCChh------HHHHhhhcCCCeEEEEeCCCcchHHHHHHHHHHH
Q psy14655         83 AAIWRGLMVMQALNKLTVQVQW-GPCDILFIDTPPGTGDT------HLSLIQNLFIDTAIIITIPDTMSLQVAQRGYTMF  155 (261)
Q Consensus        83 ~~~~~~~~~~~~l~~~l~~l~~-~~yd~IiiD~~~~~~~~------~~~~~~~~~ad~viiv~~~~~~s~~~~~~~~~~l  155 (261)
                              ....+.+.+..++. .+||+|||||++.....      ....+.....+.+++|++++. .-.++...++.+
T Consensus       304 --------d~~~L~~aL~~lk~~~~~DvVLIDTaGRs~kd~~lm~EL~~~lk~~~PdevlLVLsATt-k~~d~~~i~~~F  374 (436)
T PRK11889        304 --------DEAAMTRALTYFKEEARVDYILIDTAGKNYRASETVEEMIETMGQVEPDYICLTLSASM-KSKDMIEIITNF  374 (436)
T ss_pred             --------CHHHHHHHHHHHHhccCCCEEEEeCccccCcCHHHHHHHHHHHhhcCCCeEEEEECCcc-ChHHHHHHHHHh
Confidence                    11235566666541 36999999999764311      112222222577888877643 334445666666


Q ss_pred             HhCCCCeEEEEEcCCCC
Q psy14655        156 KKLNIPVAGLVMNMNSV  172 (261)
Q Consensus       156 ~~~~~~~~giv~N~~~~  172 (261)
                      ..  .++-++|+++.+.
T Consensus       375 ~~--~~idglI~TKLDE  389 (436)
T PRK11889        375 KD--IHIDGIVFTKFDE  389 (436)
T ss_pred             cC--CCCCEEEEEcccC
Confidence            65  4568899999654

>TIGR00750 lao LAO/AO transport system ATPase

Probab=99.13  E-value=2.3e-09  Score=91.17  Aligned_cols=145  Identities=19%  Similarity=0.175  Sum_probs=84.4

Q ss_pred             ccCCCCCcHHHHHHHHHHHHHhcCCCCeEEEEecCCCCCCcc-cccCCCCCCCCCcCCccccccccCceeecCCCCcccc
Q psy14655          3 ASSKGGVGKSTTTVNLATAMKICYPDKEIGILDADVFGPSIP-ILMNLPDTPLLNKDNLMIPLVNYGVKCLSMGNLITEK   81 (261)
Q Consensus         3 ~s~KGGvGKTT~a~~lA~~la~~g~~~~VllvD~D~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~   81 (261)
                      +.+++|+||||++..++..+.+.|  .+|.+|++|++.+... .+++-..  .+.     .....++..+.+...... .
T Consensus        39 i~G~~G~GKttl~~~l~~~~~~~~--~~v~~i~~D~~~~~~~~~~~~~~~--~~~-----~~~~~~~~~~~~~~~~~~-~  108 (300)
T TIGR00750        39 ITGTPGAGKSTLLEALGMELRRRG--LKVAVIAVDPSSPFTGGSILGDRT--RMQ-----RLATDPGAFIRSMPTRGH-L  108 (300)
T ss_pred             EECCCCCCHHHHHHHHHHHHHHCC--CeEEEEecCCCCCcchhhhcccch--hhh-----hcccCCCceeeecCcccc-c
Confidence            458899999999999999999999  9999999999875321 1111110  000     011122332322211100 0


Q ss_pred             hhhhhhchHHHHHHHHHHHHhccCCCCEEEEeCCCCCChhHHHHhhhcCCCeEEEEeCCCcchHHHHHHHHHHHHhCCCC
Q psy14655         82 SAAIWRGLMVMQALNKLTVQVQWGPCDILFIDTPPGTGDTHLSLIQNLFIDTAIIITIPDTMSLQVAQRGYTMFKKLNIP  161 (261)
Q Consensus        82 ~~~~~~~~~~~~~l~~~l~~l~~~~yd~IiiD~~~~~~~~~~~~~~~~~ad~viiv~~~~~~s~~~~~~~~~~l~~~~~~  161 (261)
                      ..       ......+.++.+...+||+||+||++ .++........  +|.++++..|..  -.++..+...+.+  .+
T Consensus       109 ~~-------~~~~~~~~~~~l~~~g~D~viidT~G-~~~~e~~i~~~--aD~i~vv~~~~~--~~el~~~~~~l~~--~~  174 (300)
T TIGR00750       109 GG-------LSQATRELILLLDAAGYDVIIVETVG-VGQSEVDIANM--ADTFVVVTIPGT--GDDLQGIKAGLME--IA  174 (300)
T ss_pred             cc-------hhHHHHHHHHHHHhCCCCEEEEeCCC-CchhhhHHHHh--hceEEEEecCCc--cHHHHHHHHHHhh--hc
Confidence            00       01233444555544789999999995 65555566665  888888876553  2333333333322  22


Q ss_pred             eEEEEEcCCCC
Q psy14655        162 VAGLVMNMNSV  172 (261)
Q Consensus       162 ~~giv~N~~~~  172 (261)
                       .-+|+|+.+.
T Consensus       175 -~ivv~NK~Dl  184 (300)
T TIGR00750       175 -DIYVVNKADG  184 (300)
T ss_pred             -cEEEEEcccc
Confidence             2489999764

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.

>PRK12726 flagellar biosynthesis regulator FlhF; Provisional

Probab=99.10  E-value=6.6e-10  Score=95.53  Aligned_cols=137  Identities=16%  Similarity=0.170  Sum_probs=79.5

Q ss_pred             cccCCCCCcHHHHHHHHHHHHHhcCCCCeEEEEecCCCCCCcccccCCCCCCCCCcCCccccccccCceeecCCCCcccc
Q psy14655          2 IASSKGGVGKSTTTVNLATAMKICYPDKEIGILDADVFGPSIPILMNLPDTPLLNKDNLMIPLVNYGVKCLSMGNLITEK   81 (261)
Q Consensus         2 v~s~KGGvGKTT~a~~lA~~la~~g~~~~VllvD~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~   81 (261)
                      |++. .|+||||+++.||..+.++|  ++|.+|++|+++......+.....             ..++.+...       
T Consensus       211 lvGp-tGvGKTTt~akLA~~l~~~g--~~V~lItaDtyR~gAveQLk~yae-------------~lgvpv~~~-------  267 (407)
T PRK12726        211 LIGQ-TGVGKTTTLVKLGWQLLKQN--RTVGFITTDTFRSGAVEQFQGYAD-------------KLDVELIVA-------  267 (407)
T ss_pred             EECC-CCCCHHHHHHHHHHHHHHcC--CeEEEEeCCccCccHHHHHHHHhh-------------cCCCCEEec-------
Confidence            4454 59999999999999999999  999999999997533221111000             011111111       


Q ss_pred             hhhhhhchHHHHHHHHHHHHhc-cCCCCEEEEeCCCCCC--hhHHH----HhhhcCCCeEEEEeCCCcchHHHHHHHHHH
Q psy14655         82 SAAIWRGLMVMQALNKLTVQVQ-WGPCDILFIDTPPGTG--DTHLS----LIQNLFIDTAIIITIPDTMSLQVAQRGYTM  154 (261)
Q Consensus        82 ~~~~~~~~~~~~~l~~~l~~l~-~~~yd~IiiD~~~~~~--~~~~~----~~~~~~ad~viiv~~~~~~s~~~~~~~~~~  154 (261)
                              .....+.+.+..++ ..+||+|||||++...  .....    .......+.+++|++++. ...++...++.
T Consensus       268 --------~dp~dL~~al~~l~~~~~~D~VLIDTAGr~~~d~~~l~EL~~l~~~~~p~~~~LVLsag~-~~~d~~~i~~~  338 (407)
T PRK12726        268 --------TSPAELEEAVQYMTYVNCVDHILIDTVGRNYLAEESVSEISAYTDVVHPDLTCFTFSSGM-KSADVMTILPK  338 (407)
T ss_pred             --------CCHHHHHHHHHHHHhcCCCCEEEEECCCCCccCHHHHHHHHHHhhccCCceEEEECCCcc-cHHHHHHHHHh
Confidence                    01223455555553 2579999999997642  11111    111111466677776643 33334444444


Q ss_pred             HHhCCCCeEEEEEcCCCC
Q psy14655        155 FKKLNIPVAGLVMNMNSV  172 (261)
Q Consensus       155 l~~~~~~~~giv~N~~~~  172 (261)
                      +.  .+++-++|+++.+.
T Consensus       339 f~--~l~i~glI~TKLDE  354 (407)
T PRK12726        339 LA--EIPIDGFIITKMDE  354 (407)
T ss_pred             cC--cCCCCEEEEEcccC
Confidence            44  34568999999654

>cd03109 DTBS Dethiobiotin synthetase (DTBS) is the penultimate enzyme in the biotin biosynthesis pathway in Escherichia coli and other microorganisms

Probab=99.01  E-value=2e-08  Score=75.15  Aligned_cols=99  Identities=20%  Similarity=0.174  Sum_probs=77.3

Q ss_pred             cccCCCCCcHHHHHHHHHHHHHhcCCCCeEEEEecCCCCCCcccccCCCCCCCCCcCCccccccccCceeecCCCCcccc
Q psy14655          2 IASSKGGVGKSTTTVNLATAMKICYPDKEIGILDADVFGPSIPILMNLPDTPLLNKDNLMIPLVNYGVKCLSMGNLITEK   81 (261)
Q Consensus         2 v~s~KGGvGKTT~a~~lA~~la~~g~~~~VllvD~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~   81 (261)
                      |+.++| +|||+++..++..|.++|  .+|..+....+                                          
T Consensus         4 ~~~~~~-~Gkt~~~~~l~~~l~~~~--~~v~~~kp~~~------------------------------------------   38 (134)
T cd03109           4 FGTGTD-IGKTVATAILARALKEKG--YRVAPLKPVQT------------------------------------------   38 (134)
T ss_pred             EeCCCC-cCHHHHHHHHHHHHHHCC--CeEEEEecCCC------------------------------------------
Confidence            556777 999999999999999999  99999988776                                          


Q ss_pred             hhhhhhchHHHHHHHHHHHHhccCCCCEEEEeCCCCCC------hhHHHHhhhcCCCeEEEEeCCCcchHHHHHHHHHHH
Q psy14655         82 SAAIWRGLMVMQALNKLTVQVQWGPCDILFIDTPPGTG------DTHLSLIQNLFIDTAIIITIPDTMSLQVAQRGYTMF  155 (261)
Q Consensus        82 ~~~~~~~~~~~~~l~~~l~~l~~~~yd~IiiD~~~~~~------~~~~~~~~~~~ad~viiv~~~~~~s~~~~~~~~~~l  155 (261)
                                               +|++|++.++|+.      ......+... -.-+++|..++..++.++...++.+
T Consensus        39 -------------------------~d~vliEGaGg~~~p~~~~~~~~d~~~~~-~~~vllV~~~~~g~i~~a~~~~~~l   92 (134)
T cd03109          39 -------------------------YDFVLVEGAGGLCVPLKEDFTNADVAKEL-NLPAILVTSAGLGSINHAFLTIEAA   92 (134)
T ss_pred             -------------------------CCEEEEECCCccccCCCCCCCHHHHHHHh-CCCEEEEEcCCCCcHhHHHHHHHHH
Confidence                                     4777777765553      1112222221 2247899999999999999999999


Q ss_pred             HhCCCCeEEEEEcCCC
Q psy14655        156 KKLNIPVAGLVMNMNS  171 (261)
Q Consensus       156 ~~~~~~~~giv~N~~~  171 (261)
                      +..+..+.+++.|+..
T Consensus        93 ~~~g~~i~gvi~N~~~  108 (134)
T cd03109          93 RIKGIILNGVLGNVIV  108 (134)
T ss_pred             HhcCCceeEEEEccCC
Confidence            9999999999999854

The enzyme catalyzes formation of the ureido ring of dethiobiotin from (7R,8S)-7,8-diaminononanoic acid (DAPA) and carbon dioxide. The enzyme utilizes carbon dioxide instead of hydrogen carbonate as substrate and is dependent on ATP and divalent metal ions as cofactors.

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

Probab=99.01  E-value=2.3e-09  Score=92.64  Aligned_cols=138  Identities=17%  Similarity=0.181  Sum_probs=86.8

Q ss_pred             CCCCcHHHHHHHHHHHHHhcCCCCeEEEEecCCCCCCcccccCCCCCCCCCcCCccccccccCceeecCCCCcccchhhh
Q psy14655          6 KGGVGKSTTTVNLATAMKICYPDKEIGILDADVFGPSIPILMNLPDTPLLNKDNLMIPLVNYGVKCLSMGNLITEKSAAI   85 (261)
Q Consensus         6 KGGvGKTT~a~~lA~~la~~g~~~~VllvD~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~   85 (261)
                      =-|+||||+|.-||.+|.++|  +||++|-||..++..-.-+..-.             ..-++.+++.+...       
T Consensus       108 LQGsGKTTt~~KLA~~lkk~~--~kvllVaaD~~RpAA~eQL~~La-------------~q~~v~~f~~~~~~-------  165 (451)
T COG0541         108 LQGSGKTTTAGKLAKYLKKKG--KKVLLVAADTYRPAAIEQLKQLA-------------EQVGVPFFGSGTEK-------  165 (451)
T ss_pred             ccCCChHhHHHHHHHHHHHcC--CceEEEecccCChHHHHHHHHHH-------------HHcCCceecCCCCC-------
Confidence            359999999999999999998  99999999999986422221100             11133444432111       


Q ss_pred             hhchHHHHHHHHHHHHhccCCCCEEEEeCCCCCC--hhH----HHHhhhcCCCeEEEEeCCCcchHHHHHHHHHHHHhCC
Q psy14655         86 WRGLMVMQALNKLTVQVQWGPCDILFIDTPPGTG--DTH----LSLIQNLFIDTAIIITIPDTMSLQVAQRGYTMFKKLN  159 (261)
Q Consensus        86 ~~~~~~~~~l~~~l~~l~~~~yd~IiiD~~~~~~--~~~----~~~~~~~~ad~viiv~~~~~~s~~~~~~~~~~l~~~~  159 (261)
                          ...+-.++.++..+...||+||+||.+-..  ...    ..+-.....|.+++|++.  ..=.++....+.+.+ .
T Consensus       166 ----~Pv~Iak~al~~ak~~~~DvvIvDTAGRl~ide~Lm~El~~Ik~~~~P~E~llVvDa--m~GQdA~~~A~aF~e-~  238 (451)
T COG0541         166 ----DPVEIAKAALEKAKEEGYDVVIVDTAGRLHIDEELMDELKEIKEVINPDETLLVVDA--MIGQDAVNTAKAFNE-A  238 (451)
T ss_pred             ----CHHHHHHHHHHHHHHcCCCEEEEeCCCcccccHHHHHHHHHHHhhcCCCeEEEEEec--ccchHHHHHHHHHhh-h
Confidence                111234566777765789999999997653  211    122222227899999873  223444455555554 3


Q ss_pred             CCeEEEEEcCCCC
Q psy14655        160 IPVAGLVMNMNSV  172 (261)
Q Consensus       160 ~~~~giv~N~~~~  172 (261)
                      +++.|+|+++.+.
T Consensus       239 l~itGvIlTKlDG  251 (451)
T COG0541         239 LGITGVILTKLDG  251 (451)
T ss_pred             cCCceEEEEcccC
Confidence            4678899998664

>PRK12727 flagellar biosynthesis regulator FlhF; Provisional

Probab=98.98  E-value=3.5e-09  Score=94.67  Aligned_cols=134  Identities=13%  Similarity=0.128  Sum_probs=74.6

Q ss_pred             cCCCCCcHHHHHHHHHHHHHhcCCCCeEEEEecCCCCCCcccccCCCCCCCCCcCCccccccccCceeecCCCCcccchh
Q psy14655          4 SSKGGVGKSTTTVNLATAMKICYPDKEIGILDADVFGPSIPILMNLPDTPLLNKDNLMIPLVNYGVKCLSMGNLITEKSA   83 (261)
Q Consensus         4 s~KGGvGKTT~a~~lA~~la~~g~~~~VllvD~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~   83 (261)
                      -+.+|+||||++.+||..+++.+.+++|.+|++|.+.....+.+.....             ..++.+...         
T Consensus       356 VGPtGvGKTTtaakLAa~la~~~~gkkVaLIdtDtyRigA~EQLk~ya~-------------iLgv~v~~a---------  413 (559)
T PRK12727        356 VGPTGAGKTTTIAKLAQRFAAQHAPRDVALVTTDTQRVGGREQLHSYGR-------------QLGIAVHEA---------  413 (559)
T ss_pred             ECCCCCCHHHHHHHHHHHHHHhcCCCceEEEecccccccHHHHHHHhhc-------------ccCceeEec---------
Confidence            3678999999999999998876323899999999986432221111000             001111110         


Q ss_pred             hhhhchHHHHHHHHHHHHhccCCCCEEEEeCCCCCChh-H-HH---Hhhh--cCCCeEEEEeCCCcchHHHHHHHHHHHH
Q psy14655         84 AIWRGLMVMQALNKLTVQVQWGPCDILFIDTPPGTGDT-H-LS---LIQN--LFIDTAIIITIPDTMSLQVAQRGYTMFK  156 (261)
Q Consensus        84 ~~~~~~~~~~~l~~~l~~l~~~~yd~IiiD~~~~~~~~-~-~~---~~~~--~~ad~viiv~~~~~~s~~~~~~~~~~l~  156 (261)
                            .....+...++.+  .+||+|||||++..... . ..   .+..  ...+.++++..+   +..+....++.+.
T Consensus       414 ------~d~~~L~~aL~~l--~~~DLVLIDTaG~s~~D~~l~eeL~~L~aa~~~a~lLVLpAts---s~~Dl~eii~~f~  482 (559)
T PRK12727        414 ------DSAESLLDLLERL--RDYKLVLIDTAGMGQRDRALAAQLNWLRAARQVTSLLVLPANA---HFSDLDEVVRRFA  482 (559)
T ss_pred             ------CcHHHHHHHHHHh--ccCCEEEecCCCcchhhHHHHHHHHHHHHhhcCCcEEEEECCC---ChhHHHHHHHHHH
Confidence                  0112345555554  47999999999754211 1 10   1111  003344444433   3444455566665


Q ss_pred             hCCCCeEEEEEcCCCC
Q psy14655        157 KLNIPVAGLVMNMNSV  172 (261)
Q Consensus       157 ~~~~~~~giv~N~~~~  172 (261)
                      ..  +..|+|+|+.+.
T Consensus       483 ~~--~~~gvILTKlDE  496 (559)
T PRK12727        483 HA--KPQGVVLTKLDE  496 (559)
T ss_pred             hh--CCeEEEEecCcC
Confidence            54  458999999653

>PRK09435 membrane ATPase/protein kinase; Provisional

Probab=98.95  E-value=2.2e-08  Score=85.71  Aligned_cols=143  Identities=13%  Similarity=0.060  Sum_probs=84.9

Q ss_pred             ccCCCCCcHHHHHHHHHHHHHhcCCCCeEEEEecCCCCCCcc-cccCCCCCCCCCcCCcccc-ccccCceeecCCCCccc
Q psy14655          3 ASSKGGVGKSTTTVNLATAMKICYPDKEIGILDADVFGPSIP-ILMNLPDTPLLNKDNLMIP-LVNYGVKCLSMGNLITE   80 (261)
Q Consensus         3 ~s~KGGvGKTT~a~~lA~~la~~g~~~~VllvD~D~~~~~~~-~~~~~~~~~~~~~~~~~~~-~~~~~l~~~~~~~~~~~   80 (261)
                      +.+-.|+||||++..|+..+...|  .+|.+|..||+.+... .++|-..        -... ...++..+.+.+.... 
T Consensus        61 i~G~~GaGKSTl~~~l~~~l~~~g--~~v~vi~~Dp~s~~~~gallgd~~--------r~~~~~~~~~~~~r~~~~~~~-  129 (332)
T PRK09435         61 ITGVPGVGKSTFIEALGMHLIEQG--HKVAVLAVDPSSTRTGGSILGDKT--------RMERLSRHPNAFIRPSPSSGT-  129 (332)
T ss_pred             EECCCCCCHHHHHHHHHHHHHHCC--CeEEEEEeCCCccccchhhhchHh--------HHHhhcCCCCeEEEecCCccc-
Confidence            356689999999999999999999  9999999999875321 1222110        0000 1122323333221110 


Q ss_pred             chhhhhhchHHHHHHHHHHHHhccCCCCEEEEeCCCCCChhHHHHhhhcCCCeEEEEeC-CCcchHHHHHHHHHHHHhCC
Q psy14655         81 KSAAIWRGLMVMQALNKLTVQVQWGPCDILFIDTPPGTGDTHLSLIQNLFIDTAIIITI-PDTMSLQVAQRGYTMFKKLN  159 (261)
Q Consensus        81 ~~~~~~~~~~~~~~l~~~l~~l~~~~yd~IiiD~~~~~~~~~~~~~~~~~ad~viiv~~-~~~~s~~~~~~~~~~l~~~~  159 (261)
                             .......+.+.+..+...+||+|||||++-- .....+...  ||.+++|+. +...++.....  ..++..+
T Consensus       130 -------l~~~a~~~~~~~~~~~~~g~d~viieT~Gv~-qs~~~i~~~--aD~vlvv~~p~~gd~iq~~k~--gi~E~aD  197 (332)
T PRK09435        130 -------LGGVARKTRETMLLCEAAGYDVILVETVGVG-QSETAVAGM--VDFFLLLQLPGAGDELQGIKK--GIMELAD  197 (332)
T ss_pred             -------ccchHHHHHHHHHHHhccCCCEEEEECCCCc-cchhHHHHh--CCEEEEEecCCchHHHHHHHh--hhhhhhh
Confidence                   0012234555555565578999999999643 333345555  999999987 44455544443  1233332


Q ss_pred             CCeEEEEEcCCCC
Q psy14655        160 IPVAGLVMNMNSV  172 (261)
Q Consensus       160 ~~~~giv~N~~~~  172 (261)
                          -+|+|+.+.
T Consensus       198 ----IiVVNKaDl  206 (332)
T PRK09435        198 ----LIVINKADG  206 (332)
T ss_pred             ----eEEeehhcc
Confidence                389999764

>COG1703 ArgK Putative periplasmic protein kinase ArgK and related GTPases of G3E family [Amino acid transport and metabolism]

Probab=98.95  E-value=7.5e-08  Score=79.59  Aligned_cols=142  Identities=19%  Similarity=0.226  Sum_probs=90.8

Q ss_pred             cCCCCCcHHHHHHHHHHHHHhcCCCCeEEEEecCCCCCCc-ccccCCCCCCCCCcCCcccccc-ccCceeecCCCCcccc
Q psy14655          4 SSKGGVGKSTTTVNLATAMKICYPDKEIGILDADVFGPSI-PILMNLPDTPLLNKDNLMIPLV-NYGVKCLSMGNLITEK   81 (261)
Q Consensus         4 s~KGGvGKTT~a~~lA~~la~~g~~~~VllvD~D~~~~~~-~~~~~~~~~~~~~~~~~~~~~~-~~~l~~~~~~~~~~~~   81 (261)
                      .+-+|+||||+.-.|...|.++|  +||.+|-.||.++-+ ..++|        ++--.+... .+|+.+-|...... .
T Consensus        57 TG~PGaGKSTli~~L~~~l~~~G--~rVaVlAVDPSSp~TGGsiLG--------DRiRM~~~~~~~~vFiRs~~srG~-l  125 (323)
T COG1703          57 TGVPGAGKSTLIEALGRELRERG--HRVAVLAVDPSSPFTGGSILG--------DRIRMQRLAVDPGVFIRSSPSRGT-L  125 (323)
T ss_pred             cCCCCCchHHHHHHHHHHHHHCC--cEEEEEEECCCCCCCCccccc--------cHhhHHhhccCCCeEEeecCCCcc-c
Confidence            35689999999999999999999  999999999987643 12222        222222222 45655555322111 0


Q ss_pred             hhhhhhchHHHHHHHHHHHHhccCCCCEEEEeCCCCCChhHHHHhhhcCCCeEEEEeCCCcchHHHHHHHHHHHHhCCCC
Q psy14655         82 SAAIWRGLMVMQALNKLTVQVQWGPCDILFIDTPPGTGDTHLSLIQNLFIDTAIIITIPDTMSLQVAQRGYTMFKKLNIP  161 (261)
Q Consensus        82 ~~~~~~~~~~~~~l~~~l~~l~~~~yd~IiiD~~~~~~~~~~~~~~~~~ad~viiv~~~~~~s~~~~~~~~~~l~~~~~~  161 (261)
                      .       ......++.+..+....||+|||.|- |.+.........  ||.+++++.|+..+--+..+ ..+++-.++ 
T Consensus       126 G-------GlS~at~~~i~~ldAaG~DvIIVETV-GvGQsev~I~~~--aDt~~~v~~pg~GD~~Q~iK-~GimEiaDi-  193 (323)
T COG1703         126 G-------GLSRATREAIKLLDAAGYDVIIVETV-GVGQSEVDIANM--ADTFLVVMIPGAGDDLQGIK-AGIMEIADI-  193 (323)
T ss_pred             h-------hhhHHHHHHHHHHHhcCCCEEEEEec-CCCcchhHHhhh--cceEEEEecCCCCcHHHHHH-hhhhhhhhe-
Confidence            1       12233455555555579999999998 466665666666  99999999998865543333 123332222 


Q ss_pred             eEEEEEcCCC
Q psy14655        162 VAGLVMNMNS  171 (261)
Q Consensus       162 ~~giv~N~~~  171 (261)
                         +|+|+++
T Consensus       194 ---~vINKaD  200 (323)
T COG1703         194 ---IVINKAD  200 (323)
T ss_pred             ---eeEeccC
Confidence               7899955

>PRK05703 flhF flagellar biosynthesis regulator FlhF; Validated

Probab=98.94  E-value=3.7e-09  Score=93.71  Aligned_cols=130  Identities=20%  Similarity=0.259  Sum_probs=75.2

Q ss_pred             cCCCCCcHHHHHHHHHHHHH--hcCCCCeEEEEecCCCCCCc----ccccCCCCCCCCCcCCccccccccCceeecCCCC
Q psy14655          4 SSKGGVGKSTTTVNLATAMK--ICYPDKEIGILDADVFGPSI----PILMNLPDTPLLNKDNLMIPLVNYGVKCLSMGNL   77 (261)
Q Consensus         4 s~KGGvGKTT~a~~lA~~la--~~g~~~~VllvD~D~~~~~~----~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~   77 (261)
                      -+.+|+||||++++||..++  +.|  ++|++||+|++....    ..+...                 .++.+....  
T Consensus       227 vGptGvGKTTt~~kLA~~~~~~~~g--~~V~li~~D~~r~~a~eqL~~~a~~-----------------~~vp~~~~~--  285 (424)
T PRK05703        227 VGPTGVGKTTTLAKLAARYALLYGK--KKVALITLDTYRIGAVEQLKTYAKI-----------------MGIPVEVVY--  285 (424)
T ss_pred             ECCCCCCHHHHHHHHHHHHHHhcCC--CeEEEEECCccHHHHHHHHHHHHHH-----------------hCCceEccC--
Confidence            36699999999999999998  456  999999999986421    111110                 011111100  


Q ss_pred             cccchhhhhhchHHHHHHHHHHHHhccCCCCEEEEeCCCCCCh------hHHHHhhhc-CCCeEEEEeCCCcchHHHHHH
Q psy14655         78 ITEKSAAIWRGLMVMQALNKLTVQVQWGPCDILFIDTPPGTGD------THLSLIQNL-FIDTAIIITIPDTMSLQVAQR  150 (261)
Q Consensus        78 ~~~~~~~~~~~~~~~~~l~~~l~~l~~~~yd~IiiD~~~~~~~------~~~~~~~~~-~ad~viiv~~~~~~s~~~~~~  150 (261)
                                   ....+...+..+  .+||+|||||++....      .....+... ....+++|+.++ ....++..
T Consensus       286 -------------~~~~l~~~l~~~--~~~DlVlIDt~G~~~~d~~~~~~L~~ll~~~~~~~~~~LVl~a~-~~~~~l~~  349 (424)
T PRK05703        286 -------------DPKELAKALEQL--RDCDVILIDTAGRSQRDKRLIEELKALIEFSGEPIDVYLVLSAT-TKYEDLKD  349 (424)
T ss_pred             -------------CHHhHHHHHHHh--CCCCEEEEeCCCCCCCCHHHHHHHHHHHhccCCCCeEEEEEECC-CCHHHHHH
Confidence                         011244444444  4799999999965432      122222210 022455555543 34455556


Q ss_pred             HHHHHHhCCCCeEEEEEcCCCC
Q psy14655        151 GYTMFKKLNIPVAGLVMNMNSV  172 (261)
Q Consensus       151 ~~~~l~~~~~~~~giv~N~~~~  172 (261)
                      +++.+...+  ..++|+++.+.
T Consensus       350 ~~~~f~~~~--~~~vI~TKlDe  369 (424)
T PRK05703        350 IYKHFSRLP--LDGLIFTKLDE  369 (424)
T ss_pred             HHHHhCCCC--CCEEEEecccc
Confidence            666666554  36899998653

>PRK14974 cell division protein FtsY; Provisional

Probab=98.90  E-value=1.3e-08  Score=87.25  Aligned_cols=141  Identities=16%  Similarity=0.102  Sum_probs=80.3

Q ss_pred             ccCCCCCcHHHHHHHHHHHHHhcCCCCeEEEEecCCCCCCcccccCCCCCCCCCcCCccccccccCceeecCCCCcccch
Q psy14655          3 ASSKGGVGKSTTTVNLATAMKICYPDKEIGILDADVFGPSIPILMNLPDTPLLNKDNLMIPLVNYGVKCLSMGNLITEKS   82 (261)
Q Consensus         3 ~s~KGGvGKTT~a~~lA~~la~~g~~~~VllvD~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~   82 (261)
                      +.+..|+||||+++.||..|...|  .+|+++++|.........+...             ....++.+++.....    
T Consensus       145 ~~G~~GvGKTTtiakLA~~l~~~g--~~V~li~~Dt~R~~a~eqL~~~-------------a~~lgv~v~~~~~g~----  205 (336)
T PRK14974        145 FVGVNGTGKTTTIAKLAYYLKKNG--FSVVIAAGDTFRAGAIEQLEEH-------------AERLGVKVIKHKYGA----  205 (336)
T ss_pred             EEcCCCCCHHHHHHHHHHHHHHcC--CeEEEecCCcCcHHHHHHHHHH-------------HHHcCCceecccCCC----
Confidence            456889999999999999999999  9999999997754321111100             001122222211111    


Q ss_pred             hhhhhchHHHHHHHHHHHHhccCCCCEEEEeCCCCCC--hhHHHH----hhhcCCCeEEEEeCCCcchHHHHHHHHHHHH
Q psy14655         83 AAIWRGLMVMQALNKLTVQVQWGPCDILFIDTPPGTG--DTHLSL----IQNLFIDTAIIITIPDTMSLQVAQRGYTMFK  156 (261)
Q Consensus        83 ~~~~~~~~~~~~l~~~l~~l~~~~yd~IiiD~~~~~~--~~~~~~----~~~~~ad~viiv~~~~~~s~~~~~~~~~~l~  156 (261)
                             .....+.+.++..+..+||+|||||++...  .....-    ......|.+++|++....  .++....+.+.
T Consensus       206 -------dp~~v~~~ai~~~~~~~~DvVLIDTaGr~~~~~~lm~eL~~i~~~~~pd~~iLVl~a~~g--~d~~~~a~~f~  276 (336)
T PRK14974        206 -------DPAAVAYDAIEHAKARGIDVVLIDTAGRMHTDANLMDELKKIVRVTKPDLVIFVGDALAG--NDAVEQAREFN  276 (336)
T ss_pred             -------CHHHHHHHHHHHHHhCCCCEEEEECCCccCCcHHHHHHHHHHHHhhCCceEEEeeccccc--hhHHHHHHHHH
Confidence                   011123344444333689999999997653  111111    111226888999886442  23333334333


Q ss_pred             hCCCCeEEEEEcCCCC
Q psy14655        157 KLNIPVAGLVMNMNSV  172 (261)
Q Consensus       157 ~~~~~~~giv~N~~~~  172 (261)
                      + ..+.-++|+|+.+.
T Consensus       277 ~-~~~~~giIlTKlD~  291 (336)
T PRK14974        277 E-AVGIDGVILTKVDA  291 (336)
T ss_pred             h-cCCCCEEEEeeecC
Confidence            2 23458899999654

>PRK14493 putative bifunctional molybdopterin-guanine dinucleotide biosynthesis protein MobB/MoaE; Provisional

Probab=98.89  E-value=6.4e-09  Score=86.86  Aligned_cols=124  Identities=11%  Similarity=-0.014  Sum_probs=70.3

Q ss_pred             cccCCCCCcHHHHHHHHHHHHHhcCCCCeEEEEecCCCCCCcccccCCCCCCCCCcCCccccccccCceeecCCCCcccc
Q psy14655          2 IASSKGGVGKSTTTVNLATAMKICYPDKEIGILDADVFGPSIPILMNLPDTPLLNKDNLMIPLVNYGVKCLSMGNLITEK   81 (261)
Q Consensus         2 v~s~KGGvGKTT~a~~lA~~la~~g~~~~VllvD~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~   81 (261)
                      |++.| |+||||++.+|+..|+++|   +|.+|+.|+... ..    .+...+....    ....+....++........
T Consensus         6 i~G~~-gSGKTTLi~~Li~~L~~~G---~V~~IKhd~h~~-~~----~~g~Ds~~~~----~aGa~~v~~~s~~~~~~~~   72 (274)
T PRK14493          6 IVGYK-ATGKTTLVERLVDRLSGRG---RVGTVKHMDTER-LN----PDGTDTGRHF----DAGADVVYGLTDGEWVASG   72 (274)
T ss_pred             EECCC-CCCHHHHHHHHHHHHHhCC---CEEEEEEcCCCc-CC----CCCCCcHHHH----HCCCcEEEEecCCeEEEEe
Confidence            55664 9999999999999999997   499999998541 10    1110000000    0000000011100000000


Q ss_pred             hhhhhhchHHHHHHHHHHHHhccCCCCEEEEeCCCCCChh--HHHHhhhcCCC-eEEEEeCCCcchHHHHHH
Q psy14655         82 SAAIWRGLMVMQALNKLTVQVQWGPCDILFIDTPPGTGDT--HLSLIQNLFID-TAIIITIPDTMSLQVAQR  150 (261)
Q Consensus        82 ~~~~~~~~~~~~~l~~~l~~l~~~~yd~IiiD~~~~~~~~--~~~~~~~~~ad-~viiv~~~~~~s~~~~~~  150 (261)
                               ....+.++++.+. .++|+||+|+.+.....  .+..+..  +| .+++|+.|+...+.++..
T Consensus        73 ---------~~~~l~~~l~~l~-~~~D~vlVEG~k~~~~pki~v~~~~~--~~~~~l~p~~~s~~d~~~lve  132 (274)
T PRK14493         73 ---------RDRSLDDALDDLA-PGMDYAVVEGFKDSRLPKVVLGDMDA--DSDVVARAPTAADLDTEDLVA  132 (274)
T ss_pred             ---------cCCCHHHHHHhhC-cCCCEEEEECCCCCCCCEEEEEeccc--CCcEEEecCCCCccCHHHHHH
Confidence                     0012666677676 68999999999876522  2233332  66 788888898888555544

>PRK12724 flagellar biosynthesis regulator FlhF; Provisional

Probab=98.88  E-value=1e-08  Score=89.60  Aligned_cols=135  Identities=11%  Similarity=0.115  Sum_probs=76.5

Q ss_pred             cccCCCCCcHHHHHHHHHHHH-HhcCCCCeEEEEecCCCCCCcccccCCCCCCCCCcCCccccccccCceeecCCCCccc
Q psy14655          2 IASSKGGVGKSTTTVNLATAM-KICYPDKEIGILDADVFGPSIPILMNLPDTPLLNKDNLMIPLVNYGVKCLSMGNLITE   80 (261)
Q Consensus         2 v~s~KGGvGKTT~a~~lA~~l-a~~g~~~~VllvD~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~   80 (261)
                      ++.+.+|+||||++++||..+ ...|  ++|+++|+|.++....+.+....             ...++.+.+.      
T Consensus       227 ~lvGptGvGKTTtaaKLA~~~~~~~G--~~V~Lit~Dt~R~aA~eQLk~yA-------------e~lgvp~~~~------  285 (432)
T PRK12724        227 FFVGPTGSGKTTSIAKLAAKYFLHMG--KSVSLYTTDNYRIAAIEQLKRYA-------------DTMGMPFYPV------  285 (432)
T ss_pred             EEECCCCCCHHHHHHHHHHHHHHhcC--CeEEEecccchhhhHHHHHHHHH-------------HhcCCCeeeh------
Confidence            356899999999999999876 5678  99999999998864332211100             0111111110      


Q ss_pred             chhhhhhchHHHHHHHHHHHHhccCCCCEEEEeCCCCCC--hhHH----HHhhhc---CCCeEEEEeCCCcchHHHHHHH
Q psy14655         81 KSAAIWRGLMVMQALNKLTVQVQWGPCDILFIDTPPGTG--DTHL----SLIQNL---FIDTAIIITIPDTMSLQVAQRG  151 (261)
Q Consensus        81 ~~~~~~~~~~~~~~l~~~l~~l~~~~yd~IiiD~~~~~~--~~~~----~~~~~~---~ad~viiv~~~~~~s~~~~~~~  151 (261)
                               ..   +..+.+.+...+||+|||||++...  ....    ..+...   ....+++|++++... .++...
T Consensus       286 ---------~~---~~~l~~~l~~~~~D~VLIDTaGr~~rd~~~l~eL~~~~~~~~~~~~~e~~LVLsAt~~~-~~~~~~  352 (432)
T PRK12724        286 ---------KD---IKKFKETLARDGSELILIDTAGYSHRNLEQLERMQSFYSCFGEKDSVENLLVLSSTSSY-HHTLTV  352 (432)
T ss_pred             ---------HH---HHHHHHHHHhCCCCEEEEeCCCCCccCHHHHHHHHHHHHhhcCCCCCeEEEEEeCCCCH-HHHHHH
Confidence                     00   1222222322789999999975432  1111    111110   023577777755443 333444


Q ss_pred             HHHHHhCCCCeEEEEEcCCCC
Q psy14655        152 YTMFKKLNIPVAGLVMNMNSV  172 (261)
Q Consensus       152 ~~~l~~~~~~~~giv~N~~~~  172 (261)
                      .+.+..  ++.-++|+++.+.
T Consensus       353 ~~~f~~--~~~~glIlTKLDE  371 (432)
T PRK12724        353 LKAYES--LNYRRILLTKLDE  371 (432)
T ss_pred             HHHhcC--CCCCEEEEEcccC
Confidence            555544  3557899998654

>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=98.86  E-value=2.6e-08  Score=79.35  Aligned_cols=139  Identities=17%  Similarity=0.202  Sum_probs=81.3

Q ss_pred             CCCCCcHHHHHHHHHHHHHhcCCCCeEEEEecCCCCCCcccccCCCCCCCCCcCCccccccccCceeecCCCCcccchhh
Q psy14655          5 SKGGVGKSTTTVNLATAMKICYPDKEIGILDADVFGPSIPILMNLPDTPLLNKDNLMIPLVNYGVKCLSMGNLITEKSAA   84 (261)
Q Consensus         5 ~KGGvGKTT~a~~lA~~la~~g~~~~VllvD~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~   84 (261)
                      +-.||||||+++-||+.+..++  ++|.+|-+|..+......+..             -...-++.+.......      
T Consensus         8 GptGvGKTTt~aKLAa~~~~~~--~~v~lis~D~~R~ga~eQL~~-------------~a~~l~vp~~~~~~~~------   66 (196)
T PF00448_consen    8 GPTGVGKTTTIAKLAARLKLKG--KKVALISADTYRIGAVEQLKT-------------YAEILGVPFYVARTES------   66 (196)
T ss_dssp             ESTTSSHHHHHHHHHHHHHHTT----EEEEEESTSSTHHHHHHHH-------------HHHHHTEEEEESSTTS------
T ss_pred             CCCCCchHhHHHHHHHHHhhcc--ccceeecCCCCCccHHHHHHH-------------HHHHhccccchhhcch------
Confidence            4469999999999999999888  999999999887432111100             0011123332211111      


Q ss_pred             hhhchHHHHHHHHHHHHhccCCCCEEEEeCCCCCCh------hHHHHhhhcCCCeEEEEeCCCcchHHHHHHHHHHHHhC
Q psy14655         85 IWRGLMVMQALNKLTVQVQWGPCDILFIDTPPGTGD------THLSLIQNLFIDTAIIITIPDTMSLQVAQRGYTMFKKL  158 (261)
Q Consensus        85 ~~~~~~~~~~l~~~l~~l~~~~yd~IiiD~~~~~~~------~~~~~~~~~~ad~viiv~~~~~~s~~~~~~~~~~l~~~  158 (261)
                           +..+.+.+.++....++||+|+|||++....      ...........+.+++|++++... .++....+..+..
T Consensus        67 -----~~~~~~~~~l~~~~~~~~D~vlIDT~Gr~~~d~~~~~el~~~~~~~~~~~~~LVlsa~~~~-~~~~~~~~~~~~~  140 (196)
T PF00448_consen   67 -----DPAEIAREALEKFRKKGYDLVLIDTAGRSPRDEELLEELKKLLEALNPDEVHLVLSATMGQ-EDLEQALAFYEAF  140 (196)
T ss_dssp             -----CHHHHHHHHHHHHHHTTSSEEEEEE-SSSSTHHHHHHHHHHHHHHHSSSEEEEEEEGGGGG-HHHHHHHHHHHHS
T ss_pred             -----hhHHHHHHHHHHHhhcCCCEEEEecCCcchhhHHHHHHHHHHhhhcCCccceEEEecccCh-HHHHHHHHHhhcc
Confidence                 1223355556655547899999999964321      111223333367899998876654 3444555555555


Q ss_pred             CCCeEEEEEcCCCC
Q psy14655        159 NIPVAGLVMNMNSV  172 (261)
Q Consensus       159 ~~~~~giv~N~~~~  172 (261)
                      ++  -++|+++.+.
T Consensus       141 ~~--~~lIlTKlDe  152 (196)
T PF00448_consen  141 GI--DGLILTKLDE  152 (196)
T ss_dssp             ST--CEEEEESTTS
T ss_pred             cC--ceEEEEeecC
Confidence            54  5889999654

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 ....

>PRK01077 cobyrinic acid a,c-diamide synthase; Validated

Probab=98.85  E-value=6.5e-08  Score=86.87  Aligned_cols=138  Identities=17%  Similarity=0.211  Sum_probs=81.4

Q ss_pred             CcccCCCCCcHHHHHHHHHHHHHhcCCCCeEEEEecCCCCCCcccccCCCCCCCCCcCCccccccccCceeecCCCCccc
Q psy14655          1 MIASSKGGVGKSTTTVNLATAMKICYPDKEIGILDADVFGPSIPILMNLPDTPLLNKDNLMIPLVNYGVKCLSMGNLITE   80 (261)
Q Consensus         1 ~v~s~KGGvGKTT~a~~lA~~la~~g~~~~VllvD~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~   80 (261)
                      +|++.++|+||||++++|+++|+++|  ++|..+.+.+...+..++......+            ..+++...       
T Consensus         7 ~I~gt~s~~GKT~it~~L~~~L~~~G--~~V~~fK~Gpd~~d~~~~~~~~g~~------------~~~ld~~~-------   65 (451)
T PRK01077          7 VIAAPASGSGKTTVTLGLMRALRRRG--LRVQPFKVGPDYIDPAYHTAATGRP------------SRNLDSWM-------   65 (451)
T ss_pred             EEEeCCCCCcHHHHHHHHHHHHHhCC--CCcceeecCCCcccHHHHHHHhCCC------------cccCCcee-------
Confidence            37889999999999999999999999  9999999865432211110000000            01111111       


Q ss_pred             chhhhhhchHHHHHHHHHHHHhccCCCCEEEEeCCCCCCh---------hHHHHhhhcCCCeEEEEeCCCcchHH--HHH
Q psy14655         81 KSAAIWRGLMVMQALNKLTVQVQWGPCDILFIDTPPGTGD---------THLSLIQNLFIDTAIIITIPDTMSLQ--VAQ  149 (261)
Q Consensus        81 ~~~~~~~~~~~~~~l~~~l~~l~~~~yd~IiiD~~~~~~~---------~~~~~~~~~~ad~viiv~~~~~~s~~--~~~  149 (261)
                               ...+.+.+.++.+. ++||++||....|+-.         ......... -.-+|+|+.+...+..  .+.
T Consensus        66 ---------~~~~~v~~~~~~~~-~~~D~vlVEGagGl~~g~~~~~~~~s~adiA~~l-~~pviLV~~~~~~~~~~a~l~  134 (451)
T PRK01077         66 ---------MGEELVRALFARAA-QGADIAVIEGVMGLFDGAGSDPDEGSTADIAKLL-GAPVVLVVDASGMAQSAAALV  134 (451)
T ss_pred             ---------CCHHHHHHHHHHhc-ccCCEEEEECCCccccCCccCCCCCCHHHHHHHh-CCCEEEEECCchHHHHHHHHH
Confidence                     11245677777777 8899999977744311         122233322 3356777776653332  222


Q ss_pred             HHHHHHHhCCCCeEEEEEcCCC
Q psy14655        150 RGYTMFKKLNIPVAGLVMNMNS  171 (261)
Q Consensus       150 ~~~~~l~~~~~~~~giv~N~~~  171 (261)
                      ..+..+ ..+.++.|+|+|++.
T Consensus       135 ~~~~~~-~~~i~i~GvI~N~v~  155 (451)
T PRK01077        135 LGFATF-DPDVRIAGVILNRVG  155 (451)
T ss_pred             HHHHHh-CCCCCEEEEEEECCC
Confidence            222222 236789999999954

>PRK12723 flagellar biosynthesis regulator FlhF; Provisional

Probab=98.82  E-value=3.3e-08  Score=86.32  Aligned_cols=135  Identities=16%  Similarity=0.152  Sum_probs=79.0

Q ss_pred             ccCCCCCcHHHHHHHHHHHHHh----cCCCCeEEEEecCCCCCCcccccCCCCCCCCCcCCccccccccCceeecCCCCc
Q psy14655          3 ASSKGGVGKSTTTVNLATAMKI----CYPDKEIGILDADVFGPSIPILMNLPDTPLLNKDNLMIPLVNYGVKCLSMGNLI   78 (261)
Q Consensus         3 ~s~KGGvGKTT~a~~lA~~la~----~g~~~~VllvD~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~   78 (261)
                      +-++.|+||||+++.||..+..    .|  ++|++|++|.+.....+.+..-.+             ..++.+...    
T Consensus       179 lvGptGvGKTTT~aKLA~~~~~~~~~~g--~~V~lit~Dt~R~aa~eQL~~~a~-------------~lgvpv~~~----  239 (388)
T PRK12723        179 LVGPTGVGKTTTIAKLAAIYGINSDDKS--LNIKIITIDNYRIGAKKQIQTYGD-------------IMGIPVKAI----  239 (388)
T ss_pred             EECCCCCCHHHHHHHHHHHHHhhhccCC--CeEEEEeccCccHHHHHHHHHHhh-------------cCCcceEee----
Confidence            4567799999999999999884    46  999999999987543332221110             001111100    


Q ss_pred             ccchhhhhhchHHHHHHHHHHHHhccCCCCEEEEeCCCCCChhH------HHHhhhcCCC-eEEEEeCCCcchHHHHHHH
Q psy14655         79 TEKSAAIWRGLMVMQALNKLTVQVQWGPCDILFIDTPPGTGDTH------LSLIQNLFID-TAIIITIPDTMSLQVAQRG  151 (261)
Q Consensus        79 ~~~~~~~~~~~~~~~~l~~~l~~l~~~~yd~IiiD~~~~~~~~~------~~~~~~~~ad-~viiv~~~~~~s~~~~~~~  151 (261)
                                 .....+...+..+  .+||+|||||++......      ...+.....+ .+++|++++.. ..++...
T Consensus       240 -----------~~~~~l~~~L~~~--~~~DlVLIDTaGr~~~~~~~l~el~~~l~~~~~~~e~~LVlsat~~-~~~~~~~  305 (388)
T PRK12723        240 -----------ESFKDLKEEITQS--KDFDLVLVDTIGKSPKDFMKLAEMKELLNACGRDAEFHLAVSSTTK-TSDVKEI  305 (388)
T ss_pred             -----------CcHHHHHHHHHHh--CCCCEEEEcCCCCCccCHHHHHHHHHHHHhcCCCCeEEEEEcCCCC-HHHHHHH
Confidence                       0112344555444  579999999997553111      1122221123 68888887664 3334444


Q ss_pred             HHHHHhCCCCeEEEEEcCCCC
Q psy14655        152 YTMFKKLNIPVAGLVMNMNSV  172 (261)
Q Consensus       152 ~~~l~~~~~~~~giv~N~~~~  172 (261)
                      ++.+..  ++.-++|+++.+.
T Consensus       306 ~~~~~~--~~~~~~I~TKlDe  324 (388)
T PRK12723        306 FHQFSP--FSYKTVIFTKLDE  324 (388)
T ss_pred             HHHhcC--CCCCEEEEEeccC
Confidence            444443  3457899998654

>TIGR00313 cobQ cobyric acid synthase CobQ

Probab=98.73  E-value=7.8e-07  Score=80.28  Aligned_cols=166  Identities=12%  Similarity=0.113  Sum_probs=86.1

Q ss_pred             cccCCCCCcHHHHHHHHHHHHHhcCCCCeEEEEecCC-CCCCcccccCCCCC---------CCCCcCCcccccc-----c
Q psy14655          2 IASSKGGVGKSTTTVNLATAMKICYPDKEIGILDADV-FGPSIPILMNLPDT---------PLLNKDNLMIPLV-----N   66 (261)
Q Consensus         2 v~s~KGGvGKTT~a~~lA~~la~~g~~~~VllvD~D~-~~~~~~~~~~~~~~---------~~~~~~~~~~~~~-----~   66 (261)
                      |+++-.++|||++++.|++.|.++|  .+|..+-.-- +.++....-+.+..         ........+.|..     .
T Consensus         3 I~GT~t~vGKT~v~~~L~~~l~~~G--~~v~~fKp~~~~~~s~~~~~~~e~~~a~~~qa~a~~~~~~~~~nPv~lk~~~~   80 (475)
T TIGR00313         3 VVGTTSSAGKSTLTAGLCRILARRG--YRVAPFKSQNMSLNSFVTKEGGEIAIAQATQALAAGIEPSVHMNPILLKPKGN   80 (475)
T ss_pred             EeeCCCCCCHHHHHHHHHHHHHhCC--CeEEEECCcccccCccccCCCchhHHHHHHHHHhCCCCchhccCCEEeCcCCC
Confidence            6788899999999999999999999  9999876532 11111000000000         0000000111110     0


Q ss_pred             cCceeecCCCCcccchh--hhh-hchHHHHHHHHHHHHhccCCCCEEEEeCCCCCChh--------HHHHhhhcCCCeEE
Q psy14655         67 YGVKCLSMGNLITEKSA--AIW-RGLMVMQALNKLTVQVQWGPCDILFIDTPPGTGDT--------HLSLIQNLFIDTAI  135 (261)
Q Consensus        67 ~~l~~~~~~~~~~~~~~--~~~-~~~~~~~~l~~~l~~l~~~~yd~IiiD~~~~~~~~--------~~~~~~~~~ad~vi  135 (261)
                      ....++-.|....+...  ... ......+.+.+.+..+. .+||+||||+++|+...        ........ .-.+|
T Consensus        81 ~~s~~i~~g~~~~~~~a~~~~~~~~~~~~~~i~~~~~~l~-~~~D~vIIEGaGGl~~~~~~~~d~s~~~lA~~l-~apVI  158 (475)
T TIGR00313        81 FTSQVIVHGRAVGDMNYQEYYKNKVDFFLKAIKESLEILA-REYDYVVIEGAGSPAEINLLKRDLANMRIAELA-NADAI  158 (475)
T ss_pred             CcCcEEEcCcccCcCCHHHHhhhhhHHHHHHHHHHHHHHH-hcCCEEEEECCCCccccccCcCCchHHHHHHHh-CCCEE
Confidence            00111211211111010  000 11233455667777777 88999999999875431        11222122 23466


Q ss_pred             EEeCCCcchH-HHHHHHHHHHHhC-CCCeEEEEEcCCC
Q psy14655        136 IITIPDTMSL-QVAQRGYTMFKKL-NIPVAGLVMNMNS  171 (261)
Q Consensus       136 iv~~~~~~s~-~~~~~~~~~l~~~-~~~~~giv~N~~~  171 (261)
                      +|+.....+. ..+..+++.++.. +..+.|+|+|++.
T Consensus       159 LV~d~~~g~~~a~i~gt~~~l~~~~~~~i~GvIlNrv~  196 (475)
T TIGR00313       159 LVADIDRGGVFASIYGTLKLLPENWRKLIKGIVINKFR  196 (475)
T ss_pred             EEEeCCccHHHHHHHHHHHHhChhhcCceEEEEEeccC
Confidence            6677665533 4445555555543 2568999999954

>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=98.68  E-value=1.3e-07  Score=77.18  Aligned_cols=142  Identities=21%  Similarity=0.237  Sum_probs=81.3

Q ss_pred             cCCCCCcHHHHHHHHHHHHHhcCCCCeEEEEecCCCCCCcccccCCCCCCCCCcCCccccc-cccCceeecCCCCcccch
Q psy14655          4 SSKGGVGKSTTTVNLATAMKICYPDKEIGILDADVFGPSIPILMNLPDTPLLNKDNLMIPL-VNYGVKCLSMGNLITEKS   82 (261)
Q Consensus         4 s~KGGvGKTT~a~~lA~~la~~g~~~~VllvD~D~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~l~~~~~~~~~~~~~   82 (261)
                      .+-+|+||||+.-.|+..+.+.|  ++|.++-.||.++-+.       -.-+.++--.... ..+++.+-|...... ..
T Consensus        35 TG~PGaGKSTli~~l~~~~~~~g--~~VaVlAVDPSSp~tG-------GAlLGDRiRM~~~~~d~~vfIRS~atRG~-lG  104 (266)
T PF03308_consen   35 TGPPGAGKSTLIDALIRELRERG--KRVAVLAVDPSSPFTG-------GALLGDRIRMQELSRDPGVFIRSMATRGS-LG  104 (266)
T ss_dssp             EE-TTSSHHHHHHHHHHHHHHTT----EEEEEE-GGGGCC----------SS--GGGCHHHHTSTTEEEEEE---SS-HH
T ss_pred             eCCCCCcHHHHHHHHHHHHhhcC--CceEEEEECCCCCCCC-------CcccccHHHhcCcCCCCCEEEeecCcCCC-CC
Confidence            46789999999999999999999  9999999999876431       1122333333322 345666665332221 11


Q ss_pred             hhhhhchHHHHHHHHHHHHhccCCCCEEEEeCCCCCChhHHHHhhhcCCCeEEEEeCCCcchHHH-HHHHHHHHHhCCCC
Q psy14655         83 AAIWRGLMVMQALNKLTVQVQWGPCDILFIDTPPGTGDTHLSLIQNLFIDTAIIITIPDTMSLQV-AQRGYTMFKKLNIP  161 (261)
Q Consensus        83 ~~~~~~~~~~~~l~~~l~~l~~~~yd~IiiD~~~~~~~~~~~~~~~~~ad~viiv~~~~~~s~~~-~~~~~~~l~~~~~~  161 (261)
                             -......+.+..+....||+|||-|- |.+..-......  ||.+++|+.|...+--+ .+.-+  ++-.+  
T Consensus       105 -------Gls~~t~~~v~ll~aaG~D~IiiETV-GvGQsE~~I~~~--aD~~v~v~~Pg~GD~iQ~~KaGi--mEiaD--  170 (266)
T PF03308_consen  105 -------GLSRATRDAVRLLDAAGFDVIIIETV-GVGQSEVDIADM--ADTVVLVLVPGLGDEIQAIKAGI--MEIAD--  170 (266)
T ss_dssp             -------HHHHHHHHHHHHHHHTT-SEEEEEEE-SSSTHHHHHHTT--SSEEEEEEESSTCCCCCTB-TTH--HHH-S--
T ss_pred             -------CccHhHHHHHHHHHHcCCCEEEEeCC-CCCccHHHHHHh--cCeEEEEecCCCccHHHHHhhhh--hhhcc--
Confidence                   11223444444444478999999998 466665666666  99999999998854432 22212  22122  


Q ss_pred             eEEEEEcCCC
Q psy14655        162 VAGLVMNMNS  171 (261)
Q Consensus       162 ~~giv~N~~~  171 (261)
                        -+|+|+++
T Consensus       171 --i~vVNKaD  178 (266)
T PF03308_consen  171 --IFVVNKAD  178 (266)
T ss_dssp             --EEEEE--S
T ss_pred             --EEEEeCCC
Confidence              27899854

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.

>PRK06731 flhF flagellar biosynthesis regulator FlhF; Validated

Probab=98.66  E-value=2.1e-07  Score=77.55  Aligned_cols=136  Identities=18%  Similarity=0.166  Sum_probs=80.6

Q ss_pred             ccCCCCCcHHHHHHHHHHHHHhcCCCCeEEEEecCCCCCC-cccccCCCCCCCCCcCCccccccccCceeecCCCCcccc
Q psy14655          3 ASSKGGVGKSTTTVNLATAMKICYPDKEIGILDADVFGPS-IPILMNLPDTPLLNKDNLMIPLVNYGVKCLSMGNLITEK   81 (261)
Q Consensus         3 ~s~KGGvGKTT~a~~lA~~la~~g~~~~VllvD~D~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~   81 (261)
                      +-++.|+||||+...++..+..++  .+|.+|++|.+... ...+.....              ..++.+....      
T Consensus        80 ~~G~~g~GKTtl~~~l~~~l~~~~--~~v~~i~~D~~ri~~~~ql~~~~~--------------~~~~~~~~~~------  137 (270)
T PRK06731         80 LIGPTGVGKTTTLAKMAWQFHGKK--KTVGFITTDHSRIGTVQQLQDYVK--------------TIGFEVIAVR------  137 (270)
T ss_pred             EECCCCCcHHHHHHHHHHHHHHcC--CeEEEEecCCCCHHHHHHHHHHhh--------------hcCceEEecC------
Confidence            446799999999999999999888  99999999988522 111111000              0112222110      


Q ss_pred             hhhhhhchHHHHHHHHHHHHhc-cCCCCEEEEeCCCCCC--hh-HH---HHhhhcCCCeEEEEeCCCcchHHHHHHHHHH
Q psy14655         82 SAAIWRGLMVMQALNKLTVQVQ-WGPCDILFIDTPPGTG--DT-HL---SLIQNLFIDTAIIITIPDTMSLQVAQRGYTM  154 (261)
Q Consensus        82 ~~~~~~~~~~~~~l~~~l~~l~-~~~yd~IiiD~~~~~~--~~-~~---~~~~~~~ad~viiv~~~~~~s~~~~~~~~~~  154 (261)
                               ....+.+.++.+. ..+||+||||+++...  .. ..   ..+.....+.+++|++++... .++...++.
T Consensus       138 ---------~~~~l~~~l~~l~~~~~~D~ViIDt~Gr~~~~~~~l~el~~~~~~~~~~~~~LVl~a~~~~-~d~~~~~~~  207 (270)
T PRK06731        138 ---------DEAAMTRALTYFKEEARVDYILIDTAGKNYRASETVEEMIETMGQVEPDYICLTLSASMKS-KDMIEIITN  207 (270)
T ss_pred             ---------CHHHHHHHHHHHHhcCCCCEEEEECCCCCcCCHHHHHHHHHHHhhhCCCeEEEEEcCccCH-HHHHHHHHH
Confidence                     1122445555553 1479999999998662  22 11   122222256788888765432 233344555


Q ss_pred             HHhCCCCeEEEEEcCCCC
Q psy14655        155 FKKLNIPVAGLVMNMNSV  172 (261)
Q Consensus       155 l~~~~~~~~giv~N~~~~  172 (261)
                      +..  .++-++|+++.+.
T Consensus       208 f~~--~~~~~~I~TKlDe  223 (270)
T PRK06731        208 FKD--IHIDGIVFTKFDE  223 (270)
T ss_pred             hCC--CCCCEEEEEeecC
Confidence            554  5668899999654

>PRK12374 putative dithiobiotin synthetase; Provisional

Probab=98.65  E-value=1.1e-06  Score=72.08  Aligned_cols=156  Identities=11%  Similarity=0.049  Sum_probs=90.8

Q ss_pred             cccCCCCCcHHHHHHHHHHHHHhcCCCCeEEEEecCCCCCCcccccCCCCCCCCCc--CCcccc-----ccccCceeecC
Q psy14655          2 IASSKGGVGKSTTTVNLATAMKICYPDKEIGILDADVFGPSIPILMNLPDTPLLNK--DNLMIP-----LVNYGVKCLSM   74 (261)
Q Consensus         2 v~s~KGGvGKTT~a~~lA~~la~~g~~~~VllvD~D~~~~~~~~~~~~~~~~~~~~--~~~~~~-----~~~~~l~~~~~   74 (261)
                      |++.-.|+|||+++..|+..|.++|  .+|.++-  |..+..... +    ....+  ...+..     .....+..++.
T Consensus         7 It~t~t~vGKT~vt~~L~~~l~~~g--~~v~~~K--Pi~~g~~~~-~----~~~~~~D~~~l~~~~~~~~~~~~~~p~~~   77 (231)
T PRK12374          7 ITGTDTSVGKTVVSRALLQALASQG--KTVAGYK--PVAKGSKET-P----EGLRNKDALVLQSVSSIELPYEAVNPIAL   77 (231)
T ss_pred             EEECCCCCCHHHHHHHHHHHHHHCC--CeEEEEC--ccccCCccC-C----CCCchHHHHHHHHhcCCCCCHHhccCeec
Confidence            5677889999999999999999999  9999874  333221100 0    00000  000000     00001111111


Q ss_pred             CCCcccchhhhhhchHHHHHHHHHHHHhccCCCCEEEEeCCCCCChh------HHHHhhhcCCCeEEEEeCCCcchHHHH
Q psy14655         75 GNLITEKSAAIWRGLMVMQALNKLTVQVQWGPCDILFIDTPPGTGDT------HLSLIQNLFIDTAIIITIPDTMSLQVA  148 (261)
Q Consensus        75 ~~~~~~~~~~~~~~~~~~~~l~~~l~~l~~~~yd~IiiD~~~~~~~~------~~~~~~~~~ad~viiv~~~~~~s~~~~  148 (261)
                      ......  . ........+.+.+.++.++ ++||+|||+..+|+...      ........ ---+++|+.....++..+
T Consensus        78 ~~~~a~--~-~~~~~i~~~~i~~~~~~l~-~~~D~VlVEGaGgl~~p~~~~~~~~d~~~~~-~~pvilV~~~~lg~in~~  152 (231)
T PRK12374         78 SEEESS--V-AHSCPINYTLMSNGLANLS-EKVDHVVVEGTGGWRSLMNDLRPLSEWVVQE-QLPVLMVVGIQEGCINHA  152 (231)
T ss_pred             CCCcCh--H-HcCCcCCHHHHHHHHHHHH-hhCCEEEEECCCCcceeccCcccHHHHHHHh-CCCEEEEECCCcChHHHH
Confidence            111110  0 0111112234566666677 89999999999855321      11122221 345788887788888888


Q ss_pred             HHHHHHHHhCCCCeEEEEEcCCC
Q psy14655        149 QRGYTMFKKLNIPVAGLVMNMNS  171 (261)
Q Consensus       149 ~~~~~~l~~~~~~~~giv~N~~~  171 (261)
                      .-.++.+...++++.|+|+|++.
T Consensus       153 lLt~~~l~~~~~~~~gvV~N~~~  175 (231)
T PRK12374        153 LLTAQAIANDGLPLIGWVANRIN  175 (231)
T ss_pred             HHHHHHHHhCCCcEEEEEEeCcc
Confidence            88888888889999999999954

>PF13500 AAA_26: AAA domain; PDB: 3OF5_A 2IOJ_A 4A0G_B 4A0R_A 4A0H_B 4A0F_B 3FMI_C 3FPA_D 3FMF_C 3FGN_A

Probab=98.64  E-value=3.6e-07  Score=73.09  Aligned_cols=151  Identities=18%  Similarity=0.231  Sum_probs=89.1

Q ss_pred             cccCCCCCcHHHHHHHHHHHHHhcCCCCeEEEEecCCCCCC-------cccccCCCCCCCCCcCCccccccccCceeecC
Q psy14655          2 IASSKGGVGKSTTTVNLATAMKICYPDKEIGILDADVFGPS-------IPILMNLPDTPLLNKDNLMIPLVNYGVKCLSM   74 (261)
Q Consensus         2 v~s~KGGvGKTT~a~~lA~~la~~g~~~~VllvD~D~~~~~-------~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~   74 (261)
                      |++.--|+|||+++..|+..|.++|  .+|.++=.=.++..       +..+++...           +..  ....+..
T Consensus         5 I~~t~t~vGKT~vslgL~~~l~~~g--~~v~~~KPi~~~~~~d~d~~~~~~~~~~~~-----------~~~--~~~~~~~   69 (199)
T PF13500_consen    5 ITGTDTGVGKTVVSLGLARALRRRG--IKVGYFKPIQTGPEDDEDAELIRELFGLSE-----------PPD--DPSPYTF   69 (199)
T ss_dssp             EEESSSSSSHHHHHHHHHHHHHHTT--SEEEEEEEEEESCCCSSHHHHHHHHCCTCC-----------CHH--HHECEEE
T ss_pred             EEeCCCCCCHHHHHHHHHHHHHhCC--CceEEEeeeEecCCCCchHHHHHHHhCCCc-----------ccc--ccccccc
Confidence            5778889999999999999999999  99987643222211       011111111           000  0001111


Q ss_pred             CCCcccchhhhhhchHHHHHHHHH-HHHhccCCCCEEEEeCCCCCC------hhHHHHhhhcCCCeEEEEeCCCcchHHH
Q psy14655         75 GNLITEKSAAIWRGLMVMQALNKL-TVQVQWGPCDILFIDTPPGTG------DTHLSLIQNLFIDTAIIITIPDTMSLQV  147 (261)
Q Consensus        75 ~~~~~~~~~~~~~~~~~~~~l~~~-l~~l~~~~yd~IiiD~~~~~~------~~~~~~~~~~~ad~viiv~~~~~~s~~~  147 (261)
                      ....  ..............+.++ ++.++ .++|++||+...+..      .....+.... -..+|+|......++.+
T Consensus        70 ~~~~--~~~~~~~~~~~~~~~~~i~~~~l~-~~~D~vlVEGag~~~~~~~~~~~n~dia~~L-~a~vIlV~~~~~g~i~~  145 (199)
T PF13500_consen   70 DEPA--SPHLAAELEGVDIDLERIIYKELA-EEYDVVLVEGAGGLMVPIFSGDLNADIAKAL-GAPVILVASGRLGTINH  145 (199)
T ss_dssp             SSSS---HHHHHHHHT----HHHHHHHHCH-TTTCEEEEEESSSTTSECCTTEEHHHHHHHH-T-EEEEEEESSTTHHHH
T ss_pred             Cccc--CHHHHhhccCCcccHHHHHHHHHh-hcCCEEEEeCCcccCcccccChHHHHHHHHc-CCCEEEEeCCCCCCHHH
Confidence            1100  011111101111114444 47777 899999999987764      1122333332 23588888888899999


Q ss_pred             HHHHHHHHHhCCCCeEEEEEcCCC
Q psy14655        148 AQRGYTMFKKLNIPVAGLVMNMNS  171 (261)
Q Consensus       148 ~~~~~~~l~~~~~~~~giv~N~~~  171 (261)
                      +...++.+...+.++.|+|+|++.
T Consensus       146 ~l~~~~~~~~~g~~v~GvI~N~~~  169 (199)
T PF13500_consen  146 TLLTIEALKQRGIRVLGVILNRVP  169 (199)
T ss_dssp             HHHHHHHHHCTTS-EEEEEEEECT
T ss_pred             HHHHHHHHHhcCCCEEEEEEECCC
Confidence            999999999889999999999844

...

>TIGR03499 FlhF flagellar biosynthetic protein FlhF

Probab=98.62  E-value=2.8e-08  Score=83.80  Aligned_cols=37  Identities=27%  Similarity=0.436  Sum_probs=32.0

Q ss_pred             cCCCCCcHHHHHHHHHHHHHhc-CCCCeEEEEecCCCCC
Q psy14655          4 SSKGGVGKSTTTVNLATAMKIC-YPDKEIGILDADVFGP   41 (261)
Q Consensus         4 s~KGGvGKTT~a~~lA~~la~~-g~~~~VllvD~D~~~~   41 (261)
                      .+.+|+||||+++.||.+++.. | +++|.+|++|++..
T Consensus       200 vGptGvGKTTt~~kLa~~~~~~~g-~~~V~li~~D~~r~  237 (282)
T TIGR03499       200 VGPTGVGKTTTLAKLAARFVLEHG-NKKVALITTDTYRI  237 (282)
T ss_pred             ECCCCCCHHHHHHHHHHHHHHHcC-CCeEEEEECCccch
Confidence            3568999999999999999976 3 38999999999864

>PRK05632 phosphate acetyltransferase; Reviewed

Probab=98.62  E-value=3.9e-07  Score=85.87  Aligned_cols=133  Identities=14%  Similarity=0.217  Sum_probs=84.1

Q ss_pred             cccCCCCCcHHHHHHHHHHHHHhcCCCCeEEEEecCCCCCCcccccCCCCCCCCCcCCccccccccCceeecCCCCcccc
Q psy14655          2 IASSKGGVGKSTTTVNLATAMKICYPDKEIGILDADVFGPSIPILMNLPDTPLLNKDNLMIPLVNYGVKCLSMGNLITEK   81 (261)
Q Consensus         2 v~s~KGGvGKTT~a~~lA~~la~~g~~~~VllvD~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~   81 (261)
                      |++...|+|||+++..|+..|.++|  .+|.++--..+.+.       ..      ....        ..+..+      
T Consensus         7 I~~T~t~~GKT~vslgL~~~L~~~G--~~Vg~fKPi~~~p~-------~~------~~~~--------~~~~~~------   57 (684)
T PRK05632          7 LAPTGTGVGLTSVSLGLMRALERKG--VKVGFFKPIAQPPL-------TM------SEVE--------ALLASG------   57 (684)
T ss_pred             EEECCCCCCHHHHHHHHHHHHHhCC--CeEEEeCCcccCCC-------CH------HHHH--------HHHhcc------
Confidence            5778899999999999999999999  99999875444310       00      0000        000000      


Q ss_pred             hhhhhhchHHHHHHHHHHHHhccCCCCEEEEeCCCCCChhH------HHHhhhcCCCeEEEEeCCCcchHHHHHHHH---
Q psy14655         82 SAAIWRGLMVMQALNKLTVQVQWGPCDILFIDTPPGTGDTH------LSLIQNLFIDTAIIITIPDTMSLQVAQRGY---  152 (261)
Q Consensus        82 ~~~~~~~~~~~~~l~~~l~~l~~~~yd~IiiD~~~~~~~~~------~~~~~~~~ad~viiv~~~~~~s~~~~~~~~---  152 (261)
                           ......+.+.+.++.+. .+||+||||++.+.+...      ....... .+-+++|+.++..++.++...+   
T Consensus        58 -----~~~~~~~~I~~~~~~l~-~~~D~VLIEGa~~~~~~~~~~~~na~iA~~L-~~pVILV~~~~~~si~d~~~~i~~~  130 (684)
T PRK05632         58 -----QLDELLEEIVARYHALA-KDCDVVLVEGLDPTRKHPFEFSLNAEIAKNL-GAEVVLVSSGGNDTPEELAERIELA  130 (684)
T ss_pred             -----CChHHHHHHHHHHHHhc-cCCCEEEEeCcCCCCcCcccCchHHHHHHHh-CCCEEEEECCCCCChHHHHHHHHHH
Confidence                 00122344566666677 899999999987654321      1112211 4688999998887765544433   


Q ss_pred             -HHHH-hCCCCeEEEEEcCC
Q psy14655        153 -TMFK-KLNIPVAGLVMNMN  170 (261)
Q Consensus       153 -~~l~-~~~~~~~giv~N~~  170 (261)
                       +.+. ..+.+..|+|+|+.
T Consensus       131 ~~~l~~~~~~~v~GVIvNr~  150 (684)
T PRK05632        131 ASSFGGAKNANILGVIINKL  150 (684)
T ss_pred             HHHhccCCCCcEEEEEEECC
Confidence             3333 34678999999993

>COG0132 BioD Dethiobiotin synthetase [Coenzyme metabolism]

Probab=98.53  E-value=8.2e-06  Score=65.75  Aligned_cols=155  Identities=15%  Similarity=0.126  Sum_probs=95.6

Q ss_pred             cccCCCCCcHHHHHHHHHHHHHhcCCCCeEEEEecCCCCCCcccccCCCCCCCCCcCCcccc-------ccccCceee--
Q psy14655          2 IASSKGGVGKSTTTVNLATAMKICYPDKEIGILDADVFGPSIPILMNLPDTPLLNKDNLMIP-------LVNYGVKCL--   72 (261)
Q Consensus         2 v~s~KGGvGKTT~a~~lA~~la~~g~~~~VllvD~D~~~~~~~~~~~~~~~~~~~~~~~~~~-------~~~~~l~~~--   72 (261)
                      |++.--|||||.+++.|+.+|..+|  ++|...=.=..+        .+....-++...+..       ....+.+.+  
T Consensus         7 VtGTDT~VGKTv~S~aL~~~l~~~g--~~~~~~KPVqsG--------~~~~~~~~D~~~l~~~~~~~~~~~~~~py~f~~   76 (223)
T COG0132           7 VTGTDTGVGKTVVSAALAQALKQQG--YSVAGYKPVQTG--------SEETAENSDALVLQRLSGLDLSYELINPYRFKE   76 (223)
T ss_pred             EEeCCCCccHHHHHHHHHHHHHhCC--CeeEEECceeeC--------CCCCCCCchHHHHHHhcCCCcccccccceecCC
Confidence            5667779999999999999999999  888775322111        111000000000000       000111111  


Q ss_pred             cCCCCcccchhhhhhchHHHHHHHHHHHHhccCCCCEEEEeCCCCCCh------hHHHHhhhcCCCeEEEEeCCCcchHH
Q psy14655         73 SMGNLITEKSAAIWRGLMVMQALNKLTVQVQWGPCDILFIDTPPGTGD------THLSLIQNLFIDTAIIITIPDTMSLQ  146 (261)
Q Consensus        73 ~~~~~~~~~~~~~~~~~~~~~~l~~~l~~l~~~~yd~IiiD~~~~~~~------~~~~~~~~~~ad~viiv~~~~~~s~~  146 (261)
                      |..+..+....   ......+.+...+..+. ..||+|+|-..+|+-.      .....+... .--+|+|+.....++.
T Consensus        77 P~sPhlAa~~e---g~~I~~~~l~~~l~~l~-~~~d~vlVEGAGGl~vPl~~~~~~~D~~~~~-~lpvILV~~~~LGtIN  151 (223)
T COG0132          77 PLSPHLAAELE---GRTIDLEKLSQGLRQLL-KKYDLVLVEGAGGLLVPLTEEYTFADLAVQL-QLPVILVVGIKLGTIN  151 (223)
T ss_pred             CCCcHHHHhhc---CCcccHHHHHHHHHhhh-cccCEEEEeCCCceeeecCCcccHHHHHHHc-CCCEEEEecCCccHHH
Confidence            22222211111   11134455666677777 7999999999988731      112222211 4468999999999999


Q ss_pred             HHHHHHHHHHhCCCCeEEEEEcCCC
Q psy14655        147 VAQRGYTMFKKLNIPVAGLVMNMNS  171 (261)
Q Consensus       147 ~~~~~~~~l~~~~~~~~giv~N~~~  171 (261)
                      .+.-.++.++.-+++..|+|+|...
T Consensus       152 HtlLt~eal~~~gl~l~G~I~n~~~  176 (223)
T COG0132         152 HTLLTVEALRARGLPLAGWVANGIN  176 (223)
T ss_pred             HHHHHHHHHHHCCCCEEEEEEccCC
Confidence            9999999999999999999999854

>PRK14723 flhF flagellar biosynthesis regulator FlhF; Provisional

Probab=98.46  E-value=6.8e-07  Score=83.73  Aligned_cols=136  Identities=16%  Similarity=0.105  Sum_probs=78.9

Q ss_pred             CCCCCcHHHHHHHHHHHHH-hcCCCCeEEEEecCCCCCCcccccCCCCCCCCCcCCccccccccCceeecCCCCcccchh
Q psy14655          5 SKGGVGKSTTTVNLATAMK-ICYPDKEIGILDADVFGPSIPILMNLPDTPLLNKDNLMIPLVNYGVKCLSMGNLITEKSA   83 (261)
Q Consensus         5 ~KGGvGKTT~a~~lA~~la-~~g~~~~VllvD~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~   83 (261)
                      +-.|+||||+...||..+. ..| +++|.+|++|.+.......+....             ...++.+...         
T Consensus       192 GpnGvGKTTTiaKLA~~~~~~~G-~kkV~lit~Dt~RigA~eQL~~~a-------------~~~gvpv~~~---------  248 (767)
T PRK14723        192 GPTGVGKTTTTAKLAARCVAREG-ADQLALLTTDSFRIGALEQLRIYG-------------RILGVPVHAV---------  248 (767)
T ss_pred             CCCCCcHHHHHHHHHhhHHHHcC-CCeEEEecCcccchHHHHHHHHHH-------------HhCCCCcccc---------
Confidence            4569999999999999886 444 369999999987633211111000             0011111100         


Q ss_pred             hhhhchHHHHHHHHHHHHhccCCCCEEEEeCCCCCC--hhHHHHhh----hcCCCeEEEEeCCCcchHHHHHHHHHHHHh
Q psy14655         84 AIWRGLMVMQALNKLTVQVQWGPCDILFIDTPPGTG--DTHLSLIQ----NLFIDTAIIITIPDTMSLQVAQRGYTMFKK  157 (261)
Q Consensus        84 ~~~~~~~~~~~l~~~l~~l~~~~yd~IiiD~~~~~~--~~~~~~~~----~~~ad~viiv~~~~~~s~~~~~~~~~~l~~  157 (261)
                            .....+.+.++.+  .+||+|||||++-..  ......+.    ....+.+++|++.+. ..+.+..+++.+..
T Consensus       249 ------~~~~~l~~al~~~--~~~D~VLIDTAGRs~~d~~l~eel~~l~~~~~p~e~~LVLsAt~-~~~~l~~i~~~f~~  319 (767)
T PRK14723        249 ------KDAADLRFALAAL--GDKHLVLIDTVGMSQRDRNVSEQIAMLCGVGRPVRRLLLLNAAS-HGDTLNEVVHAYRH  319 (767)
T ss_pred             ------CCHHHHHHHHHHh--cCCCEEEEeCCCCCccCHHHHHHHHHHhccCCCCeEEEEECCCC-cHHHHHHHHHHHhh
Confidence                  0112355666655  478999999997332  11111111    111467888888663 34555666666665


Q ss_pred             C-CCCeEEEEEcCCCC
Q psy14655        158 L-NIPVAGLVMNMNSV  172 (261)
Q Consensus       158 ~-~~~~~giv~N~~~~  172 (261)
                      . ..++-++|+++.+.
T Consensus       320 ~~~~~i~glIlTKLDE  335 (767)
T PRK14723        320 GAGEDVDGCIITKLDE  335 (767)
T ss_pred             cccCCCCEEEEeccCC
Confidence            3 34568999999664

>TIGR00379 cobB cobyrinic acid a,c-diamide synthase

Probab=98.44  E-value=6.7e-06  Score=73.89  Aligned_cols=138  Identities=13%  Similarity=0.129  Sum_probs=76.7

Q ss_pred             CcccCCCCCcHHHHHHHHHHHHHhcCCCCeEEEEecCCCCCCcccccCCCCCCCCCcCCccccccccCceeecCCCCccc
Q psy14655          1 MIASSKGGVGKSTTTVNLATAMKICYPDKEIGILDADVFGPSIPILMNLPDTPLLNKDNLMIPLVNYGVKCLSMGNLITE   80 (261)
Q Consensus         1 ~v~s~KGGvGKTT~a~~lA~~la~~g~~~~VllvD~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~   80 (261)
                      .|++...|+||||+++.|+++|+++|  .+|..+-.-+..        ++  +.+-  ..+......+++.         
T Consensus         3 ~I~gT~t~vGKT~vt~~L~~~L~~~G--~~V~~fK~g~d~--------~D--~~~~--~~~~g~~~~~ld~---------   59 (449)
T TIGR00379         3 VIAGTSSGVGKTTISTGIMKALSRRK--LRVQPFKVGPDY--------ID--PMFH--TQATGRPSRNLDS---------   59 (449)
T ss_pred             EEEeCCCCCcHHHHHHHHHHHHHHCC--CceeEEccCCCC--------CC--HHHH--HHHhCCchhhCCc---------
Confidence            36789999999999999999999999  999998652110        00  0000  0000000001100         


Q ss_pred             chhhhhhchHHHHHHHHHHHHhccCCCCEEEEeCCCCCC---------hhHHHHhhhcCCCeEEEEeCCCcchHHHHHHH
Q psy14655         81 KSAAIWRGLMVMQALNKLTVQVQWGPCDILFIDTPPGTG---------DTHLSLIQNLFIDTAIIITIPDTMSLQVAQRG  151 (261)
Q Consensus        81 ~~~~~~~~~~~~~~l~~~l~~l~~~~yd~IiiD~~~~~~---------~~~~~~~~~~~ad~viiv~~~~~~s~~~~~~~  151 (261)
                         .    ....+.+.+.+..+. +++|++||....|+-         .....+.... ---||+|+.... ....+..+
T Consensus        60 ---~----~~~~~~i~~~~~~~~-~~~D~viVEGagGl~~g~~p~~~~~s~adlAk~l-~~pVILV~~~~~-~~~t~~al  129 (449)
T TIGR00379        60 ---F----FMSEAQIQECFHRHS-KGTDYSIIEGVRGLYDGISAITDYGSTASVAKAL-DAPIVLVMNCQR-LSRSAAAI  129 (449)
T ss_pred             ---c----cCCHHHHHHHHHHhc-ccCCEEEEecCCccccCCCCCCCCccHHHHHHHh-CCCEEEEECCch-HHHHHHHH
Confidence               0    012445777777777 889999999875442         1122333332 224666666442 11222222


Q ss_pred             HHHH--HhCCCCeEEEEEcCCC
Q psy14655        152 YTMF--KKLNIPVAGLVMNMNS  171 (261)
Q Consensus       152 ~~~l--~~~~~~~~giv~N~~~  171 (261)
                      +..+  ...+.++.|+|+|++.
T Consensus       130 ~~~~~~~~~~i~i~GvIlN~v~  151 (449)
T TIGR00379       130 VLGYRSFDPGVKLKGVILNRVG  151 (449)
T ss_pred             HHHHHhhCCCCCEEEEEEECCC
Confidence            2222  2347789999999954

This model describes cobyrinic acid a,c-diamide synthase, the cobB (cbiA in Salmonella) protein of cobalamin biosynthesis. It is responsible for the amidation of carboxylic groups at positions A and C of either cobyrinic acid or hydrogenobrynic acid. NH(2) groups are provided by glutamine and one molecule of ATP hydrogenolyzed for each amidation.

>PRK00784 cobyric acid synthase; Provisional

Probab=98.43  E-value=5.5e-06  Score=75.24  Aligned_cols=162  Identities=10%  Similarity=0.074  Sum_probs=84.3

Q ss_pred             cccCCCCCcHHHHHHHHHHHHHhcCCCCeEEEEecCCCCCCcccccCCCCCCCCCcCCccc-------c--ccccCceee
Q psy14655          2 IASSKGGVGKSTTTVNLATAMKICYPDKEIGILDADVFGPSIPILMNLPDTPLLNKDNLMI-------P--LVNYGVKCL   72 (261)
Q Consensus         2 v~s~KGGvGKTT~a~~lA~~la~~g~~~~VllvD~D~~~~~~~~~~~~~~~~~~~~~~~~~-------~--~~~~~l~~~   72 (261)
                      |++...|||||++++.|++.|.++|  ++|..+-  |++.+.....+.+.. ...+...+.       +  ..++ ..+-
T Consensus         7 ItGT~T~vGKT~vt~~L~~~l~~~G--~~v~~~K--pv~~~~~~~~~~dg~-~~~Da~~l~~~~~~~~~~~~i~P-~~~~   80 (488)
T PRK00784          7 VQGTASDAGKSTLVAGLCRILARRG--YRVAPFK--AQNMSLNSAVTADGG-EIGRAQALQAEAAGVEPSVDMNP-VLLK   80 (488)
T ss_pred             EEeCCCCCcHHHHHHHHHHHHHHCC--CeEeccc--chhccccceECCCCC-eeHHHHHHHHHhCCCCchhccCC-EEec
Confidence            6788999999999999999999999  9998774  332111100000000 000000000       0  0000 0111


Q ss_pred             cCCCCccc----c--------hhhhhhchHHHHHHHHHHHHhccCCCCEEEEeCCCCCC--------hhHHHHhhhcCCC
Q psy14655         73 SMGNLITE----K--------SAAIWRGLMVMQALNKLTVQVQWGPCDILFIDTPPGTG--------DTHLSLIQNLFID  132 (261)
Q Consensus        73 ~~~~~~~~----~--------~~~~~~~~~~~~~l~~~l~~l~~~~yd~IiiD~~~~~~--------~~~~~~~~~~~ad  132 (261)
                      |..+....    .        ...........+.+.+.+..+. ++||++||+..+++-        .....+.... --
T Consensus        81 ~~sp~~a~~~~~g~~~~~l~a~~~~~~~~~~~~~I~~~~~~l~-~~~D~vIVEGaGg~~~~~L~~~~~~~~dlak~l-~~  158 (488)
T PRK00784         81 PQSDRGSQVIVQGKPVGNMDARDYHDYKPRLLEAVLESLDRLA-AEYDVVVVEGAGSPAEINLRDRDIANMGFAEAA-DA  158 (488)
T ss_pred             CCCCCcceEEEcCccccccCHHHHhhcchhhHHHHHHHHHHHH-hcCCEEEEECCCCccccCcccCCchhHHHHHHc-CC
Confidence            21111100    0        0000112234455677777777 899999999774432        1122222221 12


Q ss_pred             eEEEEeCCCcc-hHHHHHHHHHHHHh-CCCCeEEEEEcCCC
Q psy14655        133 TAIIITIPDTM-SLQVAQRGYTMFKK-LNIPVAGLVMNMNS  171 (261)
Q Consensus       133 ~viiv~~~~~~-s~~~~~~~~~~l~~-~~~~~~giv~N~~~  171 (261)
                      -||+|+..... ++..+..+++.+.. .+.++.|+|+|++.
T Consensus       159 PVILV~~~~~g~~~~~i~~~~~~l~~~~~~~i~GvI~N~v~  199 (488)
T PRK00784        159 PVILVADIDRGGVFASLVGTLALLPPEERARVKGFIINKFR  199 (488)
T ss_pred             CEEEEEeCCcCcHHHHHHHHHHhcChhhCCcEEEEEEECCC
Confidence            46667666554 46666655566653 35689999999965

>COG1341 Predicted GTPase or GTP-binding protein [General function prediction only]

Probab=98.43  E-value=3.9e-06  Score=72.38  Aligned_cols=123  Identities=22%  Similarity=0.283  Sum_probs=68.6

Q ss_pred             CCcHHHHHHHHHHHHHhcCCCCeEEEEecCCCCCCccc--c--cCCCCCCCCCcCCccccccccCceeecCCCCcccchh
Q psy14655          8 GVGKSTTTVNLATAMKICYPDKEIGILDADVFGPSIPI--L--MNLPDTPLLNKDNLMIPLVNYGVKCLSMGNLITEKSA   83 (261)
Q Consensus         8 GvGKTT~a~~lA~~la~~g~~~~VllvD~D~~~~~~~~--~--~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~   83 (261)
                      ++||||+++-||..+-.+|  ++|.+||+|+-++...-  +  +.....+.    ..+.........++  |...+....
T Consensus        83 DSGKSTLt~~LaN~~l~rG--~~v~iiDaDvGQ~ei~pPg~ISL~~~~s~~----~~L~~l~~~~~~Fv--G~isP~~~~  154 (398)
T COG1341          83 DSGKSTLTTYLANKLLARG--RKVAIIDADVGQSEIGPPGFISLAFPESPV----ISLSELEPFTLYFV--GSISPQGFP  154 (398)
T ss_pred             CcCHHHHHHHHHHHHhhcC--ceEEEEeCCCCCcccCCCceEEeecccCCC----CCHHHcCccceEEE--eccCCCCCh
Confidence            7999999999999999999  99999999998875310  0  00000000    00112222233332  211111110


Q ss_pred             hhhhchHHHHHHHHHHHHhccCCCCEEEEeCCCCCCh-----hHHHHhhhcCCCeEEEEeCCCcch
Q psy14655         84 AIWRGLMVMQALNKLTVQVQWGPCDILFIDTPPGTGD-----THLSLIQNLFIDTAIIITIPDTMS  144 (261)
Q Consensus        84 ~~~~~~~~~~~l~~~l~~l~~~~yd~IiiD~~~~~~~-----~~~~~~~~~~ad~viiv~~~~~~s  144 (261)
                           ........++++.++ +.-|+|||||++....     ...+.+.....|+|+..=..+..+
T Consensus       155 -----~~~i~~v~rL~~~a~-~~~~~ilIdT~GWi~G~~g~elk~~li~~ikP~~Ii~l~~~~~~~  214 (398)
T COG1341         155 -----GRYIAGVARLVDLAK-KEADFILIDTDGWIKGWGGLELKRALIDAIKPDLIIALERANELS  214 (398)
T ss_pred             -----HHHHHHHHHHHHHhh-ccCCEEEEcCCCceeCchHHHHHHHHHhhcCCCEEEEeccccccc
Confidence                 122334566777776 5679999999976533     223333333356666554444433

>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=98.40  E-value=1.7e-07  Score=76.88  Aligned_cols=36  Identities=19%  Similarity=0.232  Sum_probs=27.1

Q ss_pred             CCCCcHHHHHHHHHHHHHhcCCCCeEEEEecCCCCCCc
Q psy14655          6 KGGVGKSTTTVNLATAMKICYPDKEIGILDADVFGPSI   43 (261)
Q Consensus         6 KGGvGKTT~a~~lA~~la~~g~~~~VllvD~D~~~~~~   43 (261)
                      --|+||||.+..+..++..+|  ++|.+|.+||....+
T Consensus         4 paGSGKTT~~~~~~~~~~~~~--~~~~~vNLDPa~~~~   39 (238)
T PF03029_consen    4 PAGSGKTTFCKGLSEWLESNG--RDVYIVNLDPAVENL   39 (238)
T ss_dssp             STTSSHHHHHHHHHHHHTTT---S-EEEEE--TT-S--
T ss_pred             CCCCCHHHHHHHHHHHHHhcc--CCceEEEcchHhccc
Confidence            349999999999999999999  999999999997654

; GO: 0000166 nucleotide binding; PDB: 1YR7_A 1YRA_B 1YR8_A 1YR6_A 1YR9_A 1YRB_A 2OXR_A.

>COG0552 FtsY Signal recognition particle GTPase [Intracellular trafficking and secretion]

Probab=98.28  E-value=3.9e-06  Score=70.75  Aligned_cols=133  Identities=18%  Similarity=0.182  Sum_probs=79.9

Q ss_pred             CCCcHHHHHHHHHHHHHhcCCCCeEEEEecCCCCCCcccccCCCCCCCCCcCCccccccccCceeecCCCCcccchhhhh
Q psy14655          7 GGVGKSTTTVNLATAMKICYPDKEIGILDADVFGPSIPILMNLPDTPLLNKDNLMIPLVNYGVKCLSMGNLITEKSAAIW   86 (261)
Q Consensus         7 GGvGKTT~a~~lA~~la~~g~~~~VllvD~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~   86 (261)
                      -|+||||+..-||.+|.++|  ++|++.-+|..+...-.-+..-.             ...++.++....          
T Consensus       148 NG~GKTTTIaKLA~~l~~~g--~~VllaA~DTFRAaAiEQL~~w~-------------er~gv~vI~~~~----------  202 (340)
T COG0552         148 NGVGKTTTIAKLAKYLKQQG--KSVLLAAGDTFRAAAIEQLEVWG-------------ERLGVPVISGKE----------  202 (340)
T ss_pred             CCCchHhHHHHHHHHHHHCC--CeEEEEecchHHHHHHHHHHHHH-------------HHhCCeEEccCC----------
Confidence            49999999999999999999  99999999987643222111100             123455554321          


Q ss_pred             hchHHHHHHHHHHHHhccCCCCEEEEeCCCCCChhHHHHh-------hhcC------CCeEEEEeC--CCcchHHHHHHH
Q psy14655         87 RGLMVMQALNKLTVQVQWGPCDILFIDTPPGTGDTHLSLI-------QNLF------IDTAIIITI--PDTMSLQVAQRG  151 (261)
Q Consensus        87 ~~~~~~~~l~~~l~~l~~~~yd~IiiD~~~~~~~~~~~~~-------~~~~------ad~viiv~~--~~~~s~~~~~~~  151 (261)
                       +.+......+.+++.+.++||+|||||.+.+.+-. +++       ....      .+.++++++  .+..++.++..+
T Consensus       203 -G~DpAaVafDAi~~Akar~~DvvliDTAGRLhnk~-nLM~EL~KI~rV~~k~~~~ap~e~llvlDAttGqnal~QAk~F  280 (340)
T COG0552         203 -GADPAAVAFDAIQAAKARGIDVVLIDTAGRLHNKK-NLMDELKKIVRVIKKDDPDAPHEILLVLDATTGQNALSQAKIF  280 (340)
T ss_pred             -CCCcHHHHHHHHHHHHHcCCCEEEEeCcccccCch-hHHHHHHHHHHHhccccCCCCceEEEEEEcccChhHHHHHHHH
Confidence             11122234556666655899999999998764211 111       0000      234777766  344555555443


Q ss_pred             HHHHHhCCCCeEEEEEcCCC
Q psy14655        152 YTMFKKLNIPVAGLVMNMNS  171 (261)
Q Consensus       152 ~~~l~~~~~~~~giv~N~~~  171 (261)
                      -+.     .++-|+|+++.+
T Consensus       281 ~ea-----v~l~GiIlTKlD  295 (340)
T COG0552         281 NEA-----VGLDGIILTKLD  295 (340)
T ss_pred             HHh-----cCCceEEEEecc
Confidence            332     236788888855

>PRK14722 flhF flagellar biosynthesis regulator FlhF; Provisional

Probab=98.24  E-value=9.2e-06  Score=70.66  Aligned_cols=38  Identities=29%  Similarity=0.392  Sum_probs=30.7

Q ss_pred             ccCCCCCcHHHHHHHHHHHHHh-cCCCCeEEEEecCCCCC
Q psy14655          3 ASSKGGVGKSTTTVNLATAMKI-CYPDKEIGILDADVFGP   41 (261)
Q Consensus         3 ~s~KGGvGKTT~a~~lA~~la~-~g~~~~VllvD~D~~~~   41 (261)
                      +-+.-|+||||+++.||..+.. .| ..+|.+|.+|....
T Consensus       142 lvGptGvGKTTtiakLA~~~~~~~G-~~~V~lit~D~~R~  180 (374)
T PRK14722        142 LMGPTGVGKTTTTAKLAARCVMRFG-ASKVALLTTDSYRI  180 (374)
T ss_pred             EECCCCCCHHHHHHHHHHHHHHhcC-CCeEEEEecccccc
Confidence            3466799999999999998764 34 26999999999854

>cd04170 EF-G_bact Elongation factor G (EF-G) subfamily

Probab=98.22  E-value=6.5e-06  Score=69.00  Aligned_cols=66  Identities=17%  Similarity=0.261  Sum_probs=50.0

Q ss_pred             cCCCCEEEEeCCCCCC--hhHHHHhhhcCCCeEEEEeCCCcchHHHHHHHHHHHHhCCCCeEEEEEcCCCC
Q psy14655        104 WGPCDILFIDTPPGTG--DTHLSLIQNLFIDTAIIITIPDTMSLQVAQRGYTMFKKLNIPVAGLVMNMNSV  172 (261)
Q Consensus       104 ~~~yd~IiiD~~~~~~--~~~~~~~~~~~ad~viiv~~~~~~s~~~~~~~~~~l~~~~~~~~giv~N~~~~  172 (261)
                      +.++++.|+|||+..+  .....++..  +|.+++|+.++.........+++.+...+.+.+ +++|+.+.
T Consensus        61 ~~~~~i~liDtPG~~~f~~~~~~~l~~--aD~~i~Vvd~~~g~~~~~~~~~~~~~~~~~p~i-ivvNK~D~  128 (268)
T cd04170          61 WKGHKINLIDTPGYADFVGETRAALRA--ADAALVVVSAQSGVEVGTEKLWEFADEAGIPRI-IFINKMDR  128 (268)
T ss_pred             ECCEEEEEEECcCHHHHHHHHHHHHHH--CCEEEEEEeCCCCCCHHHHHHHHHHHHcCCCEE-EEEECCcc
Confidence            3678999999997653  334555665  999999999888777677777777777787755 79999664

Translocation is mediated by EF-G (also called translocase). The structure of EF-G closely resembles that of the complex between EF-Tu and tRNA. This is an example of molecular mimicry; a protein domain evolved so that it mimics the shape of a tRNA molecule. EF-G in the GTP form binds to the ribosome, primarily through the interaction of its EF-Tu-like domain with the 50S subunit. The binding of EF-G to the ribosome in this manner stimulates the GTPase activity of EF-G. On GTP hydrolysis, EF-G undergoes a conformational change that forces its arm deeper into the A site on the 30S subunit. To accommodate this domain, the peptidyl-tRNA in the A site moves to the P site, carrying the mRNA and the deacylated tRNA with it. The ribosome may be prepared for these rearrangements by the initial binding of EF-G as well. The dissociation of EF-G leaves the ribosome ready to accept the next aminoacyl-tRNA into the A site. This group

>KOG0781|consensus

Probab=98.16  E-value=6.8e-06  Score=71.98  Aligned_cols=147  Identities=14%  Similarity=0.109  Sum_probs=91.7

Q ss_pred             CCCCCcHHHHHHHHHHHHHhcCCCCeEEEEecCCCCCCcccccCCCCCCCCCcCCccccccccCceeecCCCCcccchhh
Q psy14655          5 SKGGVGKSTTTVNLATAMKICYPDKEIGILDADVFGPSIPILMNLPDTPLLNKDNLMIPLVNYGVKCLSMGNLITEKSAA   84 (261)
Q Consensus         5 ~KGGvGKTT~a~~lA~~la~~g~~~~VllvD~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~   84 (261)
                      +=-||||||--+-+|.+|-+++  .|||+.-||+.++..-.-++..-+.       +......-+.++..|+.-      
T Consensus       385 GVNGVGKSTNLAKIayWLlqNk--frVLIAACDTFRsGAvEQLrtHv~r-------l~~l~~~~v~lfekGYgk------  449 (587)
T KOG0781|consen  385 GVNGVGKSTNLAKIAYWLLQNK--FRVLIAACDTFRSGAVEQLRTHVER-------LSALHGTMVELFEKGYGK------  449 (587)
T ss_pred             eecCccccchHHHHHHHHHhCC--ceEEEEeccchhhhHHHHHHHHHHH-------HHHhccchhHHHhhhcCC------
Confidence            3459999999999999999999  9999999999876532222221100       000011112222222211      


Q ss_pred             hhhchHHHHHHHHHHHHhccCCCCEEEEeCCCCCCh--hHHHHh----hhcCCCeEEEEeCC--CcchHHHHHHHHHHHH
Q psy14655         85 IWRGLMVMQALNKLTVQVQWGPCDILFIDTPPGTGD--THLSLI----QNLFIDTAIIITIP--DTMSLQVAQRGYTMFK  156 (261)
Q Consensus        85 ~~~~~~~~~~l~~~l~~l~~~~yd~IiiD~~~~~~~--~~~~~~----~~~~ad~viiv~~~--~~~s~~~~~~~~~~l~  156 (261)
                           +.....+..++..+.++||+|+|||.+...+  ..+..+    ..-.-|.|+.|-+.  +..++..+..+-+.+.
T Consensus       450 -----d~a~vak~AI~~a~~~gfDVvLiDTAGR~~~~~~lm~~l~k~~~~~~pd~i~~vgealvg~dsv~q~~~fn~al~  524 (587)
T KOG0781|consen  450 -----DAAGVAKEAIQEARNQGFDVVLIDTAGRMHNNAPLMTSLAKLIKVNKPDLILFVGEALVGNDSVDQLKKFNRALA  524 (587)
T ss_pred             -----ChHHHHHHHHHHHHhcCCCEEEEeccccccCChhHHHHHHHHHhcCCCceEEEehhhhhCcHHHHHHHHHHHHHh
Confidence                 1122345666666668999999999976532  111111    11126899999884  5578888888888887


Q ss_pred             hCCCC--eEEEEEcCCC
Q psy14655        157 KLNIP--VAGLVMNMNS  171 (261)
Q Consensus       157 ~~~~~--~~giv~N~~~  171 (261)
                      +..-+  +-|+++.+++
T Consensus       525 ~~~~~r~id~~~ltk~d  541 (587)
T KOG0781|consen  525 DHSTPRLIDGILLTKFD  541 (587)
T ss_pred             cCCCccccceEEEEecc
Confidence            65422  6788999844

>KOG0780|consensus

Probab=98.15  E-value=6.5e-06  Score=70.36  Aligned_cols=110  Identities=15%  Similarity=0.092  Sum_probs=66.2

Q ss_pred             CCCcHHHHHHHHHHHHHhcCCCCeEEEEecCCCCCCcccccCCCCCCCCCcCCccccccccCceeecCCCCcccchhhhh
Q psy14655          7 GGVGKSTTTVNLATAMKICYPDKEIGILDADVFGPSIPILMNLPDTPLLNKDNLMIPLVNYGVKCLSMGNLITEKSAAIW   86 (261)
Q Consensus         7 GGvGKTT~a~~lA~~la~~g~~~~VllvD~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~   86 (261)
                      -|+||||++.-||.++.++|  +||++|=.|........-+....             ...++.+...+...        
T Consensus       110 qG~GKTTtc~KlA~y~kkkG--~K~~LvcaDTFRagAfDQLkqnA-------------~k~~iP~ygsyte~--------  166 (483)
T KOG0780|consen  110 QGSGKTTTCTKLAYYYKKKG--YKVALVCADTFRAGAFDQLKQNA-------------TKARVPFYGSYTEA--------  166 (483)
T ss_pred             cCCCcceeHHHHHHHHHhcC--CceeEEeecccccchHHHHHHHh-------------HhhCCeeEeccccc--------
Confidence            48999999999999999999  99999999987754322221100             11122222211111        


Q ss_pred             hchHHHHHHHHHHHHhccCCCCEEEEeCCCCCC------hhHHHHhhhcCCCeEEEEeCCCc
Q psy14655         87 RGLMVMQALNKLTVQVQWGPCDILFIDTPPGTG------DTHLSLIQNLFIDTAIIITIPDT  142 (261)
Q Consensus        87 ~~~~~~~~l~~~l~~l~~~~yd~IiiD~~~~~~------~~~~~~~~~~~ad~viiv~~~~~  142 (261)
                         +......+-++..+.++||+||+||++...      ........+..-|.||+|++.+.
T Consensus       167 ---dpv~ia~egv~~fKke~fdvIIvDTSGRh~qe~sLfeEM~~v~~ai~Pd~vi~VmDasi  225 (483)
T KOG0780|consen  167 ---DPVKIASEGVDRFKKENFDVIIVDTSGRHKQEASLFEEMKQVSKAIKPDEIIFVMDASI  225 (483)
T ss_pred             ---chHHHHHHHHHHHHhcCCcEEEEeCCCchhhhHHHHHHHHHHHhhcCCCeEEEEEeccc
Confidence               111122334444445899999999996432      12222333333799999998654

>KOG1532|consensus

Probab=98.15  E-value=2.6e-05  Score=63.95  Aligned_cols=155  Identities=16%  Similarity=0.196  Sum_probs=86.4

Q ss_pred             CCCCCcHHHHHHHHHHHHHhcCCCCeEEEEecCCCCCCcccccCCCCCCCCCcCCccccccccCceeecCCCCcccchhh
Q psy14655          5 SKGGVGKSTTTVNLATAMKICYPDKEIGILDADVFGPSIPILMNLPDTPLLNKDNLMIPLVNYGVKCLSMGNLITEKSAA   84 (261)
Q Consensus         5 ~KGGvGKTT~a~~lA~~la~~g~~~~VllvD~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~   84 (261)
                      +=-|+||||....|-..+...+  .+.-+|.+||.......-.+++-...+.-.+....     -..-|-|......+..
T Consensus        26 GMAGSGKTTF~QrL~~hl~~~~--~ppYviNLDPAv~~vpy~aniDIRDtVkYkEvMkq-----Y~LGPNGgI~TsLNLF   98 (366)
T KOG1532|consen   26 GMAGSGKTTFMQRLNSHLHAKK--TPPYVINLDPAVRNVPYPANIDIRDTVKYKEVMKQ-----YQLGPNGGIVTSLNLF   98 (366)
T ss_pred             ecCCCCchhHHHHHHHHHhhcc--CCCeEEeCCHHHhcCCCccCCchhhhhhHHHHHHH-----hCCCCCcchhhhHHHH
Confidence            3459999999999999999998  89999999998876655555443332221111111     1112222222222211


Q ss_pred             hhhchHHHHHHHHHHHHhccCCCCEEEEeCCCCCCh--------hHHHHhhhcCCCeEEEEeC-CCcch----HHHHHHH
Q psy14655         85 IWRGLMVMQALNKLTVQVQWGPCDILFIDTPPGTGD--------THLSLIQNLFIDTAIIITI-PDTMS----LQVAQRG  151 (261)
Q Consensus        85 ~~~~~~~~~~l~~~l~~l~~~~yd~IiiD~~~~~~~--------~~~~~~~~~~ad~viiv~~-~~~~s----~~~~~~~  151 (261)
                      .    .....+-.+++... +.+||||||||+.+.-        .....+...--..|+.++. |...+    +....-.
T Consensus        99 ~----tk~dqv~~~iek~~-~~~~~~liDTPGQIE~FtWSAsGsIIte~lass~ptvv~YvvDt~rs~~p~tFMSNMlYA  173 (366)
T KOG1532|consen   99 A----TKFDQVIELIEKRA-EEFDYVLIDTPGQIEAFTWSASGSIITETLASSFPTVVVYVVDTPRSTSPTTFMSNMLYA  173 (366)
T ss_pred             H----HHHHHHHHHHHHhh-cccCEEEEcCCCceEEEEecCCccchHhhHhhcCCeEEEEEecCCcCCCchhHHHHHHHH
Confidence            1    11223446666666 8899999999976642        2222222211223444554 33322    1222223


Q ss_pred             HHHHHhCCCCeEEEEEcCCCC
Q psy14655        152 YTMFKKLNIPVAGLVMNMNSV  172 (261)
Q Consensus       152 ~~~l~~~~~~~~giv~N~~~~  172 (261)
                      ...+.+..++.+ ++.|+.+.
T Consensus       174 cSilyktklp~i-vvfNK~Dv  193 (366)
T KOG1532|consen  174 CSILYKTKLPFI-VVFNKTDV  193 (366)
T ss_pred             HHHHHhccCCeE-EEEecccc
Confidence            345566777855 88999765

>PRK06995 flhF flagellar biosynthesis regulator FlhF; Validated

Probab=98.15  E-value=8.4e-06  Score=73.13  Aligned_cols=34  Identities=32%  Similarity=0.479  Sum_probs=28.5

Q ss_pred             CCCCcHHHHHHHHHHHHHh-cCCCCeEEEEecCCCC
Q psy14655          6 KGGVGKSTTTVNLATAMKI-CYPDKEIGILDADVFG   40 (261)
Q Consensus         6 KGGvGKTT~a~~lA~~la~-~g~~~~VllvD~D~~~   40 (261)
                      --|+||||++..||..+.. .| +++|.+|++|.+.
T Consensus       264 pnGvGKTTTiaKLA~~~~~~~G-~~kV~LI~~Dt~R  298 (484)
T PRK06995        264 PTGVGKTTTTAKLAARCVMRHG-ASKVALLTTDSYR  298 (484)
T ss_pred             CCCccHHHHHHHHHHHHHHhcC-CCeEEEEeCCccc
Confidence            4599999999999999864 44 2599999999975

>COG1797 CobB Cobyrinic acid a,c-diamide synthase [Coenzyme metabolism]

Probab=98.12  E-value=6e-05  Score=65.77  Aligned_cols=137  Identities=20%  Similarity=0.266  Sum_probs=75.4

Q ss_pred             CcccCCCCCcHHHHHHHHHHHHHhcCCCCeEEEEec--CCCCCCcccccCCCCCCCCCcCCccccccccCceeecCCCCc
Q psy14655          1 MIASSKGGVGKSTTTVNLATAMKICYPDKEIGILDA--DVFGPSIPILMNLPDTPLLNKDNLMIPLVNYGVKCLSMGNLI   78 (261)
Q Consensus         1 ~v~s~KGGvGKTT~a~~lA~~la~~g~~~~VllvD~--D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~   78 (261)
                      +|.+...|+||||+|..|.++|.++|  .+|=-.-+  |+--|+.+...  ...+.            .|++..-     
T Consensus         4 vIAg~~SG~GKTTvT~glm~aL~~rg--~~VqpfKvGPDYIDP~~H~~a--tG~~s------------rNLD~~m-----   62 (451)
T COG1797           4 VIAGTSSGSGKTTVTLGLMRALRRRG--LKVQPFKVGPDYIDPGYHTAA--TGRPS------------RNLDSWM-----   62 (451)
T ss_pred             EEecCCCCCcHHHHHHHHHHHHHhcC--CcccccccCCCccCchhhhHh--hCCcc------------CCCchhh-----
Confidence            36788899999999999999999998  66633222  11111111110  00111            1111111     


Q ss_pred             ccchhhhhhchHHHHHHHHHHHHhccCCCCEEEEeCCCCCC---------hhHHHHhhhcCCCeEEEEeCCCcchHHHHH
Q psy14655         79 TEKSAAIWRGLMVMQALNKLTVQVQWGPCDILFIDTPPGTG---------DTHLSLIQNLFIDTAIIITIPDTMSLQVAQ  149 (261)
Q Consensus        79 ~~~~~~~~~~~~~~~~l~~~l~~l~~~~yd~IiiD~~~~~~---------~~~~~~~~~~~ad~viiv~~~~~~s~~~~~  149 (261)
                                 ...+.++..+..-. ++.|+.||..-=|+-         ..+..+.... =-=||+|++....+-..+ 
T Consensus        63 -----------m~~~~v~~~f~~~~-~~adi~vIEGVMGLfDG~~~~~~~gSTA~lAk~l-~~PVvLVid~~~~s~S~A-  128 (451)
T COG1797          63 -----------MGEEGVRALFARAA-ADADIAVIEGVMGLFDGRGSATDTGSTADLAKLL-GAPVVLVVDASGLSRSVA-  128 (451)
T ss_pred             -----------cCHHHHHHHHHHhc-CCCCEEEEeeccccccCCCCCcCCCCHHHHHHHh-CCCEEEEEeCcchhHHHH-
Confidence                       12245777777776 788988874432210         1111111111 123788888766554333 


Q ss_pred             HHHHHHHhC--CCCeEEEEEcCCCC
Q psy14655        150 RGYTMFKKL--NIPVAGLVMNMNSV  172 (261)
Q Consensus       150 ~~~~~l~~~--~~~~~giv~N~~~~  172 (261)
                      .++.-+..+  ++++.|+|+||+.+
T Consensus       129 Aiv~G~~~fdp~v~iaGVIlNrVgs  153 (451)
T COG1797         129 AIVKGFKHFDPDVNIAGVILNRVGS  153 (451)
T ss_pred             HHHHHHHhcCCCCceEEEEEecCCC
Confidence            345555554  56789999999653

>KOG1533|consensus

Probab=98.05  E-value=6e-06  Score=66.03  Aligned_cols=41  Identities=17%  Similarity=0.275  Sum_probs=35.6

Q ss_pred             ccCCCCCcHHHHHHHHHHHHHhcCCCCeEEEEecCCCCCCccc
Q psy14655          3 ASSKGGVGKSTTTVNLATAMKICYPDKEIGILDADVFGPSIPI   45 (261)
Q Consensus         3 ~s~KGGvGKTT~a~~lA~~la~~g~~~~VllvD~D~~~~~~~~   45 (261)
                      +-+--|+||||-+..+...|+..|  ++|.+|.+||.+-.+..
T Consensus         7 VIGPPgSGKsTYc~g~~~fls~~g--r~~~vVNLDPaNd~~~Y   47 (290)
T KOG1533|consen    7 VIGPPGSGKSTYCNGMSQFLSAIG--RPVAVVNLDPANDNLPY   47 (290)
T ss_pred             EEcCCCCCccchhhhHHHHHHHhC--CceEEEecCCcccCCCC
Confidence            345679999999999999999999  99999999999765543

>cd04168 TetM_like Tet(M)-like subfamily

Probab=97.86  E-value=0.00017  Score=59.24  Aligned_cols=65  Identities=20%  Similarity=0.238  Sum_probs=47.5

Q ss_pred             CCCCEEEEeCCCCCC--hhHHHHhhhcCCCeEEEEeCCCcchHHHHHHHHHHHHhCCCCeEEEEEcCCCC
Q psy14655        105 GPCDILFIDTPPGTG--DTHLSLIQNLFIDTAIIITIPDTMSLQVAQRGYTMFKKLNIPVAGLVMNMNSV  172 (261)
Q Consensus       105 ~~yd~IiiD~~~~~~--~~~~~~~~~~~ad~viiv~~~~~~s~~~~~~~~~~l~~~~~~~~giv~N~~~~  172 (261)
                      +++.+.++|||+...  ......+..  +|.+++|+.....-......+.+.+.+.+.+.+ +++|+.+.
T Consensus        62 ~~~~i~liDTPG~~~f~~~~~~~l~~--aD~~IlVvd~~~g~~~~~~~~~~~~~~~~~P~i-ivvNK~D~  128 (237)
T cd04168          62 EDTKVNLIDTPGHMDFIAEVERSLSV--LDGAILVISAVEGVQAQTRILWRLLRKLNIPTI-IFVNKIDR  128 (237)
T ss_pred             CCEEEEEEeCCCccchHHHHHHHHHH--hCeEEEEEeCCCCCCHHHHHHHHHHHHcCCCEE-EEEECccc
Confidence            578899999996543  233445555  899999998766545566777777877888865 89999663

Tet(M), Tet(O), Tet(W), and OtrA are tetracycline resistance genes found in Gram-positive and Gram-negative bacteria. Tetracyclines inhibit protein synthesis by preventing aminoacyl-tRNA from binding to the ribosomal acceptor site. This subfamily contains tetracycline resistance proteins that function through ribosomal protection and are typically found on mobile genetic elements, such as transposons or plasmids, and are often conjugative. Ribosomal protection proteins are homologous to the elongation factors EF-Tu and EF-G. EF-G and Tet(M) compete for binding on the ribosomes. Tet(M) has a higher affinity than EF-G, suggesting these two proteins may have overlapping binding sites and that Tet(M) must be released before EF-G can bind. Tet(M) and Tet(O) have been shown to have ribosome-dependent GTPase activity. These proteins are part of the GTP translation factor family, which includes EF-G, EF-Tu, EF2, LepA, and SelB.

>PRK12740 elongation factor G; Reviewed

Probab=97.85  E-value=0.00011  Score=69.66  Aligned_cols=65  Identities=15%  Similarity=0.160  Sum_probs=48.7

Q ss_pred             CCCCEEEEeCCCCCC--hhHHHHhhhcCCCeEEEEeCCCcchHHHHHHHHHHHHhCCCCeEEEEEcCCCC
Q psy14655        105 GPCDILFIDTPPGTG--DTHLSLIQNLFIDTAIIITIPDTMSLQVAQRGYTMFKKLNIPVAGLVMNMNSV  172 (261)
Q Consensus       105 ~~yd~IiiD~~~~~~--~~~~~~~~~~~ad~viiv~~~~~~s~~~~~~~~~~l~~~~~~~~giv~N~~~~  172 (261)
                      .+|+++++|||+...  ......+..  +|.+++|++++..........+..+...+.+.+ +|+|+.+.
T Consensus        58 ~~~~i~liDtPG~~~~~~~~~~~l~~--aD~vllvvd~~~~~~~~~~~~~~~~~~~~~p~i-iv~NK~D~  124 (668)
T PRK12740         58 KGHKINLIDTPGHVDFTGEVERALRV--LDGAVVVVCAVGGVEPQTETVWRQAEKYGVPRI-IFVNKMDR  124 (668)
T ss_pred             CCEEEEEEECCCcHHHHHHHHHHHHH--hCeEEEEEeCCCCcCHHHHHHHHHHHHcCCCEE-EEEECCCC
Confidence            679999999997643  334455555  999999999877666666667777777787755 69999764

>cd01886 EF-G Elongation factor G (EF-G) subfamily

Probab=97.84  E-value=0.00027  Score=59.25  Aligned_cols=65  Identities=15%  Similarity=0.086  Sum_probs=48.4

Q ss_pred             CCCCEEEEeCCCCCC--hhHHHHhhhcCCCeEEEEeCCCcchHHHHHHHHHHHHhCCCCeEEEEEcCCCC
Q psy14655        105 GPCDILFIDTPPGTG--DTHLSLIQNLFIDTAIIITIPDTMSLQVAQRGYTMFKKLNIPVAGLVMNMNSV  172 (261)
Q Consensus       105 ~~yd~IiiD~~~~~~--~~~~~~~~~~~ad~viiv~~~~~~s~~~~~~~~~~l~~~~~~~~giv~N~~~~  172 (261)
                      .++.+.++|||+...  ......+..  +|.+++|+.....-......+++.+...+.+.+ +++|+.+.
T Consensus        62 ~~~~i~liDTPG~~df~~~~~~~l~~--aD~ailVVDa~~g~~~~t~~~~~~~~~~~~p~i-vviNK~D~  128 (270)
T cd01886          62 KDHRINIIDTPGHVDFTIEVERSLRV--LDGAVAVFDAVAGVEPQTETVWRQADRYNVPRI-AFVNKMDR  128 (270)
T ss_pred             CCEEEEEEECCCcHHHHHHHHHHHHH--cCEEEEEEECCCCCCHHHHHHHHHHHHcCCCEE-EEEECCCC
Confidence            578999999997542  223445555  899999998766555666778888888888866 79999663

Translocation is mediated by EF-G (also called translocase). The structure of EF-G closely resembles that of the complex between EF-Tu and tRNA. This is an example of molecular mimicry; a protein domain evolved so that it mimics the shape of a tRNA molecule. EF-G in the GTP form binds to the ribosome, primarily through the interaction of its EF-Tu-like domain with the 50S subunit. The binding of EF-G to the ribosome in this manner stimulates the GTPase activity of EF-G. On GTP hydrolysis, EF-G undergoes a conformational change that forces its arm deeper into the A site on the 30S subunit. To accommodate this domain, the peptidyl-tRNA in the A site moves to the P site, carrying the mRNA and the deacylated tRNA with it. The ribosome may be prepared for these rearrangements by the initial binding of EF-G as well. The dissociation of EF-G leaves the ribosome ready to accept the next aminoacyl-tRNA into the A site. This group conta

>PRK13896 cobyrinic acid a,c-diamide synthase; Provisional

Probab=97.78  E-value=0.00091  Score=59.59  Aligned_cols=136  Identities=15%  Similarity=0.168  Sum_probs=75.4

Q ss_pred             cccCCCCCcHHHHHHHHHHHHHhcCCCCeEEEEecCCCCCCcccccCCCCCCCCCcCCccccccccCceeecCCCCcccc
Q psy14655          2 IASSKGGVGKSTTTVNLATAMKICYPDKEIGILDADVFGPSIPILMNLPDTPLLNKDNLMIPLVNYGVKCLSMGNLITEK   81 (261)
Q Consensus         2 v~s~KGGvGKTT~a~~lA~~la~~g~~~~VllvD~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~   81 (261)
                      |++...|+||||++..|+.+|.++|  .+|-.+-+-|..-+...+-.....+            ..+++..     +.. 
T Consensus         6 i~~~~s~~GKT~vt~gl~~~l~~~g--~~v~~~K~Gpd~iD~~~~~~~~g~~------------~~nld~~-----~~~-   65 (433)
T PRK13896          6 LGGTSSGVGKTVATLATIRALEDAG--YAVQPAKAGPDFIDPSHHEAVAGRP------------SRTLDPW-----LSG-   65 (433)
T ss_pred             EEeCCCCCCHHHHHHHHHHHHHHCC--CeeEEEeeCCCCCCHHHHHHHhCCC------------cccCChh-----hCC-
Confidence            6788899999999999999999999  8887665533211111110000000            0111100     000 


Q ss_pred             hhhhhhchHHHHHHHHHHHHhccCCCCEEEEeCCCCCCh----hHHHHhhhcCCCeEEEEeCCCcchHHHH--HHHHHHH
Q psy14655         82 SAAIWRGLMVMQALNKLTVQVQWGPCDILFIDTPPGTGD----THLSLIQNLFIDTAIIITIPDTMSLQVA--QRGYTMF  155 (261)
Q Consensus        82 ~~~~~~~~~~~~~l~~~l~~l~~~~yd~IiiD~~~~~~~----~~~~~~~~~~ad~viiv~~~~~~s~~~~--~~~~~~l  155 (261)
                                .+.++..+.  + ..+|++||....|+-+    ......... ---+|+|+.+...+..-+  ...+..+
T Consensus        66 ----------~~~i~~~~~--~-~~~d~~vIEG~gGl~dg~~~s~adla~~l-~~PviLVv~~~~g~~s~aa~l~g~~~~  131 (433)
T PRK13896         66 ----------EDGMRRNYY--R-GEGDICVVEGVMGLYDGDVSSTAMVAEAL-DLPVVLVVDAKAGMESVAATALGFRAY  131 (433)
T ss_pred             ----------HHHHHHHHH--h-hcCCEEEEECCCccccCCCCCHHHHHHHH-CCCEEEEEcCcccHHHHHHHHHHHHHH
Confidence                      122444332  2 4589999998776521    122222221 124788888777754433  3333233


Q ss_pred             Hh---CCCCeEEEEEcCCC
Q psy14655        156 KK---LNIPVAGLVMNMNS  171 (261)
Q Consensus       156 ~~---~~~~~~giv~N~~~  171 (261)
                      ..   .++++.|+|+|++.
T Consensus       132 ~~~~~~~~~i~GvIlN~~~  150 (433)
T PRK13896        132 ADRIGRDIDVAGVIAQRAH  150 (433)
T ss_pred             HHhccCCCcEEEEEEECCC
Confidence            33   37889999999954

>cd04169 RF3 RF3 subfamily

Probab=97.75  E-value=0.0003  Score=58.91  Aligned_cols=64  Identities=16%  Similarity=0.249  Sum_probs=45.3

Q ss_pred             CCCCEEEEeCCCCCC--hhHHHHhhhcCCCeEEEEeCCCcchHHHHHHHHHHHHhCCCCeEEEEEcCCC
Q psy14655        105 GPCDILFIDTPPGTG--DTHLSLIQNLFIDTAIIITIPDTMSLQVAQRGYTMFKKLNIPVAGLVMNMNS  171 (261)
Q Consensus       105 ~~yd~IiiD~~~~~~--~~~~~~~~~~~ad~viiv~~~~~~s~~~~~~~~~~l~~~~~~~~giv~N~~~  171 (261)
                      .++.+.++|||+...  ......+..  +|.+++|+.....-......+.+.+...+.+ +-+++|+.+
T Consensus        69 ~~~~i~liDTPG~~df~~~~~~~l~~--aD~~IlVvda~~g~~~~~~~i~~~~~~~~~P-~iivvNK~D  134 (267)
T cd04169          69 RDCVINLLDTPGHEDFSEDTYRTLTA--VDSAVMVIDAAKGVEPQTRKLFEVCRLRGIP-IITFINKLD  134 (267)
T ss_pred             CCEEEEEEECCCchHHHHHHHHHHHH--CCEEEEEEECCCCccHHHHHHHHHHHhcCCC-EEEEEECCc
Confidence            678999999997542  224445555  9999999987654444555666777767777 447899965

Peptide chain release factor 3 (RF3) is a protein involved in the termination step of translation in bacteria. Termination occurs when class I release factors (RF1 or RF2) recognize the stop codon at the A-site of the ribosome and activate the release of the nascent polypeptide. The class II release factor RF3 then initiates the release of the class I RF from the ribosome. RF3 binds to the RF/ribosome complex in the inactive (GDP-bound) state. GDP/GTP exchange occurs, followed by the release of the class I RF. Subsequent hydrolysis of GTP to GDP triggers the release of RF3 from the ribosome. RF3 also enhances the efficiency of class I RFs at less preferred stop codons and at stop codons in weak contexts.

>cd01884 EF_Tu EF-Tu subfamily

Probab=97.71  E-value=0.00041  Score=55.25  Aligned_cols=66  Identities=11%  Similarity=0.222  Sum_probs=47.8

Q ss_pred             CCCCEEEEeCCCCCC--hhHHHHhhhcCCCeEEEEeCCCcchHHHHHHHHHHHHhCCCCeEEEEEcCCCC
Q psy14655        105 GPCDILFIDTPPGTG--DTHLSLIQNLFIDTAIIITIPDTMSLQVAQRGYTMFKKLNIPVAGLVMNMNSV  172 (261)
Q Consensus       105 ~~yd~IiiD~~~~~~--~~~~~~~~~~~ad~viiv~~~~~~s~~~~~~~~~~l~~~~~~~~giv~N~~~~  172 (261)
                      +++.++++|||+...  ......+..  +|.+++|++....-.......+..+...+.+.+-+++|+.+.
T Consensus        63 ~~~~i~~iDtPG~~~~~~~~~~~~~~--~D~~ilVvda~~g~~~~~~~~~~~~~~~~~~~iIvviNK~D~  130 (195)
T cd01884          63 ANRHYAHVDCPGHADYIKNMITGAAQ--MDGAILVVSATDGPMPQTREHLLLARQVGVPYIVVFLNKADM  130 (195)
T ss_pred             CCeEEEEEECcCHHHHHHHHHHHhhh--CCEEEEEEECCCCCcHHHHHHHHHHHHcCCCcEEEEEeCCCC
Confidence            567899999996432  223344444  999999999876555667778888888888766688999663

This subfamily includes orthologs of translation elongation factor EF-Tu in bacteria, mitochondria, and chloroplasts. It is one of several GTP-binding translation factors found in the larger family of GTP-binding elongation factors. The eukaryotic counterpart, eukaryotic translation elongation factor 1 (eEF-1 alpha), is excluded from this family. EF-Tu is one of the most abundant proteins in bacteria, as well as, one of the most highly conserved, and in a number of species the gene is duplicated with identical function. When bound to GTP, EF-Tu can form a complex with any (correctly) aminoacylated tRNA except those for initiation and for selenocysteine, in which case EF-Tu is replaced by other factors. Transfer RNA is carried to the ribosome in these complexes for protein translation.

>cd01894 EngA1 EngA1 subfamily

Probab=97.68  E-value=0.00048  Score=52.16  Aligned_cols=65  Identities=18%  Similarity=0.136  Sum_probs=41.5

Q ss_pred             CCCCEEEEeCCCCCChhH----------HHHhhhcCCCeEEEEeCCCcchHHHHHHHHHHHHhCCCCeEEEEEcCCCC
Q psy14655        105 GPCDILFIDTPPGTGDTH----------LSLIQNLFIDTAIIITIPDTMSLQVAQRGYTMFKKLNIPVAGLVMNMNSV  172 (261)
Q Consensus       105 ~~yd~IiiD~~~~~~~~~----------~~~~~~~~ad~viiv~~~~~~s~~~~~~~~~~l~~~~~~~~giv~N~~~~  172 (261)
                      .++.+.|+|||+..+...          ......  +|.+++++.+..........+.+.+...+.+ +-+|+|+.+.
T Consensus        43 ~~~~~~i~DtpG~~~~~~~~~~~~~~~~~~~~~~--~d~ii~v~d~~~~~~~~~~~~~~~~~~~~~p-iiiv~nK~D~  117 (157)
T cd01894          43 GGREFILIDTGGIEPDDEGISKEIREQAELAIEE--ADVILFVVDGREGLTPADEEIAKYLRKSKKP-VILVVNKVDN  117 (157)
T ss_pred             CCeEEEEEECCCCCCchhHHHHHHHHHHHHHHHh--CCEEEEEEeccccCCccHHHHHHHHHhcCCC-EEEEEECccc
Confidence            457899999997544211          223344  8999999986543222233456666666665 5589999664

This CD represents the first GTPase domain of EngA and its orthologs, which are composed of two adjacent GTPase domains. Since the sequences of the two domains are more similar to each other than to other GTPases, it is likely that an ancient gene duplication, rather than a fusion of evolutionarily distinct GTPases, gave rise to this family. Although the exact function of these proteins has not been elucidated, studies have revealed that the E. coli EngA homolog, Der, and Neisseria gonorrhoeae EngA are essential for cell viability. A recent report suggests that E. coli Der functions in ribosome assembly and stability.

>cd01120 RecA-like_NTPases RecA-like NTPases

Probab=97.60  E-value=0.00027  Score=53.89  Aligned_cols=39  Identities=18%  Similarity=0.143  Sum_probs=34.6

Q ss_pred             cccCCCCCcHHHHHHHHHHHHHhcCCCCeEEEEecCCCCCC
Q psy14655          2 IASSKGGVGKSTTTVNLATAMKICYPDKEIGILDADVFGPS   42 (261)
Q Consensus         2 v~s~KGGvGKTT~a~~lA~~la~~g~~~~VllvD~D~~~~~   42 (261)
                      ++.++.|+||||++..++..++..|  .+|++++++.....
T Consensus         3 ~i~G~~G~GKT~l~~~i~~~~~~~~--~~v~~~~~e~~~~~   41 (165)
T cd01120           3 LVFGPTGSGKTTLALQLALNIATKG--GKVVYVDIEEEIEE   41 (165)
T ss_pred             eEeCCCCCCHHHHHHHHHHHHHhcC--CEEEEEECCcchHH
Confidence            4678899999999999999999988  99999999977543

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.

>COG1419 FlhF Flagellar GTP-binding protein [Cell motility and secretion]

Probab=97.59  E-value=0.00032  Score=61.02  Aligned_cols=133  Identities=19%  Similarity=0.250  Sum_probs=74.4

Q ss_pred             CCCCcHHHHHHHHHHHHHhcCCCCeEEEEecCCCCCCcccccCCCCCCCCCcCCccccccccCceeecCCCCcccchhhh
Q psy14655          6 KGGVGKSTTTVNLATAMKICYPDKEIGILDADVFGPSIPILMNLPDTPLLNKDNLMIPLVNYGVKCLSMGNLITEKSAAI   85 (261)
Q Consensus         6 KGGvGKTT~a~~lA~~la~~g~~~~VllvD~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~   85 (261)
                      --||||||+.+-||+.+...+..++|.+|=+|...-....-+....+             .-++.+.-            
T Consensus       211 PTGVGKTTTlAKLAar~~~~~~~~kVaiITtDtYRIGA~EQLk~Ya~-------------im~vp~~v------------  265 (407)
T COG1419         211 PTGVGKTTTLAKLAARYVMLKKKKKVAIITTDTYRIGAVEQLKTYAD-------------IMGVPLEV------------  265 (407)
T ss_pred             CCCCcHHHHHHHHHHHHHhhccCcceEEEEeccchhhHHHHHHHHHH-------------HhCCceEE------------
Confidence            34999999999999999932225999999999765332111111000             00111100            


Q ss_pred             hhchHHHHHHHHHHHHhccCCCCEEEEeCCCCCC--hh----HHHHhhhcCCCeEEEEeCCCcchHHHHHHHHHHHHhCC
Q psy14655         86 WRGLMVMQALNKLTVQVQWGPCDILFIDTPPGTG--DT----HLSLIQNLFIDTAIIITIPDTMSLQVAQRGYTMFKKLN  159 (261)
Q Consensus        86 ~~~~~~~~~l~~~l~~l~~~~yd~IiiD~~~~~~--~~----~~~~~~~~~ad~viiv~~~~~~s~~~~~~~~~~l~~~~  159 (261)
                         ......|...+..+  .++|+|++||.+...  ..    ....+.......+.+|++.+. ...++...++.+..+ 
T Consensus       266 ---v~~~~el~~ai~~l--~~~d~ILVDTaGrs~~D~~~i~el~~~~~~~~~i~~~Lvlsat~-K~~dlkei~~~f~~~-  338 (407)
T COG1419         266 ---VYSPKELAEAIEAL--RDCDVILVDTAGRSQYDKEKIEELKELIDVSHSIEVYLVLSATT-KYEDLKEIIKQFSLF-  338 (407)
T ss_pred             ---ecCHHHHHHHHHHh--hcCCEEEEeCCCCCccCHHHHHHHHHHHhccccceEEEEEecCc-chHHHHHHHHHhccC-
Confidence               01122355555555  588999999985332  11    112222211345666666443 344555666666655 


Q ss_pred             CCeEEEEEcCCC
Q psy14655        160 IPVAGLVMNMNS  171 (261)
Q Consensus       160 ~~~~giv~N~~~  171 (261)
                       ++-|+|+++.+
T Consensus       339 -~i~~~I~TKlD  349 (407)
T COG1419         339 -PIDGLIFTKLD  349 (407)
T ss_pred             -CcceeEEEccc
Confidence             55788999854

>PRK06278 cobyrinic acid a,c-diamide synthase; Validated

Probab=97.56  E-value=0.0013  Score=59.40  Aligned_cols=66  Identities=18%  Similarity=0.237  Sum_probs=43.3

Q ss_pred             CCCCEEEEeCCCCCChh---------HHHHhhhcCCCeEEEEeCCCcchHHHHHHH----HHHHHhCCCCeEEEEEcCCC
Q psy14655        105 GPCDILFIDTPPGTGDT---------HLSLIQNLFIDTAIIITIPDTMSLQVAQRG----YTMFKKLNIPVAGLVMNMNS  171 (261)
Q Consensus       105 ~~yd~IiiD~~~~~~~~---------~~~~~~~~~ad~viiv~~~~~~s~~~~~~~----~~~l~~~~~~~~giv~N~~~  171 (261)
                      .++|++||....|+-..         ...+.... ---||+|+.....++..+...    .+.++..+.++.|+|+|++.
T Consensus       316 ~~~DivIIEGagGL~dg~~~~~~~~S~adlAk~l-~~PVILV~~~~~g~i~~~~~~i~G~~~~l~~~~i~i~GVIlN~v~  394 (476)
T PRK06278        316 SDYDYYIIEGVMGAFTGALNKKNPYSGAEIAKAL-GFPVYIVSSCSKSGIEGAFVESMAYYSLLKKMGVKVEGIILNKVY  394 (476)
T ss_pred             cCCCEEEEECCCCcccccCCCCccccHHHHHHHh-CCCEEEEEcCCCChHHHHHHHHHHHHHHHhcCCCcEEEEEEECCC
Confidence            46899999998665322         11222221 235888888888876555443    44555668889999999954

>KOG2749|consensus

Probab=97.56  E-value=0.00035  Score=59.41  Aligned_cols=34  Identities=29%  Similarity=0.086  Sum_probs=32.1

Q ss_pred             CCcHHHHHHHHHHHHHhcCCCCeEEEEecCCCCCCc
Q psy14655          8 GVGKSTTTVNLATAMKICYPDKEIGILDADVFGPSI   43 (261)
Q Consensus         8 GvGKTT~a~~lA~~la~~g~~~~VllvD~D~~~~~~   43 (261)
                      -+||||++.-|..+..++|  ++.++||+|+++++.
T Consensus       113 d~GKsTl~r~L~nyavk~g--r~Plfv~LDvgQ~si  146 (415)
T KOG2749|consen  113 DVGKSTLCRILLNYAVKQG--RRPLFVELDVGQGSI  146 (415)
T ss_pred             ccchHHHHHHHHHHHHHcC--CcceEEEcCCCCCce
Confidence            6899999999999999999  999999999999865

>PRK09361 radB DNA repair and recombination protein RadB; Provisional

Probab=97.55  E-value=0.00013  Score=59.50  Aligned_cols=34  Identities=21%  Similarity=0.226  Sum_probs=31.6

Q ss_pred             cccCCCCCcHHHHHHHHHHHHHhcCCCCeEEEEecC
Q psy14655          2 IASSKGGVGKSTTTVNLATAMKICYPDKEIGILDAD   37 (261)
Q Consensus         2 v~s~KGGvGKTT~a~~lA~~la~~g~~~~VllvD~D   37 (261)
                      .+.+..|+|||+++.++|..+++.|  .+|++||++
T Consensus        27 ~i~G~~GsGKT~l~~~la~~~~~~~--~~v~yi~~e   60 (225)
T PRK09361         27 QIYGPPGSGKTNICLQLAVEAAKNG--KKVIYIDTE   60 (225)
T ss_pred             EEECCCCCCHHHHHHHHHHHHHHCC--CeEEEEECC
Confidence            3567899999999999999999999  999999999

>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=97.53  E-value=0.00017  Score=56.70  Aligned_cols=38  Identities=16%  Similarity=-0.005  Sum_probs=34.1

Q ss_pred             cccCCCCCcHHHHHHHHHHHHHhcCCCCeEEEEecCCCCC
Q psy14655          2 IASSKGGVGKSTTTVNLATAMKICYPDKEIGILDADVFGP   41 (261)
Q Consensus         2 v~s~KGGvGKTT~a~~lA~~la~~g~~~~VllvD~D~~~~   41 (261)
                      ++.+..|+|||+++.+++...+++|  .+|+++.++....
T Consensus         3 li~G~~G~GKT~l~~~~~~~~~~~g--~~v~~~s~e~~~~   40 (187)
T cd01124           3 LLSGGPGTGKTTFALQFLYAGLARG--EPGLYVTLEESPE   40 (187)
T ss_pred             EEEcCCCCCHHHHHHHHHHHHHHCC--CcEEEEECCCCHH
Confidence            5678899999999999999999999  9999999987643

A related protein is found in archaea.

>PRK00741 prfC peptide chain release factor 3; Provisional

Probab=97.51  E-value=0.00083  Score=61.58  Aligned_cols=64  Identities=14%  Similarity=0.216  Sum_probs=46.7

Q ss_pred             CCCCEEEEeCCCCCC--hhHHHHhhhcCCCeEEEEeCCCcchHHHHHHHHHHHHhCCCCeEEEEEcCCC
Q psy14655        105 GPCDILFIDTPPGTG--DTHLSLIQNLFIDTAIIITIPDTMSLQVAQRGYTMFKKLNIPVAGLVMNMNS  171 (261)
Q Consensus       105 ~~yd~IiiD~~~~~~--~~~~~~~~~~~ad~viiv~~~~~~s~~~~~~~~~~l~~~~~~~~giv~N~~~  171 (261)
                      .++.+.++|||+..+  ......+..  +|.+++|+.+...-...+..+++.....+.++ -+++|+.+
T Consensus        77 ~~~~inliDTPG~~df~~~~~~~l~~--aD~aIlVvDa~~gv~~~t~~l~~~~~~~~iPi-iv~iNK~D  142 (526)
T PRK00741         77 RDCLINLLDTPGHEDFSEDTYRTLTA--VDSALMVIDAAKGVEPQTRKLMEVCRLRDTPI-FTFINKLD  142 (526)
T ss_pred             CCEEEEEEECCCchhhHHHHHHHHHH--CCEEEEEEecCCCCCHHHHHHHHHHHhcCCCE-EEEEECCc
Confidence            578899999997532  334455665  99999999876654455667777777778884 48999865

>cd04167 Snu114p Snu114p subfamily

Probab=97.50  E-value=0.00087  Score=54.12  Aligned_cols=65  Identities=17%  Similarity=0.068  Sum_probs=42.8

Q ss_pred             CCCCEEEEeCCCCCC--hhHHHHhhhcCCCeEEEEeCCCcchHHHHHHHHHHHHhCCCCeEEEEEcCCCC
Q psy14655        105 GPCDILFIDTPPGTG--DTHLSLIQNLFIDTAIIITIPDTMSLQVAQRGYTMFKKLNIPVAGLVMNMNSV  172 (261)
Q Consensus       105 ~~yd~IiiD~~~~~~--~~~~~~~~~~~ad~viiv~~~~~~s~~~~~~~~~~l~~~~~~~~giv~N~~~~  172 (261)
                      ..+.+.|+|||+...  ......+..  +|.+++|+.............++.+...+.+ +-+|+|+.+.
T Consensus        69 ~~~~i~iiDtpG~~~f~~~~~~~~~~--aD~~llVvD~~~~~~~~~~~~~~~~~~~~~p-~iiviNK~D~  135 (213)
T cd04167          69 KSYLFNIIDTPGHVNFMDEVAAALRL--SDGVVLVVDVVEGVTSNTERLIRHAILEGLP-IVLVINKIDR  135 (213)
T ss_pred             CEEEEEEEECCCCcchHHHHHHHHHh--CCEEEEEEECCCCCCHHHHHHHHHHHHcCCC-EEEEEECccc
Confidence            457899999997643  233444555  9999999986554333444555555555655 5589999774

Snu114p is one of several proteins that make up the U5 small nuclear ribonucleoprotein (snRNP) particle. U5 is a component of the spliceosome, which catalyzes the splicing of pre-mRNA to remove introns. Snu114p is homologous to EF-2, but typically contains an additional N-terminal domain not found in Ef-2. This protein is part of the GTP translation factor family and the Ras superfamily, characterized by five G-box motifs.

>PRK13505 formate--tetrahydrofolate ligase; Provisional

Probab=97.48  E-value=0.00017  Score=64.90  Aligned_cols=47  Identities=28%  Similarity=0.326  Sum_probs=40.3

Q ss_pred             cccCCC---CCcHHHHHHHHHHHHHhcCCCCeEEEEecCCCCCCcccccCCCCCC
Q psy14655          2 IASSKG---GVGKSTTTVNLATAMKICYPDKEIGILDADVFGPSIPILMNLPDTP   53 (261)
Q Consensus         2 v~s~KG---GvGKTT~a~~lA~~la~~g~~~~VllvD~D~~~~~~~~~~~~~~~~   53 (261)
                      |+|..-   |.||||++.|||..|++.|  +||+++   ...+++...|+++...
T Consensus        60 VTS~~PTp~GEGKTt~sinLA~~la~~G--kkvlli---LR~Psl~~~fg~kgga  109 (557)
T PRK13505         60 VTAINPTPAGEGKSTVTVGLGDALNKIG--KKTVIA---LREPSLGPVFGIKGGA  109 (557)
T ss_pred             EecCCCCCCCCCHHHHHHHHHHHHHHcC--CeEEEE---EecCCcccccCCCCCc
Confidence            455556   9999999999999999999  999999   7778888888877543

>cd00881 GTP_translation_factor GTP translation factor family

Probab=97.46  E-value=0.00066  Score=53.12  Aligned_cols=65  Identities=15%  Similarity=0.151  Sum_probs=43.3

Q ss_pred             CCCCEEEEeCCCCCC--hhHHHHhhhcCCCeEEEEeCCCcchHHHHHHHHHHHHhCCCCeEEEEEcCCCC
Q psy14655        105 GPCDILFIDTPPGTG--DTHLSLIQNLFIDTAIIITIPDTMSLQVAQRGYTMFKKLNIPVAGLVMNMNSV  172 (261)
Q Consensus       105 ~~yd~IiiD~~~~~~--~~~~~~~~~~~ad~viiv~~~~~~s~~~~~~~~~~l~~~~~~~~giv~N~~~~  172 (261)
                      ..++++|+|+|+...  ......+..  +|.+++++.............+..+...+.+ +-+++|+.+.
T Consensus        60 ~~~~~~liDtpG~~~~~~~~~~~~~~--~d~~i~v~d~~~~~~~~~~~~~~~~~~~~~~-i~iv~nK~D~  126 (189)
T cd00881          60 PDRRVNFIDTPGHEDFSSEVIRGLSV--SDGAILVVDANEGVQPQTREHLRIAREGGLP-IIVAINKIDR  126 (189)
T ss_pred             CCEEEEEEeCCCcHHHHHHHHHHHHh--cCEEEEEEECCCCCcHHHHHHHHHHHHCCCC-eEEEEECCCC
Confidence            367899999986432  223334444  9999999987665444555566666655555 6699999764

This family consists primarily of translation initiation, elongation, and release factors, which play specific roles in protein translation. In addition, the family includes Snu114p, a component of the U5 small nuclear riboprotein particle which is a component of the spliceosome and is involved in excision of introns, TetM, a tetracycline resistance gene that protects the ribosome from tetracycline binding, and the unusual subfamily CysN/ATPS, which has an unrelated function (ATP sulfurylase) acquired through lateral transfer of the EF1-alpha gene and development of a new function.

>cd00561 CobA_CobO_BtuR ATP:corrinoid adenosyltransferase BtuR/CobO/CobP

Probab=97.46  E-value=0.0011  Score=50.82  Aligned_cols=29  Identities=24%  Similarity=0.287  Sum_probs=25.9

Q ss_pred             CCCCcHHHHHHHHHHHHHhcCCCCeEEEEec
Q psy14655          6 KGGVGKSTTTVNLATAMKICYPDKEIGILDA   36 (261)
Q Consensus         6 KGGvGKTT~a~~lA~~la~~g~~~~VllvD~   36 (261)
                      .-|.||||.|..+|...+.+|  ++|++|=+
T Consensus        10 g~G~Gkt~~a~g~~~ra~~~g--~~v~~vQF   38 (159)
T cd00561          10 GNGKGKTTAALGLALRALGHG--YRVGVVQF   38 (159)
T ss_pred             CCCCCHHHHHHHHHHHHHHCC--CeEEEEEE
Confidence            349999999999999999999  99999643

This family consists of the BtuR, CobO, CobP proteins all of which are Cob(I)alamin (vitamin B12) adenosyltransferase, which is involved in cobalamin (vitamin B12) biosynthesis. This enzyme is a homodimer, which catalyzes the adenosylation reaction: ATP + cob(I)alamin + H2O <= phosphate + diphosphate + adenosylcobalamin.

>PRK08233 hypothetical protein; Provisional

Probab=97.42  E-value=0.00069  Score=53.03  Aligned_cols=34  Identities=26%  Similarity=0.278  Sum_probs=26.7

Q ss_pred             ccCCCCCcHHHHHHHHHHHHHhcCCCCeEEEEecCCCC
Q psy14655          3 ASSKGGVGKSTTTVNLATAMKICYPDKEIGILDADVFG   40 (261)
Q Consensus         3 ~s~KGGvGKTT~a~~lA~~la~~g~~~~VllvD~D~~~   40 (261)
                      +++-.|+||||+|..|+..|.  +  .+++..|.+.+.
T Consensus         8 I~G~~GsGKtTla~~L~~~l~--~--~~~~~~d~~~~~   41 (182)
T PRK08233          8 IAAVSGGGKTTLTERLTHKLK--N--SKALYFDRYDFD   41 (182)
T ss_pred             EECCCCCCHHHHHHHHHhhCC--C--CceEEECCEEcc
Confidence            345559999999999998873  4  678888888653

>TIGR00503 prfC peptide chain release factor 3

Probab=97.37  E-value=0.0014  Score=60.14  Aligned_cols=64  Identities=13%  Similarity=0.177  Sum_probs=46.1

Q ss_pred             CCCCEEEEeCCCCCC--hhHHHHhhhcCCCeEEEEeCCCcchHHHHHHHHHHHHhCCCCeEEEEEcCCC
Q psy14655        105 GPCDILFIDTPPGTG--DTHLSLIQNLFIDTAIIITIPDTMSLQVAQRGYTMFKKLNIPVAGLVMNMNS  171 (261)
Q Consensus       105 ~~yd~IiiD~~~~~~--~~~~~~~~~~~ad~viiv~~~~~~s~~~~~~~~~~l~~~~~~~~giv~N~~~  171 (261)
                      +++.+.|+|||+...  ......+..  +|.+++|++....-...+..+.+.++..+.+ +-+++|+.+
T Consensus        78 ~~~~inliDTPG~~df~~~~~~~l~~--aD~aIlVvDa~~gv~~~t~~l~~~~~~~~~P-iivviNKiD  143 (527)
T TIGR00503        78 RDCLVNLLDTPGHEDFSEDTYRTLTA--VDNCLMVIDAAKGVETRTRKLMEVTRLRDTP-IFTFMNKLD  143 (527)
T ss_pred             CCeEEEEEECCChhhHHHHHHHHHHh--CCEEEEEEECCCCCCHHHHHHHHHHHhcCCC-EEEEEECcc
Confidence            578999999997532  334455555  9999999987765445566677777767777 558899965

This translation releasing factor, RF-3 (prfC) was originally described as stop codon-independent, in contrast to peptide chain release factor 1 (RF-1, prfA) and RF-2 (prfB). RF-1 and RF-2 are closely related to each other, while RF-3 is similar to elongation factors EF-Tu and EF-G; RF-1 is active at UAA and UAG and RF-2 is active at UAA and UGA. More recently, RF-3 was shown to be active primarily at UGA stop codons in E. coli. All bacteria and organelles have RF-1. The Mycoplasmas and organelles, which translate UGA as Trp rather than as a stop codon, lack RF-2. RF-3, in contrast, seems to be rare among bacteria and is found so far only in Escherichia coli and some other gamma subdivision Proteobacteria, in Synechocystis PCC6803, and in Staphylococcus aureus.

>cd04163 Era Era subfamily

Probab=97.34  E-value=0.0021  Score=48.86  Aligned_cols=65  Identities=20%  Similarity=0.252  Sum_probs=40.4

Q ss_pred             CCCCEEEEeCCCCCChh----------HHHHhhhcCCCeEEEEeCCCcchHHHHHHHHHHHHhCCCCeEEEEEcCCCC
Q psy14655        105 GPCDILFIDTPPGTGDT----------HLSLIQNLFIDTAIIITIPDTMSLQVAQRGYTMFKKLNIPVAGLVMNMNSV  172 (261)
Q Consensus       105 ~~yd~IiiD~~~~~~~~----------~~~~~~~~~ad~viiv~~~~~~s~~~~~~~~~~l~~~~~~~~giv~N~~~~  172 (261)
                      ..++++++|+|+.....          .......  +|.++++++...........+.+.+...+.+ +.+|+|+.+.
T Consensus        49 ~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~~--~d~i~~v~d~~~~~~~~~~~~~~~~~~~~~~-~iiv~nK~Dl  123 (168)
T cd04163          49 DDAQIIFVDTPGIHKPKKKLGERMVKAAWSALKD--VDLVLFVVDASEPIGEGDEFILELLKKSKTP-VILVLNKIDL  123 (168)
T ss_pred             CCeEEEEEECCCCCcchHHHHHHHHHHHHHHHHh--CCEEEEEEECCCccCchHHHHHHHHHHhCCC-EEEEEEchhc
Confidence            35789999998643211          1122333  8999999987665333444555666655555 5589999653

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.

>PRK00089 era GTPase Era; Reviewed

Probab=97.33  E-value=0.0023  Score=54.26  Aligned_cols=65  Identities=22%  Similarity=0.265  Sum_probs=39.7

Q ss_pred             CCCCEEEEeCCCCCCh----------hHHHHhhhcCCCeEEEEeCCCcchHHHHHHHHHHHHhCCCCeEEEEEcCCCC
Q psy14655        105 GPCDILFIDTPPGTGD----------THLSLIQNLFIDTAIIITIPDTMSLQVAQRGYTMFKKLNIPVAGLVMNMNSV  172 (261)
Q Consensus       105 ~~yd~IiiD~~~~~~~----------~~~~~~~~~~ad~viiv~~~~~~s~~~~~~~~~~l~~~~~~~~giv~N~~~~  172 (261)
                      ++++++++|||+....          .....+..  +|.++++++.+..--.....+++.+...+.+ +-+|+|+++.
T Consensus        51 ~~~qi~~iDTPG~~~~~~~l~~~~~~~~~~~~~~--~D~il~vvd~~~~~~~~~~~i~~~l~~~~~p-vilVlNKiDl  125 (292)
T PRK00089         51 DDAQIIFVDTPGIHKPKRALNRAMNKAAWSSLKD--VDLVLFVVDADEKIGPGDEFILEKLKKVKTP-VILVLNKIDL  125 (292)
T ss_pred             CCceEEEEECCCCCCchhHHHHHHHHHHHHHHhc--CCEEEEEEeCCCCCChhHHHHHHHHhhcCCC-EEEEEECCcC
Confidence            4578999999864321          11123333  8999999986652223344555666655556 4488999764

>cd02027 APSK Adenosine 5'-phosphosulfate kinase (APSK) catalyzes the phosphorylation of adenosine 5'-phosphosulfate to form 3'-phosphoadenosine 5'-phosphosulfate (PAPS)

Probab=97.30  E-value=0.0023  Score=48.61  Aligned_cols=37  Identities=24%  Similarity=0.228  Sum_probs=32.8

Q ss_pred             cccCCCCCcHHHHHHHHHHHHHhcCCCCeEEEEecCCCC
Q psy14655          2 IASSKGGVGKSTTTVNLATAMKICYPDKEIGILDADVFG   40 (261)
Q Consensus         2 v~s~KGGvGKTT~a~~lA~~la~~g~~~~VllvD~D~~~   40 (261)
                      ++.+..|+||||+|..|+..+...|  .++.++|.|...
T Consensus         3 ~i~G~~GsGKSTla~~L~~~l~~~g--~~~~~i~~d~~r   39 (149)
T cd02027           3 WLTGLSGSGKSTIARALEEKLFQRG--RPVYVLDGDNVR   39 (149)
T ss_pred             EEEcCCCCCHHHHHHHHHHHHHHcC--CCEEEEcCHHHH
Confidence            4678899999999999999999888  899999988765

The end-product PAPS is a biologically "activated" sulfate form important for the assimilation of inorganic sulfate.

>cd00477 FTHFS Formyltetrahydrofolate synthetase (FTHFS) catalyzes the ATP-dependent activation of formate ion via its addition to the N10 position of tetrahydrofolate

Probab=97.28  E-value=0.00036  Score=62.19  Aligned_cols=47  Identities=26%  Similarity=0.285  Sum_probs=39.8

Q ss_pred             cccCCC---CCcHHHHHHHHHHHHHhcCCCCeEEEEecCCCCCCcccccCCCCCC
Q psy14655          2 IASSKG---GVGKSTTTVNLATAMKICYPDKEIGILDADVFGPSIPILMNLPDTP   53 (261)
Q Consensus         2 v~s~KG---GvGKTT~a~~lA~~la~~g~~~~VllvD~D~~~~~~~~~~~~~~~~   53 (261)
                      |+|.--   |.||||+++|||..|++.|  +||+++   ...+++...|+.....
T Consensus        43 VTs~~PTp~GEGKTT~si~La~~la~~G--kk~l~~---LR~PSlg~~fg~kgga   92 (524)
T cd00477          43 VTAITPTPAGEGKTTTTIGLAQALNAHG--KKAIAC---LREPSLGPTFGIKGGA   92 (524)
T ss_pred             EEeCCCCCCCCCHHHHHHHHHHHHHHhC--CcEEEE---EecCCcCcccCCCCCC
Confidence            445455   9999999999999999999  999988   7778888889887654

FTHFS is a highly expressed key enzyme in both the Wood-Ljungdahl pathway of autotrophic CO2 fixation (acetogenesis) and the glycine synthase/reductase pathways of purinolysis. The key physiological role of this enzyme in acetogens is to catalyze the formylation of tetrahydrofolate, an initial step in the reduction of carbon dioxide and other one-carbon precursors to acetate. In purinolytic organisms, the enzymatic reaction is reversed, liberating formate from 10-formyltetrahydrofolate with concurrent production of ATP.

>KOG1534|consensus

Probab=97.26  E-value=0.00035  Score=55.23  Aligned_cols=39  Identities=15%  Similarity=0.206  Sum_probs=34.0

Q ss_pred             ccCCCCCcHHHHHHHHHHHHHhcCCCCeEEEEecCCCCCCc
Q psy14655          3 ASSKGGVGKSTTTVNLATAMKICYPDKEIGILDADVFGPSI   43 (261)
Q Consensus         3 ~s~KGGvGKTT~a~~lA~~la~~g~~~~VllvD~D~~~~~~   43 (261)
                      +-+--|+||||.+.++-......|  +++-+|.+||.+-.+
T Consensus         8 V~GpAgSGKSTyC~~~~~h~e~~g--Rs~~vVNLDPAae~f   46 (273)
T KOG1534|consen    8 VMGPAGSGKSTYCSSMYEHCETVG--RSVHVVNLDPAAEHF   46 (273)
T ss_pred             EEccCCCCcchHHHHHHHHHHhhC--ceeEEeecCHHHHhh
Confidence            445679999999999999999999  999999999986443

>TIGR00708 cobA cob(I)alamin adenosyltransferase

Probab=97.23  E-value=0.002  Score=49.97  Aligned_cols=31  Identities=23%  Similarity=0.289  Sum_probs=27.4

Q ss_pred             CCCCCcHHHHHHHHHHHHHhcCCCCeEEEEecC
Q psy14655          5 SKGGVGKSTTTVNLATAMKICYPDKEIGILDAD   37 (261)
Q Consensus         5 ~KGGvGKTT~a~~lA~~la~~g~~~~VllvD~D   37 (261)
                      +.-|.||||.|..+|..++.+|  ++|+++=+-
T Consensus        12 ~g~GkGKtt~a~g~a~ra~~~g--~~v~ivQFl   42 (173)
T TIGR00708        12 TGNGKGKTTAAFGMALRALGHG--KKVGVIQFI   42 (173)
T ss_pred             CCCCCChHHHHHHHHHHHHHCC--CeEEEEEEe
Confidence            3469999999999999999999  999998544

Alternate name: corrinoid adenosyltransferase.

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

Probab=97.23  E-value=0.0005  Score=51.70  Aligned_cols=38  Identities=21%  Similarity=0.143  Sum_probs=29.3

Q ss_pred             cccCCCCCcHHHHHHHHHHHHHhcCCCCeEE-EEecCCCCCC
Q psy14655          2 IASSKGGVGKSTTTVNLATAMKICYPDKEIG-ILDADVFGPS   42 (261)
Q Consensus         2 v~s~KGGvGKTT~a~~lA~~la~~g~~~~Vl-lvD~D~~~~~   42 (261)
                      |++.| |+||||++..|...|.++|  ++|. +.|.|+.+..
T Consensus         5 VvG~~-~sGKTTl~~~Li~~l~~~g--~~v~~ik~~~~g~~~   43 (140)
T PF03205_consen    5 VVGPK-NSGKTTLIRKLINELKRRG--YRVAVIKHTDHGQFE   43 (140)
T ss_dssp             EEEST-TSSHHHHHHHHHHHHHHTT----EEEEEE-STTSTT
T ss_pred             EECCC-CCCHHHHHHHHHHHHhHcC--CceEEEEEccCCCcc
Confidence            45555 9999999999999999999  9999 8999984433

>PRK00889 adenylylsulfate kinase; Provisional

Probab=97.21  E-value=0.0033  Score=49.04  Aligned_cols=37  Identities=24%  Similarity=0.320  Sum_probs=32.2

Q ss_pred             cccCCCCCcHHHHHHHHHHHHHhcCCCCeEEEEecCCCC
Q psy14655          2 IASSKGGVGKSTTTVNLATAMKICYPDKEIGILDADVFG   40 (261)
Q Consensus         2 v~s~KGGvGKTT~a~~lA~~la~~g~~~~VllvD~D~~~   40 (261)
                      ++.+-.|+||||++.+|+..+...|  .++.++|.|...
T Consensus         8 ~~~G~~GsGKST~a~~la~~l~~~g--~~v~~id~D~~~   44 (175)
T PRK00889          8 WFTGLSGAGKTTIARALAEKLREAG--YPVEVLDGDAVR   44 (175)
T ss_pred             EEECCCCCCHHHHHHHHHHHHHHcC--CeEEEEcCccHH
Confidence            3456789999999999999999888  899999999654

>COG0050 TufB GTPases - translation elongation factors [Translation, ribosomal structure and biogenesis]

Probab=97.20  E-value=0.0023  Score=53.29  Aligned_cols=68  Identities=10%  Similarity=0.165  Sum_probs=54.4

Q ss_pred             CCCCEEEEeCCCCCChhHHHHhhhcCCCeEEEEeCCCcchHHHHHHHHHHHHhCCCCeEEEEEcCCCC
Q psy14655        105 GPCDILFIDTPPGTGDTHLSLIQNLFIDTAIIITIPDTMSLQVAQRGYTMFKKLNIPVAGLVMNMNSV  172 (261)
Q Consensus       105 ~~yd~IiiD~~~~~~~~~~~~~~~~~ad~viiv~~~~~~s~~~~~~~~~~l~~~~~~~~giv~N~~~~  172 (261)
                      .+-.|-.+|||+..+...-++..++.+|..|+|+.....-+-++..-+-..+..+.+.+-+++|+++.
T Consensus        73 ~~rhyahVDcPGHaDYvKNMItgAaqmDgAILVVsA~dGpmPqTrEHiLlarqvGvp~ivvflnK~Dm  140 (394)
T COG0050          73 ANRHYAHVDCPGHADYVKNMITGAAQMDGAILVVAATDGPMPQTREHILLARQVGVPYIVVFLNKVDM  140 (394)
T ss_pred             CCceEEeccCCChHHHHHHHhhhHHhcCccEEEEEcCCCCCCcchhhhhhhhhcCCcEEEEEEecccc
Confidence            45578889999877655444444444899999999888888888888888888999999999999775

>PRK07952 DNA replication protein DnaC; Validated

Probab=97.20  E-value=0.00039  Score=57.25  Aligned_cols=33  Identities=24%  Similarity=0.326  Sum_probs=30.6

Q ss_pred             cccCCCCCcHHHHHHHHHHHHHhcCCCCeEEEEec
Q psy14655          2 IASSKGGVGKSTTTVNLATAMKICYPDKEIGILDA   36 (261)
Q Consensus         2 v~s~KGGvGKTT~a~~lA~~la~~g~~~~VllvD~   36 (261)
                      +..+++|+|||+++.++|..|.+.|  ++|+++++
T Consensus       103 ~l~G~~GtGKThLa~aia~~l~~~g--~~v~~it~  135 (244)
T PRK07952        103 IFSGKPGTGKNHLAAAICNELLLRG--KSVLIITV  135 (244)
T ss_pred             EEECCCCCCHHHHHHHHHHHHHhcC--CeEEEEEH
Confidence            5789999999999999999999999  99999964

>cd01394 radB RadB

Probab=97.19  E-value=0.00048  Score=55.80  Aligned_cols=37  Identities=19%  Similarity=0.258  Sum_probs=33.0

Q ss_pred             cccCCCCCcHHHHHHHHHHHHHhcCCCCeEEEEecCCCC
Q psy14655          2 IASSKGGVGKSTTTVNLATAMKICYPDKEIGILDADVFG   40 (261)
Q Consensus         2 v~s~KGGvGKTT~a~~lA~~la~~g~~~~VllvD~D~~~   40 (261)
                      .+.+..|+||||++.++|..++.+|  .+|+++|.+...
T Consensus        23 ~i~G~~GsGKT~l~~~~a~~~~~~g--~~v~yi~~e~~~   59 (218)
T cd01394          23 QVYGPPGTGKTNIAIQLAVETAGQG--KKVAYIDTEGLS   59 (218)
T ss_pred             EEECCCCCCHHHHHHHHHHHHHhcC--CeEEEEECCCCC
Confidence            3567899999999999999999999  999999988654

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

>PLN03127 Elongation factor Tu; Provisional

Probab=97.17  E-value=0.004  Score=56.02  Aligned_cols=68  Identities=10%  Similarity=0.156  Sum_probs=48.0

Q ss_pred             CCCCEEEEeCCCCCChhHHHHhhhcCCCeEEEEeCCCcchHHHHHHHHHHHHhCCCCeEEEEEcCCCC
Q psy14655        105 GPCDILFIDTPPGTGDTHLSLIQNLFIDTAIIITIPDTMSLQVAQRGYTMFKKLNIPVAGLVMNMNSV  172 (261)
Q Consensus       105 ~~yd~IiiD~~~~~~~~~~~~~~~~~ad~viiv~~~~~~s~~~~~~~~~~l~~~~~~~~giv~N~~~~  172 (261)
                      +++.++++|||+..............+|.+++|++.+..-..+....+..+...+.+.+-+++|+.+.
T Consensus       122 ~~~~i~~iDtPGh~~f~~~~~~g~~~aD~allVVda~~g~~~qt~e~l~~~~~~gip~iIvviNKiDl  189 (447)
T PLN03127        122 AKRHYAHVDCPGHADYVKNMITGAAQMDGGILVVSAPDGPMPQTKEHILLARQVGVPSLVVFLNKVDV  189 (447)
T ss_pred             CCeEEEEEECCCccchHHHHHHHHhhCCEEEEEEECCCCCchhHHHHHHHHHHcCCCeEEEEEEeecc
Confidence            45689999999754322212212222899999999876556667788888888888866688999764

>PRK13506 formate--tetrahydrofolate ligase; Provisional

Probab=97.14  E-value=0.00058  Score=61.54  Aligned_cols=47  Identities=17%  Similarity=0.315  Sum_probs=40.0

Q ss_pred             cccCCC---CCcHHHHHHHHHHHHHhcCCCCeEEEEecCCCCCCcccccCCCCCC
Q psy14655          2 IASSKG---GVGKSTTTVNLATAMKICYPDKEIGILDADVFGPSIPILMNLPDTP   53 (261)
Q Consensus         2 v~s~KG---GvGKTT~a~~lA~~la~~g~~~~VllvD~D~~~~~~~~~~~~~~~~   53 (261)
                      |+|.--   |.||||++++||..|++.|  ++|  ||+ ...+++...|+.....
T Consensus        59 VTs~~PTp~GEGKTT~si~La~~la~~G--k~~--i~~-LR~Pslg~~fg~kgga  108 (578)
T PRK13506         59 VTAITPTPLGEGKTVTTIGLTQGLNALG--QKV--CAC-IRQPSMGPVFGVKGGA  108 (578)
T ss_pred             EEecCCCCCCCCHHHHHHHHHHHHHHhC--Cce--EEE-eccCCcCCccCCCCCC
Confidence            344444   9999999999999999999  999  888 8889998889887654

>cd04165 GTPBP1_like GTPBP1-like

Probab=97.14  E-value=0.0087  Score=48.77  Aligned_cols=67  Identities=18%  Similarity=0.162  Sum_probs=47.2

Q ss_pred             CCCCEEEEeCCCCCChh--HHHHhhhcCCCeEEEEeCCCcchHHHHHHHHHHHHhCCCCeEEEEEcCCCC
Q psy14655        105 GPCDILFIDTPPGTGDT--HLSLIQNLFIDTAIIITIPDTMSLQVAQRGYTMFKKLNIPVAGLVMNMNSV  172 (261)
Q Consensus       105 ~~yd~IiiD~~~~~~~~--~~~~~~~~~ad~viiv~~~~~~s~~~~~~~~~~l~~~~~~~~giv~N~~~~  172 (261)
                      .++.+.++|||+.....  ....+....+|.+++|+..+..-.......++.+...+.+. .+++|+++.
T Consensus        82 ~~~~i~liDtpG~~~~~~~~~~~~~~~~~D~~llVvda~~g~~~~d~~~l~~l~~~~ip~-ivvvNK~D~  150 (224)
T cd04165          82 SSKLVTFIDLAGHERYLKTTLFGLTGYAPDYAMLVVAANAGIIGMTKEHLGLALALNIPV-FVVVTKIDL  150 (224)
T ss_pred             CCcEEEEEECCCcHHHHHHHHHhhcccCCCEEEEEEECCCCCcHHHHHHHHHHHHcCCCE-EEEEECccc
Confidence            57889999999643221  22222211279999999877666677778888888889884 589999663

Mammalian GTP binding protein 1 (GTPBP1), GTPBP2, and nematode homologs AGP-1 and CGP-1 are GTPases whose specific functions remain unknown. In mouse, GTPBP1 is expressed in macrophages, in smooth muscle cells of various tissues and in some neurons of the cerebral cortex; GTPBP2 tissue distribution appears to overlap that of GTPBP1. In human leukemia and macrophage cell lines, expression of both GTPBP1 and GTPBP2 is enhanced by interferon-gamma (IFN-gamma). The chromosomal location of both genes has been identified in humans, with GTPBP1 located in chromosome 22q12-13.1 and GTPBP2 located in chromosome 6p21-12. Human glioblastoma multiforme (GBM), a highly-malignant astrocytic glioma and the most common cancer in the central nervous system, has been linked to chromosomal deletions and a translocation on chromosome 6. The GBM translocation results in a fusion of GTPBP2 and PTPRZ1, a protein involved in oligodendrocyte differentiation, recovery, and

>PRK14721 flhF flagellar biosynthesis regulator FlhF; Provisional

Probab=97.11  E-value=0.0046  Score=54.87  Aligned_cols=133  Identities=17%  Similarity=0.201  Sum_probs=68.3

Q ss_pred             CCCCCcHHHHHHHHHHHHHh-cCCCCeEEEEecCCCCCCcccccCCCCCCCCCcCCccccccccCceeecCCCCcccchh
Q psy14655          5 SKGGVGKSTTTVNLATAMKI-CYPDKEIGILDADVFGPSIPILMNLPDTPLLNKDNLMIPLVNYGVKCLSMGNLITEKSA   83 (261)
Q Consensus         5 ~KGGvGKTT~a~~lA~~la~-~g~~~~VllvD~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~   83 (261)
                      +.-|+||||+..-||..+.. .+ ..++.++=.|...-.....+     ..+        ....++.+....        
T Consensus       198 GpnG~GKTTtlakLA~~~~~~~~-~~~v~~i~~d~~rigalEQL-----~~~--------a~ilGvp~~~v~--------  255 (420)
T PRK14721        198 GPTGVGKTTTTAKLAARAVIRHG-ADKVALLTTDSYRIGGHEQL-----RIY--------GKLLGVSVRSIK--------  255 (420)
T ss_pred             CCCCCCHHHHHHHHHHHHHHhcC-CCeEEEEecCCcchhHHHHH-----HHH--------HHHcCCceecCC--------
Confidence            55699999999999986543 32 26788887777542211100     000        000011111100        


Q ss_pred             hhhhchHHHHHHHHHHHHhccCCCCEEEEeCCCCCChhH------HHHhhh-cCCCeEEEEeCCCcchHHHHHHHHHHHH
Q psy14655         84 AIWRGLMVMQALNKLTVQVQWGPCDILFIDTPPGTGDTH------LSLIQN-LFIDTAIIITIPDTMSLQVAQRGYTMFK  156 (261)
Q Consensus        84 ~~~~~~~~~~~l~~~l~~l~~~~yd~IiiD~~~~~~~~~------~~~~~~-~~ad~viiv~~~~~~s~~~~~~~~~~l~  156 (261)
                             ....+...+..+  .++|+|+|||+ |..+..      ...+.. .....+++|++++. ...++...+..+.
T Consensus       256 -------~~~dl~~al~~l--~~~d~VLIDTa-Grsqrd~~~~~~l~~l~~~~~~~~~~LVl~at~-~~~~~~~~~~~f~  324 (420)
T PRK14721        256 -------DIADLQLMLHEL--RGKHMVLIDTV-GMSQRDQMLAEQIAMLSQCGTQVKHLLLLNATS-SGDTLDEVISAYQ  324 (420)
T ss_pred             -------CHHHHHHHHHHh--cCCCEEEecCC-CCCcchHHHHHHHHHHhccCCCceEEEEEcCCC-CHHHHHHHHHHhc
Confidence                   011123333333  68999999997 454311      111111 11346777776552 3334445555555


Q ss_pred             hCCCCeEEEEEcCCCC
Q psy14655        157 KLNIPVAGLVMNMNSV  172 (261)
Q Consensus       157 ~~~~~~~giv~N~~~~  172 (261)
                      .  .++-++|+++.+.
T Consensus       325 ~--~~~~~~I~TKlDE  338 (420)
T PRK14721        325 G--HGIHGCIITKVDE  338 (420)
T ss_pred             C--CCCCEEEEEeeeC
Confidence            4  4567889998664

>TIGR00490 aEF-2 translation elongation factor aEF-2

Probab=97.09  E-value=0.0023  Score=61.07  Aligned_cols=66  Identities=20%  Similarity=0.169  Sum_probs=48.4

Q ss_pred             CCCCEEEEeCCCCCC--hhHHHHhhhcCCCeEEEEeCCCcchHHHHHHHHHHHHhCCCCeEEEEEcCCCCC
Q psy14655        105 GPCDILFIDTPPGTG--DTHLSLIQNLFIDTAIIITIPDTMSLQVAQRGYTMFKKLNIPVAGLVMNMNSVL  173 (261)
Q Consensus       105 ~~yd~IiiD~~~~~~--~~~~~~~~~~~ad~viiv~~~~~~s~~~~~~~~~~l~~~~~~~~giv~N~~~~~  173 (261)
                      .+|++.|+|||+...  .....++..  +|.+++|++....-......+++.+.+.+.+.+ +++|+.+..
T Consensus        84 ~~~~i~liDTPG~~~f~~~~~~al~~--aD~~llVvda~~g~~~~t~~~~~~~~~~~~p~i-vviNKiD~~  151 (720)
T TIGR00490        84 NEYLINLIDTPGHVDFGGDVTRAMRA--VDGAIVVVCAVEGVMPQTETVLRQALKENVKPV-LFINKVDRL  151 (720)
T ss_pred             CceEEEEEeCCCccccHHHHHHHHHh--cCEEEEEEecCCCCCccHHHHHHHHHHcCCCEE-EEEEChhcc
Confidence            679999999997643  345556666  999999998765444555666776667777766 999997753

This model represents archaeal elongation factor 2, a protein more similar to eukaryotic EF-2 than to bacterial EF-G, both in sequence similarity and in sharing with eukaryotes the property of having a diphthamide (modified His) residue at a conserved position. The diphthamide can be ADP-ribosylated by diphtheria toxin in the presence of NAD.

>PRK07667 uridine kinase; Provisional

Probab=97.04  E-value=0.00082  Score=53.45  Aligned_cols=35  Identities=26%  Similarity=0.223  Sum_probs=32.0

Q ss_pred             ccCCCCCcHHHHHHHHHHHHHhcCCCCeEEEEecCCC
Q psy14655          3 ASSKGGVGKSTTTVNLATAMKICYPDKEIGILDADVF   39 (261)
Q Consensus         3 ~s~KGGvGKTT~a~~lA~~la~~g~~~~VllvD~D~~   39 (261)
                      +++-.|+||||+|..|+..|.+.|  .+|.++++|-.
T Consensus        22 I~G~~gsGKStla~~L~~~l~~~~--~~~~~i~~Dd~   56 (193)
T PRK07667         22 IDGLSRSGKTTFVANLKENMKQEG--IPFHIFHIDDY   56 (193)
T ss_pred             EECCCCCCHHHHHHHHHHHHHhCC--CcEEEEEcCcc
Confidence            567889999999999999999999  99999999963

>cd03112 CobW_like The function of this protein family is unkown

Probab=97.03  E-value=0.02  Score=43.89  Aligned_cols=142  Identities=12%  Similarity=0.115  Sum_probs=70.5

Q ss_pred             cccCCCCCcHHHHHHHHHHHHHhcCCCCeEEEEecCCCCCCcccccCCCCCCCCCcCCccccccccCceeecCCCCcccc
Q psy14655          2 IASSKGGVGKSTTTVNLATAMKICYPDKEIGILDADVFGPSIPILMNLPDTPLLNKDNLMIPLVNYGVKCLSMGNLITEK   81 (261)
Q Consensus         2 v~s~KGGvGKTT~a~~lA~~la~~g~~~~VllvD~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~   81 (261)
                      ++.+-=|+||||+...+....  .+  .++.++-.|......+...       +.      . ....+.-+..|-.....
T Consensus         4 ~l~G~~GsGKTtl~~~l~~~~--~~--~~~~~i~~~~G~~~~d~~~-------~~------~-~~~~v~~l~~GCiCC~~   65 (158)
T cd03112           4 VLTGFLGAGKTTLLNHILTEQ--HG--RKIAVIENEFGEVGIDNQL-------VV------D-TDEEIIEMNNGCICCTV   65 (158)
T ss_pred             EEEECCCCCHHHHHHHHHhcc--cC--CcEEEEecCCCccchhHHH-------Hh------C-CCceEEEeCCCEeEeeC
Confidence            355667999999999888653  46  8888877775432221100       00      0 00011111111111111


Q ss_pred             hhhhhhchHHHHHHHHHHHHh--ccCCCCEEEEeCCCCCChhHH-HHh-------hhcCCCeEEEEeCCCcchH--HHHH
Q psy14655         82 SAAIWRGLMVMQALNKLTVQV--QWGPCDILFIDTPPGTGDTHL-SLI-------QNLFIDTAIIITIPDTMSL--QVAQ  149 (261)
Q Consensus        82 ~~~~~~~~~~~~~l~~~l~~l--~~~~yd~IiiD~~~~~~~~~~-~~~-------~~~~ad~viiv~~~~~~s~--~~~~  149 (261)
                      .      ......+.++++.+  ....+|+|++|+|+...+... ..+       .....|.++.++++.....  ....
T Consensus        66 ~------~~l~~~l~~l~~~~~~~~~~~d~I~IEt~G~~~p~~~~~~~~~~~~~~~~~~~d~vv~vvDa~~~~~~~~~~~  139 (158)
T cd03112          66 R------GDLIRALLDLLERLDAGKIAFDRIVIETTGLADPGPVAQTFFMDEELAERYLLDGVITLVDAKHANQHLDQQT  139 (158)
T ss_pred             c------hhHHHHHHHHHHHHHhccCCCCEEEEECCCcCCHHHHHHHHhhchhhhcceeeccEEEEEEhhHhHHHhhccH
Confidence            1      12233344444433  125799999999865432211 111       1111677888888654322  1223


Q ss_pred             HHHHHHHhCCCCeEEEEEcCCC
Q psy14655        150 RGYTMFKKLNIPVAGLVMNMNS  171 (261)
Q Consensus       150 ~~~~~l~~~~~~~~giv~N~~~  171 (261)
                      .+.+.+...+.    +|+|+.+
T Consensus       140 ~~~~Qi~~ad~----ivlnk~d  157 (158)
T cd03112         140 EAQSQIAFADR----ILLNKTD  157 (158)
T ss_pred             HHHHHHHHCCE----EEEeccc
Confidence            34456666543    6888743

The amino acid sequence of YjiA protein in E. coli contains several conserved motifs that characterizes it as a P-loop GTPase. YijA gene is among the genes significantly induced in response to DNA-damage caused by mitomycin. YijA gene is a homologue of the CobW gene which encodes the cobalamin synthesis protein/P47K.

>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=97.02  E-value=0.00065  Score=51.86  Aligned_cols=39  Identities=21%  Similarity=0.232  Sum_probs=33.5

Q ss_pred             ccCCCCCcHHHHHHHHHHHHHhcCCCCeEEEEecCCCCCCc
Q psy14655          3 ASSKGGVGKSTTTVNLATAMKICYPDKEIGILDADVFGPSI   43 (261)
Q Consensus         3 ~s~KGGvGKTT~a~~lA~~la~~g~~~~VllvD~D~~~~~~   43 (261)
                      +.+..|+||||+|..|...|...|  .+|.++|.|.-...+
T Consensus         7 ltGlsGsGKtTlA~~L~~~L~~~g--~~~~~LDgD~lR~~l   45 (156)
T PF01583_consen    7 LTGLSGSGKTTLARALERRLFARG--IKVYLLDGDNLRHGL   45 (156)
T ss_dssp             EESSTTSSHHHHHHHHHHHHHHTT--S-EEEEEHHHHCTTT
T ss_pred             EECCCCCCHHHHHHHHHHHHHHcC--CcEEEecCcchhhcc
Confidence            467789999999999999999999  999999999766443

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 ....

>PRK05986 cob(I)alamin adenolsyltransferase/cobinamide ATP-dependent adenolsyltransferase; Validated

Probab=97.01  E-value=0.0049  Score=48.58  Aligned_cols=32  Identities=25%  Similarity=0.279  Sum_probs=28.2

Q ss_pred             cCCCCCcHHHHHHHHHHHHHhcCCCCeEEEEecC
Q psy14655          4 SSKGGVGKSTTTVNLATAMKICYPDKEIGILDAD   37 (261)
Q Consensus         4 s~KGGvGKTT~a~~lA~~la~~g~~~~VllvD~D   37 (261)
                      -+.-|-||||.|..+|..++.+|  .+|++|=+=
T Consensus        28 ~~g~GkGKtt~a~g~a~ra~g~G--~~V~ivQFl   59 (191)
T PRK05986         28 HTGNGKGKSTAAFGMALRAVGHG--KKVGVVQFI   59 (191)
T ss_pred             ECCCCCChHHHHHHHHHHHHHCC--CeEEEEEEe
Confidence            34568999999999999999999  999998654

>PRK05973 replicative DNA helicase; Provisional

Probab=97.01  E-value=0.00081  Score=55.06  Aligned_cols=37  Identities=14%  Similarity=0.116  Sum_probs=34.1

Q ss_pred             cccCCCCCcHHHHHHHHHHHHHhcCCCCeEEEEecCCCC
Q psy14655          2 IASSKGGVGKSTTTVNLATAMKICYPDKEIGILDADVFG   40 (261)
Q Consensus         2 v~s~KGGvGKTT~a~~lA~~la~~g~~~~VllvD~D~~~   40 (261)
                      ++++..|+|||+++.++|...+++|  .+|+++.++...
T Consensus        68 LIaG~PG~GKT~lalqfa~~~a~~G--e~vlyfSlEes~  104 (237)
T PRK05973         68 LLGARPGHGKTLLGLELAVEAMKSG--RTGVFFTLEYTE  104 (237)
T ss_pred             EEEeCCCCCHHHHHHHHHHHHHhcC--CeEEEEEEeCCH
Confidence            5678899999999999999999999  999999999874

>PRK00049 elongation factor Tu; Reviewed

Probab=96.99  E-value=0.0035  Score=55.59  Aligned_cols=66  Identities=11%  Similarity=0.188  Sum_probs=47.4

Q ss_pred             CCCCEEEEeCCCCCCh--hHHHHhhhcCCCeEEEEeCCCcchHHHHHHHHHHHHhCCCCeEEEEEcCCCC
Q psy14655        105 GPCDILFIDTPPGTGD--THLSLIQNLFIDTAIIITIPDTMSLQVAQRGYTMFKKLNIPVAGLVMNMNSV  172 (261)
Q Consensus       105 ~~yd~IiiD~~~~~~~--~~~~~~~~~~ad~viiv~~~~~~s~~~~~~~~~~l~~~~~~~~giv~N~~~~  172 (261)
                      +++.++++|||+....  .....+..  +|.+++++++...-.......+..+...+.+.+-+++|+.+.
T Consensus        73 ~~~~i~~iDtPG~~~f~~~~~~~~~~--aD~~llVVDa~~g~~~qt~~~~~~~~~~g~p~iiVvvNK~D~  140 (396)
T PRK00049         73 EKRHYAHVDCPGHADYVKNMITGAAQ--MDGAILVVSAADGPMPQTREHILLARQVGVPYIVVFLNKCDM  140 (396)
T ss_pred             CCeEEEEEECCCHHHHHHHHHhhhcc--CCEEEEEEECCCCCchHHHHHHHHHHHcCCCEEEEEEeecCC
Confidence            4567999999964321  12223333  899999999877656677778888888888877678999764

>TIGR00436 era GTP-binding protein Era

Probab=96.97  E-value=0.008  Score=50.42  Aligned_cols=64  Identities=27%  Similarity=0.281  Sum_probs=40.5

Q ss_pred             CCCCEEEEeCCCCCCh--h--------HHHHhhhcCCCeEEEEeCCCcchHHHHHHHHHHHHhCCCCeEEEEEcCCCC
Q psy14655        105 GPCDILFIDTPPGTGD--T--------HLSLIQNLFIDTAIIITIPDTMSLQVAQRGYTMFKKLNIPVAGLVMNMNSV  172 (261)
Q Consensus       105 ~~yd~IiiD~~~~~~~--~--------~~~~~~~~~ad~viiv~~~~~~s~~~~~~~~~~l~~~~~~~~giv~N~~~~  172 (261)
                      .++.++++|||+....  .        ....+..  +|.++++++.+...... ..+++.+...+.+. -+|+|+.+.
T Consensus        46 ~~~qii~vDTPG~~~~~~~l~~~~~~~~~~~l~~--aDvvl~VvD~~~~~~~~-~~i~~~l~~~~~p~-ilV~NK~Dl  119 (270)
T TIGR00436        46 GASQIIFIDTPGFHEKKHSLNRLMMKEARSAIGG--VDLILFVVDSDQWNGDG-EFVLTKLQNLKRPV-VLTRNKLDN  119 (270)
T ss_pred             CCcEEEEEECcCCCCCcchHHHHHHHHHHHHHhh--CCEEEEEEECCCCCchH-HHHHHHHHhcCCCE-EEEEECeeC
Confidence            4567899999864321  0        1123344  89999999876543333 45566676666664 489999764

Era is an essential GTPase in Escherichia coli and many other bacteria. It plays a role in ribosome biogenesis. Few bacteria lack this protein.

>cd00880 Era_like Era (E

Probab=96.95  E-value=0.0067  Score=45.39  Aligned_cols=64  Identities=16%  Similarity=0.208  Sum_probs=41.9

Q ss_pred             CCCEEEEeCCCCCCh---------hHHHHhhhcCCCeEEEEeCCCcchHHHHHHHHHHHHhCCCCeEEEEEcCCCC
Q psy14655        106 PCDILFIDTPPGTGD---------THLSLIQNLFIDTAIIITIPDTMSLQVAQRGYTMFKKLNIPVAGLVMNMNSV  172 (261)
Q Consensus       106 ~yd~IiiD~~~~~~~---------~~~~~~~~~~ad~viiv~~~~~~s~~~~~~~~~~l~~~~~~~~giv~N~~~~  172 (261)
                      .++++++|+|+....         ........  +|.+++++.+..................+.+ +-+|+|+.+.
T Consensus        44 ~~~~~~~Dt~g~~~~~~~~~~~~~~~~~~~~~--~d~il~v~~~~~~~~~~~~~~~~~~~~~~~~-~ivv~nK~D~  116 (163)
T cd00880          44 LGPVVLIDTPGIDEAGGLGREREELARRVLER--ADLILFVVDADLRADEEEEKLLELLRERGKP-VLLVLNKIDL  116 (163)
T ss_pred             CCcEEEEECCCCCccccchhhHHHHHHHHHHh--CCEEEEEEeCCCCCCHHHHHHHHHHHhcCCe-EEEEEEcccc
Confidence            689999999974321         22234444  8999999987765554444445555555666 4589998664

coli Ras-like protein)-like. This family includes several distinct subfamilies (TrmE/ThdF, FeoB, YihA (EngG), Era, and EngA/YfgK) that generally show sequence conservation in the region between the Walker A and B motifs (G1 and G3 box motifs), to the exclusion of other GTPases. TrmE is ubiquitous in bacteria and is a widespread mitochondrial protein in eukaryotes, but is absent from archaea. The yeast member of TrmE family, MSS1, is involved in mitochondrial translation; bacterial members are often present in translation-related operons. FeoB represents an unusual adaptation of GTPases for high-affinity iron (II) transport. YihA (EngB) family of GTPases is typified by the E. coli YihA, which is an essential protein involved in cell division control. Era is characterized by a distinct derivative of the KH domain (the pseudo-KH domain) which is located C-terminal to the GTPase domain. EngA and its orthologs are composed of two GTPase domains and, since the se

>PLN02974 adenosylmethionine-8-amino-7-oxononanoate transaminase

Probab=96.94  E-value=0.0046  Score=59.51  Aligned_cols=64  Identities=16%  Similarity=0.170  Sum_probs=49.9

Q ss_pred             CCCCEEEEeCCCCCCh------hHHHHhhhcCCCeEEEEeCCCcchHHHHHHHHHHHHhCCCCeEEEEEcC
Q psy14655        105 GPCDILFIDTPPGTGD------THLSLIQNLFIDTAIIITIPDTMSLQVAQRGYTMFKKLNIPVAGLVMNM  169 (261)
Q Consensus       105 ~~yd~IiiD~~~~~~~------~~~~~~~~~~ad~viiv~~~~~~s~~~~~~~~~~l~~~~~~~~giv~N~  169 (261)
                      ..+|++||.+.+|+-.      ....++... ---+|+|......++..+.-.++.++.-++++.|+|+|.
T Consensus       183 ~~~d~vlVEGAGGl~vPl~~~~~~~Dl~~~l-~lPvILV~~~~LG~INhtllt~eaL~~rGi~v~gii~~~  252 (817)
T PLN02974        183 GGRVLALVETAGGVASPGPSGTLQCDLYRPL-RLPAILVGDGRLGGISATLAAYESLLLRGYDVVAVVIED  252 (817)
T ss_pred             ccCCeEEEECCCcccccCCCCCCHHHHHHHh-CCCEEEEECCCCCHHHHHHHHHHHHHHCCCCEEEEEEeC
Confidence            3589999999988731      122222221 124899999999999999999999999999999999996

>PRK06067 flagellar accessory protein FlaH; Validated

Probab=96.94  E-value=0.0017  Score=53.15  Aligned_cols=35  Identities=14%  Similarity=0.141  Sum_probs=31.2

Q ss_pred             ccCCCCCcHHHHHHHHHHHHHhcCCCCeEEEEecCCC
Q psy14655          3 ASSKGGVGKSTTTVNLATAMKICYPDKEIGILDADVF   39 (261)
Q Consensus         3 ~s~KGGvGKTT~a~~lA~~la~~g~~~~VllvD~D~~   39 (261)
                      +.+..|+|||+++.+++...+++|  .+|++++++..
T Consensus        30 i~G~~GsGKt~l~~~~~~~~~~~g--~~~~y~~~e~~   64 (234)
T PRK06067         30 IEGDHGTGKSVLSQQFVYGALKQG--KKVYVITTENT   64 (234)
T ss_pred             EECCCCCChHHHHHHHHHHHHhCC--CEEEEEEcCCC
Confidence            457789999999999999988889  99999999854

>COG0529 CysC Adenylylsulfate kinase and related kinases [Inorganic ion transport and metabolism]

Probab=96.93  E-value=0.0011  Score=51.16  Aligned_cols=46  Identities=20%  Similarity=0.178  Sum_probs=38.4

Q ss_pred             cCCCCCcHHHHHHHHHHHHHhcCCCCeEEEEecCCCCCCcccccCCCC
Q psy14655          4 SSKGGVGKSTTTVNLATAMKICYPDKEIGILDADVFGPSIPILMNLPD   51 (261)
Q Consensus         4 s~KGGvGKTT~a~~lA~~la~~g~~~~VllvD~D~~~~~~~~~~~~~~   51 (261)
                      .+-.|+||||+|..|...|.++|  ++|-++|-|--...+..-+|...
T Consensus        29 TGLSGsGKSTiA~ale~~L~~~G--~~~y~LDGDnvR~gL~~dLgFs~   74 (197)
T COG0529          29 TGLSGSGKSTIANALEEKLFAKG--YHVYLLDGDNVRHGLNRDLGFSR   74 (197)
T ss_pred             ecCCCCCHHHHHHHHHHHHHHcC--CeEEEecChhHhhcccCCCCCCh
Confidence            34569999999999999999999  99999999987776655555543

>cd00983 recA RecA is a bacterial enzyme which has roles in homologous recombination, DNA repair, and the induction of the SOS response

Probab=96.92  E-value=0.0017  Score=55.69  Aligned_cols=35  Identities=14%  Similarity=0.148  Sum_probs=31.0

Q ss_pred             ccCCCCCcHHHHHHHHHHHHHhcCCCCeEEEEecCCC
Q psy14655          3 ASSKGGVGKSTTTVNLATAMKICYPDKEIGILDADVF   39 (261)
Q Consensus         3 ~s~KGGvGKTT~a~~lA~~la~~g~~~~VllvD~D~~   39 (261)
                      +.+..|+||||+|.+++...++.|  .+|++||+...
T Consensus        60 I~Gp~GsGKTtLal~~~~~~~~~g--~~~vyId~E~~   94 (325)
T cd00983          60 IYGPESSGKTTLALHAIAEAQKLG--GTVAFIDAEHA   94 (325)
T ss_pred             EECCCCCCHHHHHHHHHHHHHHcC--CCEEEECcccc
Confidence            345789999999999999999999  99999998654

RecA couples ATP hydrolysis to DNA strand exchange.

>smart00382 AAA ATPases associated with a variety of cellular activities

Probab=96.92  E-value=0.0022  Score=47.09  Aligned_cols=38  Identities=18%  Similarity=0.122  Sum_probs=32.4

Q ss_pred             cccCCCCCcHHHHHHHHHHHHHhcCCCCeEEEEecCCCCC
Q psy14655          2 IASSKGGVGKSTTTVNLATAMKICYPDKEIGILDADVFGP   41 (261)
Q Consensus         2 v~s~KGGvGKTT~a~~lA~~la~~g~~~~VllvD~D~~~~   41 (261)
                      ++.+..|+||||++..+|..+...+  ..+++++++....
T Consensus         6 ~l~G~~G~GKTtl~~~l~~~~~~~~--~~~~~~~~~~~~~   43 (148)
T smart00382        6 LIVGPPGSGKTTLARALARELGPPG--GGVIYIDGEDILE   43 (148)
T ss_pred             EEECCCCCcHHHHHHHHHhccCCCC--CCEEEECCEEccc
Confidence            3456789999999999999998887  7899999997754

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.

>PRK08533 flagellar accessory protein FlaH; Reviewed

Probab=96.91  E-value=0.0024  Score=52.26  Aligned_cols=36  Identities=14%  Similarity=0.098  Sum_probs=31.3

Q ss_pred             ccCCCCCcHHHHHHHHHHHHHhcCCCCeEEEEecCCCC
Q psy14655          3 ASSKGGVGKSTTTVNLATAMKICYPDKEIGILDADVFG   40 (261)
Q Consensus         3 ~s~KGGvGKTT~a~~lA~~la~~g~~~~VllvD~D~~~   40 (261)
                      +.+--|+||||++.+++..++++|  .++++++++...
T Consensus        29 i~G~~G~GKTtl~~~~~~~~~~~g--~~~~yi~~e~~~   64 (230)
T PRK08533         29 IEGDESTGKSILSQRLAYGFLQNG--YSVSYVSTQLTT   64 (230)
T ss_pred             EECCCCCCHHHHHHHHHHHHHhCC--CcEEEEeCCCCH
Confidence            456679999999999999999999  999999987654

>PRK00007 elongation factor G; Reviewed

Probab=96.90  E-value=0.0062  Score=57.96  Aligned_cols=65  Identities=15%  Similarity=0.067  Sum_probs=49.8

Q ss_pred             CCCCEEEEeCCCCCC--hhHHHHhhhcCCCeEEEEeCCCcchHHHHHHHHHHHHhCCCCeEEEEEcCCCC
Q psy14655        105 GPCDILFIDTPPGTG--DTHLSLIQNLFIDTAIIITIPDTMSLQVAQRGYTMFKKLNIPVAGLVMNMNSV  172 (261)
Q Consensus       105 ~~yd~IiiD~~~~~~--~~~~~~~~~~~ad~viiv~~~~~~s~~~~~~~~~~l~~~~~~~~giv~N~~~~  172 (261)
                      .++.+.++|||+...  ..+..++..  +|.+++|++....-..+...++..+.+.+.+.+ +++|+.+.
T Consensus        73 ~~~~~~liDTPG~~~f~~ev~~al~~--~D~~vlVvda~~g~~~qt~~~~~~~~~~~~p~i-v~vNK~D~  139 (693)
T PRK00007         73 KDHRINIIDTPGHVDFTIEVERSLRV--LDGAVAVFDAVGGVEPQSETVWRQADKYKVPRI-AFVNKMDR  139 (693)
T ss_pred             CCeEEEEEeCCCcHHHHHHHHHHHHH--cCEEEEEEECCCCcchhhHHHHHHHHHcCCCEE-EEEECCCC
Confidence            578999999997542  223445555  899999999776666677788888888898876 89999764

>TIGR00176 mobB molybdopterin-guanine dinucleotide biosynthesis protein MobB

Probab=96.87  E-value=0.0019  Score=49.49  Aligned_cols=33  Identities=21%  Similarity=0.208  Sum_probs=29.4

Q ss_pred             CCCCCcHHHHHHHHHHHHHhcCCCCeEEEEecCCC
Q psy14655          5 SKGGVGKSTTTVNLATAMKICYPDKEIGILDADVF   39 (261)
Q Consensus         5 ~KGGvGKTT~a~~lA~~la~~g~~~~VllvD~D~~   39 (261)
                      +.-|+||||++..|+..|..+|  ++|.+|..|..
T Consensus         6 G~~gsGKTtl~~~l~~~l~~~G--~~V~viK~~~~   38 (155)
T TIGR00176         6 GPKNSGKTTLIERLVKALKARG--YRVATIKHDHH   38 (155)
T ss_pred             CCCCCCHHHHHHHHHHHHHhcC--CeEEEEecccc
Confidence            4459999999999999999999  99999998744

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.

>COG1159 Era GTPase [General function prediction only]

Probab=96.85  E-value=0.011  Score=49.42  Aligned_cols=104  Identities=22%  Similarity=0.210  Sum_probs=68.9

Q ss_pred             CCCCCcHHHHHHHHHHHHHhcCCCCeEEEEecCCCCCCcccccCCCCCCCCCcCCccccccccCceeecCCCCcccchhh
Q psy14655          5 SKGGVGKSTTTVNLATAMKICYPDKEIGILDADVFGPSIPILMNLPDTPLLNKDNLMIPLVNYGVKCLSMGNLITEKSAA   84 (261)
Q Consensus         5 ~KGGvGKTT~a~~lA~~la~~g~~~~VllvD~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~   84 (261)
                      ++-.|||||+.=+|      .|  .|+.++---+|. +.....|+-.                                 
T Consensus        13 GrPNvGKSTLlN~l------~G--~KisIvS~k~QT-TR~~I~GI~t---------------------------------   50 (298)
T COG1159          13 GRPNVGKSTLLNAL------VG--QKISIVSPKPQT-TRNRIRGIVT---------------------------------   50 (298)
T ss_pred             cCCCCcHHHHHHHH------hc--CceEeecCCcch-hhhheeEEEE---------------------------------
Confidence            57789999998665      57  999999887774 3333332211                                 


Q ss_pred             hhhchHHHHHHHHHHHHhccCCCCEEEEeCCCCCC----------hhHHHHhhhcCCCeEEEEeCCCcchHHHHHHHHHH
Q psy14655         85 IWRGLMVMQALNKLTVQVQWGPCDILFIDTPPGTG----------DTHLSLIQNLFIDTAIIITIPDTMSLQVAQRGYTM  154 (261)
Q Consensus        85 ~~~~~~~~~~l~~~l~~l~~~~yd~IiiD~~~~~~----------~~~~~~~~~~~ad~viiv~~~~~~s~~~~~~~~~~  154 (261)
                                         .+++.+|++|||+--.          ......+..  +|.++.+++.+..--.+....++.
T Consensus        51 -------------------~~~~QiIfvDTPGih~pk~~l~~~m~~~a~~sl~d--vDlilfvvd~~~~~~~~d~~il~~  109 (298)
T COG1159          51 -------------------TDNAQIIFVDTPGIHKPKHALGELMNKAARSALKD--VDLILFVVDADEGWGPGDEFILEQ  109 (298)
T ss_pred             -------------------cCCceEEEEeCCCCCCcchHHHHHHHHHHHHHhcc--CcEEEEEEeccccCCccHHHHHHH
Confidence                               1678999999995322          112233333  899999998776444456667777


Q ss_pred             HHhCCCCeEEEEEcCCCC
Q psy14655        155 FKKLNIPVAGLVMNMNSV  172 (261)
Q Consensus       155 l~~~~~~~~giv~N~~~~  172 (261)
                      +++...+.+ +++|+.+.
T Consensus       110 lk~~~~pvi-l~iNKID~  126 (298)
T COG1159         110 LKKTKTPVI-LVVNKIDK  126 (298)
T ss_pred             HhhcCCCeE-EEEEcccc
Confidence            777555644 78898664

>PRK00093 GTP-binding protein Der; Reviewed

Probab=96.83  E-value=0.011  Score=53.09  Aligned_cols=65  Identities=18%  Similarity=0.101  Sum_probs=41.0

Q ss_pred             CCCCEEEEeCCCCCCh-h---------HHHHhhhcCCCeEEEEeCCCcchHHHHHHHHHHHHhCCCCeEEEEEcCCCC
Q psy14655        105 GPCDILFIDTPPGTGD-T---------HLSLIQNLFIDTAIIITIPDTMSLQVAQRGYTMFKKLNIPVAGLVMNMNSV  172 (261)
Q Consensus       105 ~~yd~IiiD~~~~~~~-~---------~~~~~~~~~ad~viiv~~~~~~s~~~~~~~~~~l~~~~~~~~giv~N~~~~  172 (261)
                      .++++.|+|||+.... .         ....+..  +|.+++|++....-...-..+.+.+++.+.+ +-+|+|+++.
T Consensus        47 ~~~~~~liDT~G~~~~~~~~~~~~~~~~~~~~~~--ad~il~vvd~~~~~~~~~~~~~~~l~~~~~p-iilv~NK~D~  121 (435)
T PRK00093         47 LGREFILIDTGGIEPDDDGFEKQIREQAELAIEE--ADVILFVVDGRAGLTPADEEIAKILRKSNKP-VILVVNKVDG  121 (435)
T ss_pred             CCcEEEEEECCCCCCcchhHHHHHHHHHHHHHHh--CCEEEEEEECCCCCCHHHHHHHHHHHHcCCc-EEEEEECccC
Confidence            4578999999864430 0         1223344  8999999986653222223456667776766 4489999774

>TIGR02012 tigrfam_recA protein RecA

Probab=96.83  E-value=0.0022  Score=54.91  Aligned_cols=35  Identities=14%  Similarity=0.130  Sum_probs=30.8

Q ss_pred             ccCCCCCcHHHHHHHHHHHHHhcCCCCeEEEEecCCC
Q psy14655          3 ASSKGGVGKSTTTVNLATAMKICYPDKEIGILDADVF   39 (261)
Q Consensus         3 ~s~KGGvGKTT~a~~lA~~la~~g~~~~VllvD~D~~   39 (261)
                      +.+..|+||||+|.+++...++.|  .+|++||+...
T Consensus        60 I~G~~GsGKTtLaL~~~~~~~~~g--~~v~yId~E~~   94 (321)
T TIGR02012        60 IYGPESSGKTTLALHAIAEAQKAG--GTAAFIDAEHA   94 (321)
T ss_pred             EECCCCCCHHHHHHHHHHHHHHcC--CcEEEEcccch
Confidence            345679999999999999999999  99999998754

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.

>PRK12739 elongation factor G; Reviewed

Probab=96.75  E-value=0.011  Score=56.30  Aligned_cols=65  Identities=15%  Similarity=0.089  Sum_probs=48.5

Q ss_pred             CCCCEEEEeCCCCCC--hhHHHHhhhcCCCeEEEEeCCCcchHHHHHHHHHHHHhCCCCeEEEEEcCCCC
Q psy14655        105 GPCDILFIDTPPGTG--DTHLSLIQNLFIDTAIIITIPDTMSLQVAQRGYTMFKKLNIPVAGLVMNMNSV  172 (261)
Q Consensus       105 ~~yd~IiiD~~~~~~--~~~~~~~~~~~ad~viiv~~~~~~s~~~~~~~~~~l~~~~~~~~giv~N~~~~  172 (261)
                      .++.++++|||+...  .....++..  +|.+++|++....--.....++..+.+.+.+.+ +++|+.+.
T Consensus        71 ~~~~i~liDTPG~~~f~~e~~~al~~--~D~~ilVvDa~~g~~~qt~~i~~~~~~~~~p~i-v~iNK~D~  137 (691)
T PRK12739         71 KGHRINIIDTPGHVDFTIEVERSLRV--LDGAVAVFDAVSGVEPQSETVWRQADKYGVPRI-VFVNKMDR  137 (691)
T ss_pred             CCEEEEEEcCCCHHHHHHHHHHHHHH--hCeEEEEEeCCCCCCHHHHHHHHHHHHcCCCEE-EEEECCCC
Confidence            678999999996432  223444555  899999999766555666677888888888876 89999764

>PRK15494 era GTPase Era; Provisional

Probab=96.73  E-value=0.0078  Score=52.22  Aligned_cols=65  Identities=15%  Similarity=0.167  Sum_probs=37.9

Q ss_pred             CCCCEEEEeCCCCCCh------h-H---HHHhhhcCCCeEEEEeCCCcchHHHHHHHHHHHHhCCCCeEEEEEcCCCC
Q psy14655        105 GPCDILFIDTPPGTGD------T-H---LSLIQNLFIDTAIIITIPDTMSLQVAQRGYTMFKKLNIPVAGLVMNMNSV  172 (261)
Q Consensus       105 ~~yd~IiiD~~~~~~~------~-~---~~~~~~~~ad~viiv~~~~~~s~~~~~~~~~~l~~~~~~~~giv~N~~~~  172 (261)
                      .++.++|+|||+....      . .   ...+..  ||.++++++....--.....+++.+...+.+.+ +|+|+.+.
T Consensus        98 ~~~qi~~~DTpG~~~~~~~l~~~~~r~~~~~l~~--aDvil~VvD~~~s~~~~~~~il~~l~~~~~p~I-lViNKiDl  172 (339)
T PRK15494         98 KDTQVILYDTPGIFEPKGSLEKAMVRCAWSSLHS--ADLVLLIIDSLKSFDDITHNILDKLRSLNIVPI-FLLNKIDI  172 (339)
T ss_pred             CCeEEEEEECCCcCCCcccHHHHHHHHHHHHhhh--CCEEEEEEECCCCCCHHHHHHHHHHHhcCCCEE-EEEEhhcC
Confidence            4567899999864221      0 1   112334  888888887543211222345666666666655 68899774

>PRK04296 thymidine kinase; Provisional

Probab=96.72  E-value=0.0081  Score=47.61  Aligned_cols=30  Identities=17%  Similarity=0.030  Sum_probs=26.6

Q ss_pred             ccCCCCCcHHHHHHHHHHHHHhcCCCCeEEEE
Q psy14655          3 ASSKGGVGKSTTTVNLATAMKICYPDKEIGIL   34 (261)
Q Consensus         3 ~s~KGGvGKTT~a~~lA~~la~~g~~~~Vllv   34 (261)
                      +.+-=|+||||.+..++..++..|  ++|+++
T Consensus         7 itG~~GsGKTT~~l~~~~~~~~~g--~~v~i~   36 (190)
T PRK04296          7 IYGAMNSGKSTELLQRAYNYEERG--MKVLVF   36 (190)
T ss_pred             EECCCCCHHHHHHHHHHHHHHHcC--CeEEEE
Confidence            344559999999999999999999  999999

>PRK00652 lpxK tetraacyldisaccharide 4'-kinase; Reviewed

Probab=96.69  E-value=0.008  Score=51.66  Aligned_cols=33  Identities=24%  Similarity=0.379  Sum_probs=30.7

Q ss_pred             CCCCcHHHHHHHHHHHHHhcCCCCeEEEEecCCCC
Q psy14655          6 KGGVGKSTTTVNLATAMKICYPDKEIGILDADVFG   40 (261)
Q Consensus         6 KGGvGKTT~a~~lA~~la~~g~~~~VllvD~D~~~   40 (261)
                      -||+|||+++..||..|.++|  .+|.+|--.+.+
T Consensus        59 vGGtGKTP~v~~L~~~l~~~g--~~~~ilsRGYg~   91 (325)
T PRK00652         59 VGGTGKTPVVIALAEQLQARG--LKPGVVSRGYGG   91 (325)
T ss_pred             CCCCChHHHHHHHHHHHHHCC--CeEEEECCCCCC
Confidence            699999999999999999999  999999888765

>PF13481 AAA_25: AAA domain; PDB: 1G8Y_J 1OLO_A 1NLF_C

Probab=96.68  E-value=0.0018  Score=51.23  Aligned_cols=37  Identities=19%  Similarity=0.218  Sum_probs=28.9

Q ss_pred             cccCCCCCcHHHHHHHHHHHHHh----------cCCCCeEEEEecCCCC
Q psy14655          2 IASSKGGVGKSTTTVNLATAMKI----------CYPDKEIGILDADVFG   40 (261)
Q Consensus         2 v~s~KGGvGKTT~a~~lA~~la~----------~g~~~~VllvD~D~~~   40 (261)
                      ++.+.+|+||||++.++|..++.          .+  .+||+|+++...
T Consensus        36 ~i~g~~g~GKT~~~~~l~~~~~~g~~~~g~~~~~~--~~Vl~i~~E~~~   82 (193)
T PF13481_consen   36 LIAGPPGSGKTTLALQLAAALATGRPFLGELPPRP--GRVLYISLEDSE   82 (193)
T ss_dssp             EEEECSTSSHHHHHHHHHHHHHT---TT-----------EEEEESSS-H
T ss_pred             EEEeCCCCCHHHHHHHHHHHHHhCCccCCcccccC--ceEEEEeccCCH
Confidence            45678899999999999999997          45  899999999875

>TIGR02237 recomb_radB DNA repair and recombination protein RadB

Probab=96.68  E-value=0.0025  Score=51.19  Aligned_cols=34  Identities=21%  Similarity=0.176  Sum_probs=31.2

Q ss_pred             ccCCCCCcHHHHHHHHHHHHHhcCCCCeEEEEecCC
Q psy14655          3 ASSKGGVGKSTTTVNLATAMKICYPDKEIGILDADV   38 (261)
Q Consensus         3 ~s~KGGvGKTT~a~~lA~~la~~g~~~~VllvD~D~   38 (261)
                      +.+..|+|||+++.+++...+++|  .+|++||++.
T Consensus        17 i~G~~GsGKT~l~~~~~~~~~~~g--~~v~yi~~e~   50 (209)
T TIGR02237        17 IYGPPGSGKTNICMILAVNAARQG--KKVVYIDTEG   50 (209)
T ss_pred             EECCCCCCHHHHHHHHHHHHHhCC--CeEEEEECCC
Confidence            457889999999999999999999  9999999985

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

>PHA02542 41 41 helicase; Provisional

Probab=96.65  E-value=0.002  Score=58.27  Aligned_cols=38  Identities=16%  Similarity=0.052  Sum_probs=34.8

Q ss_pred             cccCCCCCcHHHHHHHHHHHHHhcCCCCeEEEEecCCCCC
Q psy14655          2 IASSKGGVGKSTTTVNLATAMKICYPDKEIGILDADVFGP   41 (261)
Q Consensus         2 v~s~KGGvGKTT~a~~lA~~la~~g~~~~VllvD~D~~~~   41 (261)
                      ++++.-|+||||++.|+|...++.|  ++|+++++++...
T Consensus       194 iIaarPgmGKTtfalniA~~~a~~g--~~Vl~fSLEM~~~  231 (473)
T PHA02542        194 VLLAGVNVGKSLGLCSLAADYLQQG--YNVLYISMEMAEE  231 (473)
T ss_pred             EEEcCCCccHHHHHHHHHHHHHhcC--CcEEEEeccCCHH
Confidence            5678899999999999999999888  9999999999764

>PF13479 AAA_24: AAA domain

Probab=96.65  E-value=0.0057  Score=49.44  Aligned_cols=31  Identities=23%  Similarity=0.210  Sum_probs=24.2

Q ss_pred             cccCCCCCcHHHHHHHHHHHHHhcCCCCeEEEEecCCCCCC
Q psy14655          2 IASSKGGVGKSTTTVNLATAMKICYPDKEIGILDADVFGPS   42 (261)
Q Consensus         2 v~s~KGGvGKTT~a~~lA~~la~~g~~~~VllvD~D~~~~~   42 (261)
                      ++-+..|+||||++..+       +   ++|+||+|....+
T Consensus         7 lIyG~~G~GKTt~a~~~-------~---k~l~id~E~g~~~   37 (213)
T PF13479_consen    7 LIYGPPGSGKTTLAASL-------P---KPLFIDTENGSDS   37 (213)
T ss_pred             EEECCCCCCHHHHHHhC-------C---CeEEEEeCCCccc
Confidence            34578899999988766       3   8999999977433

>PRK06696 uridine kinase; Validated

Probab=96.64  E-value=0.0022  Score=52.20  Aligned_cols=37  Identities=22%  Similarity=0.126  Sum_probs=31.9

Q ss_pred             cccCCCCCcHHHHHHHHHHHHHhcCCCCeEEEEecCCCC
Q psy14655          2 IASSKGGVGKSTTTVNLATAMKICYPDKEIGILDADVFG   40 (261)
Q Consensus         2 v~s~KGGvGKTT~a~~lA~~la~~g~~~~VllvD~D~~~   40 (261)
                      .+++..|+||||+|..|+..|...|  .+|+.+-+|--.
T Consensus        26 ~I~G~sgsGKSTlA~~L~~~l~~~g--~~v~~~~~Ddf~   62 (223)
T PRK06696         26 AIDGITASGKTTFADELAEEIKKRG--RPVIRASIDDFH   62 (223)
T ss_pred             EEECCCCCCHHHHHHHHHHHHHHcC--CeEEEecccccc
Confidence            3678899999999999999999888  999997777543

>TIGR01618 phage_P_loop phage nucleotide-binding protein

Probab=96.61  E-value=0.0038  Score=50.56  Aligned_cols=30  Identities=27%  Similarity=0.323  Sum_probs=24.3

Q ss_pred             cccCCCCCcHHHHHHHHHHHHHhcCCCCeEEEEecCCCC
Q psy14655          2 IASSKGGVGKSTTTVNLATAMKICYPDKEIGILDADVFG   40 (261)
Q Consensus         2 v~s~KGGvGKTT~a~~lA~~la~~g~~~~VllvD~D~~~   40 (261)
                      ++-++.|+||||+|.+|+         .++++++.|...
T Consensus        16 liyG~~G~GKtt~a~~~~---------~~~~~~~~d~~~   45 (220)
T TIGR01618        16 LIYGKPGTGKTSTIKYLP---------GKTLVLSFDMSS   45 (220)
T ss_pred             EEECCCCCCHHHHHHhcC---------CCCEEEeccccc
Confidence            456899999999988774         478999999753

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.

>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=96.61  E-value=0.0022  Score=50.33  Aligned_cols=37  Identities=16%  Similarity=0.186  Sum_probs=32.5

Q ss_pred             cccCCCCCcHHHHHHHHHHHHHhcCCCCeEEEEecCCCC
Q psy14655          2 IASSKGGVGKSTTTVNLATAMKICYPDKEIGILDADVFG   40 (261)
Q Consensus         2 v~s~KGGvGKTT~a~~lA~~la~~g~~~~VllvD~D~~~   40 (261)
                      .+++..|+||||+|..|+..+...|  .++.+|.+|--.
T Consensus         3 ~i~G~sgsGKttla~~l~~~l~~~~--~~~~~i~~Ddf~   39 (179)
T cd02028           3 GIAGPSGSGKTTFAKKLSNQLRVNG--IGPVVISLDDYY   39 (179)
T ss_pred             EEECCCCCCHHHHHHHHHHHHHHcC--CCEEEEehhhcc
Confidence            4578889999999999999999988  999999888543

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

>PLN03126 Elongation factor Tu; Provisional

Probab=96.59  E-value=0.011  Score=53.57  Aligned_cols=66  Identities=12%  Similarity=0.172  Sum_probs=48.5

Q ss_pred             CCCCEEEEeCCCCCCh--hHHHHhhhcCCCeEEEEeCCCcchHHHHHHHHHHHHhCCCCeEEEEEcCCCC
Q psy14655        105 GPCDILFIDTPPGTGD--THLSLIQNLFIDTAIIITIPDTMSLQVAQRGYTMFKKLNIPVAGLVMNMNSV  172 (261)
Q Consensus       105 ~~yd~IiiD~~~~~~~--~~~~~~~~~~ad~viiv~~~~~~s~~~~~~~~~~l~~~~~~~~giv~N~~~~  172 (261)
                      +++.+.|+|+|+....  .....+..  +|.+++|+.....-.......+..+...+.+.+-+++|+.+.
T Consensus       142 ~~~~i~liDtPGh~~f~~~~~~g~~~--aD~ailVVda~~G~~~qt~e~~~~~~~~gi~~iIvvvNK~Dl  209 (478)
T PLN03126        142 ENRHYAHVDCPGHADYVKNMITGAAQ--MDGAILVVSGADGPMPQTKEHILLAKQVGVPNMVVFLNKQDQ  209 (478)
T ss_pred             CCcEEEEEECCCHHHHHHHHHHHHhh--CCEEEEEEECCCCCcHHHHHHHHHHHHcCCCeEEEEEecccc
Confidence            4668899999964322  22333343  899999998777666777788888888888877789999764

>KOG0744|consensus

Probab=96.57  E-value=0.0029  Score=53.44  Aligned_cols=150  Identities=11%  Similarity=0.131  Sum_probs=84.9

Q ss_pred             ccCCCCCcHHHHHHHHHHHHHhcC--CCCeEEEEecCCCCCCcccccCCCCCCC---CCc-CCccccccccCceeecCCC
Q psy14655          3 ASSKGGVGKSTTTVNLATAMKICY--PDKEIGILDADVFGPSIPILMNLPDTPL---LNK-DNLMIPLVNYGVKCLSMGN   76 (261)
Q Consensus         3 ~s~KGGvGKTT~a~~lA~~la~~g--~~~~VllvD~D~~~~~~~~~~~~~~~~~---~~~-~~~~~~~~~~~l~~~~~~~   76 (261)
                      ..+-.|.||||++-.||..|+-+-  +-.+..+|+..... .++.||+-.+.--   +.. .+.+.  ...++-|+--+.
T Consensus       182 lhGPPGTGKTSLCKaLaQkLSIR~~~~y~~~~liEinshs-LFSKWFsESgKlV~kmF~kI~ELv~--d~~~lVfvLIDE  258 (423)
T KOG0744|consen  182 LHGPPGTGKTSLCKALAQKLSIRTNDRYYKGQLIEINSHS-LFSKWFSESGKLVAKMFQKIQELVE--DRGNLVFVLIDE  258 (423)
T ss_pred             EeCCCCCChhHHHHHHHHhheeeecCccccceEEEEehhH-HHHHHHhhhhhHHHHHHHHHHHHHh--CCCcEEEEEeHH
Confidence            456679999999999999998321  22788999998764 6788887654310   000 00011  012222221111


Q ss_pred             C--cc-cchhh-----hhhchHHHHHHHHHHHHhccCCCCEEEEeCCCCCChhHHHHhhhcCCCeEEEEeCCCcchHHHH
Q psy14655         77 L--IT-EKSAA-----IWRGLMVMQALNKLTVQVQWGPCDILFIDTPPGTGDTHLSLIQNLFIDTAIIITIPDTMSLQVA  148 (261)
Q Consensus        77 ~--~~-~~~~~-----~~~~~~~~~~l~~~l~~l~~~~yd~IiiD~~~~~~~~~~~~~~~~~ad~viiv~~~~~~s~~~~  148 (261)
                      .  .. .....     ........+.+...+..++ ....++|+-|+.-.+....+.+..  ||.+..|-.|+...+...
T Consensus       259 VESLa~aR~s~~S~~EpsDaIRvVNalLTQlDrlK-~~~NvliL~TSNl~~siD~AfVDR--ADi~~yVG~Pt~~ai~~I  335 (423)
T KOG0744|consen  259 VESLAAARTSASSRNEPSDAIRVVNALLTQLDRLK-RYPNVLILATSNLTDSIDVAFVDR--ADIVFYVGPPTAEAIYEI  335 (423)
T ss_pred             HHHHHHHHHhhhcCCCCchHHHHHHHHHHHHHHhc-cCCCEEEEeccchHHHHHHHhhhH--hhheeecCCccHHHHHHH
Confidence            0  00 00000     0011233344556666666 566677777765445556666666  999999999988888776


Q ss_pred             HH-HHHHHHhC
Q psy14655        149 QR-GYTMFKKL  158 (261)
Q Consensus       149 ~~-~~~~l~~~  158 (261)
                      .+ .+..+-..
T Consensus       336 lkscieEL~~~  346 (423)
T KOG0744|consen  336 LKSCIEELISS  346 (423)
T ss_pred             HHHHHHHHHhc
Confidence            65 34444443

>TIGR00485 EF-Tu translation elongation factor TU

Probab=96.57  E-value=0.013  Score=51.93  Aligned_cols=66  Identities=11%  Similarity=0.186  Sum_probs=46.3

Q ss_pred             CCCCEEEEeCCCCCChh--HHHHhhhcCCCeEEEEeCCCcchHHHHHHHHHHHHhCCCCeEEEEEcCCCC
Q psy14655        105 GPCDILFIDTPPGTGDT--HLSLIQNLFIDTAIIITIPDTMSLQVAQRGYTMFKKLNIPVAGLVMNMNSV  172 (261)
Q Consensus       105 ~~yd~IiiD~~~~~~~~--~~~~~~~~~ad~viiv~~~~~~s~~~~~~~~~~l~~~~~~~~giv~N~~~~  172 (261)
                      .++.+.|+|||+.-...  ....+..  +|.+++|+.....-.......+..+...+.+.+-+++|+.+.
T Consensus        73 ~~~~~~liDtpGh~~f~~~~~~~~~~--~D~~ilVvda~~g~~~qt~e~l~~~~~~gi~~iIvvvNK~Dl  140 (394)
T TIGR00485        73 ENRHYAHVDCPGHADYVKNMITGAAQ--MDGAILVVSATDGPMPQTREHILLARQVGVPYIVVFLNKCDM  140 (394)
T ss_pred             CCEEEEEEECCchHHHHHHHHHHHhh--CCEEEEEEECCCCCcHHHHHHHHHHHHcCCCEEEEEEEeccc
Confidence            45678999999643221  2222233  799999999776555666777888888888877678999764

This alignment models orthologs of translation elongation factor EF-Tu in bacteria, mitochondria, and chloroplasts, one of several GTP-binding translation factors found by the more general pfam model GTP_EFTU. The eukaryotic conterpart, eukaryotic translation elongation factor 1 (eEF-1 alpha), is excluded from this model. EF-Tu is one of the most abundant proteins in bacteria, as well as one of the most highly conserved, and in a number of species the gene is duplicated with identical function. When bound to GTP, EF-Tu can form a complex with any (correctly) aminoacylated tRNA except those for initiation and for selenocysteine, in which case EF-Tu is replaced by other factors. Transfer RNA is carried to the ribosome in these complexes for protein translation.

>cd01891 TypA_BipA TypA (tyrosine phosphorylated protein A)/BipA subfamily

Probab=96.57  E-value=0.017  Score=45.81  Aligned_cols=65  Identities=12%  Similarity=0.119  Sum_probs=43.4

Q ss_pred             CCCCEEEEeCCCCCC--hhHHHHhhhcCCCeEEEEeCCCcchHHHHHHHHHHHHhCCCCeEEEEEcCCCC
Q psy14655        105 GPCDILFIDTPPGTG--DTHLSLIQNLFIDTAIIITIPDTMSLQVAQRGYTMFKKLNIPVAGLVMNMNSV  172 (261)
Q Consensus       105 ~~yd~IiiD~~~~~~--~~~~~~~~~~~ad~viiv~~~~~~s~~~~~~~~~~l~~~~~~~~giv~N~~~~  172 (261)
                      ..+.+.|+|||+...  ......+..  +|.+++|+..+.........++..+...+.+ +-+++|+++.
T Consensus        63 ~~~~~~l~DtpG~~~~~~~~~~~~~~--~d~~ilV~d~~~~~~~~~~~~~~~~~~~~~p-~iiv~NK~Dl  129 (194)
T cd01891          63 KDTKINIVDTPGHADFGGEVERVLSM--VDGVLLLVDASEGPMPQTRFVLKKALELGLK-PIVVINKIDR  129 (194)
T ss_pred             CCEEEEEEECCCcHHHHHHHHHHHHh--cCEEEEEEECCCCccHHHHHHHHHHHHcCCC-EEEEEECCCC
Confidence            567899999996432  223344454  8999999997664444445555555556777 4588999764

BipA is a protein belonging to the ribosome-binding family of GTPases and is widely distributed in bacteria and plants. BipA was originally described as a protein that is induced in Salmonella typhimurium after exposure to bactericidal/permeability-inducing protein (a cationic antimicrobial protein produced by neutrophils), and has since been identified in E. coli as well. The properties thus far described for BipA are related to its role in the process of pathogenesis by enteropathogenic E. coli. It appears to be involved in the regulation of several processes important for infection, including rearrangements of the cytoskeleton of the host, bacterial resistance to host defense peptides, flagellum-mediated cell motility, and expression of K5 capsular genes. It has been proposed that BipA may utilize a novel mechanism to regulate the expression of target genes. In addition, BipA from enteropathogenic E. co

>PRK14494 putative molybdopterin-guanine dinucleotide biosynthesis protein MobB/FeS domain-containing protein protein; Provisional

Probab=96.57  E-value=0.0027  Score=51.74  Aligned_cols=33  Identities=15%  Similarity=0.116  Sum_probs=28.7

Q ss_pred             cccCCCCCcHHHHHHHHHHHHHhcCCCCeEEEEecC
Q psy14655          2 IASSKGGVGKSTTTVNLATAMKICYPDKEIGILDAD   37 (261)
Q Consensus         2 v~s~KGGvGKTT~a~~lA~~la~~g~~~~VllvD~D   37 (261)
                      |++.+ |+||||++..|+..|.++|  ++|.+|..+
T Consensus         6 ivG~~-gsGKTtl~~~l~~~L~~~G--~~V~viK~~   38 (229)
T PRK14494          6 VIGFK-DSGKTTLIEKILKNLKERG--YRVATAKHT   38 (229)
T ss_pred             EECCC-CChHHHHHHHHHHHHHhCC--CeEEEEEec
Confidence            34554 9999999999999999999  999999754

>PRK12736 elongation factor Tu; Reviewed

Probab=96.55  E-value=0.011  Score=52.41  Aligned_cols=66  Identities=11%  Similarity=0.189  Sum_probs=47.1

Q ss_pred             CCCCEEEEeCCCCCChh--HHHHhhhcCCCeEEEEeCCCcchHHHHHHHHHHHHhCCCCeEEEEEcCCCC
Q psy14655        105 GPCDILFIDTPPGTGDT--HLSLIQNLFIDTAIIITIPDTMSLQVAQRGYTMFKKLNIPVAGLVMNMNSV  172 (261)
Q Consensus       105 ~~yd~IiiD~~~~~~~~--~~~~~~~~~ad~viiv~~~~~~s~~~~~~~~~~l~~~~~~~~giv~N~~~~  172 (261)
                      +++.+.++|||+.....  ....+..  +|.+++|+..+..-.......+..+...+.+.+-+++|+.+.
T Consensus        73 ~~~~i~~iDtPGh~~f~~~~~~~~~~--~d~~llVvd~~~g~~~~t~~~~~~~~~~g~~~~IvviNK~D~  140 (394)
T PRK12736         73 EKRHYAHVDCPGHADYVKNMITGAAQ--MDGAILVVAATDGPMPQTREHILLARQVGVPYLVVFLNKVDL  140 (394)
T ss_pred             CCcEEEEEECCCHHHHHHHHHHHHhh--CCEEEEEEECCCCCchhHHHHHHHHHHcCCCEEEEEEEecCC
Confidence            46788999999643211  2222333  899999999876555667777888888888877788999764

>PRK03846 adenylylsulfate kinase; Provisional

Probab=96.55  E-value=0.0024  Score=50.96  Aligned_cols=37  Identities=27%  Similarity=0.202  Sum_probs=32.1

Q ss_pred             cccCCCCCcHHHHHHHHHHHHHhcCCCCeEEEEecCCCC
Q psy14655          2 IASSKGGVGKSTTTVNLATAMKICYPDKEIGILDADVFG   40 (261)
Q Consensus         2 v~s~KGGvGKTT~a~~lA~~la~~g~~~~VllvD~D~~~   40 (261)
                      ++.+..|+||||++..|+..|...|  ..++++|.|...
T Consensus        28 ~i~G~~GsGKSTla~~l~~~l~~~~--~~~~~ld~d~~~   64 (198)
T PRK03846         28 WFTGLSGSGKSTVAGALEEALHELG--VSTYLLDGDNVR   64 (198)
T ss_pred             EEECCCCCCHHHHHHHHHHHHHhCC--CCEEEEcCEeHH
Confidence            3456779999999999999998888  899999988765

>PRK11823 DNA repair protein RadA; Provisional

Probab=96.54  E-value=0.0051  Score=55.37  Aligned_cols=36  Identities=17%  Similarity=0.252  Sum_probs=31.7

Q ss_pred             cccCCCCCcHHHHHHHHHHHHHhcCCCCeEEEEecCCC
Q psy14655          2 IASSKGGVGKSTTTVNLATAMKICYPDKEIGILDADVF   39 (261)
Q Consensus         2 v~s~KGGvGKTT~a~~lA~~la~~g~~~~VllvD~D~~   39 (261)
                      ++.+..|+||||++.++|..++++|  .+|++|+....
T Consensus        84 lI~G~pG~GKTtL~lq~a~~~a~~g--~~vlYvs~Ees  119 (446)
T PRK11823         84 LIGGDPGIGKSTLLLQVAARLAAAG--GKVLYVSGEES  119 (446)
T ss_pred             EEECCCCCCHHHHHHHHHHHHHhcC--CeEEEEEcccc
Confidence            3567889999999999999999888  99999998643

>CHL00071 tufA elongation factor Tu

Probab=96.54  E-value=0.017  Score=51.48  Aligned_cols=66  Identities=12%  Similarity=0.198  Sum_probs=48.1

Q ss_pred             CCCCEEEEeCCCCCC--hhHHHHhhhcCCCeEEEEeCCCcchHHHHHHHHHHHHhCCCCeEEEEEcCCCC
Q psy14655        105 GPCDILFIDTPPGTG--DTHLSLIQNLFIDTAIIITIPDTMSLQVAQRGYTMFKKLNIPVAGLVMNMNSV  172 (261)
Q Consensus       105 ~~yd~IiiD~~~~~~--~~~~~~~~~~~ad~viiv~~~~~~s~~~~~~~~~~l~~~~~~~~giv~N~~~~  172 (261)
                      +++.++++|||+...  ......+..  +|.+++++++...-.......+..+...+.+.+-+++|+.+.
T Consensus        73 ~~~~~~~iDtPGh~~~~~~~~~~~~~--~D~~ilVvda~~g~~~qt~~~~~~~~~~g~~~iIvvvNK~D~  140 (409)
T CHL00071         73 ENRHYAHVDCPGHADYVKNMITGAAQ--MDGAILVVSAADGPMPQTKEHILLAKQVGVPNIVVFLNKEDQ  140 (409)
T ss_pred             CCeEEEEEECCChHHHHHHHHHHHHh--CCEEEEEEECCCCCcHHHHHHHHHHHHcCCCEEEEEEEccCC
Confidence            466789999996322  112333344  899999999877666777778888888888867688999764

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

Probab=96.51  E-value=0.0026  Score=52.70  Aligned_cols=36  Identities=33%  Similarity=0.386  Sum_probs=32.2

Q ss_pred             cccCCCCCcHHHHHHHHHHHHHhcCCCCeEEEEecCCC
Q psy14655          2 IASSKGGVGKSTTTVNLATAMKICYPDKEIGILDADVF   39 (261)
Q Consensus         2 v~s~KGGvGKTT~a~~lA~~la~~g~~~~VllvD~D~~   39 (261)
                      ++.|-.|+||||+|..||..+...|  .+|.++|.|.-
T Consensus         3 vl~G~pGSGKST~a~~La~~l~~~~--~~v~~i~~D~l   38 (249)
T TIGR03574         3 ILTGLPGVGKSTFSKELAKKLSEKN--IDVIILGTDLI   38 (249)
T ss_pred             EEEcCCCCCHHHHHHHHHHHHHHcC--CceEEEccHHH
Confidence            6788999999999999999999888  99999987753

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.

>cd04171 SelB SelB subfamily

Probab=96.50  E-value=0.014  Score=44.42  Aligned_cols=65  Identities=17%  Similarity=0.199  Sum_probs=38.5

Q ss_pred             CCCEEEEeCCCCCCh--hHHHHhhhcCCCeEEEEeCCCcchHHHHHHHHHHHHhCCCCeEEEEEcCCCC
Q psy14655        106 PCDILFIDTPPGTGD--THLSLIQNLFIDTAIIITIPDTMSLQVAQRGYTMFKKLNIPVAGLVMNMNSV  172 (261)
Q Consensus       106 ~yd~IiiD~~~~~~~--~~~~~~~~~~ad~viiv~~~~~~s~~~~~~~~~~l~~~~~~~~giv~N~~~~  172 (261)
                      ++.+.++|||+....  ........  +|.+++|++.+..-.......+..+...+.+.+-+++|+.+.
T Consensus        50 ~~~~~~~DtpG~~~~~~~~~~~~~~--ad~ii~V~d~~~~~~~~~~~~~~~~~~~~~~~~ilv~NK~Dl  116 (164)
T cd04171          50 GKRLGFIDVPGHEKFIKNMLAGAGG--IDLVLLVVAADEGIMPQTREHLEILELLGIKRGLVVLTKADL  116 (164)
T ss_pred             CcEEEEEECCChHHHHHHHHhhhhc--CCEEEEEEECCCCccHhHHHHHHHHHHhCCCcEEEEEECccc
Confidence            467889999864221  11222333  899999999765333333344444444455346689999663

SelB is an elongation factor needed for the co-translational incorporation of selenocysteine. Selenocysteine is coded by a UGA stop codon in combination with a specific downstream mRNA hairpin. In bacteria, the C-terminal part of SelB recognizes this hairpin, while the N-terminal part binds GTP and tRNA in analogy with elongation factor Tu (EF-Tu). It specifically recognizes the selenocysteine charged tRNAsec, which has a UCA anticodon, in an EF-Tu like manner. This allows insertion of selenocysteine at in-frame UGA stop codons. In E. coli SelB binds GTP, selenocysteyl-tRNAsec, and a stem-loop structure immediately downstream of the UGA codon (the SECIS sequence). The absence of active SelB prevents the participation of selenocysteyl-tRNAsec in translation. Archaeal and animal mechanisms of selenocysteine incorporation are more complex. Although the SECIS elements have different secondary structures and conserved elements between archaea and eukaryo

>PF06745 KaiC: KaiC; InterPro: IPR014774 This entry represents a domain within bacterial and archaeal proteins, most of which are hypothetical

Probab=96.48  E-value=0.0026  Score=51.78  Aligned_cols=38  Identities=13%  Similarity=0.037  Sum_probs=30.3

Q ss_pred             cccCCCCCcHHHHHHHHHHHHHhc-CCCCeEEEEecCCCCC
Q psy14655          2 IASSKGGVGKSTTTVNLATAMKIC-YPDKEIGILDADVFGP   41 (261)
Q Consensus         2 v~s~KGGvGKTT~a~~lA~~la~~-g~~~~VllvD~D~~~~   41 (261)
                      ++.+--|+|||+++.+++...+++ |  .+|++|-++....
T Consensus        23 li~G~~GsGKT~l~~q~l~~~~~~~g--e~vlyvs~ee~~~   61 (226)
T PF06745_consen   23 LISGPPGSGKTTLALQFLYNGLKNFG--EKVLYVSFEEPPE   61 (226)
T ss_dssp             EEEESTTSSHHHHHHHHHHHHHHHHT----EEEEESSS-HH
T ss_pred             EEEeCCCCCcHHHHHHHHHHhhhhcC--CcEEEEEecCCHH
Confidence            345678999999999999999998 9  9999999987653

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 ....

>cd01122 GP4d_helicase GP4d_helicase is a homohexameric 5'-3' helicases

Probab=96.46  E-value=0.0033  Score=52.64  Aligned_cols=37  Identities=22%  Similarity=0.187  Sum_probs=33.0

Q ss_pred             cccCCCCCcHHHHHHHHHHHHHhc-CCCCeEEEEecCCCC
Q psy14655          2 IASSKGGVGKSTTTVNLATAMKIC-YPDKEIGILDADVFG   40 (261)
Q Consensus         2 v~s~KGGvGKTT~a~~lA~~la~~-g~~~~VllvD~D~~~   40 (261)
                      ++.+..|+||||++.++|..++.+ |  .+|+++.++...
T Consensus        34 ~i~g~~G~GKT~l~~~~~~~~~~~~g--~~vl~iS~E~~~   71 (271)
T cd01122          34 ILTAGTGVGKTTFLREYALDLITQHG--VRVGTISLEEPV   71 (271)
T ss_pred             EEEcCCCCCHHHHHHHHHHHHHHhcC--ceEEEEEcccCH
Confidence            567889999999999999999987 8  999999998743

Helicases couple NTP hydrolysis to the unwinding of nucleic acid duplexes into their component strands.

>PRK08939 primosomal protein DnaI; Reviewed

Probab=96.43  E-value=0.0028  Score=54.14  Aligned_cols=34  Identities=21%  Similarity=0.083  Sum_probs=30.1

Q ss_pred             cccCCCCCcHHHHHHHHHHHHHhcCCCCeEEEEecC
Q psy14655          2 IASSKGGVGKSTTTVNLATAMKICYPDKEIGILDAD   37 (261)
Q Consensus         2 v~s~KGGvGKTT~a~~lA~~la~~g~~~~VllvD~D   37 (261)
                      +..+.-|+|||.++..+|..++++|  ++|.++.+.
T Consensus       160 ~L~G~~G~GKThLa~Aia~~l~~~g--~~v~~~~~~  193 (306)
T PRK08939        160 YLYGDFGVGKSYLLAAIANELAKKG--VSSTLLHFP  193 (306)
T ss_pred             EEECCCCCCHHHHHHHHHHHHHHcC--CCEEEEEHH
Confidence            3557789999999999999999999  999999764

>TIGR03877 thermo_KaiC_1 KaiC domain protein, Ph0284 family

Probab=96.41  E-value=0.0057  Score=50.28  Aligned_cols=37  Identities=14%  Similarity=-0.060  Sum_probs=32.8

Q ss_pred             cccCCCCCcHHHHHHHHHHHHHhcCCCCeEEEEecCCCC
Q psy14655          2 IASSKGGVGKSTTTVNLATAMKICYPDKEIGILDADVFG   40 (261)
Q Consensus         2 v~s~KGGvGKTT~a~~lA~~la~~g~~~~VllvD~D~~~   40 (261)
                      ++.+-.|+|||+++.+++...+++|  .+|++|.++...
T Consensus        25 lI~G~pGsGKT~la~~~l~~~~~~g--e~~lyvs~ee~~   61 (237)
T TIGR03877        25 LLSGGPGTGKSIFSQQFLWNGLQMG--EPGIYVALEEHP   61 (237)
T ss_pred             EEEcCCCCCHHHHHHHHHHHHHHcC--CcEEEEEeeCCH
Confidence            4567889999999999999988889  999999999754

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.

>COG1492 CobQ Cobyric acid synthase [Coenzyme metabolism]

Probab=96.39  E-value=0.018  Score=51.53  Aligned_cols=196  Identities=15%  Similarity=0.174  Sum_probs=101.2

Q ss_pred             cccCCCCCcHHHHHHHHHHHHHhcCCCCeEEEEecCCCCCCcccccCCCC----------------CCCCCcCC-ccccc
Q psy14655          2 IASSKGGVGKSTTTVNLATAMKICYPDKEIGILDADVFGPSIPILMNLPD----------------TPLLNKDN-LMIPL   64 (261)
Q Consensus         2 v~s~KGGvGKTT~a~~lA~~la~~g~~~~VllvD~D~~~~~~~~~~~~~~----------------~~~~~~~~-~~~~~   64 (261)
                      |.++-..+|||++++.|++.++++|  .+|.=+  -+|+-++..+.-.+.                .+...... .+.|.
T Consensus         6 v~GT~S~~GKS~~~aglcRi~~~~G--~~V~PF--K~QNMsLNs~it~~G~EIgraQ~~QA~Aa~i~p~v~mNPvLLKP~   81 (486)
T COG1492           6 VQGTTSDAGKSFLVAGLCRILARRG--YRVAPF--KSQNMSLNSAITPGGGEIGRAQALQALAAGIEPSVHMNPVLLKPC   81 (486)
T ss_pred             EEeccCCcchhhhhhhhhHHHHhcC--CccCCC--chhhcccccEECCCCcEEehhhhHHHHHcCCCCccccCCEEEeec
Confidence            5667788999999999999999999  877522  223222222211110                00111111 11223


Q ss_pred             cccCceeecCCCCcccchhhh---hhchHHHHHHHHHHHHhccCCCCEEEEeCCCCCChh-------HHHHhhhcCCC-e
Q psy14655         65 VNYGVKCLSMGNLITEKSAAI---WRGLMVMQALNKLTVQVQWGPCDILFIDTPPGTGDT-------HLSLIQNLFID-T  133 (261)
Q Consensus        65 ~~~~l~~~~~~~~~~~~~~~~---~~~~~~~~~l~~~l~~l~~~~yd~IiiD~~~~~~~~-------~~~~~~~~~ad-~  133 (261)
                      +..+..++-.|..........   ..-......+...++.+. +.||+|++-..++....       .-..+... +| -
T Consensus        82 sd~~sQVIv~G~~~G~~s~~~yy~~~~~~l~~~v~~s~~~l~-~~~d~Vv~EGAGSpaEiNlr~~Di~Nm~~a~~-~dap  159 (486)
T COG1492          82 SDTGSQVIVMGKDIGRKSAVEYYQEGKGLLWVAVKESLERLD-REYDVVVIEGAGSPAEINLRDRDIANMGVAEI-ADAP  159 (486)
T ss_pred             CCCceEEEEecccccccChHHHHHHHHHHHHHHHHHHHHHhh-hcccEEEEecCCChhhcCcccccccceeeehh-cCCC
Confidence            333455555444433222221   112233455677777787 99999999987654311       11111111 32 3


Q ss_pred             EEEEeCCCc-chHHHHHHHHHHHHhC-CCCeEEEEEcCCCCCCCCCCcccccccchhHHHHHhhhhhhhhhhhhcccccc
Q psy14655        134 AIIITIPDT-MSLQVAQRGYTMFKKL-NIPVAGLVMNMNSVLCPSCNHMFELYENNLHQFEAKNFLKSYERKLYGIHMWN  211 (261)
Q Consensus       134 viiv~~~~~-~s~~~~~~~~~~l~~~-~~~~~giv~N~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~  211 (261)
                      +|+|..-+. .....+..++..+... ...+-|+++|+.+       ....++.+..+++.+.          -|.+++.
T Consensus       160 vILV~DIdRGGvfAsl~GT~~lL~~~~r~~VkG~iINkFR-------Gd~~ll~~gik~Le~~----------tg~~vlG  222 (486)
T COG1492         160 VILVGDIDRGGVFASLYGTLALLPESDRALVKGFIINKFR-------GDESLLDPGLKWLEEL----------TGVPVLG  222 (486)
T ss_pred             EEEEEeecccceeeeeeehheecCHhHhcceeEEEEeeeC-------CCHHHHhhHHHHHHHh----------hCCeeEe
Confidence            677777555 3334444455544432 3357899999843       3333333344333322          4555555


Q ss_pred             cccCcchhhh
Q psy14655        212 FLIPLCNLII  221 (261)
Q Consensus       212 ~~ip~~~~~~  221 (261)
                       ++|+.....
T Consensus       223 -v~P~~~~~~  231 (486)
T COG1492         223 -VLPYLKDAL  231 (486)
T ss_pred             -ecccccccc
Confidence             477665444

>PRK12735 elongation factor Tu; Reviewed

Probab=96.38  E-value=0.021  Score=50.75  Aligned_cols=66  Identities=11%  Similarity=0.193  Sum_probs=45.8

Q ss_pred             CCCCEEEEeCCCCCCh--hHHHHhhhcCCCeEEEEeCCCcchHHHHHHHHHHHHhCCCCeEEEEEcCCCC
Q psy14655        105 GPCDILFIDTPPGTGD--THLSLIQNLFIDTAIIITIPDTMSLQVAQRGYTMFKKLNIPVAGLVMNMNSV  172 (261)
Q Consensus       105 ~~yd~IiiD~~~~~~~--~~~~~~~~~~ad~viiv~~~~~~s~~~~~~~~~~l~~~~~~~~giv~N~~~~  172 (261)
                      ++..++|+|||+....  .....+..  +|.+++|+.....-.....+.+..+...+.+.+.+++|+.+.
T Consensus        73 ~~~~i~~iDtPGh~~f~~~~~~~~~~--aD~~llVvda~~g~~~qt~e~l~~~~~~gi~~iivvvNK~Dl  140 (396)
T PRK12735         73 ANRHYAHVDCPGHADYVKNMITGAAQ--MDGAILVVSAADGPMPQTREHILLARQVGVPYIVVFLNKCDM  140 (396)
T ss_pred             CCcEEEEEECCCHHHHHHHHHhhhcc--CCEEEEEEECCCCCchhHHHHHHHHHHcCCCeEEEEEEecCC
Confidence            4567899999964221  12223333  799999998776545666677788888888877678999764

>cd01895 EngA2 EngA2 subfamily

Probab=96.36  E-value=0.049  Score=41.52  Aligned_cols=65  Identities=14%  Similarity=0.042  Sum_probs=39.6

Q ss_pred             CCCCEEEEeCCCCCCh---------h----HHHHhhhcCCCeEEEEeCCCcchHHHHHHHHHHHHhCCCCeEEEEEcCCC
Q psy14655        105 GPCDILFIDTPPGTGD---------T----HLSLIQNLFIDTAIIITIPDTMSLQVAQRGYTMFKKLNIPVAGLVMNMNS  171 (261)
Q Consensus       105 ~~yd~IiiD~~~~~~~---------~----~~~~~~~~~ad~viiv~~~~~~s~~~~~~~~~~l~~~~~~~~giv~N~~~  171 (261)
                      .+.++.++|+|+....         .    ....+..  +|.+++++..+.........++..+...+.+ +-+++|+.+
T Consensus        48 ~~~~~~iiDtpG~~~~~~~~~~~e~~~~~~~~~~~~~--~d~vi~v~d~~~~~~~~~~~~~~~~~~~~~~-~iiv~nK~D  124 (174)
T cd01895          48 DGKKYTLIDTAGIRRKGKVEEGIEKYSVLRTLKAIER--ADVVLLVIDATEGITEQDLRIAGLILEEGKA-LVIVVNKWD  124 (174)
T ss_pred             CCeeEEEEECCCCccccchhccHHHHHHHHHHHHHhh--cCeEEEEEeCCCCcchhHHHHHHHHHhcCCC-EEEEEeccc
Confidence            3457899999863211         0    1112333  8999999986554434444555666555666 448999965


Q ss_pred             C
Q psy14655        172 V  172 (261)
Q Consensus       172 ~  172 (261)
                      .
T Consensus       125 l  125 (174)
T cd01895         125 L  125 (174)
T ss_pred             c
Confidence            3

This CD represents the second GTPase domain of EngA and its orthologs, which are composed of two adjacent GTPase domains. Since the sequences of the two domains are more similar to each other than to other GTPases, it is likely that an ancient gene duplication, rather than a fusion of evolutionarily distinct GTPases, gave rise to this family. Although the exact function of these proteins has not been elucidated, studies have revealed that the E. coli EngA homolog, Der, and Neisseria gonorrhoeae EngA are essential for cell viability. A recent report suggests that E. coli Der functions in ribosome assembly and stability.

>PHA00729 NTP-binding motif containing protein

Probab=96.36  E-value=0.0035  Score=50.76  Aligned_cols=22  Identities=27%  Similarity=0.377  Sum_probs=19.3

Q ss_pred             cccCCCCCcHHHHHHHHHHHHH
Q psy14655          2 IASSKGGVGKSTTTVNLATAMK   23 (261)
Q Consensus         2 v~s~KGGvGKTT~a~~lA~~la   23 (261)
                      ++.+..|+||||+|..+|..+.
T Consensus        21 lItG~pGvGKT~LA~aLa~~l~   42 (226)
T PHA00729         21 VIFGKQGSGKTTYALKVARDVF   42 (226)
T ss_pred             EEECCCCCCHHHHHHHHHHHHH
Confidence            4567889999999999999875

>PRK13351 elongation factor G; Reviewed

Probab=96.34  E-value=0.02  Score=54.58  Aligned_cols=65  Identities=17%  Similarity=0.159  Sum_probs=47.0

Q ss_pred             CCCCEEEEeCCCCCC--hhHHHHhhhcCCCeEEEEeCCCcchHHHHHHHHHHHHhCCCCeEEEEEcCCCC
Q psy14655        105 GPCDILFIDTPPGTG--DTHLSLIQNLFIDTAIIITIPDTMSLQVAQRGYTMFKKLNIPVAGLVMNMNSV  172 (261)
Q Consensus       105 ~~yd~IiiD~~~~~~--~~~~~~~~~~~ad~viiv~~~~~~s~~~~~~~~~~l~~~~~~~~giv~N~~~~  172 (261)
                      .++.+.|+|||+..+  ......+..  +|.+++|++............+..+...+.+.+ +++|+.+.
T Consensus        71 ~~~~i~liDtPG~~df~~~~~~~l~~--aD~~ilVvd~~~~~~~~~~~~~~~~~~~~~p~i-iviNK~D~  137 (687)
T PRK13351         71 DNHRINLIDTPGHIDFTGEVERSLRV--LDGAVVVFDAVTGVQPQTETVWRQADRYGIPRL-IFINKMDR  137 (687)
T ss_pred             CCEEEEEEECCCcHHHHHHHHHHHHh--CCEEEEEEeCCCCCCHHHHHHHHHHHhcCCCEE-EEEECCCC
Confidence            578899999997543  233445555  999999999766555556666777777788865 79999664

>TIGR01394 TypA_BipA GTP-binding protein TypA/BipA

Probab=96.34  E-value=0.019  Score=53.53  Aligned_cols=65  Identities=12%  Similarity=0.124  Sum_probs=49.7

Q ss_pred             CCCCEEEEeCCCCCC--hhHHHHhhhcCCCeEEEEeCCCcchHHHHHHHHHHHHhCCCCeEEEEEcCCCC
Q psy14655        105 GPCDILFIDTPPGTG--DTHLSLIQNLFIDTAIIITIPDTMSLQVAQRGYTMFKKLNIPVAGLVMNMNSV  172 (261)
Q Consensus       105 ~~yd~IiiD~~~~~~--~~~~~~~~~~~ad~viiv~~~~~~s~~~~~~~~~~l~~~~~~~~giv~N~~~~  172 (261)
                      .++.+.|+|||+..+  ......+..  +|.+++|+........++...+..+...+++.+ +++|+.+.
T Consensus        62 ~~~kinlIDTPGh~DF~~ev~~~l~~--aD~alLVVDa~~G~~~qT~~~l~~a~~~~ip~I-VviNKiD~  128 (594)
T TIGR01394        62 NGTKINIVDTPGHADFGGEVERVLGM--VDGVLLLVDASEGPMPQTRFVLKKALELGLKPI-VVINKIDR  128 (594)
T ss_pred             CCEEEEEEECCCHHHHHHHHHHHHHh--CCEEEEEEeCCCCCcHHHHHHHHHHHHCCCCEE-EEEECCCC
Confidence            678899999996533  233445555  999999999877667777788888888888864 89999774

This bacterial (and Arabidopsis) protein, termed TypA or BipA, a GTP-binding protein, is phosphorylated on a tyrosine residue under some cellular conditions. Mutants show altered regulation of some pathways, but the precise function is unknown.

>PF02606 LpxK: Tetraacyldisaccharide-1-P 4'-kinase; InterPro: IPR003758 Tetraacyldisaccharide 4'-kinase phosphorylates the 4'-position of a tetraacyldisaccharide 1-phosphate precursor (DS-1-P) of lipid A, but the enzyme has not yet been purified because of instability []

Probab=96.31  E-value=0.026  Score=48.59  Aligned_cols=34  Identities=24%  Similarity=0.195  Sum_probs=30.7

Q ss_pred             CCCCcHHHHHHHHHHHHHhcCCCCeEEEEecCCCCC
Q psy14655          6 KGGVGKSTTTVNLATAMKICYPDKEIGILDADVFGP   41 (261)
Q Consensus         6 KGGvGKTT~a~~lA~~la~~g~~~~VllvD~D~~~~   41 (261)
                      -||+|||-++..||..|.++|  ++|.+|---+.+.
T Consensus        45 vGGTGKTP~v~~L~~~L~~~G--~~~~IlSRGYg~~   78 (326)
T PF02606_consen   45 VGGTGKTPLVIWLARLLQARG--YRPAILSRGYGRK   78 (326)
T ss_pred             cCCCCchHHHHHHHHHHHhcC--CceEEEcCCCCCC
Confidence            499999999999999999999  9999998777653

This enzyme is involved in the synthesis of lipid A portion of the bacterial lipopolysaccharide layer (LPS).; GO: 0005524 ATP binding, 0009029 tetraacyldisaccharide 4'-kinase activity, 0009245 lipid A biosynthetic process

>TIGR03878 thermo_KaiC_2 KaiC domain protein, AF_0795 family

Probab=96.30  E-value=0.005  Score=51.33  Aligned_cols=35  Identities=11%  Similarity=0.052  Sum_probs=31.9

Q ss_pred             cccCCCCCcHHHHHHHHHHHHHhcCCCCeEEEEecCC
Q psy14655          2 IASSKGGVGKSTTTVNLATAMKICYPDKEIGILDADV   38 (261)
Q Consensus         2 v~s~KGGvGKTT~a~~lA~~la~~g~~~~VllvD~D~   38 (261)
                      ++.+..|+||||+|.++|...+++|  .+|++++++.
T Consensus        40 lI~G~pGtGKT~l~~qf~~~~a~~G--e~vlyis~Ee   74 (259)
T TIGR03878        40 NITGVSDTGKSLMVEQFAVTQASRG--NPVLFVTVES   74 (259)
T ss_pred             EEEcCCCCCHHHHHHHHHHHHHhCC--CcEEEEEecC
Confidence            4577889999999999999999999  9999999984

This KaiC domain-containing protein family occurs sporadically across a broad taxonomic range (Euryarchaeota, Aquificae, Dictyoglomi, Epsilonproteobacteria, and Firmicutes), but exclusively in thermophiles.

>TIGR00484 EF-G translation elongation factor EF-G

Probab=96.30  E-value=0.028  Score=53.56  Aligned_cols=65  Identities=14%  Similarity=0.079  Sum_probs=47.0

Q ss_pred             CCCCEEEEeCCCCCC--hhHHHHhhhcCCCeEEEEeCCCcchHHHHHHHHHHHHhCCCCeEEEEEcCCCC
Q psy14655        105 GPCDILFIDTPPGTG--DTHLSLIQNLFIDTAIIITIPDTMSLQVAQRGYTMFKKLNIPVAGLVMNMNSV  172 (261)
Q Consensus       105 ~~yd~IiiD~~~~~~--~~~~~~~~~~~ad~viiv~~~~~~s~~~~~~~~~~l~~~~~~~~giv~N~~~~  172 (261)
                      .++.+.++|||+...  ......+..  +|.+++|++....-.......++.+.+.+.+.+ +++|+.+.
T Consensus        73 ~~~~i~liDTPG~~~~~~~~~~~l~~--~D~~ilVvda~~g~~~~~~~~~~~~~~~~~p~i-vviNK~D~  139 (689)
T TIGR00484        73 KGHRINIIDTPGHVDFTVEVERSLRV--LDGAVAVLDAVGGVQPQSETVWRQANRYEVPRI-AFVNKMDK  139 (689)
T ss_pred             CCeEEEEEECCCCcchhHHHHHHHHH--hCEEEEEEeCCCCCChhHHHHHHHHHHcCCCEE-EEEECCCC
Confidence            578999999996543  223445555  899999998766544555667777777888865 79999764

After peptide bond formation, this elongation factor of bacteria and organelles catalyzes the translocation of the tRNA-mRNA complex, with its attached nascent polypeptide chain, from the A-site to the P-site of the ribosome. Every completed bacterial genome has at least one copy, but some species have additional EF-G-like proteins. The closest homolog to canonical (e.g. E. coli) EF-G in the spirochetes clusters as if it is derived from mitochondrial forms, while a more distant second copy is also present. Synechocystis PCC6803 has a few proteins more closely related to EF-G than to any other characterized protein. Two of these resemble E. coli EF-G more closely than does the best match from the spirochetes; it may be that both function as authentic EF-G.

>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=96.29  E-value=0.023  Score=40.89  Aligned_cols=61  Identities=20%  Similarity=0.153  Sum_probs=38.1

Q ss_pred             CCCCEEEEeCCCCCCh-----------hHHHHhhhcCCCeEEEEeCCCcchHHHHHHHHHHHHhCCCCeEEEEEcC
Q psy14655        105 GPCDILFIDTPPGTGD-----------THLSLIQNLFIDTAIIITIPDTMSLQVAQRGYTMFKKLNIPVAGLVMNM  169 (261)
Q Consensus       105 ~~yd~IiiD~~~~~~~-----------~~~~~~~~~~ad~viiv~~~~~~s~~~~~~~~~~l~~~~~~~~giv~N~  169 (261)
                      .+..++|+|+|+-.+.           .....+..  +|.+++++..+...-.....+++.++  ..+.+-+|+|+
T Consensus        45 ~~~~~~~vDtpG~~~~~~~~~~~~~~~~~~~~~~~--~d~ii~vv~~~~~~~~~~~~~~~~l~--~~~~~i~v~NK  116 (116)
T PF01926_consen   45 NNKKFILVDTPGINDGESQDNDGKEIRKFLEQISK--SDLIIYVVDASNPITEDDKNILRELK--NKKPIILVLNK  116 (116)
T ss_dssp             TTEEEEEEESSSCSSSSHHHHHHHHHHHHHHHHCT--ESEEEEEEETTSHSHHHHHHHHHHHH--TTSEEEEEEES
T ss_pred             ceeeEEEEeCCCCcccchhhHHHHHHHHHHHHHHH--CCEEEEEEECCCCCCHHHHHHHHHHh--cCCCEEEEEcC
Confidence            4556789999974431           01222223  89999999976633455666777775  33446688874

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 ....

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

Probab=96.29  E-value=0.0049  Score=51.21  Aligned_cols=34  Identities=15%  Similarity=0.220  Sum_probs=30.2

Q ss_pred             cccCCCCCcHHHHHHHHHHHHHhcCCCCeEEEEecC
Q psy14655          2 IASSKGGVGKSTTTVNLATAMKICYPDKEIGILDAD   37 (261)
Q Consensus         2 v~s~KGGvGKTT~a~~lA~~la~~g~~~~VllvD~D   37 (261)
                      +..++.|+|||.+|+.+|..+.+.|  .+|+++-.-
T Consensus       109 ~l~G~~G~GKThLa~Ai~~~l~~~g--~sv~f~~~~  142 (254)
T COG1484         109 VLLGPPGVGKTHLAIAIGNELLKAG--ISVLFITAP  142 (254)
T ss_pred             EEECCCCCcHHHHHHHHHHHHHHcC--CeEEEEEHH
Confidence            5678999999999999999999888  999998653

>PLN00043 elongation factor 1-alpha; Provisional

Probab=96.28  E-value=0.012  Score=53.04  Aligned_cols=66  Identities=14%  Similarity=0.025  Sum_probs=47.7

Q ss_pred             CCCCEEEEeCCCCCChh--HHHHhhhcCCCeEEEEeCCCcchH-------HHHHHHHHHHHhCCCCeEEEEEcCCCC
Q psy14655        105 GPCDILFIDTPPGTGDT--HLSLIQNLFIDTAIIITIPDTMSL-------QVAQRGYTMFKKLNIPVAGLVMNMNSV  172 (261)
Q Consensus       105 ~~yd~IiiD~~~~~~~~--~~~~~~~~~ad~viiv~~~~~~s~-------~~~~~~~~~l~~~~~~~~giv~N~~~~  172 (261)
                      .++.+.|+|+|+.....  +...+..  +|..++|+......+       ..+.+.+..+...+++.+-+++|+++.
T Consensus        83 ~~~~i~liDtPGh~df~~~~~~g~~~--aD~aIlVVda~~G~~e~g~~~~~qT~eh~~~~~~~gi~~iIV~vNKmD~  157 (447)
T PLN00043         83 TKYYCTVIDAPGHRDFIKNMITGTSQ--ADCAVLIIDSTTGGFEAGISKDGQTREHALLAFTLGVKQMICCCNKMDA  157 (447)
T ss_pred             CCEEEEEEECCCHHHHHHHHHhhhhh--ccEEEEEEEcccCceecccCCCchHHHHHHHHHHcCCCcEEEEEEcccC
Confidence            57889999999754322  2333444  999999999876543       366677777778898877789999763

>TIGR03575 selen_PSTK_euk L-seryl-tRNA(Sec) kinase, eukaryotic

Probab=96.28  E-value=0.005  Score=53.17  Aligned_cols=38  Identities=18%  Similarity=0.218  Sum_probs=33.6

Q ss_pred             cccCCCCCcHHHHHHHHHHHHH-hcCCCCeEEEEecCCCCC
Q psy14655          2 IASSKGGVGKSTTTVNLATAMK-ICYPDKEIGILDADVFGP   41 (261)
Q Consensus         2 v~s~KGGvGKTT~a~~lA~~la-~~g~~~~VllvD~D~~~~   41 (261)
                      +..+-.|+||||++..|+..|. ..|  .+|.++|.|-.-+
T Consensus         3 ~l~Gl~GaGKST~~~~l~~~l~~~~g--~~v~~~~~Dd~i~   41 (340)
T TIGR03575         3 VLCGLPAAGKSTLARSLSATLRRERG--WAVAVITYDDIIP   41 (340)
T ss_pred             EEECCCCCCHHHHHHHHHHHHHhccC--CeEEEEccccccc
Confidence            5677889999999999999998 588  9999999997653

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 eukaryotic proteins with this activity.

>TIGR02655 circ_KaiC circadian clock protein KaiC

Probab=96.28  E-value=0.0079  Score=54.80  Aligned_cols=38  Identities=11%  Similarity=0.080  Sum_probs=33.9

Q ss_pred             cccCCCCCcHHHHHHHHHHHHHhcCCCCeEEEEecCCCCC
Q psy14655          2 IASSKGGVGKSTTTVNLATAMKICYPDKEIGILDADVFGP   41 (261)
Q Consensus         2 v~s~KGGvGKTT~a~~lA~~la~~g~~~~VllvD~D~~~~   41 (261)
                      ++++--|+||||++.+++...+++|  .+|+++-++....
T Consensus       267 li~G~~G~GKt~l~~~f~~~~~~~g--e~~~y~s~eEs~~  304 (484)
T TIGR02655       267 LATGATGTGKTLLVSKFLENACANK--ERAILFAYEESRA  304 (484)
T ss_pred             EEECCCCCCHHHHHHHHHHHHHHCC--CeEEEEEeeCCHH
Confidence            4567789999999999999999999  9999999987653

Members of this family are the circadian clock protein KaiC, part of the kaiABC operon that controls circadian rhythm. It may be universal in Cyanobacteria. Each member has two copies of the KaiC domain (Pfam model pfam06745), which is also found in other proteins. KaiC performs autophosphorylation and acts as its own transcriptional repressor.

>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=96.27  E-value=0.0041  Score=45.12  Aligned_cols=30  Identities=33%  Similarity=0.300  Sum_probs=23.9

Q ss_pred             cccCCCCCcHHHHHHHHHHHHHhcCCCCeEEEEec
Q psy14655          2 IASSKGGVGKSTTTVNLATAMKICYPDKEIGILDA   36 (261)
Q Consensus         2 v~s~KGGvGKTT~a~~lA~~la~~g~~~~VllvD~   36 (261)
                      ++.+.-|+||||+|..||..+   |  ..++-+|-
T Consensus         3 ~I~G~~gsGKST~a~~La~~~---~--~~~i~~d~   32 (121)
T PF13207_consen    3 IISGPPGSGKSTLAKELAERL---G--FPVISMDD   32 (121)
T ss_dssp             EEEESTTSSHHHHHHHHHHHH---T--CEEEEEHH
T ss_pred             EEECCCCCCHHHHHHHHHHHH---C--CeEEEecc
Confidence            567889999999999999877   6  77665444

...

>PF13245 AAA_19: Part of AAA domain

Probab=96.26  E-value=0.007  Score=40.34  Aligned_cols=34  Identities=21%  Similarity=0.260  Sum_probs=27.9

Q ss_pred             cccCCCCCcHHHHHHHHHHHHHhc----CCCCeEEEEecC
Q psy14655          2 IASSKGGVGKSTTTVNLATAMKIC----YPDKEIGILDAD   37 (261)
Q Consensus         2 v~s~KGGvGKTT~a~~lA~~la~~----g~~~~VllvD~D   37 (261)
                      ++.+--|+|||+++++++..+...    +  .+|+++-..
T Consensus        14 vv~g~pGtGKT~~~~~~i~~l~~~~~~~~--~~vlv~a~t   51 (76)
T PF13245_consen   14 VVQGPPGTGKTTTLAARIAELLAARADPG--KRVLVLAPT   51 (76)
T ss_pred             EEECCCCCCHHHHHHHHHHHHHHHhcCCC--CeEEEECCC
Confidence            346778999999999999999865    6  899998443

>cd00984 DnaB_C DnaB helicase C terminal domain

Probab=96.23  E-value=0.0055  Score=50.34  Aligned_cols=37  Identities=16%  Similarity=0.240  Sum_probs=33.5

Q ss_pred             cccCCCCCcHHHHHHHHHHHHHhc-CCCCeEEEEecCCCC
Q psy14655          2 IASSKGGVGKSTTTVNLATAMKIC-YPDKEIGILDADVFG   40 (261)
Q Consensus         2 v~s~KGGvGKTT~a~~lA~~la~~-g~~~~VllvD~D~~~   40 (261)
                      ++++..|+|||+++.+++..++.+ |  .+|+++.++...
T Consensus        17 lI~G~~G~GKT~~~~~~~~~~~~~~g--~~vly~s~E~~~   54 (242)
T cd00984          17 IIAARPSMGKTAFALNIAENIAKKQG--KPVLFFSLEMSK   54 (242)
T ss_pred             EEEeCCCCCHHHHHHHHHHHHHHhCC--CceEEEeCCCCH
Confidence            567888999999999999999998 8  999999999864

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.

>cd01898 Obg Obg subfamily

Probab=96.22  E-value=0.061  Score=41.18  Aligned_cols=63  Identities=11%  Similarity=0.041  Sum_probs=40.3

Q ss_pred             CCEEEEeCCCCCC---------hhHHHHhhhcCCCeEEEEeCCCcc--hHHHHHHHHHHHHhC-----CCCeEEEEEcCC
Q psy14655        107 CDILFIDTPPGTG---------DTHLSLIQNLFIDTAIIITIPDTM--SLQVAQRGYTMFKKL-----NIPVAGLVMNMN  170 (261)
Q Consensus       107 yd~IiiD~~~~~~---------~~~~~~~~~~~ad~viiv~~~~~~--s~~~~~~~~~~l~~~-----~~~~~giv~N~~  170 (261)
                      ..+.++|+|+...         ......+..  ||.+++|++.+..  +.......++.+...     +.+ +.+|+|+.
T Consensus        48 ~~~~l~DtpG~~~~~~~~~~~~~~~~~~~~~--~d~vi~v~D~~~~~~~~~~~~~~~~~l~~~~~~~~~~p-~ivv~NK~  124 (170)
T cd01898          48 RSFVVADIPGLIEGASEGKGLGHRFLRHIER--TRLLLHVIDLSGDDDPVEDYKTIRNELELYNPELLEKP-RIVVLNKI  124 (170)
T ss_pred             CeEEEEecCcccCcccccCCchHHHHHHHHh--CCEEEEEEecCCCCCHHHHHHHHHHHHHHhCccccccc-cEEEEEch
Confidence            3789999997421         111122333  8999999996654  667777777666543     333 45899997


Q ss_pred             CC
Q psy14655        171 SV  172 (261)
Q Consensus       171 ~~  172 (261)
                      +.
T Consensus       125 Dl  126 (170)
T cd01898         125 DL  126 (170)
T ss_pred             hc
Confidence            64

The Obg nucleotide binding protein subfamily has been implicated in stress response, chromosome partitioning, replication initiation, mycelium development, and sporulation. Obg proteins are among a large group of GTP binding proteins conserved from bacteria to humans. The E. coli homolog, ObgE is believed to function in ribosomal biogenesis. Members of the subfamily contain two equally and highly conserved domains, a C-terminal GTP binding domain and an N-terminal glycine-rich domain.

>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=96.20  E-value=0.0078  Score=46.26  Aligned_cols=34  Identities=21%  Similarity=0.259  Sum_probs=29.7

Q ss_pred             CCCCCcHHHHHHHHHHHHHhcCCCCeEEEEecCCCC
Q psy14655          5 SKGGVGKSTTTVNLATAMKICYPDKEIGILDADVFG   40 (261)
Q Consensus         5 ~KGGvGKTT~a~~lA~~la~~g~~~~VllvD~D~~~   40 (261)
                      +..|+||||++..|+..|...|  ++|..|-.|...
T Consensus         8 G~~gsGKTTli~~L~~~l~~~g--~~V~~iK~~~~~   41 (159)
T cd03116           8 GYSGSGKTTLLEKLIPALSARG--LRVAVIKHDHHD   41 (159)
T ss_pred             CCCCCCHHHHHHHHHHHHHHcC--CcEEEEEecCCc
Confidence            3459999999999999999999  999999877654

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.

>TIGR00682 lpxK tetraacyldisaccharide 4'-kinase

Probab=96.19  E-value=0.025  Score=48.39  Aligned_cols=33  Identities=30%  Similarity=0.346  Sum_probs=30.4

Q ss_pred             CCCcHHHHHHHHHHHHHhcCCCCeEEEEecCCCCC
Q psy14655          7 GGVGKSTTTVNLATAMKICYPDKEIGILDADVFGP   41 (261)
Q Consensus         7 GGvGKTT~a~~lA~~la~~g~~~~VllvD~D~~~~   41 (261)
                      ||.|||-++..||..|.++|  +++.+|---+.+.
T Consensus        39 GGTGKTP~v~~La~~l~~~G--~~~~IlSRGYg~~   71 (311)
T TIGR00682        39 GGTGKTPVVVWLAELLKDRG--LRVGVLSRGYGSK   71 (311)
T ss_pred             CCcChHHHHHHHHHHHHHCC--CEEEEECCCCCCC
Confidence            99999999999999999999  9999998877653

Also called lipid-A 4'-kinase. This essential gene encodes an enzyme in the pathway of lipid A biosynthesis in Gram-negative organisms. A single copy of this protein is found in Gram-negative bacteria. PSI-BLAST converges on this set of apparent orthologs without identifying any other homologs.

>cd01123 Rad51_DMC1_radA Rad51_DMC1_radA,B

Probab=96.18  E-value=0.005  Score=50.33  Aligned_cols=38  Identities=16%  Similarity=0.103  Sum_probs=29.1

Q ss_pred             ccCCCCCcHHHHHHHHHHHHHhcC----CCCeEEEEecCCCC
Q psy14655          3 ASSKGGVGKSTTTVNLATAMKICY----PDKEIGILDADVFG   40 (261)
Q Consensus         3 ~s~KGGvGKTT~a~~lA~~la~~g----~~~~VllvD~D~~~   40 (261)
                      +.+..|+|||+++.+++......+    .+.+|++||.+...
T Consensus        24 i~G~~GsGKT~l~~~l~~~~~~~~~~~g~~~~viyi~~e~~~   65 (235)
T cd01123          24 IFGEFGSGKTQLCHQLAVTVQLPIELGGLEGKAVYIDTEGTF   65 (235)
T ss_pred             EECCCCCCHHHHHHHHHHHeeCccccCCCCccEEEEeCCCCc
Confidence            457789999999999997755421    12799999998753

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 .

>PRK06526 transposase; Provisional

Probab=96.17  E-value=0.0027  Score=52.76  Aligned_cols=33  Identities=15%  Similarity=0.139  Sum_probs=28.9

Q ss_pred             cccCCCCCcHHHHHHHHHHHHHhcCCCCeEEEEec
Q psy14655          2 IASSKGGVGKSTTTVNLATAMKICYPDKEIGILDA   36 (261)
Q Consensus         2 v~s~KGGvGKTT~a~~lA~~la~~g~~~~VllvD~   36 (261)
                      ++.+..|+|||++|.+++..+.+.|  ++|+++.+
T Consensus       102 ll~Gp~GtGKThLa~al~~~a~~~g--~~v~f~t~  134 (254)
T PRK06526        102 VFLGPPGTGKTHLAIGLGIRACQAG--HRVLFATA  134 (254)
T ss_pred             EEEeCCCCchHHHHHHHHHHHHHCC--CchhhhhH
Confidence            5667899999999999999999999  99988544

>PRK10218 GTP-binding protein; Provisional

Probab=96.16  E-value=0.032  Score=52.14  Aligned_cols=65  Identities=11%  Similarity=0.078  Sum_probs=48.4

Q ss_pred             CCCCEEEEeCCCCCC--hhHHHHhhhcCCCeEEEEeCCCcchHHHHHHHHHHHHhCCCCeEEEEEcCCCC
Q psy14655        105 GPCDILFIDTPPGTG--DTHLSLIQNLFIDTAIIITIPDTMSLQVAQRGYTMFKKLNIPVAGLVMNMNSV  172 (261)
Q Consensus       105 ~~yd~IiiD~~~~~~--~~~~~~~~~~~ad~viiv~~~~~~s~~~~~~~~~~l~~~~~~~~giv~N~~~~  172 (261)
                      +++.+.|+|||+...  ......+..  +|.+++|+.....-.......+..+...+.+.+ +++|+.+.
T Consensus        66 ~~~~inliDTPG~~df~~~v~~~l~~--aDg~ILVVDa~~G~~~qt~~~l~~a~~~gip~I-VviNKiD~  132 (607)
T PRK10218         66 NDYRINIVDTPGHADFGGEVERVMSM--VDSVLLVVDAFDGPMPQTRFVTKKAFAYGLKPI-VVINKVDR  132 (607)
T ss_pred             CCEEEEEEECCCcchhHHHHHHHHHh--CCEEEEEEecccCccHHHHHHHHHHHHcCCCEE-EEEECcCC
Confidence            578899999996532  333445555  999999999776655666677777777888865 89999764

>PF02492 cobW: CobW/HypB/UreG, nucleotide-binding domain; InterPro: IPR003495 Cobalamin (vitamin B12) is a structurally complex cofactor, consisting of a modified tetrapyrrole with a centrally chelated cobalt

Probab=96.14  E-value=0.027  Score=44.11  Aligned_cols=138  Identities=15%  Similarity=0.096  Sum_probs=70.1

Q ss_pred             cccCCCCCcHHHHHHHHHHHHHhcCCCCeEEEEecCCCCCCcccc-cCCCCCCCCCcCCccccccccCceeecCCCCccc
Q psy14655          2 IASSKGGVGKSTTTVNLATAMKICYPDKEIGILDADVFGPSIPIL-MNLPDTPLLNKDNLMIPLVNYGVKCLSMGNLITE   80 (261)
Q Consensus         2 v~s~KGGvGKTT~a~~lA~~la~~g~~~~VllvD~D~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~   80 (261)
                      ++++==|+||||+-.++.. ....|  .|+.+|-.|...-..+.- +....   .            .+.-+..|-....
T Consensus         4 ii~GfLGsGKTTli~~ll~-~~~~~--~~~~vI~ne~g~~~iD~~~l~~~~---~------------~v~~l~~gcicc~   65 (178)
T PF02492_consen    4 IITGFLGSGKTTLINHLLK-RNRQG--ERVAVIVNEFGEVNIDAELLQEDG---V------------PVVELNNGCICCT   65 (178)
T ss_dssp             EEEESTTSSHHHHHHHHHH-HHTTT--S-EEEEECSTTSTHHHHHHHHTTT----------------EEEEECTTTESS-
T ss_pred             EEEcCCCCCHHHHHHHHHH-HhcCC--ceeEEEEccccccccchhhhcccc---e------------EEEEecCCCcccc
Confidence            3445559999999999998 66677  999999988775333211 11100   0            0111222221111


Q ss_pred             chhhhhhchHHHHHHHHHHHHhc-cC--CCCEEEEeCCCCCChhHHH-----HhhhcCCCeEEEEeCCCcc-hHHHHHH-
Q psy14655         81 KSAAIWRGLMVMQALNKLTVQVQ-WG--PCDILFIDTPPGTGDTHLS-----LIQNLFIDTAIIITIPDTM-SLQVAQR-  150 (261)
Q Consensus        81 ~~~~~~~~~~~~~~l~~~l~~l~-~~--~yd~IiiD~~~~~~~~~~~-----~~~~~~ad~viiv~~~~~~-s~~~~~~-  150 (261)
                      ...          .+...+..+. ..  ++|+|||-+.+...+....     ......-+.+|.++++... ....... 
T Consensus        66 ~~~----------~~~~~l~~l~~~~~~~~d~IiIE~sG~a~p~~l~~~~~~~~~~~~~~~iI~vVDa~~~~~~~~~~~~  135 (178)
T PF02492_consen   66 LRD----------DLVEALRRLLREYEERPDRIIIETSGLADPAPLILQDPPLKEDFRLDSIITVVDATNFDELENIPEL  135 (178)
T ss_dssp             TTS-----------HHHHHHHHCCCCHGC-SEEEEEEECSSGGGGHHHHSHHHHHHESESEEEEEEEGTTHGGHTTHCHH
T ss_pred             cHH----------HHHHHHHHHHHhcCCCcCEEEECCccccccchhhhccccccccccccceeEEeccccccccccchhh
Confidence            111          1334444443 12  5799999998744433320     0011125778888887553 2333332 


Q ss_pred             HHHHHHhCCCCeEEEEEcCCC
Q psy14655        151 GYTMFKKLNIPVAGLVMNMNS  171 (261)
Q Consensus       151 ~~~~l~~~~~~~~giv~N~~~  171 (261)
                      +.+.+...+.    +|+|+.+
T Consensus       136 ~~~Qi~~ADv----IvlnK~D  152 (178)
T PF02492_consen  136 LREQIAFADV----IVLNKID  152 (178)
T ss_dssp             HHHHHCT-SE----EEEE-GG
T ss_pred             hhhcchhcCE----EEEeccc
Confidence            3345555543    8899854

Cobalamin is usually found in one of two biologically active forms: methylcobalamin and adocobalamin. Most prokaryotes, as well as animals, have cobalamin-dependent enzymes, whereas plants and fungi do not appear to use it. In bacteria and archaea, these include methionine synthase, ribonucleotide reductase, glutamate and methylmalonyl-CoA mutases, ethanolamine ammonia lyase, and diol dehydratase []. In mammals, cobalamin is obtained through the diet, and is required for methionine synthase and methylmalonyl-CoA mutase []. There are at least two distinct cobalamin biosynthetic pathways in bacteria []: Aerobic pathway that requires oxygen and in which cobalt is inserted late in the pathway []; found in Pseudomonas denitrificans and Rhodobacter capsulatus. Anaerobic pathway in which cobalt insertion is the first committed step towards cobalamin synthesis []; found in Salmonella typhimurium, Bacillus megaterium, and Propionibacterium freudenreichii subsp. shermanii. Either pathway can be divided into two parts: (1) corrin ring synthesis (differs in aerobic and anaerobic pathways) and (2) adenosylation of corrin ring, attachment of aminopropanol arm, and assembly of the nucleotide loop (common to both pathways) []. There are about 30 enzymes involved in either pathway, where those involved in the aerobic pathway are prefixed Cob and those of the anaerobic pathway Cbi. Several of these enzymes are pathway-specific: CbiD, CbiG, and CbiK are specific to the anaerobic route of S. typhimurium, whereas CobE, CobF, CobG, CobN, CobS, CobT, and CobW are unique to the aerobic pathway of P. denitrificans. CobW proteins are generally found proximal to the trimeric cobaltochelatase subunit CobN, which is essential for vitamin B12 (cobalamin) biosynthesis []. They contain a P-loop nucleotide-binding loop in the N-terminal domain and a histidine-rich region in the C-terminal portion suggesting a role in metal binding, possibly as an intermediary between the cobalt transport and chelation systems. CobW might be involved in cobalt reduction leading to cobalt(I) corrinoids. This entry represents CobW-like proteins, including P47K (P31521 from SWISSPROT), a Pseudomonas chlororaphis protein needed for nitrile hydratase expression [], and urease accessory protein UreG, which acts as a chaperone in the activation of urease upon insertion of nickel into the active site [].; PDB: 2WSM_B 1NIJ_A 2HF9_A 2HF8_B.

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

Probab=96.14  E-value=0.0051  Score=48.25  Aligned_cols=34  Identities=21%  Similarity=0.162  Sum_probs=28.2

Q ss_pred             cccCCCCCcHHHHHHHHHHHHHhcCCCCeEEEEecC
Q psy14655          2 IASSKGGVGKSTTTVNLATAMKICYPDKEIGILDAD   37 (261)
Q Consensus         2 v~s~KGGvGKTT~a~~lA~~la~~g~~~~VllvD~D   37 (261)
                      +..+.-|+|||.+|..+|..+.+.|  ++|+++...
T Consensus        51 ~l~G~~G~GKThLa~ai~~~~~~~g--~~v~f~~~~   84 (178)
T PF01695_consen   51 ILYGPPGTGKTHLAVAIANEAIRKG--YSVLFITAS   84 (178)
T ss_dssp             EEEESTTSSHHHHHHHHHHHHHHTT----EEEEEHH
T ss_pred             EEEhhHhHHHHHHHHHHHHHhccCC--cceeEeecC
Confidence            3456789999999999999999999  999999865

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.

>TIGR03594 GTPase_EngA ribosome-associated GTPase EngA

Probab=96.11  E-value=0.033  Score=49.87  Aligned_cols=66  Identities=17%  Similarity=0.077  Sum_probs=41.8

Q ss_pred             CCCCEEEEeCCCCCC----------hhHHHHhhhcCCCeEEEEeCCCcchHHHHHHHHHHHHhCCCCeEEEEEcCCCCC
Q psy14655        105 GPCDILFIDTPPGTG----------DTHLSLIQNLFIDTAIIITIPDTMSLQVAQRGYTMFKKLNIPVAGLVMNMNSVL  173 (261)
Q Consensus       105 ~~yd~IiiD~~~~~~----------~~~~~~~~~~~ad~viiv~~~~~~s~~~~~~~~~~l~~~~~~~~giv~N~~~~~  173 (261)
                      .+..+.|+|||+...          .....++..  ||.+++|+++...-......+.+.+++.+.+ +-+|+|+++..
T Consensus        45 ~~~~~~liDTpG~~~~~~~~~~~~~~~~~~~~~~--ad~vl~vvD~~~~~~~~d~~i~~~l~~~~~p-iilVvNK~D~~  120 (429)
T TIGR03594        45 GGREFILIDTGGIEEDDDGLDKQIREQAEIAIEE--ADVILFVVDGREGLTPEDEEIAKWLRKSGKP-VILVANKIDGK  120 (429)
T ss_pred             CCeEEEEEECCCCCCcchhHHHHHHHHHHHHHhh--CCEEEEEEeCCCCCCHHHHHHHHHHHHhCCC-EEEEEECccCC
Confidence            345688999986321          112223344  8999999987654333344566777777766 44899997753

EngA (YfgK, Der) is a ribosome-associated essential GTPase with a duplication of its GTP-binding domain. It is broadly to universally distributed among bacteria. It appears to function in ribosome biogenesis or stability.

>COG3598 RepA RecA-family ATPase [DNA replication, recombination, and repair]

Probab=96.11  E-value=0.0064  Score=51.37  Aligned_cols=41  Identities=20%  Similarity=0.274  Sum_probs=31.8

Q ss_pred             cccCCCCCcHHHHHHHHHHHHHh----cC----CCCeEEEEecCCCCCC
Q psy14655          2 IASSKGGVGKSTTTVNLATAMKI----CY----PDKEIGILDADVFGPS   42 (261)
Q Consensus         2 v~s~KGGvGKTT~a~~lA~~la~----~g----~~~~VllvD~D~~~~~   42 (261)
                      |+-+-||+||||++..|..+|+.    .|    -..+|++|.|....++
T Consensus        93 ~~~gdsg~GKttllL~l~IalaaG~~lfG~~v~epGkvlyvslEl~re~  141 (402)
T COG3598          93 ILYGDSGVGKTTLLLYLCIALAAGKNLFGNKVKEPGKVLYVSLELYRED  141 (402)
T ss_pred             EEecCCcccHhHHHHHHHHHHHhhHHHhcccccCCCeEEEEEeccChHH
Confidence            45578999999999999999984    11    1258999999887765

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

Probab=96.11  E-value=0.0084  Score=52.34  Aligned_cols=36  Identities=17%  Similarity=0.184  Sum_probs=31.0

Q ss_pred             cccCCCCCcHHHHHHHHHHHHHhcCCCCeEEEEecCCCC
Q psy14655          2 IASSKGGVGKSTTTVNLATAMKICYPDKEIGILDADVFG   40 (261)
Q Consensus         2 v~s~KGGvGKTT~a~~lA~~la~~g~~~~VllvD~D~~~   40 (261)
                      .+++--|+||||+-.++|..+|+++   +||+|--....
T Consensus        97 LIgGdPGIGKSTLLLQva~~lA~~~---~vLYVsGEES~  132 (456)
T COG1066          97 LIGGDPGIGKSTLLLQVAARLAKRG---KVLYVSGEESL  132 (456)
T ss_pred             EEccCCCCCHHHHHHHHHHHHHhcC---cEEEEeCCcCH
Confidence            3577889999999999999999985   99999877553

>PF00009 GTP_EFTU: Elongation factor Tu GTP binding domain; InterPro: IPR000795 Elongation factors belong to a family of proteins that promote the GTP-dependent binding of aminoacyl tRNA to the A site of ribosomes during protein biosynthesis, and catalyse the translocation of the synthesised protein chain from the A to the P site

Probab=96.10  E-value=0.016  Score=45.69  Aligned_cols=65  Identities=20%  Similarity=0.270  Sum_probs=50.6

Q ss_pred             CCCCEEEEeCCCCCCh--hHHHHhhhcCCCeEEEEeCCCcchHHHHHHHHHHHHhCCCCeEEEEEcCCCC
Q psy14655        105 GPCDILFIDTPPGTGD--THLSLIQNLFIDTAIIITIPDTMSLQVAQRGYTMFKKLNIPVAGLVMNMNSV  172 (261)
Q Consensus       105 ~~yd~IiiD~~~~~~~--~~~~~~~~~~ad~viiv~~~~~~s~~~~~~~~~~l~~~~~~~~giv~N~~~~  172 (261)
                      ..+.+.++|||+....  .....+..  +|.+++|+++...-.......+..+...+.+ +-+++|+++.
T Consensus        68 ~~~~i~~iDtPG~~~f~~~~~~~~~~--~D~ailvVda~~g~~~~~~~~l~~~~~~~~p-~ivvlNK~D~  134 (188)
T PF00009_consen   68 NNRKITLIDTPGHEDFIKEMIRGLRQ--ADIAILVVDANDGIQPQTEEHLKILRELGIP-IIVVLNKMDL  134 (188)
T ss_dssp             SSEEEEEEEESSSHHHHHHHHHHHTT--SSEEEEEEETTTBSTHHHHHHHHHHHHTT-S-EEEEEETCTS
T ss_pred             cccceeecccccccceeecccceecc--cccceeeeecccccccccccccccccccccc-eEEeeeeccc
Confidence            7889999999975432  23334444  9999999999887778888999999999999 6699999764

The proteins are all relatively similar in the vicinity of their C-termini, and are also highly similar to a range of proteins that includes the nodulation Q protein from Rhizobium meliloti (Sinorhizobium meliloti), bacterial tetracycline resistance proteins [] and the omnipotent suppressor protein 2 from yeast. In both prokaryotes and eukaryotes, there are three distinct types of elongation factors, EF-1alpha (EF-Tu), which binds GTP and an aminoacyl-tRNAand delivers the latter to the A site of ribosomes; EF-1beta (EF-Ts), which interacts with EF-1a/EF-Tu to displace GDP and thus allows the regeneration of GTP-EF-1a; and EF-2 (EF-G), which binds GTP and peptidyl-tRNA and translocates the latter from the A site to the P site. In EF-1-alpha, a specific region has been shown [] to be involved in a conformational change mediated by the hydrolysis of GTP to GDP. This region is conserved in both EF-1alpha/EF-Tu as well as EF-2/EF-G and thus seems typical for GTP-dependent proteins which bind non-initiator tRNAs to the ribosome. The GTP-binding protein synthesis factor family also includes the eukaryotic peptide chain release factor GTP-binding subunits [] and prokaryotic peptide chain release factor 3 (RF-3) []; the prokaryotic GTP-binding protein lepA and its homologue in yeast (GUF1) and Caenorhabditis elegans (ZK1236.1); yeast HBS1 []; rat statin S1 []; and the prokaryotic selenocysteine-specific elongation factor selB [].; GO: 0003924 GTPase activity, 0005525 GTP binding; PDB: 3IZW_C 1DG1_G 2BVN_B 3IZV_C 3MMP_C 1OB2_A 1EFU_A 3FIH_Z 3TR5_A 1TUI_C ....

>PRK04328 hypothetical protein; Provisional

Probab=96.10  E-value=0.012  Score=48.81  Aligned_cols=36  Identities=14%  Similarity=-0.077  Sum_probs=31.6

Q ss_pred             ccCCCCCcHHHHHHHHHHHHHhcCCCCeEEEEecCCCC
Q psy14655          3 ASSKGGVGKSTTTVNLATAMKICYPDKEIGILDADVFG   40 (261)
Q Consensus         3 ~s~KGGvGKTT~a~~lA~~la~~g~~~~VllvD~D~~~   40 (261)
                      +.+-.|+|||+++.+++...+++|  .++++|.++...
T Consensus        28 i~G~pGsGKT~l~~~fl~~~~~~g--e~~lyis~ee~~   63 (249)
T PRK04328         28 LSGGPGTGKSIFSQQFLWNGLQMG--EPGVYVALEEHP   63 (249)
T ss_pred             EEcCCCCCHHHHHHHHHHHHHhcC--CcEEEEEeeCCH
Confidence            456778999999999999988889  999999998754

>TIGR02238 recomb_DMC1 meiotic recombinase Dmc1

Probab=96.10  E-value=0.0078  Score=51.54  Aligned_cols=38  Identities=11%  Similarity=0.072  Sum_probs=28.6

Q ss_pred             ccCCCCCcHHHHHHHHHHHHHhc----CCCCeEEEEecCCCC
Q psy14655          3 ASSKGGVGKSTTTVNLATAMKIC----YPDKEIGILDADVFG   40 (261)
Q Consensus         3 ~s~KGGvGKTT~a~~lA~~la~~----g~~~~VllvD~D~~~   40 (261)
                      +.+.-|+|||+++.++|...+..    |.+.+|++||..-..
T Consensus       101 I~G~~GsGKTql~lqla~~~~~~~~~gg~~~~vvYIdtE~~f  142 (313)
T TIGR02238       101 VFGEFRCGKTQLSHTLCVTAQLPREMGGGNGKVAYIDTEGTF  142 (313)
T ss_pred             EECCCCCCcCHHHHHHHHHHhcchhhcCCCCeEEEEEcCCCC
Confidence            45678999999999999766531    112799999998653

This model describes DMC1, a subfamily of a larger family of DNA repair and recombination proteins. It is eukaryotic only and most closely related to eukaryotic RAD51. It also resembles archaeal RadA (TIGR02236) and RadB (TIGR02237) and bacterial RecA (TIGR02012). It has been characterized for human as a recombinase active only in meiosis.

>PRK07414 cob(I)yrinic acid a,c-diamide adenosyltransferase; Validated

Probab=96.09  E-value=0.029  Score=43.73  Aligned_cols=30  Identities=10%  Similarity=-0.154  Sum_probs=26.6

Q ss_pred             CCCCcHHHHHHHHHHHHHhcCCCCeEEEEecC
Q psy14655          6 KGGVGKSTTTVNLATAMKICYPDKEIGILDAD   37 (261)
Q Consensus         6 KGGvGKTT~a~~lA~~la~~g~~~~VllvD~D   37 (261)
                      -.|=||||-|..+|...+-+|  +||++|=+=
T Consensus        29 GdGKGKTTAAlGlalRAaG~G--~rV~iiQFl   58 (178)
T PRK07414         29 SSQRNFFTSVMAQALRIAGQG--TPVLIVQFL   58 (178)
T ss_pred             CCCCCchHHHHHHHHHHhcCC--CEEEEEEEe
Confidence            457899999999999999999  999999664

>cd01125 repA Hexameric Replicative Helicase RepA

Probab=96.06  E-value=0.008  Score=49.43  Aligned_cols=37  Identities=30%  Similarity=0.268  Sum_probs=30.8

Q ss_pred             cccCCCCCcHHHHHHHHHHHHHh------------cCCCCeEEEEecCCCC
Q psy14655          2 IASSKGGVGKSTTTVNLATAMKI------------CYPDKEIGILDADVFG   40 (261)
Q Consensus         2 v~s~KGGvGKTT~a~~lA~~la~------------~g~~~~VllvD~D~~~   40 (261)
                      ++.+-||+||||++.++|.++|.            .+  .+|++++++-..
T Consensus         5 ll~g~~G~GKS~lal~la~~va~G~~~~g~~~~~~~~--~~Vlyi~~Ed~~   53 (239)
T cd01125           5 ALVAPGGTGKSSLLLVLALAMALGKNLFGGGLKVTEP--GRVVYLSAEDPR   53 (239)
T ss_pred             EEEcCCCCCHHHHHHHHHHHHhcCccccCCccccCCC--ceEEEEECCCCH
Confidence            45678999999999999999873            33  799999998754

RepA is encoded by a plasmid, which is found in most Gram negative bacteria. RepA is a 5'-3' DNA helicase which can utilize ATP, GTP and CTP to a lesser extent.

>cd01879 FeoB Ferrous iron transport protein B (FeoB) subfamily

Probab=96.06  E-value=0.027  Score=42.54  Aligned_cols=64  Identities=13%  Similarity=0.072  Sum_probs=38.3

Q ss_pred             CCCEEEEeCCCCCChh--------HHHHhhhcCCCeEEEEeCCCcchHHHHHHHHHHHHhCCCCeEEEEEcCCCC
Q psy14655        106 PCDILFIDTPPGTGDT--------HLSLIQNLFIDTAIIITIPDTMSLQVAQRGYTMFKKLNIPVAGLVMNMNSV  172 (261)
Q Consensus       106 ~yd~IiiD~~~~~~~~--------~~~~~~~~~ad~viiv~~~~~~s~~~~~~~~~~l~~~~~~~~giv~N~~~~  172 (261)
                      ++++.++|||+.....        ....+....+|.+++++......  ........+.+.+.+ +-+|+|+.+.
T Consensus        42 ~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~~~d~vi~v~d~~~~~--~~~~~~~~~~~~~~~-~iiv~NK~Dl  113 (158)
T cd01879          42 GKEIEIVDLPGTYSLSPYSEDEKVARDFLLGEKPDLIVNVVDATNLE--RNLYLTLQLLELGLP-VVVALNMIDE  113 (158)
T ss_pred             CeEEEEEECCCccccCCCChhHHHHHHHhcCCCCcEEEEEeeCCcch--hHHHHHHHHHHcCCC-EEEEEehhhh
Confidence            4679999999643211        12222201289999999876532  223344455556666 4489999764

E. coli has an iron(II) transport system, known as feo, which may make an important contribution to the iron supply of the cell under anaerobic conditions. FeoB has been identified as part of this transport system. FeoB is a large 700-800 amino acid integral membrane protein. The N terminus contains a P-loop motif suggesting that iron transport may be ATP dependent.

>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=96.00  E-value=0.0093  Score=49.54  Aligned_cols=37  Identities=14%  Similarity=0.210  Sum_probs=32.8

Q ss_pred             ccCCCCCcHHHHHHHHHHHHHhcCCCCeEEEEecCCCCC
Q psy14655          3 ASSKGGVGKSTTTVNLATAMKICYPDKEIGILDADVFGP   41 (261)
Q Consensus         3 ~s~KGGvGKTT~a~~lA~~la~~g~~~~VllvD~D~~~~   41 (261)
                      +++-.|+||||++..++..|.+.|  .+|.+|+.|.-..
T Consensus         4 ItG~SGSGKTTv~~~l~~~l~~~g--~~v~vI~~D~yyr   40 (277)
T cd02029           4 VTGSSGAGTTTVKRAFEHIFAREG--IHPAVVEGDSFHR   40 (277)
T ss_pred             EECCCCCCHHHHHHHHHHHHHhcC--CceEEEecccccc
Confidence            456789999999999999999988  9999999997653

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.

>COG0523 Putative GTPases (G3E family) [General function prediction only]

Probab=95.99  E-value=0.16  Score=43.69  Aligned_cols=140  Identities=17%  Similarity=0.142  Sum_probs=72.8

Q ss_pred             cCCCCCcHHHHHHHHHHHHHhcCCCCeEEEEecCCCCCCcccccCCCCCCCCCcCCccccccccCceeecCCCCcccchh
Q psy14655          4 SSKGGVGKSTTTVNLATAMKICYPDKEIGILDADVFGPSIPILMNLPDTPLLNKDNLMIPLVNYGVKCLSMGNLITEKSA   83 (261)
Q Consensus         4 s~KGGvGKTT~a~~lA~~la~~g~~~~VllvD~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~   83 (261)
                      ++==|+||||+-.++.....  |  +|+.+|=-++.--+.+-     . ..+...       ...+.=++.|=...... 
T Consensus         7 tGFLGsGKTTlL~~lL~~~~--g--~kiAVIVNEfGEvgID~-----~-~~l~~~-------~e~~~El~nGCICCT~r-   68 (323)
T COG0523           7 TGFLGSGKTTLLNHLLANRD--G--KKIAVIVNEFGEVGIDG-----G-ALLSDT-------GEEVVELTNGCICCTVR-   68 (323)
T ss_pred             eecCCCCHHHHHHHHHhccC--C--CcEEEEEecCccccccC-----C-CccccC-------CccEEEeCCceEEEecc-
Confidence            33348999999999887776  7  89888876655432221     0 001000       00011111111111111 


Q ss_pred             hhhhchHHHHHHHHHHHHhccCCCCEEEEeCCCCCCh-hHHHHhhh-------cCCCeEEEEeCCCcchHHH---HHHHH
Q psy14655         84 AIWRGLMVMQALNKLTVQVQWGPCDILFIDTPPGTGD-THLSLIQN-------LFIDTAIIITIPDTMSLQV---AQRGY  152 (261)
Q Consensus        84 ~~~~~~~~~~~l~~~l~~l~~~~yd~IiiD~~~~~~~-~~~~~~~~-------~~ad~viiv~~~~~~s~~~---~~~~~  152 (261)
                           .+....+.++.+ .+ +.+|+|||-+.+-..+ .....+..       ..-|.++.++.+....-..   ...+.
T Consensus        69 -----~dl~~~~~~L~~-~~-~~~D~ivIEtTGlA~P~pv~~t~~~~~~l~~~~~ld~vvtvVDa~~~~~~~~~~~~~~~  141 (323)
T COG0523          69 -----DDLLPALERLLR-RR-DRPDRLVIETTGLADPAPVIQTFLTDPELADGVRLDGVVTVVDAAHFLEGLDAIAELAE  141 (323)
T ss_pred             -----chhHHHHHHHHh-cc-CCCCEEEEeCCCCCCCHHHHHHhccccccccceeeceEEEEEeHHHhhhhHHHHHHHHH
Confidence                 122333555555 55 7799999999864444 12222211       1135578888866543322   23345


Q ss_pred             HHHHhCCCCeEEEEEcCCCC
Q psy14655        153 TMFKKLNIPVAGLVMNMNSV  172 (261)
Q Consensus       153 ~~l~~~~~~~~giv~N~~~~  172 (261)
                      +++...+.    +|+|+.+.
T Consensus       142 ~Qia~AD~----ivlNK~Dl  157 (323)
T COG0523         142 DQLAFADV----IVLNKTDL  157 (323)
T ss_pred             HHHHhCcE----EEEecccC
Confidence            56666643    89999775

>cd01864 Rab19 Rab19 subfamily

Probab=95.98  E-value=0.055  Score=41.34  Aligned_cols=64  Identities=17%  Similarity=0.053  Sum_probs=41.8

Q ss_pred             CCCEEEEeCCCCCCh--hHHHHhhhcCCCeEEEEeCCC-cchHHHHHHHHHHHHhC---CCCeEEEEEcCCCC
Q psy14655        106 PCDILFIDTPPGTGD--THLSLIQNLFIDTAIIITIPD-TMSLQVAQRGYTMFKKL---NIPVAGLVMNMNSV  172 (261)
Q Consensus       106 ~yd~IiiD~~~~~~~--~~~~~~~~~~ad~viiv~~~~-~~s~~~~~~~~~~l~~~---~~~~~giv~N~~~~  172 (261)
                      .+.+.|+|+|+....  .....+..  +|.++++.+.+ ..++..+...++.+...   +.+ +-+|.|+++.
T Consensus        51 ~~~l~i~D~~G~~~~~~~~~~~~~~--~d~~llv~d~~~~~s~~~~~~~~~~i~~~~~~~~p-~ivv~nK~Dl  120 (165)
T cd01864          51 RVKLQIWDTAGQERFRTITQSYYRS--ANGAIIAYDITRRSSFESVPHWIEEVEKYGASNVV-LLLIGNKCDL  120 (165)
T ss_pred             EEEEEEEECCChHHHHHHHHHHhcc--CCEEEEEEECcCHHHHHhHHHHHHHHHHhCCCCCc-EEEEEECccc
Confidence            368899999974321  12233444  89999999854 45677777777766543   334 5588999764

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.

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

Probab=95.97  E-value=0.018  Score=46.78  Aligned_cols=37  Identities=16%  Similarity=0.165  Sum_probs=29.2

Q ss_pred             ccCCCCCcHHHHHHHHHHHHHhcC----CCCeEEEEecCCC
Q psy14655          3 ASSKGGVGKSTTTVNLATAMKICY----PDKEIGILDADVF   39 (261)
Q Consensus         3 ~s~KGGvGKTT~a~~lA~~la~~g----~~~~VllvD~D~~   39 (261)
                      +.+..|+|||+++.++|...+..+    .+.+|++||.+..
T Consensus        24 I~G~~GsGKT~l~~~ia~~~~~~~~~~g~~~~v~yi~~e~~   64 (226)
T cd01393          24 IFGEFGSGKTQLCLQLAVEAQLPGELGGLEGKVVYIDTEGA   64 (226)
T ss_pred             EeCCCCCChhHHHHHHHHHhhcccccCCCcceEEEEecCCC
Confidence            346779999999999999887542    1279999999854

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.

>PF03796 DnaB_C: DnaB-like helicase C terminal domain; InterPro: IPR007694 The hexameric helicase DnaB unwinds the DNA duplex at the Escherichia coli chromosome replication fork

Probab=95.97  E-value=0.0093  Score=49.65  Aligned_cols=38  Identities=13%  Similarity=0.219  Sum_probs=33.1

Q ss_pred             cccCCCCCcHHHHHHHHHHHHHhc-CCCCeEEEEecCCCCC
Q psy14655          2 IASSKGGVGKSTTTVNLATAMKIC-YPDKEIGILDADVFGP   41 (261)
Q Consensus         2 v~s~KGGvGKTT~a~~lA~~la~~-g~~~~VllvD~D~~~~   41 (261)
                      ++++..|+|||+++.++|..++.+ |  .+|+++.+++...
T Consensus        23 vi~a~pg~GKT~~~l~ia~~~a~~~~--~~vly~SlEm~~~   61 (259)
T PF03796_consen   23 VIAARPGVGKTAFALQIALNAALNGG--YPVLYFSLEMSEE   61 (259)
T ss_dssp             EEEESTTSSHHHHHHHHHHHHHHTTS--SEEEEEESSS-HH
T ss_pred             EEEecccCCchHHHHHHHHHHHHhcC--CeEEEEcCCCCHH
Confidence            567888999999999999999987 6  9999999998753

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. ; GO: 0003678 DNA helicase activity, 0005524 ATP binding, 0006260 DNA replication; PDB: 1Q57_E 1E0K_D 1E0J_B 1CR2_A 1CR4_A 1CR1_A 1CR0_A 1MI8_A 2R6D_B 2R6C_C ....

>PF02572 CobA_CobO_BtuR: ATP:corrinoid adenosyltransferase BtuR/CobO/CobP; InterPro: IPR003724 ATP:cob(I)alamin (or ATP:corrinoid) adenosyltransferases (2

Probab=95.94  E-value=0.034  Score=43.16  Aligned_cols=92  Identities=15%  Similarity=0.077  Sum_probs=42.9

Q ss_pred             CCCcHHHHHHHHHHHHHhcCCCCeEEEEecCCCCCCcccccCCCCCCCCCcCCccccccccCceeecCCCCcccc-hhhh
Q psy14655          7 GGVGKSTTTVNLATAMKICYPDKEIGILDADVFGPSIPILMNLPDTPLLNKDNLMIPLVNYGVKCLSMGNLITEK-SAAI   85 (261)
Q Consensus         7 GGvGKTT~a~~lA~~la~~g~~~~VllvD~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~-~~~~   85 (261)
                      -|=||||-|..+|...+-+|  .||+++=+==......            +...+..  .+++.+..++...... ....
T Consensus        12 ~GKGKTTAAlGlalRA~G~G--~rV~ivQFlKg~~~~G------------E~~~l~~--l~~~~~~~~g~~f~~~~~~~~   75 (172)
T PF02572_consen   12 DGKGKTTAALGLALRAAGHG--MRVLIVQFLKGGRYSG------------ELKALKK--LPNVEIERFGKGFVWRMNEEE   75 (172)
T ss_dssp             SSS-HHHHHHHHHHHHHCTT----EEEEESS--SS--H------------HHHHHGG--GT--EEEE--TT----GGGHH
T ss_pred             CCCCchHHHHHHHHHHHhCC--CEEEEEEEecCCCCcC------------HHHHHHh--CCeEEEEEcCCcccccCCCcH
Confidence            36799999999999999999  9999986532211111            1111111  1235555544422111 1111


Q ss_pred             hhchHHHHHHHHHHHHhccCCCCEEEEeC
Q psy14655         86 WRGLMVMQALNKLTVQVQWGPCDILFIDT  114 (261)
Q Consensus        86 ~~~~~~~~~l~~~l~~l~~~~yd~IiiD~  114 (261)
                      .......+.+....+.+....||+||+|=
T Consensus        76 ~~~~~~~~~~~~a~~~i~~~~~dlvILDE  104 (172)
T PF02572_consen   76 EDRAAAREGLEEAKEAISSGEYDLVILDE  104 (172)
T ss_dssp             HHHHHHHHHHHHHHHHTT-TT-SEEEEET
T ss_pred             HHHHHHHHHHHHHHHHHhCCCCCEEEEcc
Confidence            11122333455555556557899999996

5.1.17 from EC), catalyse the conversion of cobalamin (vitamin B12) into its coenzyme form, adenosylcobalamin (coenzyme B12) []. Adenosylcobalamin (AdoCbl) is required for the ativity of certain enzymes. AdoCbl contains an adenosyl moiety liganded to the cobalt ion of cobalamin via a covalent Co-C bond, and its synthesis is unique to certain prokaryotes. ATP:cob(I)alamin adenosyltransferases are classed into three groups: CobA-type [], EutT-type [] and PduO-type []. Each of the three enzyme types appears to be specialised for particular AdoCbl-dependent enzymes or for the de novo synthesis AdoCbl. PduO and EutT are distantly related, sharing short conserved motifs, while CobA is evolutionarily unrelated and is an example of convergent evolution. This entry represents the ATP:cob(I)alamin adenosyltransferases CobA (Salmonella typhimurium), CobO (Pseudomonas denitrificans), and ButR (Escherichia coli). There is a high degree of sequence identity between these proteins []. CobA is responsible for attaching the adenosyl moiety from ATP to the cobalt ion of the corrin ring, necessary for the convertion of cobalamin to adenosylcobalamin [, ]. ; GO: 0005524 ATP binding, 0008817 cob(I)yrinic acid a,c-diamide adenosyltransferase activity, 0009236 cobalamin biosynthetic process; PDB: 1G64_A 1G5T_A 1G5R_A.

>PRK03003 GTP-binding protein Der; Reviewed

Probab=95.86  E-value=0.029  Score=50.97  Aligned_cols=65  Identities=11%  Similarity=0.052  Sum_probs=41.4

Q ss_pred             CCCCEEEEeCCCCCCh----------hHHHHhhhcCCCeEEEEeCCCcchHHHHHHHHHHHHhCCCCeEEEEEcCCCC
Q psy14655        105 GPCDILFIDTPPGTGD----------THLSLIQNLFIDTAIIITIPDTMSLQVAQRGYTMFKKLNIPVAGLVMNMNSV  172 (261)
Q Consensus       105 ~~yd~IiiD~~~~~~~----------~~~~~~~~~~ad~viiv~~~~~~s~~~~~~~~~~l~~~~~~~~giv~N~~~~  172 (261)
                      .+..+.|+|||+....          .....+..  ||.+++|++.+.........+.+.+...+.+ +-+|+|+++.
T Consensus        84 ~~~~~~l~DT~G~~~~~~~~~~~~~~~~~~~~~~--aD~il~VvD~~~~~s~~~~~i~~~l~~~~~p-iilV~NK~Dl  158 (472)
T PRK03003         84 NGRRFTVVDTGGWEPDAKGLQASVAEQAEVAMRT--ADAVLFVVDATVGATATDEAVARVLRRSGKP-VILAANKVDD  158 (472)
T ss_pred             CCcEEEEEeCCCcCCcchhHHHHHHHHHHHHHHh--CCEEEEEEECCCCCCHHHHHHHHHHHHcCCC-EEEEEECccC
Confidence            4567889999863311          01123344  9999999996653322335566777776766 4589999775

>PLN03187 meiotic recombination protein DMC1 homolog; Provisional

Probab=95.78  E-value=0.036  Score=48.05  Aligned_cols=38  Identities=13%  Similarity=0.096  Sum_probs=28.9

Q ss_pred             ccCCCCCcHHHHHHHHHHHHHh---c-CCCCeEEEEecCCCC
Q psy14655          3 ASSKGGVGKSTTTVNLATAMKI---C-YPDKEIGILDADVFG   40 (261)
Q Consensus         3 ~s~KGGvGKTT~a~~lA~~la~---~-g~~~~VllvD~D~~~   40 (261)
                      +.+.-|+|||+++.++|...+.   . |.+.+|++||..-..
T Consensus       131 I~G~~GsGKTql~lqlav~~qlp~~~gg~~~~vvyIdTE~tF  172 (344)
T PLN03187        131 AFGEFRSGKTQLAHTLCVTTQLPTEMGGGNGKVAYIDTEGTF  172 (344)
T ss_pred             EecCCCCChhHHHHHHHHHHhcchhhCCCCceEEEEEcCCCC
Confidence            4567899999999999987663   2 223799999997643

>PRK14495 putative molybdopterin-guanine dinucleotide biosynthesis protein MobB/unknown domain fusion protein; Provisional

Probab=95.76  E-value=0.014  Score=51.74  Aligned_cols=33  Identities=18%  Similarity=0.154  Sum_probs=28.1

Q ss_pred             cccCCCCCcHHHHHHHHHHHHHhcCCCCeEEEEecC
Q psy14655          2 IASSKGGVGKSTTTVNLATAMKICYPDKEIGILDAD   37 (261)
Q Consensus         2 v~s~KGGvGKTT~a~~lA~~la~~g~~~~VllvD~D   37 (261)
                      |++.| |+||||+...|...|..+|  ++|.+|=-+
T Consensus         6 IvG~s-gSGKTTLiekLI~~L~~rG--~rVavIKH~   38 (452)
T PRK14495          6 IIGWK-DAGKTGLVERLVAAIAARG--FSVSTVKHS   38 (452)
T ss_pred             EEecC-CCCHHHHHHHHHHHHHhCC--CeEEEEecc
Confidence            44544 9999999999999999999  999996543

>PTZ00416 elongation factor 2; Provisional

Probab=95.75  E-value=0.04  Score=53.58  Aligned_cols=65  Identities=15%  Similarity=0.070  Sum_probs=48.8

Q ss_pred             CCCCEEEEeCCCCCC--hhHHHHhhhcCCCeEEEEeCCCcchHHHHHHHHHHHHhCCCCeEEEEEcCCCC
Q psy14655        105 GPCDILFIDTPPGTG--DTHLSLIQNLFIDTAIIITIPDTMSLQVAQRGYTMFKKLNIPVAGLVMNMNSV  172 (261)
Q Consensus       105 ~~yd~IiiD~~~~~~--~~~~~~~~~~~ad~viiv~~~~~~s~~~~~~~~~~l~~~~~~~~giv~N~~~~  172 (261)
                      .+|-+.++|||+..+  .....++..  +|.+++|+.+...-..++..+++.+.+.+.+.+ +++|+.+.
T Consensus        90 ~~~~i~liDtPG~~~f~~~~~~al~~--~D~ailVvda~~g~~~~t~~~~~~~~~~~~p~i-v~iNK~D~  156 (836)
T PTZ00416         90 QPFLINLIDSPGHVDFSSEVTAALRV--TDGALVVVDCVEGVCVQTETVLRQALQERIRPV-LFINKVDR  156 (836)
T ss_pred             CceEEEEEcCCCHHhHHHHHHHHHhc--CCeEEEEEECCCCcCccHHHHHHHHHHcCCCEE-EEEEChhh
Confidence            357799999997653  233445554  999999999877666777888888888887755 88899664

>TIGR03420 DnaA_homol_Hda DnaA regulatory inactivator Hda

Probab=95.73  E-value=0.01  Score=48.12  Aligned_cols=37  Identities=19%  Similarity=0.033  Sum_probs=31.9

Q ss_pred             cccCCCCCcHHHHHHHHHHHHHhcCCCCeEEEEecCCCC
Q psy14655          2 IASSKGGVGKSTTTVNLATAMKICYPDKEIGILDADVFG   40 (261)
Q Consensus         2 v~s~KGGvGKTT~a~~lA~~la~~g~~~~VllvD~D~~~   40 (261)
                      ++-++.|+||||++..++..+.+.+  .++++++++...
T Consensus        42 ll~G~~G~GKT~la~~~~~~~~~~~--~~~~~i~~~~~~   78 (226)
T TIGR03420        42 YLWGESGSGKSHLLQAACAAAEERG--KSAIYLPLAELA   78 (226)
T ss_pred             EEECCCCCCHHHHHHHHHHHHHhcC--CcEEEEeHHHHH
Confidence            4567889999999999999998888  999999987553

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.

>TIGR03600 phage_DnaB phage replicative helicase, DnaB family, HK022 subfamily

Probab=95.73  E-value=0.012  Score=52.75  Aligned_cols=37  Identities=16%  Similarity=0.253  Sum_probs=33.0

Q ss_pred             cccCCCCCcHHHHHHHHHHHHH-hcCCCCeEEEEecCCCC
Q psy14655          2 IASSKGGVGKSTTTVNLATAMK-ICYPDKEIGILDADVFG   40 (261)
Q Consensus         2 v~s~KGGvGKTT~a~~lA~~la-~~g~~~~VllvD~D~~~   40 (261)
                      ++++..|+|||+++.++|..+| ++|  .+|+++.+++..
T Consensus       198 viag~pg~GKT~~al~ia~~~a~~~g--~~v~~fSlEm~~  235 (421)
T TIGR03600       198 VIGARPSMGKTTLALNIAENVALREG--KPVLFFSLEMSA  235 (421)
T ss_pred             EEEeCCCCCHHHHHHHHHHHHHHhCC--CcEEEEECCCCH
Confidence            5678899999999999999998 678  999999999754

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.

>cd04148 RGK RGK subfamily

Probab=95.72  E-value=0.059  Score=43.71  Aligned_cols=65  Identities=20%  Similarity=0.118  Sum_probs=42.5

Q ss_pred             CCCCEEEEeCCCCCChhHHHHhh-hcCCCeEEEEeCC-CcchHHHHHHHHHHHHhC----CCCeEEEEEcCCCC
Q psy14655        105 GPCDILFIDTPPGTGDTHLSLIQ-NLFIDTAIIITIP-DTMSLQVAQRGYTMFKKL----NIPVAGLVMNMNSV  172 (261)
Q Consensus       105 ~~yd~IiiD~~~~~~~~~~~~~~-~~~ad~viiv~~~-~~~s~~~~~~~~~~l~~~----~~~~~giv~N~~~~  172 (261)
                      ..+.+.|+|+|+........... .  +|.+++|... +..++..+...++.+...    +.+ +-+|.|+.+.
T Consensus        48 ~~~~l~i~Dt~G~~~~~~~~~~~~~--ad~iilV~d~td~~S~~~~~~~~~~l~~~~~~~~~p-iilV~NK~Dl  118 (221)
T cd04148          48 EESTLVVIDHWEQEMWTEDSCMQYQ--GDAFVVVYSVTDRSSFERASELRIQLRRNRQLEDRP-IILVGNKSDL  118 (221)
T ss_pred             EEEEEEEEeCCCcchHHHhHHhhcC--CCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCC-EEEEEEChhc
Confidence            45788999998654121122222 3  8999999985 456777777777766553    334 6689999774

The RGK (Rem, Rem2, Rad, Gem/Kir) subfamily of Ras GTPases are expressed in a tissue-specific manner and are dynamically regulated by transcriptional and posttranscriptional mechanisms in response to environmental cues. RGK proteins bind to the beta subunit of L-type calcium channels, causing functional down-regulation of these voltage-dependent calcium channels, and either termination of calcium-dependent secretion or modulation of electrical conduction and contractile function. Inhibition of L-type calcium channels by Rem2 may provide a mechanism for modulating calcium-triggered exocytosis in hormone-secreting cells, and has been proposed to influence the secretion of insulin in pancreatic beta cells. RGK proteins also interact with and inhibit the Rho/Rho kinase pathway to modulate remodeling of the cytoskeleton. Two characteristics of RGK proteins cited in the literature are N-terminal and C-terminal extensions beyond the GTPase domain typical of Ra

>KOG0635|consensus

Probab=95.70  E-value=0.019  Score=43.19  Aligned_cols=44  Identities=27%  Similarity=0.215  Sum_probs=36.1

Q ss_pred             CCCCCcHHHHHHHHHHHHHhcCCCCeEEEEecCCCCCCcccccCCC
Q psy14655          5 SKGGVGKSTTTVNLATAMKICYPDKEIGILDADVFGPSIPILMNLP   50 (261)
Q Consensus         5 ~KGGvGKTT~a~~lA~~la~~g~~~~VllvD~D~~~~~~~~~~~~~   50 (261)
                      +-.|+||||+|+.|..+|-++|  +-.-.+|-|--...+..-++..
T Consensus        38 GLSgSGKStlACaL~q~L~qrg--kl~Y~LDGDNvRhGLN~DL~F~   81 (207)
T KOG0635|consen   38 GLSGSGKSTLACALSQALLQRG--KLTYILDGDNVRHGLNKDLGFK   81 (207)
T ss_pred             ccCCCCchhHHHHHHHHHHhcC--ceEEEecCcccccccccccCcc
Confidence            4469999999999999999999  9999999997766554444443

>cd00544 CobU Adenosylcobinamide kinase / adenosylcobinamide phosphate guanyltransferase (CobU)

Probab=95.70  E-value=0.089  Score=40.84  Aligned_cols=31  Identities=16%  Similarity=0.161  Sum_probs=24.9

Q ss_pred             cccCCCCCcHHHHHHHHHHHHHhcCCCCeEEEEecC
Q psy14655          2 IASSKGGVGKSTTTVNLATAMKICYPDKEIGILDAD   37 (261)
Q Consensus         2 v~s~KGGvGKTT~a~~lA~~la~~g~~~~VllvD~D   37 (261)
                      ++.+.-|+|||++|.+++..   .+  .+++++...
T Consensus         3 li~G~~~sGKS~~a~~~~~~---~~--~~~~y~at~   33 (169)
T cd00544           3 LVTGGARSGKSRFAERLAAE---LG--GPVTYIATA   33 (169)
T ss_pred             EEECCCCCCHHHHHHHHHHh---cC--CCeEEEEcc
Confidence            45677899999999999865   66  899999544

CobU is bifunctional cobalbumin biosynthesis enzymes which display adenosylcobinamide kinase and adenosylcobinamide phosphate guanyltransferase activity. This enzyme is a homotrimer with a propeller-like shape.

>cd04137 RheB Rheb (Ras Homolog Enriched in Brain) subfamily

Probab=95.69  E-value=0.051  Score=42.18  Aligned_cols=65  Identities=17%  Similarity=0.155  Sum_probs=39.1

Q ss_pred             CCCCEEEEeCCCCCChh--HHHHhhhcCCCeEEEEeC-CCcchHHHHHHHHHHHHh----CCCCeEEEEEcCCCC
Q psy14655        105 GPCDILFIDTPPGTGDT--HLSLIQNLFIDTAIIITI-PDTMSLQVAQRGYTMFKK----LNIPVAGLVMNMNSV  172 (261)
Q Consensus       105 ~~yd~IiiD~~~~~~~~--~~~~~~~~~ad~viiv~~-~~~~s~~~~~~~~~~l~~----~~~~~~giv~N~~~~  172 (261)
                      ..|.+.++|+|+.....  .......  ++.++++.. .+..++..+..+.+.+.+    .+.+ +-++.|+++.
T Consensus        47 ~~~~~~l~D~~g~~~~~~~~~~~~~~--~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~p-~ilv~NK~Dl  118 (180)
T cd04137          47 QDYHLEIVDTAGQDEYSILPQKYSIG--IHGYILVYSVTSRKSFEVVKVIYDKILDMLGKESVP-IVLVGNKSDL  118 (180)
T ss_pred             EEEEEEEEECCChHhhHHHHHHHHhh--CCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCC-EEEEEEchhh
Confidence            35778999998643221  1123333  777777776 444566666666554433    2344 5599999764

Rheb was initially identified in rat brain, where its expression is elevated by seizures or by long-term potentiation. It is expressed ubiquitously, with elevated levels in muscle and brain. Rheb functions as an important mediator between the tuberous sclerosis complex proteins, TSC1 and TSC2, and the mammalian target of rapamycin (TOR) kinase to stimulate cell growth. TOR kinase regulates cell growth by controlling nutrient availability, growth factors, and the energy status of the cell. TSC1 and TSC2 form a dimeric complex that has tumor suppressor activity, and TSC2 is a GTPase activating protein (GAP) for Rheb. The TSC1/TSC2 complex inhibits the activation of TOR kinase through Rheb. Rheb has also been shown to induce the formation of large cytoplasmic vacuoles in a process that is dependent on the GTPase cycle of Rheb, but independent of the TOR kinase, suggesting Rheb plays a role in endocytic trafficking that le

>cd04120 Rab12 Rab12 subfamily

Probab=95.69  E-value=0.11  Score=41.63  Aligned_cols=66  Identities=12%  Similarity=-0.001  Sum_probs=45.2

Q ss_pred             CCCCEEEEeCCCCCCh--hHHHHhhhcCCCeEEEEeC-CCcchHHHHHHHHHHHHhCCC--CeEEEEEcCCCC
Q psy14655        105 GPCDILFIDTPPGTGD--THLSLIQNLFIDTAIIITI-PDTMSLQVAQRGYTMFKKLNI--PVAGLVMNMNSV  172 (261)
Q Consensus       105 ~~yd~IiiD~~~~~~~--~~~~~~~~~~ad~viiv~~-~~~~s~~~~~~~~~~l~~~~~--~~~giv~N~~~~  172 (261)
                      ..+.+.|.|+++.-..  .....+..  ||.+|+|.+ .+..++..+...++.+.....  ..+.+|.|+.+.
T Consensus        47 ~~v~l~iwDtaGqe~~~~l~~~y~~~--ad~iIlVfDvtd~~Sf~~l~~w~~~i~~~~~~~~piilVgNK~DL  117 (202)
T cd04120          47 KKIRLQIWDTAGQERFNSITSAYYRS--AKGIILVYDITKKETFDDLPKWMKMIDKYASEDAELLLVGNKLDC  117 (202)
T ss_pred             EEEEEEEEeCCCchhhHHHHHHHhcC--CCEEEEEEECcCHHHHHHHHHHHHHHHHhCCCCCcEEEEEECccc
Confidence            3578899999864322  22333444  899999998 667888888887777765421  246689999775

Rab12 was first identified in canine cells, where it was localized to the Golgi complex. The specific function of Rab12 remains unknown, and inconsistent results about its cellular localization have been reported. More recent studies have identified Rab12 associated with post-Golgi vesicles, or with other small vesicle-like structures but not with the Golgi complex. 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. 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

>PRK05480 uridine/cytidine kinase; Provisional

Probab=95.68  E-value=0.012  Score=47.22  Aligned_cols=34  Identities=18%  Similarity=0.327  Sum_probs=28.7

Q ss_pred             cccCCCCCcHHHHHHHHHHHHHhcCCCCeEEEEecCCC
Q psy14655          2 IASSKGGVGKSTTTVNLATAMKICYPDKEIGILDADVF   39 (261)
Q Consensus         2 v~s~KGGvGKTT~a~~lA~~la~~g~~~~VllvD~D~~   39 (261)
                      .+++..|+||||++..|+..+  .+  .++.+++.|..
T Consensus        10 ~I~G~sGsGKTTl~~~l~~~l--~~--~~~~~i~~D~~   43 (209)
T PRK05480         10 GIAGGSGSGKTTVASTIYEEL--GD--ESIAVIPQDSY   43 (209)
T ss_pred             EEECCCCCCHHHHHHHHHHHh--CC--CceEEEeCCcc
Confidence            357889999999999999988  45  78999999864

>cd04142 RRP22 RRP22 subfamily

Probab=95.67  E-value=0.12  Score=41.09  Aligned_cols=64  Identities=14%  Similarity=0.080  Sum_probs=40.8

Q ss_pred             CCCEEEEeCCCCC------Chh----HHHHhhhcCCCeEEEEeCC-CcchHHHHHHHHHHHHhC------CCCeEEEEEc
Q psy14655        106 PCDILFIDTPPGT------GDT----HLSLIQNLFIDTAIIITIP-DTMSLQVAQRGYTMFKKL------NIPVAGLVMN  168 (261)
Q Consensus       106 ~yd~IiiD~~~~~------~~~----~~~~~~~~~ad~viiv~~~-~~~s~~~~~~~~~~l~~~------~~~~~giv~N  168 (261)
                      .+.+.|+|+|+..      +..    ....+..  ||.+++|.+. +..++..+..+.+.+.+.      +. .+-+|.|
T Consensus        48 ~~~l~i~Dt~G~~~~~~~~~~e~~~~~~~~~~~--ad~iilv~D~~~~~S~~~~~~~~~~i~~~~~~~~~~~-piiivgN  124 (198)
T cd04142          48 VYDLHILDVPNMQRYPGTAGQEWMDPRFRGLRN--SRAFILVYDICSPDSFHYVKLLRQQILETRPAGNKEP-PIVVVGN  124 (198)
T ss_pred             EEEEEEEeCCCcccCCccchhHHHHHHHhhhcc--CCEEEEEEECCCHHHHHHHHHHHHHHHHhcccCCCCC-CEEEEEE
Confidence            4788899997521      111    1122344  9999999985 556777777766655432      23 4669999


Q ss_pred             CCCC
Q psy14655        169 MNSV  172 (261)
Q Consensus       169 ~~~~  172 (261)
                      +.+.
T Consensus       125 K~Dl  128 (198)
T cd04142         125 KRDQ  128 (198)
T ss_pred             Cccc
Confidence            9775

RRP22 (Ras-related protein on chromosome 22) subfamily consists of proteins that inhibit cell growth and promote caspase-independent cell death. Unlike most Ras proteins, RRP22 is down-regulated in many human tumor cells due to promoter methylation. RRP22 localizes to the nucleolus in a GTP-dependent manner, suggesting a novel function in modulating transport of nucleolar components. 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 most Ras proteins. Like most Ras family proteins, RRP22 is farnesylated.

>COG1763 MobB Molybdopterin-guanine dinucleotide biosynthesis protein [Coenzyme metabolism]

Probab=95.63  E-value=0.038  Score=42.44  Aligned_cols=33  Identities=15%  Similarity=0.103  Sum_probs=29.1

Q ss_pred             CCCCcHHHHHHHHHHHHHhcCCCCeEEEEecCCCC
Q psy14655          6 KGGVGKSTTTVNLATAMKICYPDKEIGILDADVFG   40 (261)
Q Consensus         6 KGGvGKTT~a~~lA~~la~~g~~~~VllvD~D~~~   40 (261)
                      .-|+||||+.-.+...|..+|  ++|.+|--....
T Consensus        10 ~k~SGKTTLie~lv~~L~~~G--~rVa~iKH~hh~   42 (161)
T COG1763          10 YKNSGKTTLIEKLVRKLKARG--YRVATVKHAHHD   42 (161)
T ss_pred             cCCCChhhHHHHHHHHHHhCC--cEEEEEEecCCC
Confidence            448999999999999999999  999999766654

>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=95.62  E-value=0.016  Score=48.53  Aligned_cols=35  Identities=26%  Similarity=0.224  Sum_probs=26.9

Q ss_pred             cccCCCCCcHHHHHHHHHHHHHhcCCCCeEEEEecCC
Q psy14655          2 IASSKGGVGKSTTTVNLATAMKICYPDKEIGILDADV   38 (261)
Q Consensus         2 v~s~KGGvGKTT~a~~lA~~la~~g~~~~VllvD~D~   38 (261)
                      +++|--|+||||+|..|+..+...+  .+|.+|+-|.
T Consensus         5 il~G~P~SGKTt~a~~L~~~~~~~~--~~v~~i~~~~   39 (270)
T PF08433_consen    5 ILCGLPCSGKTTRAKELKKYLEEKG--KEVVIISDDS   39 (270)
T ss_dssp             EEE--TTSSHHHHHHHHHHHHHHTT----EEEE-THH
T ss_pred             EEEcCCCCcHHHHHHHHHHHHHhcC--CEEEEEcccc
Confidence            6778899999999999999999988  9999999543

The Elongator complex has histone acetyltransferase activity. ; PDB: 3ADB_B 3ADC_B 3A4M_B 3A4N_B 3AM1_A 3A4L_B 3ADD_A.

>PRK04301 radA DNA repair and recombination protein RadA; Validated

Probab=95.62  E-value=0.025  Score=48.58  Aligned_cols=38  Identities=16%  Similarity=0.079  Sum_probs=29.9

Q ss_pred             ccCCCCCcHHHHHHHHHHHHHhcC----CCCeEEEEecCCCC
Q psy14655          3 ASSKGGVGKSTTTVNLATAMKICY----PDKEIGILDADVFG   40 (261)
Q Consensus         3 ~s~KGGvGKTT~a~~lA~~la~~g----~~~~VllvD~D~~~   40 (261)
                      +.+..|+|||+++.++|...+..+    .+.+|++||++...
T Consensus       107 i~G~~GsGKT~l~~~~~~~~~~~~~~gg~~~~~~yi~te~~f  148 (317)
T PRK04301        107 FYGEFGSGKTQICHQLAVNVQLPEEKGGLEGKAVYIDTEGTF  148 (317)
T ss_pred             EECCCCCCHhHHHHHHHHHhccccccCCCCceEEEEeCCCCc
Confidence            456789999999999998877532    12599999998743

>cd04101 RabL4 RabL4 (Rab-like4) subfamily

Probab=95.61  E-value=0.047  Score=41.58  Aligned_cols=66  Identities=12%  Similarity=0.062  Sum_probs=41.1

Q ss_pred             CCCCEEEEeCCCCCC--hhHHHHhhhcCCCeEEEEeCCC-cchHHHHHHHHHHHHhCC-CCeEEEEEcCCCC
Q psy14655        105 GPCDILFIDTPPGTG--DTHLSLIQNLFIDTAIIITIPD-TMSLQVAQRGYTMFKKLN-IPVAGLVMNMNSV  172 (261)
Q Consensus       105 ~~yd~IiiD~~~~~~--~~~~~~~~~~~ad~viiv~~~~-~~s~~~~~~~~~~l~~~~-~~~~giv~N~~~~  172 (261)
                      ....+.++|+|+...  ......+..  +|.++++.+.+ ..+...+..+++.+.... -..+.+|.|+.+.
T Consensus        50 ~~~~l~i~Dt~G~~~~~~~~~~~~~~--~d~ii~v~d~~~~~s~~~~~~~~~~~~~~~~~~p~ilv~nK~Dl  119 (164)
T cd04101          50 NTVELFIFDSAGQELYSDMVSNYWES--PSVFILVYDVSNKASFENCSRWVNKVRTASKHMPGVLVGNKMDL  119 (164)
T ss_pred             CEEEEEEEECCCHHHHHHHHHHHhCC--CCEEEEEEECcCHHHHHHHHHHHHHHHHhCCCCCEEEEEECccc
Confidence            456889999985321  122233333  89999999854 455666666666665542 1235688999664

RabL4s are novel proteins that have high sequence similarity with Rab family members, but display features that are distinct from Rabs, and have been termed Rab-like. As in other Rab-like proteins, RabL4 lacks a prenylation site at the C-terminus. The specific function of RabL4 remains unknown.

>TIGR02236 recomb_radA DNA repair and recombination protein RadA

Probab=95.61  E-value=0.015  Score=49.74  Aligned_cols=38  Identities=16%  Similarity=0.067  Sum_probs=29.4

Q ss_pred             ccCCCCCcHHHHHHHHHHHHHhc----CCCCeEEEEecCCCC
Q psy14655          3 ASSKGGVGKSTTTVNLATAMKIC----YPDKEIGILDADVFG   40 (261)
Q Consensus         3 ~s~KGGvGKTT~a~~lA~~la~~----g~~~~VllvD~D~~~   40 (261)
                      +.+.-|+|||+++.++|...+..    |.+.+|++||..-..
T Consensus       100 i~G~~g~GKT~l~~~~~~~~~~~~~~g~~~~~~~yi~te~~f  141 (310)
T TIGR02236       100 VFGEFGSGKTQICHQLAVNVQLPEEKGGLGGKAVYIDTENTF  141 (310)
T ss_pred             EECCCCCCHHHHHHHHHHHhcCCcccCCCcceEEEEECCCCC
Confidence            46778999999999999887641    111599999998653

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.

>PRK05433 GTP-binding protein LepA; Provisional

Probab=95.58  E-value=0.064  Score=50.20  Aligned_cols=65  Identities=11%  Similarity=0.016  Sum_probs=42.3

Q ss_pred             CCCCEEEEeCCCCCC--hhHHHHhhhcCCCeEEEEeCCCcchHHHHHHHHHHHHhCCCCeEEEEEcCCCC
Q psy14655        105 GPCDILFIDTPPGTG--DTHLSLIQNLFIDTAIIITIPDTMSLQVAQRGYTMFKKLNIPVAGLVMNMNSV  172 (261)
Q Consensus       105 ~~yd~IiiD~~~~~~--~~~~~~~~~~~ad~viiv~~~~~~s~~~~~~~~~~l~~~~~~~~giv~N~~~~  172 (261)
                      ++|.+.|+|||+..+  ......+..  ||.+++|++.+...-......+..+...+.+ +-+|+|+.+.
T Consensus        72 ~~~~lnLiDTPGh~dF~~~v~~sl~~--aD~aILVVDas~gv~~qt~~~~~~~~~~~lp-iIvViNKiDl  138 (600)
T PRK05433         72 ETYILNLIDTPGHVDFSYEVSRSLAA--CEGALLVVDASQGVEAQTLANVYLALENDLE-IIPVLNKIDL  138 (600)
T ss_pred             CcEEEEEEECCCcHHHHHHHHHHHHH--CCEEEEEEECCCCCCHHHHHHHHHHHHCCCC-EEEEEECCCC
Confidence            468899999996543  223344555  9999999997654323333334444455777 5589999774

>PRK05642 DNA replication initiation factor; Validated

Probab=95.57  E-value=0.013  Score=48.14  Aligned_cols=35  Identities=17%  Similarity=0.033  Sum_probs=31.2

Q ss_pred             cccCCCCCcHHHHHHHHHHHHHhcCCCCeEEEEecCC
Q psy14655          2 IASSKGGVGKSTTTVNLATAMKICYPDKEIGILDADV   38 (261)
Q Consensus         2 v~s~KGGvGKTT~a~~lA~~la~~g~~~~VllvD~D~   38 (261)
                      +..++.|+|||.++..++..+.+.|  ++|++++++-
T Consensus        49 ~l~G~~G~GKTHLl~a~~~~~~~~~--~~v~y~~~~~   83 (234)
T PRK05642         49 YLWGKDGVGRSHLLQAACLRFEQRG--EPAVYLPLAE   83 (234)
T ss_pred             EEECCCCCCHHHHHHHHHHHHHhCC--CcEEEeeHHH
Confidence            4668899999999999999998888  9999999864

>PRK09302 circadian clock protein KaiC; Reviewed

Probab=95.56  E-value=0.02  Score=52.55  Aligned_cols=38  Identities=11%  Similarity=0.009  Sum_probs=32.8

Q ss_pred             cccCCCCCcHHHHHHHHHHHHHhc-CCCCeEEEEecCCCCC
Q psy14655          2 IASSKGGVGKSTTTVNLATAMKIC-YPDKEIGILDADVFGP   41 (261)
Q Consensus         2 v~s~KGGvGKTT~a~~lA~~la~~-g~~~~VllvD~D~~~~   41 (261)
                      ++.+-.|+||||++.+++...+++ |  .+|++|.++....
T Consensus        35 li~G~pGsGKT~l~~qf~~~~~~~~g--e~~lyis~ee~~~   73 (509)
T PRK09302         35 LVSGTAGTGKTLFALQFLVNGIKRFD--EPGVFVTFEESPE   73 (509)
T ss_pred             EEEeCCCCCHHHHHHHHHHHHHHhcC--CCEEEEEccCCHH
Confidence            345678999999999999988887 8  9999999998654

>PRK12377 putative replication protein; Provisional

Probab=95.55  E-value=0.016  Score=47.97  Aligned_cols=34  Identities=15%  Similarity=0.229  Sum_probs=30.1

Q ss_pred             cccCCCCCcHHHHHHHHHHHHHhcCCCCeEEEEecC
Q psy14655          2 IASSKGGVGKSTTTVNLATAMKICYPDKEIGILDAD   37 (261)
Q Consensus         2 v~s~KGGvGKTT~a~~lA~~la~~g~~~~VllvD~D   37 (261)
                      +..+.-|+|||+++..+|..+.+.|  ++|+++...
T Consensus       105 ~l~G~~GtGKThLa~AIa~~l~~~g--~~v~~i~~~  138 (248)
T PRK12377        105 VFSGKPGTGKNHLAAAIGNRLLAKG--RSVIVVTVP  138 (248)
T ss_pred             EEECCCCCCHHHHHHHHHHHHHHcC--CCeEEEEHH
Confidence            4567789999999999999999999  999998774

>cd04110 Rab35 Rab35 subfamily

Probab=95.55  E-value=0.15  Score=40.58  Aligned_cols=65  Identities=14%  Similarity=0.034  Sum_probs=41.5

Q ss_pred             CCCEEEEeCCCCCC--hhHHHHhhhcCCCeEEEEeCC-CcchHHHHHHHHHHHHhC-CCCeEEEEEcCCCC
Q psy14655        106 PCDILFIDTPPGTG--DTHLSLIQNLFIDTAIIITIP-DTMSLQVAQRGYTMFKKL-NIPVAGLVMNMNSV  172 (261)
Q Consensus       106 ~yd~IiiD~~~~~~--~~~~~~~~~~~ad~viiv~~~-~~~s~~~~~~~~~~l~~~-~~~~~giv~N~~~~  172 (261)
                      .+.+.|+|+|+...  ......+..  +|.+++|.+. +..++..+...++.+... ....+.+|.|+.+.
T Consensus        54 ~~~l~l~D~~G~~~~~~~~~~~~~~--a~~iilv~D~~~~~s~~~~~~~~~~i~~~~~~~piivVgNK~Dl  122 (199)
T cd04110          54 RVKLQIWDTAGQERFRTITSTYYRG--THGVIVVYDVTNGESFVNVKRWLQEIEQNCDDVCKVLVGNKNDD  122 (199)
T ss_pred             EEEEEEEeCCCchhHHHHHHHHhCC--CcEEEEEEECCCHHHHHHHHHHHHHHHHhCCCCCEEEEEECccc
Confidence            35688999986432  222333444  8888888885 556777777777766553 22235588999764

Rab35 is one of several Rab proteins to be found to participate in the regulation of osteoclast cells in rats. In addition, Rab35 has been identified as a protein that interacts with nucleophosmin-anaplastic lymphoma kinase (NPM-ALK) in human cells. Overexpression of NPM-ALK is a key oncogenic event in some anaplastic large-cell lymphomas; since Rab35 interacts with N|PM-ALK, it may provide a target for cancer treatments. 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

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

Probab=95.54  E-value=0.012  Score=46.69  Aligned_cols=34  Identities=26%  Similarity=0.168  Sum_probs=27.7

Q ss_pred             ccCCCCCcHHHHHHHHHHHHHhcCCCCe----EEEEecCC
Q psy14655          3 ASSKGGVGKSTTTVNLATAMKICYPDKE----IGILDADV   38 (261)
Q Consensus         3 ~s~KGGvGKTT~a~~lA~~la~~g~~~~----VllvD~D~   38 (261)
                      +++-.|+||||+|..|+..|.+.|  .+    +.++..|-
T Consensus         4 I~G~sgSGKTTla~~L~~~L~~~~--~~~~~~~~~~~~d~   41 (194)
T PF00485_consen    4 IAGPSGSGKTTLAKRLAQILNKRG--IPAMEMDIILSLDD   41 (194)
T ss_dssp             EEESTTSSHHHHHHHHHHHHTTCT--TTCCCSEEEEEGGG
T ss_pred             EECCCCCCHHHHHHHHHHHhCccC--cCccceeEEEeecc
Confidence            567789999999999999999888  65    55665553

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 ....

>PRK09519 recA DNA recombination protein RecA; Reviewed

Probab=95.50  E-value=0.026  Score=53.85  Aligned_cols=36  Identities=14%  Similarity=0.099  Sum_probs=31.7

Q ss_pred             ccCCCCCcHHHHHHHHHHHHHhcCCCCeEEEEecCCCC
Q psy14655          3 ASSKGGVGKSTTTVNLATAMKICYPDKEIGILDADVFG   40 (261)
Q Consensus         3 ~s~KGGvGKTT~a~~lA~~la~~g~~~~VllvD~D~~~   40 (261)
                      +.+-.|+||||++.+++...++.|  .+|++||.....
T Consensus        65 I~G~~GsGKTtLal~~~~~a~~~G--~~v~yId~E~t~  100 (790)
T PRK09519         65 IYGPESSGKTTVALHAVANAQAAG--GVAAFIDAEHAL  100 (790)
T ss_pred             EECCCCCCHHHHHHHHHHHHHHcC--CcEEEECCccch
Confidence            456779999999999999998999  999999998764

>PRK08727 hypothetical protein; Validated

Probab=95.49  E-value=0.014  Score=47.79  Aligned_cols=35  Identities=20%  Similarity=0.246  Sum_probs=31.3

Q ss_pred             cccCCCCCcHHHHHHHHHHHHHhcCCCCeEEEEecCC
Q psy14655          2 IASSKGGVGKSTTTVNLATAMKICYPDKEIGILDADV   38 (261)
Q Consensus         2 v~s~KGGvGKTT~a~~lA~~la~~g~~~~VllvD~D~   38 (261)
                      +..+..|+|||.++..++..+.+.|  ++|.++.++-
T Consensus        45 ~l~G~~G~GKThL~~a~~~~~~~~~--~~~~y~~~~~   79 (233)
T PRK08727         45 YLSGPAGTGKTHLALALCAAAEQAG--RSSAYLPLQA   79 (233)
T ss_pred             EEECCCCCCHHHHHHHHHHHHHHcC--CcEEEEeHHH
Confidence            5678899999999999999999999  9999998754

>TIGR00073 hypB hydrogenase accessory protein HypB

Probab=95.48  E-value=0.33  Score=38.87  Aligned_cols=34  Identities=29%  Similarity=0.380  Sum_probs=27.7

Q ss_pred             ccCCCCCcHHHHHHHHHHHHHhcCCCCeEEEEecCCC
Q psy14655          3 ASSKGGVGKSTTTVNLATAMKICYPDKEIGILDADVF   39 (261)
Q Consensus         3 ~s~KGGvGKTT~a~~lA~~la~~g~~~~VllvD~D~~   39 (261)
                      +.+--|+||||+..+++..+. .+  .+|.++..|+.
T Consensus        27 ~~G~~gsGKTTli~~l~~~~~-~~--~~v~v~~~~~~   60 (207)
T TIGR00073        27 FMSSPGSGKTTLIEKLIDNLK-DE--VKIAVIEGDVI   60 (207)
T ss_pred             EECCCCCCHHHHHHHHHHHHh-cC--CeEEEEECCCC
Confidence            445669999999999998774 45  89999998875

HypB is implicated in insertion of nickel into the large subunit of NiFe hydrogenases.

>PRK15453 phosphoribulokinase; Provisional

Probab=95.45  E-value=0.019  Score=48.15  Aligned_cols=36  Identities=14%  Similarity=0.302  Sum_probs=31.8

Q ss_pred             ccCCCCCcHHHHHHHHHHHHHhcCCCCeEEEEecCCCC
Q psy14655          3 ASSKGGVGKSTTTVNLATAMKICYPDKEIGILDADVFG   40 (261)
Q Consensus         3 ~s~KGGvGKTT~a~~lA~~la~~g~~~~VllvD~D~~~   40 (261)
                      +.+-.|+||||++..++..|...+  .++.+++.|.-.
T Consensus        10 ItG~SGsGKTTva~~l~~if~~~~--~~~~vi~~D~yh   45 (290)
T PRK15453         10 VTGSSGAGTTTVKRAFEKIFRREN--INAAVVEGDSFH   45 (290)
T ss_pred             EECCCCCCHHHHHHHHHHHHhhcC--CCeEEEeccccc
Confidence            456779999999999999998888  899999999765

>cd01887 IF2_eIF5B IF2/eIF5B (initiation factors 2/ eukaryotic initiation factor 5B) subfamily

Probab=95.45  E-value=0.075  Score=40.52  Aligned_cols=65  Identities=23%  Similarity=0.191  Sum_probs=43.7

Q ss_pred             CCCCEEEEeCCCCCChh--HHHHhhhcCCCeEEEEeCCCcchHHHHHHHHHHHHhCCCCeEEEEEcCCCC
Q psy14655        105 GPCDILFIDTPPGTGDT--HLSLIQNLFIDTAIIITIPDTMSLQVAQRGYTMFKKLNIPVAGLVMNMNSV  172 (261)
Q Consensus       105 ~~yd~IiiD~~~~~~~~--~~~~~~~~~ad~viiv~~~~~~s~~~~~~~~~~l~~~~~~~~giv~N~~~~  172 (261)
                      ..+++.++|||+.....  .......  +|.+++|+.++..........+..+...+.+ +.+|+|+.+.
T Consensus        48 ~~~~~~iiDtpG~~~~~~~~~~~~~~--~d~il~v~d~~~~~~~~~~~~~~~~~~~~~p-~ivv~NK~Dl  114 (168)
T cd01887          48 KIPGITFIDTPGHEAFTNMRARGASL--TDIAILVVAADDGVMPQTIEAIKLAKAANVP-FIVALNKIDK  114 (168)
T ss_pred             CcceEEEEeCCCcHHHHHHHHHHHhh--cCEEEEEEECCCCccHHHHHHHHHHHHcCCC-EEEEEEceec
Confidence            57899999999643211  2223333  8999999998765444555556666667777 5588999664

IF2/eIF5B contribute to ribosomal subunit joining and function as GTPases that are maximally activated by the presence of both ribosomal subunits. As seen in other GTPases, IF2/IF5B undergoes conformational changes between its GTP- and GDP-bound states. Eukaryotic IF2/eIF5Bs possess three characteristic segments, including a divergent N-terminal region followed by conserved central and C-terminal segments. This core region is conserved among all known eukaryotic and archaeal IF2/eIF5Bs and eubacterial IF2s.

>TIGR03881 KaiC_arch_4 KaiC domain protein, PAE1156 family

Probab=95.45  E-value=0.022  Score=46.44  Aligned_cols=37  Identities=11%  Similarity=0.026  Sum_probs=31.7

Q ss_pred             cccCCCCCcHHHHHHHHHHHHHhcCCCCeEEEEecCCCC
Q psy14655          2 IASSKGGVGKSTTTVNLATAMKICYPDKEIGILDADVFG   40 (261)
Q Consensus         2 v~s~KGGvGKTT~a~~lA~~la~~g~~~~VllvD~D~~~   40 (261)
                      ++.+.-|+||||++.+++...++.|  .+|+++.++...
T Consensus        24 ~i~G~~G~GKT~l~~~~~~~~~~~g--~~~~~is~e~~~   60 (229)
T TIGR03881        24 AVTGEPGTGKTIFCLHFAYKGLRDG--DPVIYVTTEESR   60 (229)
T ss_pred             EEECCCCCChHHHHHHHHHHHHhcC--CeEEEEEccCCH
Confidence            3567789999999999998888888  999999997654

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.

>TIGR00455 apsK adenylylsulfate kinase (apsK)

Probab=95.44  E-value=0.017  Score=45.37  Aligned_cols=37  Identities=24%  Similarity=0.229  Sum_probs=31.2

Q ss_pred             cccCCCCCcHHHHHHHHHHHHHhcCCCCeEEEEecCCCC
Q psy14655          2 IASSKGGVGKSTTTVNLATAMKICYPDKEIGILDADVFG   40 (261)
Q Consensus         2 v~s~KGGvGKTT~a~~lA~~la~~g~~~~VllvD~D~~~   40 (261)
                      ++.+..|+||||++..|+..+...|  ..++++|.|.-.
T Consensus        22 ~i~G~~GsGKstla~~l~~~l~~~~--~~~~~l~~d~~r   58 (184)
T TIGR00455        22 WLTGLSGSGKSTIANALEKKLESKG--YRVYVLDGDNVR   58 (184)
T ss_pred             EEECCCCCCHHHHHHHHHHHHHHcC--CcEEEECChHHH
Confidence            3556679999999999999998888  889999887644

Important residue (active site in E.coli) is residue 100 of the seed alignment.

>PRK14088 dnaA chromosomal replication initiation protein; Provisional

Probab=95.44  E-value=0.015  Score=52.38  Aligned_cols=37  Identities=14%  Similarity=0.182  Sum_probs=31.4

Q ss_pred             cccCCCCCcHHHHHHHHHHHHHhcCCCCeEEEEecCC
Q psy14655          2 IASSKGGVGKSTTTVNLATAMKICYPDKEIGILDADV   38 (261)
Q Consensus         2 v~s~KGGvGKTT~a~~lA~~la~~g~~~~VllvD~D~   38 (261)
                      +..+..|+|||+++..+|..+.+.+++.+|++++++-
T Consensus       134 ~lyG~~G~GKTHLl~ai~~~l~~~~~~~~v~yi~~~~  170 (440)
T PRK14088        134 FIYGGVGLGKTHLLQSIGNYVVQNEPDLRVMYITSEK  170 (440)
T ss_pred             EEEcCCCCcHHHHHHHHHHHHHHhCCCCeEEEEEHHH
Confidence            5667889999999999999998875558999998753

>KOG0460|consensus

Probab=95.43  E-value=0.049  Score=46.51  Aligned_cols=65  Identities=9%  Similarity=0.121  Sum_probs=52.1

Q ss_pred             CEEEEeCCCCCChhHHHHhhhcCCCeEEEEeCCCcchHHHHHHHHHHHHhCCCCeEEEEEcCCCC
Q psy14655        108 DILFIDTPPGTGDTHLSLIQNLFIDTAIIITIPDTMSLQVAQRGYTMFKKLNIPVAGLVMNMNSV  172 (261)
Q Consensus       108 d~IiiD~~~~~~~~~~~~~~~~~ad~viiv~~~~~~s~~~~~~~~~~l~~~~~~~~giv~N~~~~  172 (261)
                      .|-=+|||+..+...-++.-++..|..|+|+..+..-+-++..-+-..+..+.+.+.+.+|+++.
T Consensus       118 hYaH~DCPGHADYIKNMItGaaqMDGaILVVaatDG~MPQTrEHlLLArQVGV~~ivvfiNKvD~  182 (449)
T KOG0460|consen  118 HYAHTDCPGHADYIKNMITGAAQMDGAILVVAATDGPMPQTREHLLLARQVGVKHIVVFINKVDL  182 (449)
T ss_pred             ccccCCCCchHHHHHHhhcCccccCceEEEEEcCCCCCcchHHHHHHHHHcCCceEEEEEecccc
Confidence            44457999876655544444444799999999999999999998888899999999999999775

>PRK06835 DNA replication protein DnaC; Validated

Probab=95.42  E-value=0.017  Score=49.87  Aligned_cols=35  Identities=20%  Similarity=0.106  Sum_probs=30.9

Q ss_pred             cccCCCCCcHHHHHHHHHHHHHhcCCCCeEEEEecCC
Q psy14655          2 IASSKGGVGKSTTTVNLATAMKICYPDKEIGILDADV   38 (261)
Q Consensus         2 v~s~KGGvGKTT~a~~lA~~la~~g~~~~VllvD~D~   38 (261)
                      ++.+.-|+|||+++..+|..+...|  ++|+++.++-
T Consensus       187 ll~G~~GtGKThLa~aIa~~l~~~g--~~V~y~t~~~  221 (329)
T PRK06835        187 LFYGNTGTGKTFLSNCIAKELLDRG--KSVIYRTADE  221 (329)
T ss_pred             EEECCCCCcHHHHHHHHHHHHHHCC--CeEEEEEHHH
Confidence            4557789999999999999999999  9999998753

>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=95.40  E-value=0.022  Score=46.23  Aligned_cols=35  Identities=26%  Similarity=0.290  Sum_probs=29.2

Q ss_pred             ccCCCCCcHHHHHHHHHHHHHh--cCCCCeEEEEecCCC
Q psy14655          3 ASSKGGVGKSTTTVNLATAMKI--CYPDKEIGILDADVF   39 (261)
Q Consensus         3 ~s~KGGvGKTT~a~~lA~~la~--~g~~~~VllvD~D~~   39 (261)
                      +++..|+||||+|..|+..|..  .+  .+|.+|-.|-.
T Consensus         4 I~G~sGSGKTTla~~L~~~l~~~~~~--~~v~vi~~D~f   40 (220)
T cd02025           4 IAGSVAVGKSTTARVLQALLSRWPDH--PNVELITTDGF   40 (220)
T ss_pred             eeCCCCCCHHHHHHHHHHHHhhcCCC--CcEEEEecCcc
Confidence            4577899999999999999986  45  78888888855

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

>COG2874 FlaH Predicted ATPases involved in biogenesis of archaeal flagella [Cell motility and secretion / Intracellular trafficking and secretion]

Probab=95.39  E-value=0.035  Score=44.39  Aligned_cols=97  Identities=12%  Similarity=0.120  Sum_probs=57.1

Q ss_pred             CCCCcHHHHHHHHHHHHHhcCCCCeEEEEecCCCCCCcccccCCCCCCCCCcCCccccccccCceeecCCCCcccchhhh
Q psy14655          6 KGGVGKSTTTVNLATAMKICYPDKEIGILDADVFGPSIPILMNLPDTPLLNKDNLMIPLVNYGVKCLSMGNLITEKSAAI   85 (261)
Q Consensus         6 KGGvGKTT~a~~lA~~la~~g~~~~VllvD~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~   85 (261)
                      --|.|||-++..+++-+-.+|  ++|.+|-.....  ...+-.++. -..   +.....-...+.++|....     ...
T Consensus        36 d~~tGKSvLsqr~~YG~L~~g--~~v~yvsTe~T~--refi~qm~s-l~y---dv~~~~l~G~l~~~~~~~~-----~~~  102 (235)
T COG2874          36 DNGTGKSVLSQRFAYGFLMNG--YRVTYVSTELTV--REFIKQMES-LSY---DVSDFLLSGRLLFFPVNLE-----PVN  102 (235)
T ss_pred             CCCccHHHHHHHHHHHHHhCC--ceEEEEEechhH--HHHHHHHHh-cCC---CchHHHhcceeEEEEeccc-----ccc
Confidence            458999999999999999999  999999865432  111111110 000   0111112234556664222     112


Q ss_pred             hhchHHHHHHHHHHHHhccCCCCEEEEeCC
Q psy14655         86 WRGLMVMQALNKLTVQVQWGPCDILFIDTP  115 (261)
Q Consensus        86 ~~~~~~~~~l~~~l~~l~~~~yd~IiiD~~  115 (261)
                      |........|..+++..+.-++|+||||+=
T Consensus       103 ~~~~~~~~~L~~l~~~~k~~~~dViIIDSl  132 (235)
T COG2874         103 WGRRSARKLLDLLLEFIKRWEKDVIIIDSL  132 (235)
T ss_pred             cChHHHHHHHHHHHhhHHhhcCCEEEEecc
Confidence            222334445666777776678999999984

>PRK09183 transposase/IS protein; Provisional

Probab=95.38  E-value=0.019  Score=47.89  Aligned_cols=33  Identities=18%  Similarity=0.211  Sum_probs=28.5

Q ss_pred             cccCCCCCcHHHHHHHHHHHHHhcCCCCeEEEEec
Q psy14655          2 IASSKGGVGKSTTTVNLATAMKICYPDKEIGILDA   36 (261)
Q Consensus         2 v~s~KGGvGKTT~a~~lA~~la~~g~~~~VllvD~   36 (261)
                      +.-+.-|+|||+++..+|..+...|  ++|+++++
T Consensus       106 ~l~Gp~GtGKThLa~al~~~a~~~G--~~v~~~~~  138 (259)
T PRK09183        106 VLLGPSGVGKTHLAIALGYEAVRAG--IKVRFTTA  138 (259)
T ss_pred             EEEeCCCCCHHHHHHHHHHHHHHcC--CeEEEEeH
Confidence            3456789999999999999988888  99999863

>PRK06762 hypothetical protein; Provisional

Probab=95.36  E-value=0.014  Score=44.94  Aligned_cols=34  Identities=24%  Similarity=0.334  Sum_probs=27.2

Q ss_pred             cccCCCCCcHHHHHHHHHHHHHhcCCCCeEEEEecCCCC
Q psy14655          2 IASSKGGVGKSTTTVNLATAMKICYPDKEIGILDADVFG   40 (261)
Q Consensus         2 v~s~KGGvGKTT~a~~lA~~la~~g~~~~VllvD~D~~~   40 (261)
                      ++.+.-|+||||+|..|+..+   +  ..+.+++.|.-.
T Consensus         6 ~i~G~~GsGKST~A~~L~~~l---~--~~~~~i~~D~~r   39 (166)
T PRK06762          6 IIRGNSGSGKTTIAKQLQERL---G--RGTLLVSQDVVR   39 (166)
T ss_pred             EEECCCCCCHHHHHHHHHHHh---C--CCeEEecHHHHH
Confidence            467888999999999999887   5  567888876543

>PRK08903 DnaA regulatory inactivator Hda; Validated

Probab=95.35  E-value=0.019  Score=46.79  Aligned_cols=36  Identities=19%  Similarity=0.127  Sum_probs=31.8

Q ss_pred             cccCCCCCcHHHHHHHHHHHHHhcCCCCeEEEEecCCC
Q psy14655          2 IASSKGGVGKSTTTVNLATAMKICYPDKEIGILDADVF   39 (261)
Q Consensus         2 v~s~KGGvGKTT~a~~lA~~la~~g~~~~VllvD~D~~   39 (261)
                      ++.+.-|+|||+++..++..+...|  .++.++++...
T Consensus        46 ~l~G~~G~GKT~La~ai~~~~~~~~--~~~~~i~~~~~   81 (227)
T PRK08903         46 YLWGEAGSGRSHLLQALVADASYGG--RNARYLDAASP   81 (227)
T ss_pred             EEECCCCCCHHHHHHHHHHHHHhCC--CcEEEEehHHh
Confidence            4678889999999999999998888  99999998654

>PRK05541 adenylylsulfate kinase; Provisional

Probab=95.30  E-value=0.02  Score=44.56  Aligned_cols=35  Identities=29%  Similarity=0.391  Sum_probs=29.6

Q ss_pred             cccCCCCCcHHHHHHHHHHHHHhcCCCCeEEEEecCC
Q psy14655          2 IASSKGGVGKSTTTVNLATAMKICYPDKEIGILDADV   38 (261)
Q Consensus         2 v~s~KGGvGKTT~a~~lA~~la~~g~~~~VllvD~D~   38 (261)
                      ++.+--|+||||++..++..|...+  ..+.++|.|.
T Consensus        11 ~i~G~~GsGKst~a~~l~~~l~~~~--~~~~~~~~d~   45 (176)
T PRK05541         11 WITGLAGSGKTTIAKALYERLKLKY--SNVIYLDGDE   45 (176)
T ss_pred             EEEcCCCCCHHHHHHHHHHHHHHcC--CcEEEEecHH
Confidence            4566779999999999999999888  8888988654

>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=95.27  E-value=0.03  Score=36.43  Aligned_cols=30  Identities=30%  Similarity=0.419  Sum_probs=25.2

Q ss_pred             ccCCCCCcHHHHHHHHHHHHHhcCCCCeEEEEec
Q psy14655          3 ASSKGGVGKSTTTVNLATAMKICYPDKEIGILDA   36 (261)
Q Consensus         3 ~s~KGGvGKTT~a~~lA~~la~~g~~~~VllvD~   36 (261)
                      +.+--|+||||++..|+..|  .+  .++.++|-
T Consensus         4 i~G~~gsGKst~~~~l~~~l--~~--~~~~~i~~   33 (69)
T cd02019           4 ITGGSGSGKSTVAKKLAEQL--GG--RSVVVLDE   33 (69)
T ss_pred             EECCCCCCHHHHHHHHHHHh--cC--CCEEEEeE
Confidence            45677999999999999999  55  78888776

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.

>cd04125 RabA_like RabA-like subfamily

Probab=95.26  E-value=0.2  Score=39.25  Aligned_cols=66  Identities=11%  Similarity=-0.000  Sum_probs=41.7

Q ss_pred             CCCCEEEEeCCCCCCh--hHHHHhhhcCCCeEEEEeCC-CcchHHHHHHHHHHHHhCC--CCeEEEEEcCCCC
Q psy14655        105 GPCDILFIDTPPGTGD--THLSLIQNLFIDTAIIITIP-DTMSLQVAQRGYTMFKKLN--IPVAGLVMNMNSV  172 (261)
Q Consensus       105 ~~yd~IiiD~~~~~~~--~~~~~~~~~~ad~viiv~~~-~~~s~~~~~~~~~~l~~~~--~~~~giv~N~~~~  172 (261)
                      ..+.+.|.|+++....  .....+..  +|.++++.+. +..++..+..+++.+....  ...+.++.|+.+.
T Consensus        47 ~~~~~~i~Dt~g~~~~~~~~~~~~~~--~d~iilv~d~~~~~s~~~i~~~~~~i~~~~~~~~~~ivv~nK~Dl  117 (188)
T cd04125          47 KIIKLQIWDTNGQERFRSLNNSYYRG--AHGYLLVYDVTDQESFENLKFWINEINRYARENVIKVIVANKSDL  117 (188)
T ss_pred             EEEEEEEEECCCcHHHHhhHHHHccC--CCEEEEEEECcCHHHHHHHHHHHHHHHHhCCCCCeEEEEEECCCC
Confidence            3467889999864322  22233344  8999999985 4466666666666665432  1246789999664

RabA was first identified in D. discoideum, where its expression levels were compared to other Rabs in growing and developing cells. The RabA mRNA levels were below the level of detection by Northern blot analysis, suggesting a very low level of expression. The function of RabA remains unknown. 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.

>PRK05595 replicative DNA helicase; Provisional

Probab=95.25  E-value=0.021  Score=51.48  Aligned_cols=37  Identities=19%  Similarity=0.274  Sum_probs=32.4

Q ss_pred             cccCCCCCcHHHHHHHHHHHHH-hcCCCCeEEEEecCCCC
Q psy14655          2 IASSKGGVGKSTTTVNLATAMK-ICYPDKEIGILDADVFG   40 (261)
Q Consensus         2 v~s~KGGvGKTT~a~~lA~~la-~~g~~~~VllvD~D~~~   40 (261)
                      ++++.-|+|||+++.|+|..+| ++|  .+|+++.+.+..
T Consensus       205 viaarpg~GKT~~al~ia~~~a~~~g--~~vl~fSlEms~  242 (444)
T PRK05595        205 LIAARPSMGKTTFALNIAEYAALREG--KSVAIFSLEMSK  242 (444)
T ss_pred             EEEecCCCChHHHHHHHHHHHHHHcC--CcEEEEecCCCH
Confidence            5678889999999999999877 568  999999998754

>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=95.24  E-value=0.021  Score=42.13  Aligned_cols=37  Identities=19%  Similarity=0.090  Sum_probs=31.6

Q ss_pred             cccCCCCCcHHHHHHHHHHHHHhcCCCCeEEEEecCCCC
Q psy14655          2 IASSKGGVGKSTTTVNLATAMKICYPDKEIGILDADVFG   40 (261)
Q Consensus         2 v~s~KGGvGKTT~a~~lA~~la~~g~~~~VllvD~D~~~   40 (261)
                      ++.+..|+||||++..++..+...+  .++..+++....
T Consensus        23 ~i~G~~G~GKT~l~~~i~~~~~~~~--~~v~~~~~~~~~   59 (151)
T cd00009          23 LLYGPPGTGKTTLARAIANELFRPG--APFLYLNASDLL   59 (151)
T ss_pred             EEECCCCCCHHHHHHHHHHHhhcCC--CCeEEEehhhhh
Confidence            4567889999999999999998777  899999887554

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.

>TIGR00475 selB selenocysteine-specific elongation factor SelB

Probab=95.22  E-value=0.05  Score=50.73  Aligned_cols=66  Identities=18%  Similarity=0.197  Sum_probs=45.3

Q ss_pred             CCCCEEEEeCCCCCCh--hHHHHhhhcCCCeEEEEeCCCcchHHHHHHHHHHHHhCCCCeEEEEEcCCCC
Q psy14655        105 GPCDILFIDTPPGTGD--THLSLIQNLFIDTAIIITIPDTMSLQVAQRGYTMFKKLNIPVAGLVMNMNSV  172 (261)
Q Consensus       105 ~~yd~IiiD~~~~~~~--~~~~~~~~~~ad~viiv~~~~~~s~~~~~~~~~~l~~~~~~~~giv~N~~~~  172 (261)
                      .++.+.|+|+|+.-..  .....+..  +|.+++|+..+......+...+..+...+.+.+-+++|+++.
T Consensus        48 ~~~~v~~iDtPGhe~f~~~~~~g~~~--aD~aILVVDa~~G~~~qT~ehl~il~~lgi~~iIVVlNK~Dl  115 (581)
T TIGR00475        48 PDYRLGFIDVPGHEKFISNAIAGGGG--IDAALLVVDADEGVMTQTGEHLAVLDLLGIPHTIVVITKADR  115 (581)
T ss_pred             CCEEEEEEECCCHHHHHHHHHhhhcc--CCEEEEEEECCCCCcHHHHHHHHHHHHcCCCeEEEEEECCCC
Confidence            3477899999864221  12222333  899999999876555566666677777788867799999764

In prokaryotes, the incorporation of selenocysteine as the 21st amino acid, encoded by TGA, requires several elements: SelC is the tRNA itself, SelD acts as a donor of reduced selenium, SelA modifies a serine residue on SelC into selenocysteine, and SelB is a selenocysteine-specific translation elongation factor. 3-prime or 5-prime non-coding elements of mRNA have been found as probable structures for directing selenocysteine incorporation. This model describes the elongation factor SelB, a close homolog rf EF-Tu. It may function by replacing EF-Tu. A C-terminal domain not found in EF-Tu is in all SelB sequences in the seed alignment except that from Methanococcus jannaschii. This model does not find an equivalent protein for eukaryotes.

>cd04108 Rab36_Rab34 Rab34/Rab36 subfamily

Probab=95.22  E-value=0.052  Score=41.98  Aligned_cols=65  Identities=18%  Similarity=0.064  Sum_probs=41.9

Q ss_pred             CCCEEEEeCCCCCCh--hHHHHhhhcCCCeEEEEeCC-CcchHHHHHHHHHHHHhCCC---CeEEEEEcCCCC
Q psy14655        106 PCDILFIDTPPGTGD--THLSLIQNLFIDTAIIITIP-DTMSLQVAQRGYTMFKKLNI---PVAGLVMNMNSV  172 (261)
Q Consensus       106 ~yd~IiiD~~~~~~~--~~~~~~~~~~ad~viiv~~~-~~~s~~~~~~~~~~l~~~~~---~~~giv~N~~~~  172 (261)
                      .+.+.|.|+|+....  .....+..  +|.+++|.+. +..+.......++.+.+...   ..+-+|.|+.+.
T Consensus        48 ~~~l~i~Dt~G~~~~~~~~~~~~~~--ad~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~iilVgnK~Dl  118 (170)
T cd04108          48 PFSLQLWDTAGQERFKCIASTYYRG--AQAIIIVFDLTDVASLEHTRQWLEDALKENDPSSVLLFLVGTKKDL  118 (170)
T ss_pred             EEEEEEEeCCChHHHHhhHHHHhcC--CCEEEEEEECcCHHHHHHHHHHHHHHHHhcCCCCCeEEEEEEChhc
Confidence            467889999964322  22233344  8999999986 44577777777776543221   246689999764

Rab34, found primarily in the Golgi, interacts with its effector, Rab-interacting lysosomal protein (RILP). This enables its participation in microtubular dynenin-dynactin-mediated repositioning of lysosomes from the cell periphery to the Golgi. A Rab34 (Rah) isoform that lacks the consensus GTP-binding region has been identified in mice. This isoform is associated with membrane ruffles and promotes macropinosome formation. Rab36 has been mapped to human chromosome 22q11.2, a region that is homozygously deleted in malignant rhabdoid tumors (MRTs). However, experimental assessments do not implicate Rab36 as a tumor suppressor that would enable tumor formation through a loss-of-function mechanism. 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 re

>PRK08506 replicative DNA helicase; Provisional

Probab=95.18  E-value=0.023  Score=51.57  Aligned_cols=38  Identities=18%  Similarity=0.244  Sum_probs=34.2

Q ss_pred             cccCCCCCcHHHHHHHHHHHHHhcCCCCeEEEEecCCCCC
Q psy14655          2 IASSKGGVGKSTTTVNLATAMKICYPDKEIGILDADVFGP   41 (261)
Q Consensus         2 v~s~KGGvGKTT~a~~lA~~la~~g~~~~VllvD~D~~~~   41 (261)
                      |+++.-|+|||+++.|+|..+++.|  .+|+++-+.+...
T Consensus       196 vIaarpg~GKT~fal~ia~~~~~~g--~~V~~fSlEMs~~  233 (472)
T PRK08506        196 IIAARPSMGKTTLCLNMALKALNQD--KGVAFFSLEMPAE  233 (472)
T ss_pred             EEEcCCCCChHHHHHHHHHHHHhcC--CcEEEEeCcCCHH
Confidence            5788899999999999999999888  9999999998653

>TIGR01393 lepA GTP-binding protein LepA

Probab=95.16  E-value=0.085  Score=49.35  Aligned_cols=65  Identities=11%  Similarity=0.010  Sum_probs=41.0

Q ss_pred             CCCCEEEEeCCCCCC--hhHHHHhhhcCCCeEEEEeCCCcchHHHHHHHHHHHHhCCCCeEEEEEcCCCC
Q psy14655        105 GPCDILFIDTPPGTG--DTHLSLIQNLFIDTAIIITIPDTMSLQVAQRGYTMFKKLNIPVAGLVMNMNSV  172 (261)
Q Consensus       105 ~~yd~IiiD~~~~~~--~~~~~~~~~~~ad~viiv~~~~~~s~~~~~~~~~~l~~~~~~~~giv~N~~~~  172 (261)
                      ..|.+.|+|||+...  ......+..  ||.+++|++.+..........+....+.+.+ +-+|+|+.+.
T Consensus        68 ~~~~l~liDTPG~~dF~~~v~~~l~~--aD~aILVvDat~g~~~qt~~~~~~~~~~~ip-iIiViNKiDl  134 (595)
T TIGR01393        68 ETYVLNLIDTPGHVDFSYEVSRSLAA--CEGALLLVDAAQGIEAQTLANVYLALENDLE-IIPVINKIDL  134 (595)
T ss_pred             CEEEEEEEECCCcHHHHHHHHHHHHh--CCEEEEEecCCCCCCHhHHHHHHHHHHcCCC-EEEEEECcCC
Confidence            357899999997543  223345555  9999999997653322233333333345666 5589999774

LepA (GUF1 in Saccaromyces) is a GTP-binding membrane protein related to EF-G and EF-Tu. Two types of phylogenetic tree, rooted by other GTP-binding proteins, suggest that eukaryotic homologs (including GUF1 of yeast) originated within the bacterial LepA family. The function is unknown.

>PRK08760 replicative DNA helicase; Provisional

Probab=95.15  E-value=0.022  Score=51.80  Aligned_cols=38  Identities=21%  Similarity=0.379  Sum_probs=33.2

Q ss_pred             cccCCCCCcHHHHHHHHHHHHHh-cCCCCeEEEEecCCCCC
Q psy14655          2 IASSKGGVGKSTTTVNLATAMKI-CYPDKEIGILDADVFGP   41 (261)
Q Consensus         2 v~s~KGGvGKTT~a~~lA~~la~-~g~~~~VllvD~D~~~~   41 (261)
                      |+++..|+||||++.|+|..+|. .|  .+|+++-+++...
T Consensus       233 vIaarPg~GKTafal~iA~~~a~~~g--~~V~~fSlEMs~~  271 (476)
T PRK08760        233 ILAARPAMGKTTFALNIAEYAAIKSK--KGVAVFSMEMSAS  271 (476)
T ss_pred             EEEeCCCCChhHHHHHHHHHHHHhcC--CceEEEeccCCHH
Confidence            57888999999999999999985 47  9999999998653

>TIGR03880 KaiC_arch_3 KaiC domain protein, AF_0351 family

Probab=95.12  E-value=0.029  Score=45.59  Aligned_cols=36  Identities=11%  Similarity=-0.001  Sum_probs=31.6

Q ss_pred             ccCCCCCcHHHHHHHHHHHHHhcCCCCeEEEEecCCCC
Q psy14655          3 ASSKGGVGKSTTTVNLATAMKICYPDKEIGILDADVFG   40 (261)
Q Consensus         3 ~s~KGGvGKTT~a~~lA~~la~~g~~~~VllvD~D~~~   40 (261)
                      +.+.-|+|||+++.+++...+++|  .+|++++++...
T Consensus        21 i~G~~G~GKt~~~~~~~~~~~~~g--~~~~y~s~e~~~   56 (224)
T TIGR03880        21 VIGEYGTGKTTFSLQFLYQGLKNG--EKAMYISLEERE   56 (224)
T ss_pred             EECCCCCCHHHHHHHHHHHHHhCC--CeEEEEECCCCH
Confidence            455679999999999999988889  999999998754

This model represents a rather narrowly distributed archaeal protein family in which members have a single copy of the KaiC domain. This stands in contrast to the circadian clock protein KaiC itself, with two copies of the domain. Members are expected to have weak ATPase activity, by homology to the autokinase/autophosphorylase KaiC itself.

>PRK06893 DNA replication initiation factor; Validated

Probab=95.12  E-value=0.021  Score=46.61  Aligned_cols=34  Identities=9%  Similarity=-0.022  Sum_probs=30.9

Q ss_pred             cccCCCCCcHHHHHHHHHHHHHhcCCCCeEEEEecC
Q psy14655          2 IASSKGGVGKSTTTVNLATAMKICYPDKEIGILDAD   37 (261)
Q Consensus         2 v~s~KGGvGKTT~a~~lA~~la~~g~~~~VllvD~D   37 (261)
                      +..++-|+|||+++..+|..+.+++  .+|.++.++
T Consensus        43 ~l~G~~G~GKThL~~ai~~~~~~~~--~~~~y~~~~   76 (229)
T PRK06893         43 YIWGGKSSGKSHLLKAVSNHYLLNQ--RTAIYIPLS   76 (229)
T ss_pred             EEECCCCCCHHHHHHHHHHHHHHcC--CCeEEeeHH
Confidence            4568889999999999999999999  999999985

>cd01121 Sms Sms (bacterial radA) DNA repair protein

Probab=95.12  E-value=0.025  Score=49.63  Aligned_cols=36  Identities=17%  Similarity=0.215  Sum_probs=31.7

Q ss_pred             cccCCCCCcHHHHHHHHHHHHHhcCCCCeEEEEecCCC
Q psy14655          2 IASSKGGVGKSTTTVNLATAMKICYPDKEIGILDADVF   39 (261)
Q Consensus         2 v~s~KGGvGKTT~a~~lA~~la~~g~~~~VllvD~D~~   39 (261)
                      ++.+..|+||||++..+|..+++.|  .+|++|+....
T Consensus        86 LI~G~pG~GKStLllq~a~~~a~~g--~~VlYvs~EEs  121 (372)
T cd01121          86 LIGGDPGIGKSTLLLQVAARLAKRG--GKVLYVSGEES  121 (372)
T ss_pred             EEEeCCCCCHHHHHHHHHHHHHhcC--CeEEEEECCcC
Confidence            4567789999999999999999998  99999998743

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.

>PTZ00035 Rad51 protein; Provisional

Probab=95.11  E-value=0.035  Score=48.14  Aligned_cols=35  Identities=11%  Similarity=0.065  Sum_probs=27.8

Q ss_pred             ccCCCCCcHHHHHHHHHHHHHh------cCCCCeEEEEecCCC
Q psy14655          3 ASSKGGVGKSTTTVNLATAMKI------CYPDKEIGILDADVF   39 (261)
Q Consensus         3 ~s~KGGvGKTT~a~~lA~~la~------~g~~~~VllvD~D~~   39 (261)
                      +.+.-|+||||++..++.....      .+  .+|++||....
T Consensus       123 I~G~~GsGKT~l~~~l~~~~qlp~~~gg~~--g~vvyIdtE~~  163 (337)
T PTZ00035        123 LFGEFRTGKTQLCHTLCVTCQLPIEQGGGE--GKVLYIDTEGT  163 (337)
T ss_pred             EECCCCCchhHHHHHHHHHhccccccCCCC--ceEEEEEccCC
Confidence            4567899999999999877652      34  79999998754

>cd01869 Rab1_Ypt1 Rab1/Ypt1 subfamily

Probab=95.11  E-value=0.23  Score=37.83  Aligned_cols=64  Identities=17%  Similarity=0.107  Sum_probs=40.4

Q ss_pred             CCCEEEEeCCCCCC--hhHHHHhhhcCCCeEEEEeCC-CcchHHHHHHHHHHHHhC---CCCeEEEEEcCCCC
Q psy14655        106 PCDILFIDTPPGTG--DTHLSLIQNLFIDTAIIITIP-DTMSLQVAQRGYTMFKKL---NIPVAGLVMNMNSV  172 (261)
Q Consensus       106 ~yd~IiiD~~~~~~--~~~~~~~~~~~ad~viiv~~~-~~~s~~~~~~~~~~l~~~---~~~~~giv~N~~~~  172 (261)
                      .+.+-|+|+|+...  ......+..  +|.++++.+. +..++..+...+..+...   +.+ +-+|.|+.+.
T Consensus        50 ~~~~~i~D~~G~~~~~~~~~~~~~~--~~~ii~v~d~~~~~s~~~l~~~~~~~~~~~~~~~~-~iiv~nK~Dl  119 (166)
T cd01869          50 TIKLQIWDTAGQERFRTITSSYYRG--AHGIIIVYDVTDQESFNNVKQWLQEIDRYASENVN-KLLVGNKCDL  119 (166)
T ss_pred             EEEEEEEECCCcHhHHHHHHHHhCc--CCEEEEEEECcCHHHHHhHHHHHHHHHHhCCCCCc-EEEEEEChhc
Confidence            45778899986432  222233344  8999999984 445666666666666543   234 5578898653

Rab1 is found in every eukaryote and is a key regulatory component for the transport of vesicles from the ER to the Golgi apparatus. Studies on mutations of Ypt1, the yeast homolog of Rab1, showed that this protein is necessary for the budding of vesicles of the ER as well as for their transport to, and fusion with, the Golgi apparatus. 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 t

>cd04109 Rab28 Rab28 subfamily

Probab=95.10  E-value=0.084  Score=42.55  Aligned_cols=65  Identities=15%  Similarity=0.147  Sum_probs=42.6

Q ss_pred             CCCEEEEeCCCCCC--hhHHHHhhhcCCCeEEEEeC-CCcchHHHHHHHHHHHHhCC-----CCeEEEEEcCCCC
Q psy14655        106 PCDILFIDTPPGTG--DTHLSLIQNLFIDTAIIITI-PDTMSLQVAQRGYTMFKKLN-----IPVAGLVMNMNSV  172 (261)
Q Consensus       106 ~yd~IiiD~~~~~~--~~~~~~~~~~~ad~viiv~~-~~~~s~~~~~~~~~~l~~~~-----~~~~giv~N~~~~  172 (261)
                      .+.+.|.|+++...  ......+..  +|.+++|.+ .+..++..+...++.+.+..     ...+.+|.|+.+.
T Consensus        49 ~~~~~i~Dt~G~~~~~~l~~~~~~~--ad~iilV~D~t~~~s~~~~~~w~~~l~~~~~~~~~~~piilVgNK~DL  121 (215)
T cd04109          49 NVTLQVWDIGGQSIGGKMLDKYIYG--AHAVFLVYDVTNSQSFENLEDWYSMVRKVLKSSETQPLVVLVGNKTDL  121 (215)
T ss_pred             EEEEEEEECCCcHHHHHHHHHHhhc--CCEEEEEEECCCHHHHHHHHHHHHHHHHhccccCCCceEEEEEECccc
Confidence            46788999986321  222233444  999999998 44567777777777666532     1246689999775

First identified in maize, Rab28 has been shown to be a late embryogenesis-abundant (Lea) protein that is regulated by the plant hormone abcisic acid (ABA). In Arabidopsis, Rab28 is expressed during embryo development and is generally restricted to provascular tissues in mature embryos. Unlike maize Rab28, it is not ABA-inducible. Characterization of the human Rab28 homolog revealed two isoforms, which differ by a 95-base pair insertion, producing an alternative sequence for the 30 amino acids at the C-terminus. The two human isoforms are presumbly the result of alternative splicing. Since they differ at the C-terminus but not in the GTP-binding region, they are predicted to be targeted to different cellular locations. 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

>cd02023 UMPK Uridine monophosphate kinase (UMPK, EC 2

Probab=95.09  E-value=0.025  Score=44.97  Aligned_cols=33  Identities=18%  Similarity=0.369  Sum_probs=27.5

Q ss_pred             ccCCCCCcHHHHHHHHHHHHHhcCCCCeEEEEecCCC
Q psy14655          3 ASSKGGVGKSTTTVNLATAMKICYPDKEIGILDADVF   39 (261)
Q Consensus         3 ~s~KGGvGKTT~a~~lA~~la~~g~~~~VllvD~D~~   39 (261)
                      +++-.|+||||++..|+..+  .+  .++.++.+|.-
T Consensus         4 i~G~~GsGKSTl~~~l~~~l--~~--~~~~v~~~D~~   36 (198)
T cd02023           4 IAGGSGSGKTTVAEEIIEQL--GN--PKVVIISQDSY   36 (198)
T ss_pred             EECCCCCCHHHHHHHHHHHh--CC--CCeEEEEeccc
Confidence            56778999999999999988  45  68888888853

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.

>PRK09302 circadian clock protein KaiC; Reviewed

Probab=95.09  E-value=0.042  Score=50.48  Aligned_cols=36  Identities=17%  Similarity=0.065  Sum_probs=31.9

Q ss_pred             ccCCCCCcHHHHHHHHHHHHHhcCCCCeEEEEecCCCC
Q psy14655          3 ASSKGGVGKSTTTVNLATAMKICYPDKEIGILDADVFG   40 (261)
Q Consensus         3 ~s~KGGvGKTT~a~~lA~~la~~g~~~~VllvD~D~~~   40 (261)
                      +.+--|+|||+++.+++...+++|  .+|++|.++...
T Consensus       278 i~G~~G~GKT~l~~~~~~~~~~~g--~~~~yis~e~~~  313 (509)
T PRK09302        278 VSGATGTGKTLLASKFAEAACRRG--ERCLLFAFEESR  313 (509)
T ss_pred             EEcCCCCCHHHHHHHHHHHHHhCC--CcEEEEEecCCH
Confidence            456789999999999999999999  999999998653

>PF05729 NACHT: NACHT domain

Probab=95.08  E-value=0.017  Score=44.08  Aligned_cols=26  Identities=31%  Similarity=0.244  Sum_probs=23.5

Q ss_pred             CcccCCCCCcHHHHHHHHHHHHHhcC
Q psy14655          1 MIASSKGGVGKSTTTVNLATAMKICY   26 (261)
Q Consensus         1 ~v~s~KGGvGKTT~a~~lA~~la~~g   26 (261)
                      +++.+.+|+||||++..++..++..+
T Consensus         3 l~I~G~~G~GKStll~~~~~~~~~~~   28 (166)
T PF05729_consen    3 LWISGEPGSGKSTLLRKLAQQLAEEE   28 (166)
T ss_pred             EEEECCCCCChHHHHHHHHHHHHhcC
Confidence            36789999999999999999999876

>PRK00093 GTP-binding protein Der; Reviewed

Probab=95.06  E-value=0.19  Score=45.18  Aligned_cols=65  Identities=14%  Similarity=0.058  Sum_probs=42.4

Q ss_pred             CCCCEEEEeCCCCCC---------h----hHHHHhhhcCCCeEEEEeCCCcchHHHHHHHHHHHHhCCCCeEEEEEcCCC
Q psy14655        105 GPCDILFIDTPPGTG---------D----THLSLIQNLFIDTAIIITIPDTMSLQVAQRGYTMFKKLNIPVAGLVMNMNS  171 (261)
Q Consensus       105 ~~yd~IiiD~~~~~~---------~----~~~~~~~~~~ad~viiv~~~~~~s~~~~~~~~~~l~~~~~~~~giv~N~~~  171 (261)
                      .+.++.++|||+...         .    .....+..  +|.+++|++.+.........++..+...+.+. -+++|+.+
T Consensus       219 ~~~~~~lvDT~G~~~~~~~~~~~e~~~~~~~~~~~~~--ad~~ilViD~~~~~~~~~~~i~~~~~~~~~~~-ivv~NK~D  295 (435)
T PRK00093        219 DGQKYTLIDTAGIRRKGKVTEGVEKYSVIRTLKAIER--ADVVLLVIDATEGITEQDLRIAGLALEAGRAL-VIVVNKWD  295 (435)
T ss_pred             CCeeEEEEECCCCCCCcchhhHHHHHHHHHHHHHHHH--CCEEEEEEeCCCCCCHHHHHHHHHHHHcCCcE-EEEEECcc
Confidence            456789999986321         0    01223444  89999999977654455556667776667664 48999966


Q ss_pred             C
Q psy14655        172 V  172 (261)
Q Consensus       172 ~  172 (261)
                      .
T Consensus       296 l  296 (435)
T PRK00093        296 L  296 (435)
T ss_pred             C
Confidence            4

>PLN03186 DNA repair protein RAD51 homolog; Provisional

Probab=95.06  E-value=0.038  Score=47.95  Aligned_cols=38  Identities=11%  Similarity=-0.005  Sum_probs=28.7

Q ss_pred             ccCCCCCcHHHHHHHHHHHHHh---c-CCCCeEEEEecCCCC
Q psy14655          3 ASSKGGVGKSTTTVNLATAMKI---C-YPDKEIGILDADVFG   40 (261)
Q Consensus         3 ~s~KGGvGKTT~a~~lA~~la~---~-g~~~~VllvD~D~~~   40 (261)
                      +.+..|+|||+++.++|...+.   . |.+.+|++||..-..
T Consensus       128 i~G~~g~GKT~l~~~l~~~~~~~~~~gg~~g~vlyIdtE~~f  169 (342)
T PLN03186        128 IYGEFRTGKTQLCHTLCVTCQLPLDQGGGEGKAMYIDTEGTF  169 (342)
T ss_pred             EECCCCCCccHHHHHHHHHhhcchhhCCCCceEEEEECCCCc
Confidence            4567899999999999976552   2 212589999999754

>cd01861 Rab6 Rab6 subfamily

Probab=95.04  E-value=0.23  Score=37.53  Aligned_cols=65  Identities=14%  Similarity=0.052  Sum_probs=40.5

Q ss_pred             CCCEEEEeCCCCCCh--hHHHHhhhcCCCeEEEEeCCCc-chHHHHHHHHHHHHh-CC-CCeEEEEEcCCCC
Q psy14655        106 PCDILFIDTPPGTGD--THLSLIQNLFIDTAIIITIPDT-MSLQVAQRGYTMFKK-LN-IPVAGLVMNMNSV  172 (261)
Q Consensus       106 ~yd~IiiD~~~~~~~--~~~~~~~~~~ad~viiv~~~~~-~s~~~~~~~~~~l~~-~~-~~~~giv~N~~~~  172 (261)
                      .+.+.|+|+|+....  .....+..  +|.+++|...+. .+...+...+..+.. .+ -..+.++.|+.+.
T Consensus        48 ~~~l~~~D~~G~~~~~~~~~~~~~~--~~~ii~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~iilv~nK~D~  117 (161)
T cd01861          48 TVRLQLWDTAGQERFRSLIPSYIRD--SSVAVVVYDITNRQSFDNTDKWIDDVRDERGNDVIIVLVGNKTDL  117 (161)
T ss_pred             EEEEEEEECCCcHHHHHHHHHHhcc--CCEEEEEEECcCHHHHHHHHHHHHHHHHhCCCCCEEEEEEEChhc
Confidence            356889999864322  12233444  899999998544 456666666665543 23 1246689998664

Rab6 is involved in microtubule-dependent transport pathways through the Golgi and from endosomes to the Golgi. Rab6A of mammals is implicated in retrograde transport through the Golgi stack, and is also required for a slow, COPI-independent, retrograde transport pathway from the Golgi to the endoplasmic reticulum (ER). This pathway may allow Golgi residents to be recycled through the ER for scrutiny by ER quality-control systems. Yeast Ypt6p, the homolog of the mammalian Rab6 GTPase, is not essential for cell viability. Ypt6p acts in endosome-to-Golgi, in intra-Golgi retrograde transport, and possibly also in Golgi-to-ER trafficking. 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

>PRK08116 hypothetical protein; Validated

Probab=95.00  E-value=0.03  Score=46.89  Aligned_cols=34  Identities=12%  Similarity=0.045  Sum_probs=30.0

Q ss_pred             cccCCCCCcHHHHHHHHHHHHHhcCCCCeEEEEecC
Q psy14655          2 IASSKGGVGKSTTTVNLATAMKICYPDKEIGILDAD   37 (261)
Q Consensus         2 v~s~KGGvGKTT~a~~lA~~la~~g~~~~VllvD~D   37 (261)
                      +..+.-|+|||.++..+|..|.++|  .+|++++..
T Consensus       118 ~l~G~~GtGKThLa~aia~~l~~~~--~~v~~~~~~  151 (268)
T PRK08116        118 LLWGSVGTGKTYLAACIANELIEKG--VPVIFVNFP  151 (268)
T ss_pred             EEECCCCCCHHHHHHHHHHHHHHcC--CeEEEEEHH
Confidence            4567789999999999999999989  999999853

>TIGR03594 GTPase_EngA ribosome-associated GTPase EngA

Probab=94.98  E-value=0.2  Score=44.93  Aligned_cols=64  Identities=16%  Similarity=0.075  Sum_probs=40.8

Q ss_pred             CCCEEEEeCCCCCCh---------h----HHHHhhhcCCCeEEEEeCCCcchHHHHHHHHHHHHhCCCCeEEEEEcCCCC
Q psy14655        106 PCDILFIDTPPGTGD---------T----HLSLIQNLFIDTAIIITIPDTMSLQVAQRGYTMFKKLNIPVAGLVMNMNSV  172 (261)
Q Consensus       106 ~yd~IiiD~~~~~~~---------~----~~~~~~~~~ad~viiv~~~~~~s~~~~~~~~~~l~~~~~~~~giv~N~~~~  172 (261)
                      +..+.++|||+....         .    ....+..  ||.+++|++........-..++..+.+.+.+ +-+|+|+.+.
T Consensus       219 ~~~~~liDT~G~~~~~~~~~~~e~~~~~~~~~~~~~--ad~~ilV~D~~~~~~~~~~~~~~~~~~~~~~-iiiv~NK~Dl  295 (429)
T TIGR03594       219 GKKYLLIDTAGIRRKGKVTEGVEKYSVLRTLKAIER--ADVVLLVLDATEGITEQDLRIAGLILEAGKA-LVIVVNKWDL  295 (429)
T ss_pred             CcEEEEEECCCccccccchhhHHHHHHHHHHHHHHh--CCEEEEEEECCCCccHHHHHHHHHHHHcCCc-EEEEEECccc
Confidence            447899999963210         0    1223444  8999999987654444444566666666666 5589999764

EngA (YfgK, Der) is a ribosome-associated essential GTPase with a duplication of its GTP-binding domain. It is broadly to universally distributed among bacteria. It appears to function in ribosome biogenesis or stability.

>PRK05439 pantothenate kinase; Provisional

Probab=94.97  E-value=0.035  Score=47.36  Aligned_cols=38  Identities=24%  Similarity=0.226  Sum_probs=30.7

Q ss_pred             ccCCCCCcHHHHHHHHHHHHHhcCCCCeEEEEecCCCC
Q psy14655          3 ASSKGGVGKSTTTVNLATAMKICYPDKEIGILDADVFG   40 (261)
Q Consensus         3 ~s~KGGvGKTT~a~~lA~~la~~g~~~~VllvD~D~~~   40 (261)
                      +++-.|+||||+|..|+..|.+...+.+|.+|-.|---
T Consensus        91 IaG~~gsGKSTla~~L~~~l~~~~~~~~v~vi~~DdFy  128 (311)
T PRK05439         91 IAGSVAVGKSTTARLLQALLSRWPEHPKVELVTTDGFL  128 (311)
T ss_pred             EECCCCCCHHHHHHHHHHHHHhhCCCCceEEEeccccc
Confidence            56788999999999999999874223889999998653

>PRK06749 replicative DNA helicase; Provisional

Probab=94.95  E-value=0.025  Score=50.66  Aligned_cols=37  Identities=11%  Similarity=0.279  Sum_probs=34.0

Q ss_pred             cccCCCCCcHHHHHHHHHHHHHhcCCCCeEEEEecCCCC
Q psy14655          2 IASSKGGVGKSTTTVNLATAMKICYPDKEIGILDADVFG   40 (261)
Q Consensus         2 v~s~KGGvGKTT~a~~lA~~la~~g~~~~VllvD~D~~~   40 (261)
                      |+++.-|+|||+++.|+|..+|++|  ++|+++-+.+..
T Consensus       190 iIaarPgmGKTafal~ia~~~a~~g--~~v~~fSlEMs~  226 (428)
T PRK06749        190 VLGARPSMGKTAFALNVGLHAAKSG--AAVGLFSLEMSS  226 (428)
T ss_pred             EEEeCCCCCchHHHHHHHHHHHhcC--CCEEEEEeeCCH
Confidence            6778889999999999999999988  999999999875

>PF13173 AAA_14: AAA domain

Probab=94.93  E-value=0.024  Score=41.70  Aligned_cols=36  Identities=28%  Similarity=0.230  Sum_probs=29.5

Q ss_pred             cccCCCCCcHHHHHHHHHHHHHhcCCCCeEEEEecCCCC
Q psy14655          2 IASSKGGVGKSTTTVNLATAMKICYPDKEIGILDADVFG   40 (261)
Q Consensus         2 v~s~KGGvGKTT~a~~lA~~la~~g~~~~VllvD~D~~~   40 (261)
                      ++.+--||||||++.+++..+. ..  .+++.+|+|-..
T Consensus         6 ~l~G~R~vGKTtll~~~~~~~~-~~--~~~~yi~~~~~~   41 (128)
T PF13173_consen    6 ILTGPRGVGKTTLLKQLAKDLL-PP--ENILYINFDDPR   41 (128)
T ss_pred             EEECCCCCCHHHHHHHHHHHhc-cc--ccceeeccCCHH
Confidence            3456669999999999998887 44  899999999664

>cd01868 Rab11_like Rab11-like

Probab=94.93  E-value=0.26  Score=37.50  Aligned_cols=65  Identities=12%  Similarity=0.031  Sum_probs=40.9

Q ss_pred             CCCEEEEeCCCCCC--hhHHHHhhhcCCCeEEEEeCC-CcchHHHHHHHHHHHHhCCC--CeEEEEEcCCCC
Q psy14655        106 PCDILFIDTPPGTG--DTHLSLIQNLFIDTAIIITIP-DTMSLQVAQRGYTMFKKLNI--PVAGLVMNMNSV  172 (261)
Q Consensus       106 ~yd~IiiD~~~~~~--~~~~~~~~~~~ad~viiv~~~-~~~s~~~~~~~~~~l~~~~~--~~~giv~N~~~~  172 (261)
                      .+.+.|+|+|+...  ......+..  ++.++++.+. +..+...+...++.+.....  ..+-+|.|+.+.
T Consensus        51 ~~~~~l~D~~g~~~~~~~~~~~~~~--~~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~pi~vv~nK~Dl  120 (165)
T cd01868          51 TIKAQIWDTAGQERYRAITSAYYRG--AVGALLVYDITKKQTFENVERWLKELRDHADSNIVIMLVGNKSDL  120 (165)
T ss_pred             EEEEEEEeCCChHHHHHHHHHHHCC--CCEEEEEEECcCHHHHHHHHHHHHHHHHhCCCCCeEEEEEECccc
Confidence            35788999986432  122233343  7888888874 56777777777776655321  246688999664

Rab11a, Rab11b, and Rab25 are closely related, evolutionary conserved Rab proteins that are differentially expressed. Rab11a is ubiquitously synthesized, Rab11b is enriched in brain and heart and Rab25 is only found in epithelia. Rab11/25 proteins seem to regulate recycling pathways from endosomes to the plasma membrane and to the trans-Golgi network. Furthermore, Rab11a is thought to function in the histamine-induced fusion of tubulovesicles containing H+, K+ ATPase with the plasma membrane in gastric parietal cells and in insulin-stimulated insertion of GLUT4 in the plasma membrane of cardiomyocytes. Overexpression of Rab25 has recently been observed in ovarian cancer and breast cancer, and has been correlated with worsened outcomes in both diseases. In addition, Rab25 overexpression has also been observed in prostate cancer, transitional cell carcinoma of the bladder, and invasive breast tumor cells. GTPase activating proteins (GAPs) interact with GTP

>PF08423 Rad51: Rad51; InterPro: IPR013632 This domain is found at the C terminus of the DNA repair and recombination protein Rad51

Probab=94.93  E-value=0.0076  Score=50.13  Aligned_cols=38  Identities=16%  Similarity=0.196  Sum_probs=29.3

Q ss_pred             cCCCCCcHHHHHHHHHHHHHh----cCCCCeEEEEecCCCCC
Q psy14655          4 SSKGGVGKSTTTVNLATAMKI----CYPDKEIGILDADVFGP   41 (261)
Q Consensus         4 s~KGGvGKTT~a~~lA~~la~----~g~~~~VllvD~D~~~~   41 (261)
                      .+-.|+|||.++.+||.....    .|.+.+|++||.+-..+
T Consensus        44 ~G~~gsGKTql~l~l~~~~~l~~~~~g~~~~vvyidTe~~f~   85 (256)
T PF08423_consen   44 VGESGSGKTQLCLQLAVNVQLPEEIGGLGGKVVYIDTEGTFS   85 (256)
T ss_dssp             EESTTSSHHHHHHHHHHHTTSGGCTTSSSSEEEEEESSSSS-
T ss_pred             EEecccccchHHHHHHHHhhcccccccCCCceEEEeCCCCCC
Confidence            356799999999999987653    22348999999998764

It is critical for DNA binding []. Rad51 is a homologue of the bacterial RecA protein. Rad51 and RecA share a core ATPase domain.; PDB: 2ZUC_A 2Z43_C 2ZUD_B 2DFL_A 2ZUB_A 2BKE_A 2KZ3_A 2CVH_B 2CVF_B 1SZP_D ....

>COG4088 Predicted nucleotide kinase [Nucleotide transport and metabolism]

Probab=94.93  E-value=0.017  Score=45.93  Aligned_cols=37  Identities=24%  Similarity=0.259  Sum_probs=32.5

Q ss_pred             cccCCCCCcHHHHHHHHHHHHHhcCCCCeEEEEecCCCC
Q psy14655          2 IASSKGGVGKSTTTVNLATAMKICYPDKEIGILDADVFG   40 (261)
Q Consensus         2 v~s~KGGvGKTT~a~~lA~~la~~g~~~~VllvD~D~~~   40 (261)
                      ++++=.|+||||.|-+||..|.+.+  .+|.-+..|+..
T Consensus         5 IlTGyPgsGKTtfakeLak~L~~~i--~~vi~l~kdy~~   41 (261)
T COG4088           5 ILTGYPGSGKTTFAKELAKELRQEI--WRVIHLEKDYLR   41 (261)
T ss_pred             EEecCCCCCchHHHHHHHHHHHHhh--hhccccchhhhh
Confidence            5677889999999999999999999  888888777654

>smart00175 RAB Rab subfamily of small GTPases

Probab=94.91  E-value=0.27  Score=37.19  Aligned_cols=64  Identities=14%  Similarity=0.059  Sum_probs=40.5

Q ss_pred             CCCEEEEeCCCCCCh--hHHHHhhhcCCCeEEEEeCCCc-chHHHHHHHHHHHHhC---CCCeEEEEEcCCCC
Q psy14655        106 PCDILFIDTPPGTGD--THLSLIQNLFIDTAIIITIPDT-MSLQVAQRGYTMFKKL---NIPVAGLVMNMNSV  172 (261)
Q Consensus       106 ~yd~IiiD~~~~~~~--~~~~~~~~~~ad~viiv~~~~~-~s~~~~~~~~~~l~~~---~~~~~giv~N~~~~  172 (261)
                      .+.+.++|+|+....  .....+..  +|.++++.++.. .+...+..++..+...   +.+ +-++.|+.+.
T Consensus        48 ~~~~~l~D~~G~~~~~~~~~~~~~~--~d~~ilv~d~~~~~s~~~~~~~l~~~~~~~~~~~p-ivvv~nK~D~  117 (164)
T smart00175       48 RVKLQIWDTAGQERFRSITSSYYRG--AVGALLVYDITNRESFENLKNWLKELREYADPNVV-IMLVGNKSDL  117 (164)
T ss_pred             EEEEEEEECCChHHHHHHHHHHhCC--CCEEEEEEECCCHHHHHHHHHHHHHHHHhCCCCCe-EEEEEEchhc
Confidence            457889999864321  12233333  899999988544 5676666666665542   344 6688998663

Rab GTPases are implicated in vesicle trafficking.

>TIGR00101 ureG urease accessory protein UreG

Probab=94.91  E-value=0.16  Score=40.62  Aligned_cols=35  Identities=17%  Similarity=0.373  Sum_probs=27.6

Q ss_pred             ccCCCCCcHHHHHHHHHHHHHhcCCCCeEEEEecCCCC
Q psy14655          3 ASSKGGVGKSTTTVNLATAMKICYPDKEIGILDADVFG   40 (261)
Q Consensus         3 ~s~KGGvGKTT~a~~lA~~la~~g~~~~VllvD~D~~~   40 (261)
                      +.+..|+||||+...+...+...   .++.++..|...
T Consensus         6 i~G~~GsGKTTll~~l~~~l~~~---~~~~~~~~d~~~   40 (199)
T TIGR00101         6 VAGPVGSGKTALIEALTRALRQK---YQLAVITNDIYT   40 (199)
T ss_pred             EECCCCCCHHHHHHHHHHhhCcC---CcEEEEeCCcCC
Confidence            45788999999999999887654   467788877654

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.

>KOG1423|consensus

Probab=94.91  E-value=0.066  Score=45.14  Aligned_cols=65  Identities=22%  Similarity=0.264  Sum_probs=39.8

Q ss_pred             CCCCEEEEeCCCCCC--------------hhHHHHhhhcCCCeEEEEeCCCcchHHHHHHHHHHHHhCCCCeEEEEEcCC
Q psy14655        105 GPCDILFIDTPPGTG--------------DTHLSLIQNLFIDTAIIITIPDTMSLQVAQRGYTMFKKLNIPVAGLVMNMN  170 (261)
Q Consensus       105 ~~yd~IiiD~~~~~~--------------~~~~~~~~~~~ad~viiv~~~~~~s~~~~~~~~~~l~~~~~~~~giv~N~~  170 (261)
                      .++.+|++|||+-++              .....++..  ||.|+++.+...+.-.---+++..++.+..-...+|+|+.
T Consensus       118 ~eTQlvf~DTPGlvs~~~~r~~~l~~s~lq~~~~a~q~--AD~vvVv~Das~tr~~l~p~vl~~l~~ys~ips~lvmnki  195 (379)
T KOG1423|consen  118 GETQLVFYDTPGLVSKKMHRRHHLMMSVLQNPRDAAQN--ADCVVVVVDASATRTPLHPRVLHMLEEYSKIPSILVMNKI  195 (379)
T ss_pred             CceEEEEecCCcccccchhhhHHHHHHhhhCHHHHHhh--CCEEEEEEeccCCcCccChHHHHHHHHHhcCCceeeccch
Confidence            678899999997554              122345555  8999999986643332233456666654222233678875


Q ss_pred             C
Q psy14655        171 S  171 (261)
Q Consensus       171 ~  171 (261)
                      +
T Consensus       196 d  196 (379)
T KOG1423|consen  196 D  196 (379)
T ss_pred             h
Confidence            5

>PRK08181 transposase; Validated

Probab=94.90  E-value=0.024  Score=47.44  Aligned_cols=33  Identities=15%  Similarity=0.036  Sum_probs=29.9

Q ss_pred             cccCCCCCcHHHHHHHHHHHHHhcCCCCeEEEEec
Q psy14655          2 IASSKGGVGKSTTTVNLATAMKICYPDKEIGILDA   36 (261)
Q Consensus         2 v~s~KGGvGKTT~a~~lA~~la~~g~~~~VllvD~   36 (261)
                      +..+..|+|||.++..+|..+.++|  ++|+++..
T Consensus       110 ll~Gp~GtGKTHLa~Aia~~a~~~g--~~v~f~~~  142 (269)
T PRK08181        110 LLFGPPGGGKSHLAAAIGLALIENG--WRVLFTRT  142 (269)
T ss_pred             EEEecCCCcHHHHHHHHHHHHHHcC--CceeeeeH
Confidence            4567889999999999999999999  99999976

>PRK09354 recA recombinase A; Provisional

Probab=94.89  E-value=0.032  Score=48.29  Aligned_cols=36  Identities=14%  Similarity=0.086  Sum_probs=31.6

Q ss_pred             ccCCCCCcHHHHHHHHHHHHHhcCCCCeEEEEecCCCC
Q psy14655          3 ASSKGGVGKSTTTVNLATAMKICYPDKEIGILDADVFG   40 (261)
Q Consensus         3 ~s~KGGvGKTT~a~~lA~~la~~g~~~~VllvD~D~~~   40 (261)
                      +.+..|+||||+|.+++...++.|  .+|++||+....
T Consensus        65 I~G~~GsGKTtLal~~~~~~~~~G--~~~~yId~E~s~  100 (349)
T PRK09354         65 IYGPESSGKTTLALHAIAEAQKAG--GTAAFIDAEHAL  100 (349)
T ss_pred             EECCCCCCHHHHHHHHHHHHHHcC--CcEEEECCccch
Confidence            345689999999999999999999  999999998653

>TIGR00416 sms DNA repair protein RadA

Probab=94.86  E-value=0.03  Score=50.56  Aligned_cols=36  Identities=17%  Similarity=0.230  Sum_probs=31.8

Q ss_pred             cccCCCCCcHHHHHHHHHHHHHhcCCCCeEEEEecCCC
Q psy14655          2 IASSKGGVGKSTTTVNLATAMKICYPDKEIGILDADVF   39 (261)
Q Consensus         2 v~s~KGGvGKTT~a~~lA~~la~~g~~~~VllvD~D~~   39 (261)
                      ++++--|+||||++.++|..++++|  .+|++|+....
T Consensus        98 lI~G~pGsGKTTL~lq~a~~~a~~g--~kvlYvs~EEs  133 (454)
T TIGR00416        98 LIGGDPGIGKSTLLLQVACQLAKNQ--MKVLYVSGEES  133 (454)
T ss_pred             EEEcCCCCCHHHHHHHHHHHHHhcC--CcEEEEECcCC
Confidence            4567789999999999999999998  89999998754

The gene protuct codes for a probable ATP-dependent protease involved in both DNA repair and degradation of proteins, peptides, glycopeptides. Also known as sms. Residues 11-28 of the SEED alignment contain a putative Zn binding domain. Residues 110-117 of the seed contain a putative ATP binding site both documented in Haemophilus and in Listeria monocytogenes. for E.coli see ( J. BACTERIOL. 178:5045-5048(1996)).

>PRK08084 DNA replication initiation factor; Provisional

Probab=94.84  E-value=0.031  Score=45.86  Aligned_cols=36  Identities=17%  Similarity=0.169  Sum_probs=31.9

Q ss_pred             cccCCCCCcHHHHHHHHHHHHHhcCCCCeEEEEecCCC
Q psy14655          2 IASSKGGVGKSTTTVNLATAMKICYPDKEIGILDADVF   39 (261)
Q Consensus         2 v~s~KGGvGKTT~a~~lA~~la~~g~~~~VllvD~D~~   39 (261)
                      +..+.-|+|||+++..+|..+.+.|  ++|.++.++..
T Consensus        49 ~l~Gp~G~GKThLl~a~~~~~~~~~--~~v~y~~~~~~   84 (235)
T PRK08084         49 YLWSREGAGRSHLLHAACAELSQRG--RAVGYVPLDKR   84 (235)
T ss_pred             EEECCCCCCHHHHHHHHHHHHHhCC--CeEEEEEHHHH
Confidence            4567789999999999999999888  99999999863

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

Probab=94.81  E-value=0.028  Score=41.20  Aligned_cols=37  Identities=19%  Similarity=0.195  Sum_probs=31.4

Q ss_pred             cccCCCCCcHHHHHHHHHHHHHhc-----CCCCeEEEEecCCCC
Q psy14655          2 IASSKGGVGKSTTTVNLATAMKIC-----YPDKEIGILDADVFG   40 (261)
Q Consensus         2 v~s~KGGvGKTT~a~~lA~~la~~-----g~~~~VllvD~D~~~   40 (261)
                      ++.+..|+|||+++.+++..+...     .  .+|+.+++....
T Consensus         8 ~i~G~~G~GKT~~~~~~~~~~~~~~~~~~~--~~~~~~~~~~~~   49 (131)
T PF13401_consen    8 VISGPPGSGKTTLIKRLARQLNAEAEIKNH--PDVIYVNCPSSR   49 (131)
T ss_dssp             EEEE-TTSSHHHHHHHHHHHHHHHHHHCCC--EEEEEEEHHHHS
T ss_pred             EEEcCCCCCHHHHHHHHHHHhHHhhhccCC--CcEEEEEeCCCC
Confidence            567889999999999999999875     5  899999998776

>KOG0395|consensus

Probab=94.72  E-value=0.082  Score=42.10  Aligned_cols=65  Identities=20%  Similarity=0.215  Sum_probs=45.3

Q ss_pred             CCCCEEEEeCCCCCC--hhHHHHhhhcCCCeEEEEeC-CCcchHHHHHHHHHHHHhC----CCCeEEEEEcCCCC
Q psy14655        105 GPCDILFIDTPPGTG--DTHLSLIQNLFIDTAIIITI-PDTMSLQVAQRGYTMFKKL----NIPVAGLVMNMNSV  172 (261)
Q Consensus       105 ~~yd~IiiD~~~~~~--~~~~~~~~~~~ad~viiv~~-~~~~s~~~~~~~~~~l~~~----~~~~~giv~N~~~~  172 (261)
                      +.+.+-|+||++...  ..-...+..  +|..++|-+ .+..|.+.+..+.+.+.+.    ..| +-+|.|+++.
T Consensus        49 ~~~~l~ilDt~g~~~~~~~~~~~~~~--~~gF~lVysitd~~SF~~~~~l~~~I~r~~~~~~~P-ivlVGNK~Dl  120 (196)
T KOG0395|consen   49 EVCMLEILDTAGQEEFSAMRDLYIRN--GDGFLLVYSITDRSSFEEAKQLREQILRVKGRDDVP-IILVGNKCDL  120 (196)
T ss_pred             EEEEEEEEcCCCcccChHHHHHhhcc--CcEEEEEEECCCHHHHHHHHHHHHHHHHhhCcCCCC-EEEEEEcccc
Confidence            567888999997332  222333444  777777777 8889999999998888432    234 5689999775

>PRK07933 thymidylate kinase; Validated

Probab=94.70  E-value=0.04  Score=44.50  Aligned_cols=33  Identities=24%  Similarity=0.264  Sum_probs=28.7

Q ss_pred             ccCCCCCcHHHHHHHHHHHHHhcCCCCeEEEEecC
Q psy14655          3 ASSKGGVGKSTTTVNLATAMKICYPDKEIGILDAD   37 (261)
Q Consensus         3 ~s~KGGvGKTT~a~~lA~~la~~g~~~~VllvD~D   37 (261)
                      +-+--|+||||++..|+.+|...|  .+|.++..-
T Consensus         5 iEG~dGsGKST~~~~L~~~L~~~g--~~v~~~~~P   37 (213)
T PRK07933          5 IEGVDGAGKRTLTEALRAALEARG--RSVATLAFP   37 (213)
T ss_pred             EEcCCCCCHHHHHHHHHHHHHHCC--CeEEEEecC
Confidence            345569999999999999999999  999998764

>TIGR00665 DnaB replicative DNA helicase

Probab=94.69  E-value=0.038  Score=49.64  Aligned_cols=38  Identities=18%  Similarity=0.307  Sum_probs=33.4

Q ss_pred             cccCCCCCcHHHHHHHHHHHHHh-cCCCCeEEEEecCCCCC
Q psy14655          2 IASSKGGVGKSTTTVNLATAMKI-CYPDKEIGILDADVFGP   41 (261)
Q Consensus         2 v~s~KGGvGKTT~a~~lA~~la~-~g~~~~VllvD~D~~~~   41 (261)
                      ++++.-|+||||++.++|..++. .|  .+|+++-++....
T Consensus       199 vi~g~pg~GKT~~~l~~a~~~a~~~g--~~vl~~SlEm~~~  237 (434)
T TIGR00665       199 ILAARPSMGKTAFALNIAENAAIKEG--KPVAFFSLEMSAE  237 (434)
T ss_pred             EEEeCCCCChHHHHHHHHHHHHHhCC--CeEEEEeCcCCHH
Confidence            56788899999999999999886 57  9999999998653

This model describes the helicase DnaB, a homohexameric protein required for DNA replication. The homohexamer can form a ring around a single strand of DNA near a replication fork. An intein of 400 residues is found at a conserved location in DnaB of Synechocystis PCC6803, Rhodothermus marinus (both experimentally confirmed), and Mycobacterium tuberculosis. The intein removes itself by a self-splicing reaction. The seed alignment contains inteins so that the model built from the seed alignment will model a low cost at common intein insertion sites.

>cd01867 Rab8_Rab10_Rab13_like Rab8/Sec4/Ypt2

Probab=94.65  E-value=0.37  Score=36.85  Aligned_cols=64  Identities=13%  Similarity=0.064  Sum_probs=41.4

Q ss_pred             CCCEEEEeCCCCCC--hhHHHHhhhcCCCeEEEEeC-CCcchHHHHHHHHHHHHhC---CCCeEEEEEcCCCC
Q psy14655        106 PCDILFIDTPPGTG--DTHLSLIQNLFIDTAIIITI-PDTMSLQVAQRGYTMFKKL---NIPVAGLVMNMNSV  172 (261)
Q Consensus       106 ~yd~IiiD~~~~~~--~~~~~~~~~~~ad~viiv~~-~~~~s~~~~~~~~~~l~~~---~~~~~giv~N~~~~  172 (261)
                      .+.+.|.|+|+...  ......+..  +|.++++.+ .+..++..+...+..+...   +.+ +-+|.|+.+.
T Consensus        51 ~~~l~l~D~~g~~~~~~~~~~~~~~--ad~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p-~iiv~nK~Dl  120 (167)
T cd01867          51 KIKLQIWDTAGQERFRTITTAYYRG--AMGIILVYDITDEKSFENIRNWMRNIEEHASEDVE-RMLVGNKCDM  120 (167)
T ss_pred             EEEEEEEeCCchHHHHHHHHHHhCC--CCEEEEEEECcCHHHHHhHHHHHHHHHHhCCCCCc-EEEEEECccc
Confidence            46788999986432  222233344  899999987 4566777777766666543   233 5588898764

Rab8/Sec4/Ypt2 are known or suspected to be involved in post-Golgi transport to the plasma membrane. It is likely that these Rabs have functions that are specific to the mammalian lineage and have no orthologs in plants. Rab8 modulates polarized membrane transport through reorganization of actin and microtubules, induces the formation of new surface extensions, and has an important role in directed membrane transport to cell surfaces. The Ypt2 gene of the fission yeast Schizosaccharomyces pombe encodes a member of the Ypt/Rab family of small GTP-binding proteins, related in sequence to Sec4p of Saccharomyces cerevisiae but closer to mammalian Rab8. 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 inhi

>PRK01906 tetraacyldisaccharide 4'-kinase; Provisional

Probab=94.64  E-value=0.038  Score=47.78  Aligned_cols=34  Identities=24%  Similarity=0.344  Sum_probs=31.0

Q ss_pred             CCCCcHHHHHHHHHHHHHhcCCCCeEEEEecCCCCC
Q psy14655          6 KGGVGKSTTTVNLATAMKICYPDKEIGILDADVFGP   41 (261)
Q Consensus         6 KGGvGKTT~a~~lA~~la~~g~~~~VllvD~D~~~~   41 (261)
                      =||+|||-++..||..|.++|  ++|.+|---+.+.
T Consensus        66 vGGTGKTP~v~~La~~l~~~G--~~~~IlSRGYg~~   99 (338)
T PRK01906         66 VGGTGKTPTVIALVDALRAAG--FTPGVVSRGYGAK   99 (338)
T ss_pred             CCCCChHHHHHHHHHHHHHcC--CceEEEecCCCCC
Confidence            499999999999999999999  9999998887763

>TIGR02475 CobW cobalamin biosynthesis protein CobW

Probab=94.60  E-value=0.98  Score=39.28  Aligned_cols=38  Identities=21%  Similarity=0.216  Sum_probs=28.5

Q ss_pred             cccCCCCCcHHHHHHHHHHHHHhcCCCCeEEEEecCCCCCCc
Q psy14655          2 IASSKGGVGKSTTTVNLATAMKICYPDKEIGILDADVFGPSI   43 (261)
Q Consensus         2 v~s~KGGvGKTT~a~~lA~~la~~g~~~~VllvD~D~~~~~~   43 (261)
                      ++++-=|+||||+--++...  ..|  .|+.+|-.|.-.-+.
T Consensus         8 iltGFLGaGKTTll~~ll~~--~~~--~~iavi~Ne~G~~~I   45 (341)
T TIGR02475         8 IVTGFLGAGKTTLIRHLLQN--AAG--RRIAVIVNEFGDLGI   45 (341)
T ss_pred             EEEECCCCCHHHHHHHHHhc--cCC--CcEEEEECCCccccc
Confidence            34455599999999998764  356  899999988775443

A broader CobW family is delineated by two PFAM models which identify the N- and C-terminal domains (pfam02492 and pfam07683).

>PRK07560 elongation factor EF-2; Reviewed

Probab=94.59  E-value=0.086  Score=50.64  Aligned_cols=65  Identities=15%  Similarity=0.091  Sum_probs=47.0

Q ss_pred             CCCCEEEEeCCCCCC--hhHHHHhhhcCCCeEEEEeCCCcchHHHHHHHHHHHHhCCCCeEEEEEcCCCC
Q psy14655        105 GPCDILFIDTPPGTG--DTHLSLIQNLFIDTAIIITIPDTMSLQVAQRGYTMFKKLNIPVAGLVMNMNSV  172 (261)
Q Consensus       105 ~~yd~IiiD~~~~~~--~~~~~~~~~~~ad~viiv~~~~~~s~~~~~~~~~~l~~~~~~~~giv~N~~~~  172 (261)
                      .+|.+.|+|||+..+  ......+..  +|.+++|++....-...+..++..+.+.+.+. -+++|+.+.
T Consensus        85 ~~~~i~liDtPG~~df~~~~~~~l~~--~D~avlVvda~~g~~~~t~~~~~~~~~~~~~~-iv~iNK~D~  151 (731)
T PRK07560         85 KEYLINLIDTPGHVDFGGDVTRAMRA--VDGAIVVVDAVEGVMPQTETVLRQALRERVKP-VLFINKVDR  151 (731)
T ss_pred             CcEEEEEEcCCCccChHHHHHHHHHh--cCEEEEEEECCCCCCccHHHHHHHHHHcCCCe-EEEEECchh
Confidence            467789999997543  334455555  99999999877665566677777766667775 488999764

>cd01885 EF2 EF2 (for archaea and eukarya)

Probab=94.57  E-value=0.16  Score=41.24  Aligned_cols=65  Identities=15%  Similarity=0.061  Sum_probs=47.6

Q ss_pred             CCCCEEEEeCCCCCC--hhHHHHhhhcCCCeEEEEeCCCcchHHHHHHHHHHHHhCCCCeEEEEEcCCCC
Q psy14655        105 GPCDILFIDTPPGTG--DTHLSLIQNLFIDTAIIITIPDTMSLQVAQRGYTMFKKLNIPVAGLVMNMNSV  172 (261)
Q Consensus       105 ~~yd~IiiD~~~~~~--~~~~~~~~~~~ad~viiv~~~~~~s~~~~~~~~~~l~~~~~~~~giv~N~~~~  172 (261)
                      ..+.+.|+|||+...  ......+..  +|.+++|+.....-.......++.+...+.+ +-+++|+++.
T Consensus        71 ~~~~i~iiDTPG~~~f~~~~~~~l~~--aD~~ilVvD~~~g~~~~t~~~l~~~~~~~~p-~ilviNKiD~  137 (222)
T cd01885          71 NEYLINLIDSPGHVDFSSEVTAALRL--CDGALVVVDAVEGVCVQTETVLRQALKERVK-PVLVINKIDR  137 (222)
T ss_pred             CceEEEEECCCCccccHHHHHHHHHh--cCeeEEEEECCCCCCHHHHHHHHHHHHcCCC-EEEEEECCCc
Confidence            478899999997543  334455555  9999999997766555667777777666777 5589999764

Translocation requires hydrolysis of a molecule of GTP and is mediated by EF-G in bacteria and by eEF2 in eukaryotes. The eukaryotic elongation factor eEF2 is a GTPase involved in the translocation of the peptidyl-tRNA from the A site to the P site on the ribosome. The 95-kDa protein is highly conserved, with 60% amino acid sequence identity between the human and yeast proteins. Two major mechanisms are known to regulate protein elongation and both involve eEF2. First, eEF2 can be modulated by reversible phosphorylation. Increased levels of phosphorylated eEF2 reduce elongation rates presumably because phosphorylated eEF2 fails to bind the ribosomes. Treatment of mammalian cells with agents that raise the cytoplasmic Ca2+ and cAMP levels reduce elongation rates by activating the kinase responsible for phosphorylating eEF2. In contrast, treatment of cells with insulin increases elongation rates by promoting eEF2 dephosphorylation. Seco

>COG1618 Predicted nucleotide kinase [Nucleotide transport and metabolism]

Probab=94.55  E-value=0.054  Score=41.37  Aligned_cols=33  Identities=21%  Similarity=0.326  Sum_probs=28.2

Q ss_pred             cccCCCCCcHHHHHHHHHHHHHhcCCCCeEEEEec
Q psy14655          2 IASSKGGVGKSTTTVNLATAMKICYPDKEIGILDA   36 (261)
Q Consensus         2 v~s~KGGvGKTT~a~~lA~~la~~g~~~~VllvD~   36 (261)
                      ++++--||||||++.-+|-.|.+.|  ++|.-+=+
T Consensus         9 ~ITG~PGvGKtTl~~ki~e~L~~~g--~kvgGf~t   41 (179)
T COG1618           9 FITGRPGVGKTTLVLKIAEKLREKG--YKVGGFIT   41 (179)
T ss_pred             EEeCCCCccHHHHHHHHHHHHHhcC--ceeeeEEe
Confidence            5678889999999999999999998  88865533

>PF12846 AAA_10: AAA-like domain

Probab=94.54  E-value=0.039  Score=46.48  Aligned_cols=34  Identities=26%  Similarity=0.266  Sum_probs=30.5

Q ss_pred             cccCCCCCcHHHHHHHHHHHHHhcCCCCeEEEEecC
Q psy14655          2 IASSKGGVGKSTTTVNLATAMKICYPDKEIGILDAD   37 (261)
Q Consensus         2 v~s~KGGvGKTT~a~~lA~~la~~g~~~~VllvD~D   37 (261)
                      ++.++-|+||||++.++...+...|  ..++++|..
T Consensus         5 ~i~G~tGsGKT~~~~~l~~~~~~~g--~~~~i~D~~   38 (304)
T PF12846_consen    5 LILGKTGSGKTTLLKNLLEQLIRRG--PRVVIFDPK   38 (304)
T ss_pred             EEECCCCCcHHHHHHHHHHHHHHcC--CCEEEEcCC
Confidence            5668889999999999999999999  999999554

>cd04119 RJL RJL (RabJ-Like) subfamily

Probab=94.48  E-value=0.34  Score=36.70  Aligned_cols=66  Identities=9%  Similarity=0.031  Sum_probs=41.3

Q ss_pred             CCCCEEEEeCCCCCChh--HHHHhhhcCCCeEEEEeCCC-cchHHHHHHHHHHHHhCC-------CCeEEEEEcCCCC
Q psy14655        105 GPCDILFIDTPPGTGDT--HLSLIQNLFIDTAIIITIPD-TMSLQVAQRGYTMFKKLN-------IPVAGLVMNMNSV  172 (261)
Q Consensus       105 ~~yd~IiiD~~~~~~~~--~~~~~~~~~ad~viiv~~~~-~~s~~~~~~~~~~l~~~~-------~~~~giv~N~~~~  172 (261)
                      ..+.+.|+|+|+.....  ....+..  +|.++++.+++ ..+...+...+..+.+..       -..+-+|.|+.+.
T Consensus        47 ~~~~l~i~Dt~G~~~~~~~~~~~~~~--~d~~ilv~D~~~~~s~~~~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl  122 (168)
T cd04119          47 KEVRVNFFDLSGHPEYLEVRNEFYKD--TQGVLLVYDVTDRQSFEALDSWLKEMKQEGGPHGNMENIVVVVCANKIDL  122 (168)
T ss_pred             eEEEEEEEECCccHHHHHHHHHHhcc--CCEEEEEEECCCHHHHHhHHHHHHHHHHhccccccCCCceEEEEEEchhc
Confidence            45788899998643211  1222333  89999999854 456666666666555421       1246789999664

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.

>PRK06217 hypothetical protein; Validated

Probab=94.47  E-value=0.035  Score=43.64  Aligned_cols=30  Identities=27%  Similarity=0.275  Sum_probs=23.5

Q ss_pred             cccCCCCCcHHHHHHHHHHHHHhcCCCCeEEEEecCC
Q psy14655          2 IASSKGGVGKSTTTVNLATAMKICYPDKEIGILDADV   38 (261)
Q Consensus         2 v~s~KGGvGKTT~a~~lA~~la~~g~~~~VllvD~D~   38 (261)
                      ++.+-.|+||||+|..||..+   |  .+  .+|+|.
T Consensus         5 ~i~G~~GsGKSTla~~L~~~l---~--~~--~~~~D~   34 (183)
T PRK06217          5 HITGASGSGTTTLGAALAERL---D--IP--HLDTDD   34 (183)
T ss_pred             EEECCCCCCHHHHHHHHHHHc---C--Cc--EEEcCc
Confidence            567789999999999999766   4  44  577774

>PRK08006 replicative DNA helicase; Provisional

Probab=94.47  E-value=0.047  Score=49.55  Aligned_cols=37  Identities=24%  Similarity=0.372  Sum_probs=32.6

Q ss_pred             cccCCCCCcHHHHHHHHHHHHHh-cCCCCeEEEEecCCCC
Q psy14655          2 IASSKGGVGKSTTTVNLATAMKI-CYPDKEIGILDADVFG   40 (261)
Q Consensus         2 v~s~KGGvGKTT~a~~lA~~la~-~g~~~~VllvD~D~~~   40 (261)
                      |+++.-|+|||++|.|+|..+|. +|  ++|+++-+.+..
T Consensus       228 iIaarPgmGKTafalnia~~~a~~~g--~~V~~fSlEM~~  265 (471)
T PRK08006        228 IVAARPSMGKTTFAMNLCENAAMLQD--KPVLIFSLEMPG  265 (471)
T ss_pred             EEEeCCCCCHHHHHHHHHHHHHHhcC--CeEEEEeccCCH
Confidence            56788899999999999999985 57  999999999765

>PRK06904 replicative DNA helicase; Validated

Probab=94.46  E-value=0.046  Score=49.64  Aligned_cols=37  Identities=19%  Similarity=0.332  Sum_probs=32.6

Q ss_pred             cccCCCCCcHHHHHHHHHHHHHh-cCCCCeEEEEecCCCC
Q psy14655          2 IASSKGGVGKSTTTVNLATAMKI-CYPDKEIGILDADVFG   40 (261)
Q Consensus         2 v~s~KGGvGKTT~a~~lA~~la~-~g~~~~VllvD~D~~~   40 (261)
                      |+++.-|+|||+++.|+|..+|. .|  .+|+++-+.+..
T Consensus       225 iIaarPg~GKTafalnia~~~a~~~g--~~Vl~fSlEMs~  262 (472)
T PRK06904        225 IVAARPSMGKTTFAMNLCENAAMASE--KPVLVFSLEMPA  262 (472)
T ss_pred             EEEeCCCCChHHHHHHHHHHHHHhcC--CeEEEEeccCCH
Confidence            66888999999999999999885 57  999999999765

>PRK10751 molybdopterin-guanine dinucleotide biosynthesis protein B; Provisional

Probab=94.45  E-value=0.05  Score=42.36  Aligned_cols=35  Identities=20%  Similarity=0.187  Sum_probs=30.1

Q ss_pred             ccCCCCCcHHHHHHHHHHHHHhcCCCCeEEEEecCCC
Q psy14655          3 ASSKGGVGKSTTTVNLATAMKICYPDKEIGILDADVF   39 (261)
Q Consensus         3 ~s~KGGvGKTT~a~~lA~~la~~g~~~~VllvD~D~~   39 (261)
                      +.+.-|+||||+...+...|...|  .+|..|-.+..
T Consensus        11 ivG~sgsGKTTLi~~li~~l~~~g--~~vg~Ik~~~~   45 (173)
T PRK10751         11 IAAWSGTGKTTLLKKLIPALCARG--IRPGLIKHTHH   45 (173)
T ss_pred             EECCCCChHHHHHHHHHHHHhhcC--CeEEEEEEcCC
Confidence            346679999999999999999989  99999976554

>PRK06921 hypothetical protein; Provisional

Probab=94.43  E-value=0.048  Score=45.65  Aligned_cols=33  Identities=12%  Similarity=-0.012  Sum_probs=29.1

Q ss_pred             cccCCCCCcHHHHHHHHHHHHHhc-CCCCeEEEEec
Q psy14655          2 IASSKGGVGKSTTTVNLATAMKIC-YPDKEIGILDA   36 (261)
Q Consensus         2 v~s~KGGvGKTT~a~~lA~~la~~-g~~~~VllvD~   36 (261)
                      ++.+.-|+|||+++..+|..+.++ |  .+|+++..
T Consensus       121 ~l~G~~G~GKThLa~aia~~l~~~~g--~~v~y~~~  154 (266)
T PRK06921        121 ALLGQPGSGKTHLLTAAANELMRKKG--VPVLYFPF  154 (266)
T ss_pred             EEECCCCCcHHHHHHHHHHHHhhhcC--ceEEEEEH
Confidence            345678999999999999999988 8  99999885

>PF07755 DUF1611: Protein of unknown function (DUF1611); InterPro: IPR011669 This entry contains a number of hypothetical bacterial and archaeal proteins

Probab=94.42  E-value=0.63  Score=39.52  Aligned_cols=132  Identities=17%  Similarity=0.238  Sum_probs=75.3

Q ss_pred             cccCCCCCcHHHHHHHHHHHHHhcCCCCeEEEEecCCCCCCcccccCCCCCCCCCcCCccccccccCceeecCCCCcccc
Q psy14655          2 IASSKGGVGKSTTTVNLATAMKICYPDKEIGILDADVFGPSIPILMNLPDTPLLNKDNLMIPLVNYGVKCLSMGNLITEK   81 (261)
Q Consensus         2 v~s~KGGvGKTT~a~~lA~~la~~g~~~~VllvD~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~   81 (261)
                      +++.---+||=|++..|..+|.++|  .++-++-...++    ++. ..  .++.            ++.++        
T Consensus       117 ~vGTDcavGK~tTal~L~~~l~~~G--~~a~fvaTGQTG----imi-a~--~Gv~------------iDav~--------  167 (301)
T PF07755_consen  117 TVGTDCAVGKMTTALELRRALRERG--INAGFVATGQTG----IMI-AG--YGVP------------IDAVP--------  167 (301)
T ss_dssp             EEESSSSSSHHHHHHHHHHHHHHTT----EEEEE-SHHH----HHC-HS--EC--------------GGGSB--------
T ss_pred             EEccCccccHHHHHHHHHHHHHHcC--CCceEEecCCce----EEE-ec--CCee------------ccchh--------
Confidence            3455566999999999999999999  999999877553    121 10  1110            11111        


Q ss_pred             hhhhhhchHHHHHHHHHHHHhccCCCCEEEEeCCCCCChh-----HHHHhhhcCCCeEEEEeCCCcchH--------HHH
Q psy14655         82 SAAIWRGLMVMQALNKLTVQVQWGPCDILFIDTPPGTGDT-----HLSLIQNLFIDTAIIITIPDTMSL--------QVA  148 (261)
Q Consensus        82 ~~~~~~~~~~~~~l~~~l~~l~~~~yd~IiiD~~~~~~~~-----~~~~~~~~~ad~viiv~~~~~~s~--------~~~  148 (261)
                            ..+....++.++-... ++.|+||+-..+++.+.     ...++.....|.+|+.-.|....+        ..+
T Consensus       168 ------~DFvaGavE~~v~~~~-~~~d~ivVEGQgsL~hPay~gvsl~lL~Gs~Pd~lVL~H~p~r~~~~~~p~~~ip~l  240 (301)
T PF07755_consen  168 ------SDFVAGAVEALVPEAA-EEHDWIVVEGQGSLSHPAYSGVSLGLLHGSQPDALVLCHAPGRKHRDGFPHYPIPPL  240 (301)
T ss_dssp             ------GGGHHHHHHHHHHHHC-CC-SEEEEE--S-TTSTTTHHCHHHHHHHH--SEEEEEEETT-SC-TTSTTSC---H
T ss_pred             ------hhhHHHHHHHHHHhhC-cCCCEEEEeccccccCccccccchhhhccCCCCeEEEEecCCcccccCCCcCCCCCH
Confidence                  1223334555555555 35599999999877543     344555555899999999955444        345


Q ss_pred             HHHHHHHHhC-CC----CeEEEEEcC
Q psy14655        149 QRGYTMFKKL-NI----PVAGLVMNM  169 (261)
Q Consensus       149 ~~~~~~l~~~-~~----~~~giv~N~  169 (261)
                      .+.++.++.+ +.    +++|+-+|.
T Consensus       241 ~~~I~l~e~la~~~~~~~VvgIslNt  266 (301)
T PF07755_consen  241 EEEIELIEALAGTKPPAKVVGISLNT  266 (301)
T ss_dssp             HHHHHHHHHCCCGC---EEEEEECC-
T ss_pred             HHHHHHHHHhhccCCCccEEEEEEEC
Confidence            5666666654 22    389999996

The region is approximately 350 residues long. A member of this family (Q6M063 from SWISSPROT) is thought to associate with another subunit to form an H+-transporting ATPase, but no evidence has been found to support this.; PDB: 2G0T_A 2OBN_A.

>PRK05748 replicative DNA helicase; Provisional

Probab=94.41  E-value=0.044  Score=49.46  Aligned_cols=38  Identities=21%  Similarity=0.364  Sum_probs=33.3

Q ss_pred             cccCCCCCcHHHHHHHHHHHHHh-cCCCCeEEEEecCCCCC
Q psy14655          2 IASSKGGVGKSTTTVNLATAMKI-CYPDKEIGILDADVFGP   41 (261)
Q Consensus         2 v~s~KGGvGKTT~a~~lA~~la~-~g~~~~VllvD~D~~~~   41 (261)
                      ++++.-|+||||++.++|...|. .|  .+|+++-+.+...
T Consensus       207 vIaarpg~GKT~~al~ia~~~a~~~g--~~v~~fSlEms~~  245 (448)
T PRK05748        207 IVAARPSVGKTAFALNIAQNVATKTD--KNVAIFSLEMGAE  245 (448)
T ss_pred             EEEeCCCCCchHHHHHHHHHHHHhCC--CeEEEEeCCCCHH
Confidence            56788899999999999999885 58  9999999998753

>COG2109 BtuR ATP:corrinoid adenosyltransferase [Coenzyme metabolism]

Probab=94.38  E-value=0.24  Score=38.84  Aligned_cols=30  Identities=23%  Similarity=0.294  Sum_probs=25.8

Q ss_pred             CCCCCcHHHHHHHHHHHHHhcCCCCeEEEEec
Q psy14655          5 SKGGVGKSTTTVNLATAMKICYPDKEIGILDA   36 (261)
Q Consensus         5 ~KGGvGKTT~a~~lA~~la~~g~~~~VllvD~   36 (261)
                      .--|=||||-|..+|....-.|  +||++|-+
T Consensus        35 TG~GKGKTTAAlG~alRa~GhG--~rv~vvQF   64 (198)
T COG2109          35 TGNGKGKTTAALGLALRALGHG--LRVGVVQF   64 (198)
T ss_pred             ecCCCChhHHHHHHHHHHhcCC--CEEEEEEE
Confidence            3447899999999999999898  99999855

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

Probab=94.38  E-value=0.05  Score=45.30  Aligned_cols=40  Identities=8%  Similarity=0.052  Sum_probs=35.3

Q ss_pred             cccCCCCCcHHHHHHHHHHHHHhcCCCCeEEEEecCCCCCCc
Q psy14655          2 IASSKGGVGKSTTTVNLATAMKICYPDKEIGILDADVFGPSI   43 (261)
Q Consensus         2 v~s~KGGvGKTT~a~~lA~~la~~g~~~~VllvD~D~~~~~~   43 (261)
                      ++.+--|+|||+++.+++...++.|  .+|++|-++.....+
T Consensus        27 lI~G~pGsGKT~f~~qfl~~~~~~g--e~vlyvs~~e~~~~l   66 (260)
T COG0467          27 LITGPPGTGKTIFALQFLYEGAREG--EPVLYVSTEESPEEL   66 (260)
T ss_pred             EEEcCCCCcHHHHHHHHHHHHHhcC--CcEEEEEecCCHHHH
Confidence            4567789999999999999999999  999999999876543

>cd04115 Rab33B_Rab33A Rab33B/Rab33A subfamily

Probab=94.36  E-value=0.27  Score=37.73  Aligned_cols=65  Identities=12%  Similarity=0.069  Sum_probs=41.7

Q ss_pred             CCCCEEEEeCCCCCCh---hHHHHhhhcCCCeEEEEeCC-CcchHHHHHHHHHHHHhC----CCCeEEEEEcCCCC
Q psy14655        105 GPCDILFIDTPPGTGD---THLSLIQNLFIDTAIIITIP-DTMSLQVAQRGYTMFKKL----NIPVAGLVMNMNSV  172 (261)
Q Consensus       105 ~~yd~IiiD~~~~~~~---~~~~~~~~~~ad~viiv~~~-~~~s~~~~~~~~~~l~~~----~~~~~giv~N~~~~  172 (261)
                      ..+.+-|+|+++....   ........  +|.++++.++ +..+...+..+++.+...    +.+ +-+|.|+.+.
T Consensus        49 ~~~~~~i~Dt~G~~~~~~~~~~~~~~~--~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~p-~iiv~nK~Dl  121 (170)
T cd04115          49 ERIKVQLWDTAGQERFRKSMVQHYYRN--VHAVVFVYDVTNMASFHSLPSWIEECEQHSLPNEVP-RILVGNKCDL  121 (170)
T ss_pred             eEEEEEEEeCCChHHHHHhhHHHhhcC--CCEEEEEEECCCHHHHHhHHHHHHHHHHhcCCCCCC-EEEEEECccc
Confidence            4578889999864321   11222333  8989999885 446777777777666543    344 5689999663

Rab33B is ubiquitously expressed in mouse tissues and cells, where it is localized to the medial Golgi cisternae. It colocalizes with alpha-mannose II. Together with the other cisternal Rabs, Rab6A and Rab6A', it is believed to regulate the Golgi response to stress and is likely a molecular target in stress-activated signaling pathways. Rab33A (previously known as S10) is expressed primarily in the brain and immune system cells. In humans, it is located on the X chromosome at Xq26 and its expression is down-regulated in tuberculosis patients. Experimental evidence suggests that Rab33A is a novel CD8+ T cell factor that likely plays a role in tuberculosis disease processes. 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

>PF00154 RecA: recA bacterial DNA recombination protein; InterPro: IPR013765 The recA gene product is a multifunctional enzyme that plays a role in homologous recombination, DNA repair and induction of the SOS response []

Probab=94.34  E-value=0.074  Score=45.60  Aligned_cols=33  Identities=15%  Similarity=0.058  Sum_probs=27.3

Q ss_pred             CCCCcHHHHHHHHHHHHHhcCCCCeEEEEecCCCC
Q psy14655          6 KGGVGKSTTTVNLATAMKICYPDKEIGILDADVFG   40 (261)
Q Consensus         6 KGGvGKTT~a~~lA~~la~~g~~~~VllvD~D~~~   40 (261)
                      ..|+||||++.++.+.+.+.|  ..+++||....-
T Consensus        61 ~~ssGKttLaL~~ia~~q~~g--~~~a~ID~e~~l   93 (322)
T PF00154_consen   61 PESSGKTTLALHAIAEAQKQG--GICAFIDAEHAL   93 (322)
T ss_dssp             STTSSHHHHHHHHHHHHHHTT---EEEEEESSS--
T ss_pred             CCCCchhhhHHHHHHhhhccc--ceeEEecCcccc
Confidence            458899999999999998888  999999997664

In homologous recombination, the protein functions as a DNA-dependent ATPase, promoting synapsis, heteroduplex formation and strand exchange between homologous DNAs []. RecA also acts as a protease cofactor that promotes autodigestion of the lexA product and phage repressors. The proteolytic inactivation of the lexA repressor by an activated form of recA may cause a derepression of the 20 or so genes involved in the SOS response, which regulates DNA repair, induced mutagenesis, delayed cell division and prophage induction in response to DNA damage []. RecA is a protein of about 350 amino-acid residues. Its sequence is very well conserved [, , ] among eubacterial species. It is also found in the chloroplast of plants []. RecA-like proteins are found in archaea and diverse eukaryotic organisms, like fission yeast, mouse or human. In the filament visualised by X-ray crystallography, beta-strand 3, the loop C-terminal to beta-strand 2, and alpha-helix D of the core domain form one surface that packs against alpha-helix A and beta-strand 0 (the N-terminal domain) of an adjacent monomer during polymerisation []. The core ATP-binding site domain is well conserved, with 14 invariant residues. It contains the nucleotide binding loop between beta-strand 1 and alpha-helix C. The Escherichia coli sequence GPESSGKT matches the consensus sequence of amino acids (G/A)XXXXGK(T/S) for the Walker A box (also referred to as the P-loop) found in a number of nucleoside triphosphate (NTP)-binding proteins. Another nucleotide binding motif, the Walker B box is found at beta-strand 4 in the RecA structure. The Walker B box is characterised by four hydrophobic amino acids followed by an acidic residue (usually aspartate). Nucleotide specificity and additional ATP binding interactions are contributed by the amino acid residues at beta-strand 2 and the loop C-terminal to that strand, all of which are greater than 90% conserved among bacterial RecA proteins.; GO: 0003697 single-stranded DNA binding, 0005524 ATP binding, 0006281 DNA repair; PDB: 2IN0_A 1MO3_A 3IFJ_A 2IN8_A 2IMZ_B 1G18_A 1MO4_A 3IGD_A 2L8L_A 2IN9_A ....

>PRK09518 bifunctional cytidylate kinase/GTPase Der; Reviewed

Probab=94.32  E-value=0.27  Score=47.11  Aligned_cols=65  Identities=15%  Similarity=0.126  Sum_probs=40.2

Q ss_pred             CCCCEEEEeCCCCCCh----------hHHHHhhhcCCCeEEEEeCCCcchHHHHHHHHHHHHhCCCCeEEEEEcCCCC
Q psy14655        105 GPCDILFIDTPPGTGD----------THLSLIQNLFIDTAIIITIPDTMSLQVAQRGYTMFKKLNIPVAGLVMNMNSV  172 (261)
Q Consensus       105 ~~yd~IiiD~~~~~~~----------~~~~~~~~~~ad~viiv~~~~~~s~~~~~~~~~~l~~~~~~~~giv~N~~~~  172 (261)
                      .+..+.++|||+....          .....+..  ||.+++|++....-...-..+.+.++..+.+ +-+|+|+++.
T Consensus       321 ~~~~~~liDT~G~~~~~~~~~~~~~~~~~~~~~~--aD~iL~VvDa~~~~~~~d~~i~~~Lr~~~~p-vIlV~NK~D~  395 (712)
T PRK09518        321 AGTDFKLVDTGGWEADVEGIDSAIASQAQIAVSL--ADAVVFVVDGQVGLTSTDERIVRMLRRAGKP-VVLAVNKIDD  395 (712)
T ss_pred             CCEEEEEEeCCCcCCCCccHHHHHHHHHHHHHHh--CCEEEEEEECCCCCCHHHHHHHHHHHhcCCC-EEEEEECccc
Confidence            4567889999864320          11122334  8999999986543222223556677777766 4488999774

>TIGR02239 recomb_RAD51 DNA repair protein RAD51

Probab=94.30  E-value=0.11  Score=44.57  Aligned_cols=37  Identities=14%  Similarity=0.042  Sum_probs=27.6

Q ss_pred             ccCCCCCcHHHHHHHHHHHHHh---cC-CCCeEEEEecCCC
Q psy14655          3 ASSKGGVGKSTTTVNLATAMKI---CY-PDKEIGILDADVF   39 (261)
Q Consensus         3 ~s~KGGvGKTT~a~~lA~~la~---~g-~~~~VllvD~D~~   39 (261)
                      +.+.-|+||||++.+++...+.   .| .+.+|++||....
T Consensus       101 i~G~~g~GKT~l~~~~~~~~~~~~~~Gg~~~~vvyIdtE~~  141 (316)
T TIGR02239       101 IFGEFRTGKTQLCHTLAVTCQLPIDQGGGEGKALYIDTEGT  141 (316)
T ss_pred             EECCCCCCcCHHHHHHHHHHhhhhhcCCCCceEEEEECCCC
Confidence            4567899999999999975442   22 1258999999865

This eukaryotic sequence family consists of RAD51, a protein involved in DNA homologous recombination and repair. It is similar in sequence the exclusively meiotic recombinase DMC1 (TIGR02238), to archaeal families RadA (TIGR02236) and RadB (TIGR02237), and to bacterial RecA (TIGR02012).

>PRK08840 replicative DNA helicase; Provisional

Probab=94.30  E-value=0.053  Score=49.10  Aligned_cols=37  Identities=22%  Similarity=0.317  Sum_probs=32.6

Q ss_pred             cccCCCCCcHHHHHHHHHHHHHh-cCCCCeEEEEecCCCC
Q psy14655          2 IASSKGGVGKSTTTVNLATAMKI-CYPDKEIGILDADVFG   40 (261)
Q Consensus         2 v~s~KGGvGKTT~a~~lA~~la~-~g~~~~VllvD~D~~~   40 (261)
                      |+++.-|+|||+++.|+|..+|. +|  ++|+++-+.+..
T Consensus       221 viaarPg~GKTafalnia~~~a~~~~--~~v~~fSlEMs~  258 (464)
T PRK08840        221 IVAARPSMGKTTFAMNLCENAAMDQD--KPVLIFSLEMPA  258 (464)
T ss_pred             EEEeCCCCchHHHHHHHHHHHHHhCC--CeEEEEeccCCH
Confidence            56788899999999999999985 57  999999999765

>KOG0078|consensus

Probab=94.21  E-value=0.32  Score=38.64  Aligned_cols=80  Identities=9%  Similarity=0.011  Sum_probs=51.2

Q ss_pred             CEEEEeCCCCC--ChhHHHHhhhcCCCeEEEEeC-CCcchHHHHHHHHHHHHhCCC--CeEEEEEcCCCCCCCCCCcccc
Q psy14655        108 DILFIDTPPGT--GDTHLSLIQNLFIDTAIIITI-PDTMSLQVAQRGYTMFKKLNI--PVAGLVMNMNSVLCPSCNHMFE  182 (261)
Q Consensus       108 d~IiiD~~~~~--~~~~~~~~~~~~ad~viiv~~-~~~~s~~~~~~~~~~l~~~~~--~~~giv~N~~~~~~~~~~~~~~  182 (261)
                      -+-+.|+.+.-  .....+....  |+.+++|.. .+..|...+...++.+++..-  -.+-+|-|+++.     .....
T Consensus        62 ~lQiWDtaGQerf~ti~~sYyrg--A~gi~LvyDitne~Sfeni~~W~~~I~e~a~~~v~~~LvGNK~D~-----~~~R~  134 (207)
T KOG0078|consen   62 KLQIWDTAGQERFRTITTAYYRG--AMGILLVYDITNEKSFENIRNWIKNIDEHASDDVVKILVGNKCDL-----EEKRQ  134 (207)
T ss_pred             EEEEEEcccchhHHHHHHHHHhh--cCeeEEEEEccchHHHHHHHHHHHHHHhhCCCCCcEEEeeccccc-----ccccc
Confidence            45566776432  2334455555  889999987 788899999998888887522  145689999773     33334


Q ss_pred             cccchhHHHHHh
Q psy14655        183 LYENNLHQFEAK  194 (261)
Q Consensus       183 ~~~~~~~~~~~~  194 (261)
                      +..+..+.++.+
T Consensus       135 V~~e~ge~lA~e  146 (207)
T KOG0078|consen  135 VSKERGEALARE  146 (207)
T ss_pred             ccHHHHHHHHHH
Confidence            444455555554

>cd04175 Rap1 Rap1 subgroup

Probab=94.18  E-value=0.32  Score=36.97  Aligned_cols=65  Identities=14%  Similarity=0.112  Sum_probs=41.0

Q ss_pred             CCCCEEEEeCCCCCC--hhHHHHhhhcCCCeEEEEeC-CCcchHHHHHHHHHHHHh----CCCCeEEEEEcCCCC
Q psy14655        105 GPCDILFIDTPPGTG--DTHLSLIQNLFIDTAIIITI-PDTMSLQVAQRGYTMFKK----LNIPVAGLVMNMNSV  172 (261)
Q Consensus       105 ~~yd~IiiD~~~~~~--~~~~~~~~~~~ad~viiv~~-~~~~s~~~~~~~~~~l~~----~~~~~~giv~N~~~~  172 (261)
                      ..+.+.|.|+|+...  ......+..  +|.++++.. .+..+...+......+.+    .+.+ +-+|.|+.+.
T Consensus        47 ~~~~l~i~Dt~G~~~~~~~~~~~~~~--~d~~ilv~d~~~~~s~~~~~~~~~~i~~~~~~~~~p-iilv~nK~Dl  118 (164)
T cd04175          47 QQCMLEILDTAGTEQFTAMRDLYMKN--GQGFVLVYSITAQSTFNDLQDLREQILRVKDTEDVP-MILVGNKCDL  118 (164)
T ss_pred             EEEEEEEEECCCcccchhHHHHHHhh--CCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCC-EEEEEECCcc
Confidence            356778999986432  222333444  888888887 445666666666665543    2455 5599999764

The Rap1 subgroup is part of the Rap subfamily of the Ras family. It can be further divided into the Rap1a and Rap1b isoforms. In humans, Rap1a and Rap1b share 95% sequence homology, but are products of two different genes located on chromosomes 1 and 12, respectively. Rap1a is sometimes called smg p21 or Krev1 in the older literature. Rap1 proteins are believed to perform different cellular functions, depending on the isoform, its subcellular localization, and the effector proteins it binds. 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 the microsomal membrane of pancreatic acini, as well as in the endocytic compartment of skeletal muscle cells and fibroblasts. High expression of Rap1 has been observed in the n

>PLN03118 Rab family protein; Provisional

Probab=94.17  E-value=0.17  Score=40.60  Aligned_cols=65  Identities=12%  Similarity=-0.004  Sum_probs=38.2

Q ss_pred             CCCCEEEEeCCCCCC--hhHHHHhhhcCCCeEEEEeCC-CcchHHHHHHHH-HHHHhC----CCCeEEEEEcCCCC
Q psy14655        105 GPCDILFIDTPPGTG--DTHLSLIQNLFIDTAIIITIP-DTMSLQVAQRGY-TMFKKL----NIPVAGLVMNMNSV  172 (261)
Q Consensus       105 ~~yd~IiiD~~~~~~--~~~~~~~~~~~ad~viiv~~~-~~~s~~~~~~~~-~~l~~~----~~~~~giv~N~~~~  172 (261)
                      ..+.+.|+|+|+...  ......+..  +|.+++|... +..+...+.... ..+...    +.+ +.+|.|+.+.
T Consensus        60 ~~~~l~l~Dt~G~~~~~~~~~~~~~~--~d~~vlv~D~~~~~sf~~~~~~~~~~~~~~~~~~~~~-~ilv~NK~Dl  132 (211)
T PLN03118         60 KRLKLTIWDTAGQERFRTLTSSYYRN--AQGIILVYDVTRRETFTNLSDVWGKEVELYSTNQDCV-KMLVGNKVDR  132 (211)
T ss_pred             EEEEEEEEECCCchhhHHHHHHHHhc--CCEEEEEEECCCHHHHHHHHHHHHHHHHHhcCCCCCC-EEEEEECccc
Confidence            346789999997533  222334444  8999999884 445555555432 233321    233 5578899764

>COG4240 Predicted kinase [General function prediction only]

Probab=94.15  E-value=0.058  Score=43.59  Aligned_cols=36  Identities=22%  Similarity=0.108  Sum_probs=31.3

Q ss_pred             cccCCCCCcHHHHHHHHHHHHHhcCCCCeEEEEecCC
Q psy14655          2 IASSKGGVGKSTTTVNLATAMKICYPDKEIGILDADV   38 (261)
Q Consensus         2 v~s~KGGvGKTT~a~~lA~~la~~g~~~~VllvD~D~   38 (261)
                      .+|+--|+||||+++.+-..|+..| ..+|+.+.+|-
T Consensus        54 gisGpQGSGKStls~~i~~~L~~kg-~ert~~lSLDD   89 (300)
T COG4240          54 GISGPQGSGKSTLSALIVRLLAAKG-LERTATLSLDD   89 (300)
T ss_pred             EeecCCCCchhhHHHHHHHHHHHhc-ccceEEeehhh
Confidence            4677889999999999999999987 35999998885

>PRK06321 replicative DNA helicase; Provisional

Probab=94.14  E-value=0.059  Score=48.88  Aligned_cols=38  Identities=18%  Similarity=0.322  Sum_probs=33.1

Q ss_pred             cccCCCCCcHHHHHHHHHHHHHh-cCCCCeEEEEecCCCCC
Q psy14655          2 IASSKGGVGKSTTTVNLATAMKI-CYPDKEIGILDADVFGP   41 (261)
Q Consensus         2 v~s~KGGvGKTT~a~~lA~~la~-~g~~~~VllvD~D~~~~   41 (261)
                      |+++.-|+|||+++.|+|..+|. .|  ++|+++-+.+...
T Consensus       230 iiaarPgmGKTafal~ia~~~a~~~g--~~v~~fSLEMs~~  268 (472)
T PRK06321        230 ILAARPAMGKTALALNIAENFCFQNR--LPVGIFSLEMTVD  268 (472)
T ss_pred             EEEeCCCCChHHHHHHHHHHHHHhcC--CeEEEEeccCCHH
Confidence            56788899999999999999984 57  9999999998653

>PRK09270 nucleoside triphosphate hydrolase domain-containing protein; Reviewed

Probab=94.14  E-value=0.058  Score=44.01  Aligned_cols=35  Identities=26%  Similarity=0.209  Sum_probs=28.7

Q ss_pred             ccCCCCCcHHHHHHHHHHHHHhcCCCCeEEE-EecCCC
Q psy14655          3 ASSKGGVGKSTTTVNLATAMKICYPDKEIGI-LDADVF   39 (261)
Q Consensus         3 ~s~KGGvGKTT~a~~lA~~la~~g~~~~Vll-vD~D~~   39 (261)
                      +++..|+||||++..|+..+...+  ..+.+ |.+|..
T Consensus        38 i~G~~GsGKTTl~~~L~~~l~~~~--g~~~v~i~~D~~   73 (229)
T PRK09270         38 IAGPPGAGKSTLAEFLEALLQQDG--ELPAIQVPMDGF   73 (229)
T ss_pred             EECCCCCCHHHHHHHHHHHhhhcc--CCceEEEecccc
Confidence            568899999999999999999887  66655 777653

>cd01131 PilT Pilus retraction ATPase PilT

Probab=94.05  E-value=1  Score=35.78  Aligned_cols=34  Identities=21%  Similarity=0.262  Sum_probs=25.9

Q ss_pred             cccCCCCCcHHHHHHHHHHHHHhcCCCCeEEEEec
Q psy14655          2 IASSKGGVGKSTTTVNLATAMKICYPDKEIGILDA   36 (261)
Q Consensus         2 v~s~KGGvGKTT~a~~lA~~la~~g~~~~VllvD~   36 (261)
                      ++++.-|+||||+...++..+.... +.+++.++-
T Consensus         5 lI~GptGSGKTTll~~ll~~~~~~~-~~~i~t~e~   38 (198)
T cd01131           5 LVTGPTGSGKSTTLAAMIDYINKNK-THHILTIED   38 (198)
T ss_pred             EEECCCCCCHHHHHHHHHHHhhhcC-CcEEEEEcC
Confidence            4678889999999999988887653 156666654

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.

>PTZ00141 elongation factor 1- alpha; Provisional

Probab=94.03  E-value=0.15  Score=46.10  Aligned_cols=65  Identities=12%  Similarity=0.082  Sum_probs=48.3

Q ss_pred             CCCCEEEEeCCCCCChh--HHHHhhhcCCCeEEEEeCCCcchH-------HHHHHHHHHHHhCCCCeEEEEEcCCC
Q psy14655        105 GPCDILFIDTPPGTGDT--HLSLIQNLFIDTAIIITIPDTMSL-------QVAQRGYTMFKKLNIPVAGLVMNMNS  171 (261)
Q Consensus       105 ~~yd~IiiD~~~~~~~~--~~~~~~~~~ad~viiv~~~~~~s~-------~~~~~~~~~l~~~~~~~~giv~N~~~  171 (261)
                      .++.+.|+|||+.....  ....+..  +|.+++|+++....+       .++.+.+..+...+++.+-+++|+++
T Consensus        83 ~~~~i~lIDtPGh~~f~~~~~~g~~~--aD~ailVVda~~G~~e~~~~~~~qT~eh~~~~~~~gi~~iiv~vNKmD  156 (446)
T PTZ00141         83 PKYYFTIIDAPGHRDFIKNMITGTSQ--ADVAILVVASTAGEFEAGISKDGQTREHALLAFTLGVKQMIVCINKMD  156 (446)
T ss_pred             CCeEEEEEECCChHHHHHHHHHhhhh--cCEEEEEEEcCCCceecccCCCccHHHHHHHHHHcCCCeEEEEEEccc
Confidence            67899999999754322  2333333  999999999776542       46777888888889987889999966

>cd04114 Rab30 Rab30 subfamily

Probab=94.01  E-value=0.32  Score=37.08  Aligned_cols=64  Identities=13%  Similarity=0.036  Sum_probs=37.8

Q ss_pred             CCCEEEEeCCCCCC--hhHHHHhhhcCCCeEEEEeCCCc-chHHHHHHHHHHHHhC---CCCeEEEEEcCCCC
Q psy14655        106 PCDILFIDTPPGTG--DTHLSLIQNLFIDTAIIITIPDT-MSLQVAQRGYTMFKKL---NIPVAGLVMNMNSV  172 (261)
Q Consensus       106 ~yd~IiiD~~~~~~--~~~~~~~~~~~ad~viiv~~~~~-~s~~~~~~~~~~l~~~---~~~~~giv~N~~~~  172 (261)
                      .+.+.+.|+|+...  ......+..  +|.++++.+.+. .+...+...+..+...   +.+ .-+|.|+.+.
T Consensus        55 ~~~~~~~D~~g~~~~~~~~~~~~~~--~d~~i~v~d~~~~~s~~~~~~~~~~l~~~~~~~~~-~i~v~NK~D~  124 (169)
T cd04114          55 KIKLQIWDTAGQERFRSITQSYYRS--ANALILTYDITCEESFRCLPEWLREIEQYANNKVI-TILVGNKIDL  124 (169)
T ss_pred             EEEEEEEECCCcHHHHHHHHHHhcC--CCEEEEEEECcCHHHHHHHHHHHHHHHHhCCCCCe-EEEEEECccc
Confidence            35677889986432  222333444  899999988543 4555555555555432   344 4588999664

Rab30 appears to be associated with the Golgi stack. It is expressed in a wide variety of tissue types and in humans maps to chromosome 11. 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.

>cd01129 PulE-GspE PulE/GspE The type II secretory pathway is the main terminal branch of the general secretory pathway (GSP)

Probab=94.00  E-value=0.59  Score=39.07  Aligned_cols=32  Identities=22%  Similarity=0.286  Sum_probs=26.7

Q ss_pred             cccCCCCCcHHHHHHHHHHHHHhcCCCCeEEEEe
Q psy14655          2 IASSKGGVGKSTTTVNLATAMKICYPDKEIGILD   35 (261)
Q Consensus         2 v~s~KGGvGKTT~a~~lA~~la~~g~~~~VllvD   35 (261)
                      ++++.-|+||||+...+...+...+  .+++.|+
T Consensus        84 lisG~tGSGKTT~l~all~~i~~~~--~~iitiE  115 (264)
T cd01129          84 LVTGPTGSGKTTTLYSALSELNTPE--KNIITVE  115 (264)
T ss_pred             EEECCCCCcHHHHHHHHHhhhCCCC--CeEEEEC
Confidence            5677889999999998888887666  8888886

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.

>cd04152 Arl4_Arl7 Arl4/Arl7 subfamily

Probab=93.92  E-value=0.26  Score=38.48  Aligned_cols=65  Identities=11%  Similarity=0.096  Sum_probs=38.7

Q ss_pred             CCCCEEEEeCCCCC--ChhHHHHhhhcCCCeEEEEeCCCc-chHHHHHHHHHHHHh----CCCCeEEEEEcCCCC
Q psy14655        105 GPCDILFIDTPPGT--GDTHLSLIQNLFIDTAIIITIPDT-MSLQVAQRGYTMFKK----LNIPVAGLVMNMNSV  172 (261)
Q Consensus       105 ~~yd~IiiD~~~~~--~~~~~~~~~~~~ad~viiv~~~~~-~s~~~~~~~~~~l~~----~~~~~~giv~N~~~~  172 (261)
                      ....+.++|+|+.-  .......+..  ||.++++++.+. .++..+...+..+..    .+.+ +.+|+|+.+.
T Consensus        50 ~~~~l~l~Dt~G~~~~~~~~~~~~~~--~d~ii~v~D~~~~~~~~~~~~~~~~i~~~~~~~~~p-~iiv~NK~D~  121 (183)
T cd04152          50 KGITFHFWDVGGQEKLRPLWKSYTRC--TDGIVFVVDSVDVERMEEAKTELHKITRFSENQGVP-VLVLANKQDL  121 (183)
T ss_pred             CceEEEEEECCCcHhHHHHHHHHhcc--CCEEEEEEECCCHHHHHHHHHHHHHHHhhhhcCCCc-EEEEEECcCc
Confidence            45678899998532  1222233444  899999998554 355555544443332    3444 5688999663

Arl4 (Arf-like 4) is highly expressed in testicular germ cells, and is found in the nucleus and nucleolus. In mice, Arl4 is developmentally expressed during embryogenesis, and a role in somite formation and central nervous system differentiation has been proposed. Arl7 has been identified as the only Arf/Arl protein to be induced by agonists of liver X-receptor and retinoid X-receptor and by cholesterol loading in human macrophages. Arl7 is proposed to play a role in transport between a perinuclear compartment and the plasma membrane, apparently linked to the ABCA1-mediated cholesterol secretion pathway. Older literature suggests that Arl6 is a part of the Arl4/Arl7 subfamily, but analyses based on more recent sequence data place Arl6 in its own subfamily.

>PRK09165 replicative DNA helicase; Provisional

Probab=93.89  E-value=0.071  Score=48.79  Aligned_cols=38  Identities=16%  Similarity=0.255  Sum_probs=32.8

Q ss_pred             cccCCCCCcHHHHHHHHHHHHHhc---------------CCCCeEEEEecCCCCC
Q psy14655          2 IASSKGGVGKSTTTVNLATAMKIC---------------YPDKEIGILDADVFGP   41 (261)
Q Consensus         2 v~s~KGGvGKTT~a~~lA~~la~~---------------g~~~~VllvD~D~~~~   41 (261)
                      ++++.-|+||||++.|+|...|+.               |  .+|+++-+.+...
T Consensus       221 vIaarpg~GKT~~al~ia~~~a~~~~~~~~~~~~~~~~~g--~~vl~fSlEMs~~  273 (497)
T PRK09165        221 ILAGRPSMGKTALATNIAFNAAKAYRREAQPDGSKKAVNG--GVVGFFSLEMSAE  273 (497)
T ss_pred             EEEeCCCCChHHHHHHHHHHHHHhhcccccccccccccCC--CeEEEEeCcCCHH
Confidence            567888999999999999999864               6  8999999988753

>TIGR03172 probable selenium-dependent hydroxylase accessory protein YqeC

Probab=93.88  E-value=0.058  Score=44.03  Aligned_cols=31  Identities=19%  Similarity=0.143  Sum_probs=26.9

Q ss_pred             cccCCCCCcHHHHHHHHHHHHHhcCCCCeEEEE
Q psy14655          2 IASSKGGVGKSTTTVNLATAMKICYPDKEIGIL   34 (261)
Q Consensus         2 v~s~KGGvGKTT~a~~lA~~la~~g~~~~Vllv   34 (261)
                      |++.-|+.||||+...||..+..+|  ++|++-
T Consensus         1 vi~~vG~gGKTtl~~~l~~~~~~~g--~~v~~T   31 (232)
T TIGR03172         1 VIAFVGAGGKTSTMFWLAAEYRKEG--YRVLVT   31 (232)
T ss_pred             CEEEEcCCcHHHHHHHHHHHHHHCC--CeEEEE
Confidence            3455678999999999999999999  999873

This uncharacterized protein family includes YqeC from Escherichia coli. A phylogenetic profiling analysis shows correlation with SelD, the selenium donor protein, even in species where SelD contributes to neither selenocysteine nor selenouridine biosynthesis. Instead, this family, and families TIGR03309 and TIGR03310 appear to mark selenium-dependent molybdenum hydroxylase maturation systems.

>PLN03071 GTP-binding nuclear protein Ran; Provisional

Probab=93.84  E-value=0.62  Score=37.66  Aligned_cols=65  Identities=17%  Similarity=0.041  Sum_probs=41.8

Q ss_pred             CCCCEEEEeCCCCCC--hhHHHHhhhcCCCeEEEEeC-CCcchHHHHHHHHHHHHhC--CCCeEEEEEcCCCC
Q psy14655        105 GPCDILFIDTPPGTG--DTHLSLIQNLFIDTAIIITI-PDTMSLQVAQRGYTMFKKL--NIPVAGLVMNMNSV  172 (261)
Q Consensus       105 ~~yd~IiiD~~~~~~--~~~~~~~~~~~ad~viiv~~-~~~~s~~~~~~~~~~l~~~--~~~~~giv~N~~~~  172 (261)
                      ..+.+.|.|+++.-.  .........  +|.+|+|.+ .+..++..+...++.+.+.  +. .+.+|.|+.+.
T Consensus        60 ~~~~l~i~Dt~G~~~~~~~~~~~~~~--~~~~ilvfD~~~~~s~~~i~~w~~~i~~~~~~~-piilvgNK~Dl  129 (219)
T PLN03071         60 GKIRFYCWDTAGQEKFGGLRDGYYIH--GQCAIIMFDVTARLTYKNVPTWHRDLCRVCENI-PIVLCGNKVDV  129 (219)
T ss_pred             eEEEEEEEECCCchhhhhhhHHHccc--ccEEEEEEeCCCHHHHHHHHHHHHHHHHhCCCC-cEEEEEEchhh
Confidence            346888999986432  112223344  888888888 4556777777777666543  33 36688999764

>PRK08118 topology modulation protein; Reviewed

Probab=93.81  E-value=0.042  Score=42.57  Aligned_cols=21  Identities=38%  Similarity=0.525  Sum_probs=17.8

Q ss_pred             cccCCCCCcHHHHHHHHHHHH
Q psy14655          2 IASSKGGVGKSTTTVNLATAM   22 (261)
Q Consensus         2 v~s~KGGvGKTT~a~~lA~~l   22 (261)
                      ++.+-+|+||||+|..|+..+
T Consensus         5 ~I~G~~GsGKSTlak~L~~~l   25 (167)
T PRK08118          5 ILIGSGGSGKSTLARQLGEKL   25 (167)
T ss_pred             EEECCCCCCHHHHHHHHHHHh
Confidence            456789999999999998766

>PTZ00301 uridine kinase; Provisional

Probab=93.81  E-value=0.1  Score=42.09  Aligned_cols=35  Identities=26%  Similarity=0.387  Sum_probs=25.2

Q ss_pred             ccCCCCCcHHHHHHHHHHHHHhc-CCCCeEEEEecCC
Q psy14655          3 ASSKGGVGKSTTTVNLATAMKIC-YPDKEIGILDADV   38 (261)
Q Consensus         3 ~s~KGGvGKTT~a~~lA~~la~~-g~~~~VllvD~D~   38 (261)
                      +++-.|+||||+|..|+..|... | ...|.++=.|.
T Consensus         8 IaG~SgSGKTTla~~l~~~l~~~~~-~~~~~vi~~D~   43 (210)
T PTZ00301          8 ISGASGSGKSSLSTNIVSELMAHCG-PVSIGVICEDF   43 (210)
T ss_pred             EECCCcCCHHHHHHHHHHHHHhhcC-CCeEEEeCCCC
Confidence            46778999999999999888643 4 23455665554

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

Probab=93.79  E-value=0.064  Score=38.18  Aligned_cols=24  Identities=29%  Similarity=0.278  Sum_probs=20.6

Q ss_pred             cccCCCCCcHHHHHHHHHHHHHhc
Q psy14655          2 IASSKGGVGKSTTTVNLATAMKIC   25 (261)
Q Consensus         2 v~s~KGGvGKTT~a~~lA~~la~~   25 (261)
                      .+.+..|+|||+++..||..+.+.
T Consensus         2 ~i~G~~G~GKS~l~~~l~~~l~~~   25 (107)
T PF00910_consen    2 WIYGPPGIGKSTLAKELAKDLLKH   25 (107)
T ss_pred             EEECCCCCCHHHHHHHHHHHHHHH
Confidence            456778999999999999999864

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

>cd01853 Toc34_like Toc34-like (Translocon at the Outer-envelope membrane of Chloroplasts)

Probab=93.77  E-value=1.2  Score=36.98  Aligned_cols=69  Identities=12%  Similarity=0.031  Sum_probs=34.3

Q ss_pred             CCCCEEEEeCCCCCChh-----HH-------HHhhhcCCCeEEEEeCCCcchHHHH-HHHHHHHHh-CCC---CeEEEEE
Q psy14655        105 GPCDILFIDTPPGTGDT-----HL-------SLIQNLFIDTAIIITIPDTMSLQVA-QRGYTMFKK-LNI---PVAGLVM  167 (261)
Q Consensus       105 ~~yd~IiiD~~~~~~~~-----~~-------~~~~~~~ad~viiv~~~~~~s~~~~-~~~~~~l~~-~~~---~~~giv~  167 (261)
                      +++.+.|+|||+..+..     ..       ..+.....|.++++...+....... ..+++.+.+ ++.   ...-+|+
T Consensus        77 ~g~~i~vIDTPGl~~~~~~~~~~~~~~~~I~~~l~~~~idvIL~V~rlD~~r~~~~d~~llk~I~e~fG~~i~~~~ivV~  156 (249)
T cd01853          77 DGFKLNIIDTPGLLESVMDQRVNRKILSSIKRYLKKKTPDVVLYVDRLDMYRRDYLDLPLLRAITDSFGPSIWRNAIVVL  156 (249)
T ss_pred             CCeEEEEEECCCcCcchhhHHHHHHHHHHHHHHHhccCCCEEEEEEcCCCCCCCHHHHHHHHHHHHHhChhhHhCEEEEE
Confidence            45677888887533221     00       0111111566777765544322222 244555543 232   2466899


Q ss_pred             cCCCCC
Q psy14655        168 NMNSVL  173 (261)
Q Consensus       168 N~~~~~  173 (261)
                      |+++..
T Consensus       157 T~~d~~  162 (249)
T cd01853         157 THAASS  162 (249)
T ss_pred             eCCccC
Confidence            987764

This family contains several Toc proteins, including Toc34, Toc33, Toc120, Toc159, Toc86, Toc125, and Toc90. The Toc complex at the outer envelope membrane of chloroplasts is a molecular machine of ~500 kDa that contains a single Toc159 protein, four Toc75 molecules, and four or five copies of Toc34. Toc64 and Toc12 are associated with the translocon, but do not appear to be part of the core complex. The Toc translocon initiates the import of nuclear-encoded preproteins from the cytosol into the organelle. Toc34 and Toc159 are both GTPases, while Toc75 is a beta-barrel integral membrane protein. Toc159 is equally distributed between a soluble cytoplasmic form and a membrane-inserted form, suggesting that assembly of the Toc complex is dynamic. Toc34 and Toc75 act sequentially to mediate docking and insertion of Toc159 resulting in assembly of the functional translocon.

>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=93.76  E-value=0.082  Score=41.64  Aligned_cols=32  Identities=22%  Similarity=0.160  Sum_probs=27.4

Q ss_pred             ccCCCCCcHHHHHHHHHHHHHhcCCCCeEEEEec
Q psy14655          3 ASSKGGVGKSTTTVNLATAMKICYPDKEIGILDA   36 (261)
Q Consensus         3 ~s~KGGvGKTT~a~~lA~~la~~g~~~~VllvD~   36 (261)
                      +-+--|+||||++..|+..|...|  .+|..+.-
T Consensus         5 ieG~~GsGKtT~~~~L~~~l~~~g--~~v~~~~~   36 (200)
T cd01672           5 FEGIDGAGKTTLIELLAERLEARG--YEVVLTRE   36 (200)
T ss_pred             EECCCCCCHHHHHHHHHHHHHHcC--CeEEEEeC
Confidence            446679999999999999999888  99877654

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

>COG5623 CLP1 Predicted GTPase subunit of the pre-mRNA cleavage complex [Translation, ribosomal structure and biogenesis]

Probab=93.75  E-value=0.16  Score=42.86  Aligned_cols=32  Identities=19%  Similarity=0.063  Sum_probs=30.2

Q ss_pred             CcHHHHHHHHHHHHHhcCCCCeEEEEecCCCCCC
Q psy14655          9 VGKSTTTVNLATAMKICYPDKEIGILDADVFGPS   42 (261)
Q Consensus         9 vGKTT~a~~lA~~la~~g~~~~VllvD~D~~~~~   42 (261)
                      .||||++.-|..++-+.+  +++|.+.+||+++.
T Consensus       110 ~Gkts~~~tL~syalk~~--~~pl~~nlDP~Qp~  141 (424)
T COG5623         110 NGKTSFCFTLISYALKLG--KKPLFTNLDPSQPG  141 (424)
T ss_pred             CCceeHHHHHHHHHHHhc--CCceEEecCCCCcc
Confidence            899999999999999999  99999999999864

>PRK05636 replicative DNA helicase; Provisional

Probab=93.74  E-value=0.076  Score=48.61  Aligned_cols=37  Identities=24%  Similarity=0.324  Sum_probs=32.3

Q ss_pred             cccCCCCCcHHHHHHHHHHHHH-hcCCCCeEEEEecCCCC
Q psy14655          2 IASSKGGVGKSTTTVNLATAMK-ICYPDKEIGILDADVFG   40 (261)
Q Consensus         2 v~s~KGGvGKTT~a~~lA~~la-~~g~~~~VllvD~D~~~   40 (261)
                      ++++.-|+||||++.++|..+| ++|  ++|+++-+.+..
T Consensus       269 iiaarpg~GKT~~al~~a~~~a~~~g--~~v~~fSlEMs~  306 (505)
T PRK05636        269 IVAARPGVGKSTLALDFMRSASIKHN--KASVIFSLEMSK  306 (505)
T ss_pred             EEEeCCCCCHHHHHHHHHHHHHHhCC--CeEEEEEeeCCH
Confidence            5678889999999999999888 457  999999998875

>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=93.67  E-value=0.04  Score=40.08  Aligned_cols=21  Identities=33%  Similarity=0.330  Sum_probs=18.8

Q ss_pred             cccCCCCCcHHHHHHHHHHHH
Q psy14655          2 IASSKGGVGKSTTTVNLATAM   22 (261)
Q Consensus         2 v~s~KGGvGKTT~a~~lA~~l   22 (261)
                      ++++.-|+||||+|..|+..+
T Consensus         2 ~i~G~~GsGKtTia~~L~~~~   22 (129)
T PF13238_consen    2 GISGIPGSGKTTIAKELAERL   22 (129)
T ss_dssp             EEEESTTSSHHHHHHHHHHHH
T ss_pred             EEECCCCCCHHHHHHHHHHHH
Confidence            567888999999999999887

...

>PF02223 Thymidylate_kin: Thymidylate kinase; InterPro: IPR018094 Thymidylate kinase (2

Probab=93.65  E-value=0.1  Score=40.96  Aligned_cols=30  Identities=30%  Similarity=0.132  Sum_probs=24.8

Q ss_pred             CCCcHHHHHHHHHHHHHhcCCCCeEEEEecCCC
Q psy14655          7 GGVGKSTTTVNLATAMKICYPDKEIGILDADVF   39 (261)
Q Consensus         7 GGvGKTT~a~~lA~~la~~g~~~~VllvD~D~~   39 (261)
                      -|+||||++..|+..|...|  .+ .++..-+.
T Consensus         5 DGsGKtT~~~~L~~~l~~~~--~~-~~~~~~~~   34 (186)
T PF02223_consen    5 DGSGKTTQIRLLAEALKEKG--YK-VIITFPPG   34 (186)
T ss_dssp             TTSSHHHHHHHHHHHHHHTT--EE-EEEEESST
T ss_pred             CCCCHHHHHHHHHHHHHHcC--Cc-ccccCCCC
Confidence            49999999999999999999  88 45554444

7.4.9 from EC; dTMP kinase) catalyzes the phosphorylation of thymidine 5'-monophosphate (dTMP) to form thymidine 5'-diphosphate (dTDP) in the presence of ATP and magnesium: ATP + thymidine 5'-phosphate = ADP + thymidine 5'-diphosphate Thymidylate kinase is an ubiquitous enzyme of about 25 Kd and is important in the dTTP synthesis pathway for DNA synthesis. The function of dTMP kinase in eukaryotes comes from the study of a cell cycle mutant, cdc8, in Saccharomyces cerevisiae. Structural and functional analyses suggest that the cDNA codes for authentic human dTMP kinase. The mRNA levels and enzyme activities corresponded to cell cycle progression and cell growth stages[]. ; GO: 0004798 thymidylate kinase activity, 0005524 ATP binding, 0006233 dTDP biosynthetic process; PDB: 2PLR_B 1NMX_A 1NN0_A 2XX3_A 1NN3_A 1E9F_A 1E2Q_A 1E2D_A 1E9A_A 1E99_A ....

>TIGR00041 DTMP_kinase thymidylate kinase

Probab=93.63  E-value=0.091  Score=41.51  Aligned_cols=33  Identities=15%  Similarity=0.141  Sum_probs=27.9

Q ss_pred             cccCCCCCcHHHHHHHHHHHHHhcCCCCeEEEEec
Q psy14655          2 IASSKGGVGKSTTTVNLATAMKICYPDKEIGILDA   36 (261)
Q Consensus         2 v~s~KGGvGKTT~a~~lA~~la~~g~~~~VllvD~   36 (261)
                      ++-+--|+||||++..|+..|...|  ++|..+-.
T Consensus         7 vieG~~GsGKsT~~~~L~~~l~~~g--~~v~~~~~   39 (195)
T TIGR00041         7 VIEGIDGAGKTTQANLLKKLLQENG--YDVLFTRE   39 (195)
T ss_pred             EEECCCCCCHHHHHHHHHHHHHHcC--CeEEEEeC
Confidence            3456679999999999999999999  99987654

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.

>cd04128 Spg1 Spg1p

Probab=93.61  E-value=0.72  Score=36.06  Aligned_cols=65  Identities=9%  Similarity=-0.035  Sum_probs=41.4

Q ss_pred             CCCCEEEEeCCCCCCh--hHHHHhhhcCCCeEEEEeC-CCcchHHHHHHHHHHHHhCC--CCeEEEEEcCCCC
Q psy14655        105 GPCDILFIDTPPGTGD--THLSLIQNLFIDTAIIITI-PDTMSLQVAQRGYTMFKKLN--IPVAGLVMNMNSV  172 (261)
Q Consensus       105 ~~yd~IiiD~~~~~~~--~~~~~~~~~~ad~viiv~~-~~~~s~~~~~~~~~~l~~~~--~~~~giv~N~~~~  172 (261)
                      ..+.+.|.|+++....  .....+..  ||.++++.+ .+..+...+...++.+....  ...+ +|.|+.+.
T Consensus        47 ~~~~l~iwDt~G~~~~~~~~~~~~~~--a~~iilv~D~t~~~s~~~i~~~~~~~~~~~~~~~pi-lVgnK~Dl  116 (182)
T cd04128          47 TEITFSIWDLGGQREFINMLPLVCND--AVAILFMFDLTRKSTLNSIKEWYRQARGFNKTAIPI-LVGTKYDL  116 (182)
T ss_pred             EEEEEEEEeCCCchhHHHhhHHHCcC--CCEEEEEEECcCHHHHHHHHHHHHHHHHhCCCCCEE-EEEEchhc
Confidence            3468889999854322  12223334  889999888 55568888777777665531  1233 78999764

Spg1p (septum-promoting GTPase) was first identified in the fission yeast S. pombe, where it regulates septum formation in the septation initiation network (SIN) through the cdc7 protein kinase. Spg1p is an essential gene that localizes to the spindle pole bodies. When GTP-bound, it binds cdc7 and causes it to translocate to spindle poles. Sid4p (septation initiation defective) is required for localization of Spg1p to the spindle pole body, and the ability of Spg1p to promote septum formation from any point in the cell cycle depends on Sid4p. Spg1p is negatively regulated by Byr4 and cdc16, which form a two-component GTPase activating protein (GAP) for Spg1p. The existence of a SIN-related pathway in plants has been proposed. 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

>cd04166 CysN_ATPS CysN_ATPS subfamily

Probab=93.60  E-value=0.31  Score=39.02  Aligned_cols=66  Identities=17%  Similarity=0.161  Sum_probs=43.3

Q ss_pred             CCCCEEEEeCCCCCC--hhHHHHhhhcCCCeEEEEeCCCcchHHHHHHHHHHHHhCCCCeEEEEEcCCCC
Q psy14655        105 GPCDILFIDTPPGTG--DTHLSLIQNLFIDTAIIITIPDTMSLQVAQRGYTMFKKLNIPVAGLVMNMNSV  172 (261)
Q Consensus       105 ~~yd~IiiD~~~~~~--~~~~~~~~~~~ad~viiv~~~~~~s~~~~~~~~~~l~~~~~~~~giv~N~~~~  172 (261)
                      .+..+.|+|||+...  ......+..  +|.+++|+..+..-..........+...+.+.+-+|+|+.+.
T Consensus        75 ~~~~~~liDTpG~~~~~~~~~~~~~~--ad~~llVvD~~~~~~~~~~~~~~~~~~~~~~~iIvviNK~D~  142 (208)
T cd04166          75 PKRKFIIADTPGHEQYTRNMVTGAST--ADLAILLVDARKGVLEQTRRHSYILSLLGIRHVVVAVNKMDL  142 (208)
T ss_pred             CCceEEEEECCcHHHHHHHHHHhhhh--CCEEEEEEECCCCccHhHHHHHHHHHHcCCCcEEEEEEchhc
Confidence            567899999996432  122233344  899999999776544455555556666666656678999764

CysN, together with protein CysD, form the ATP sulfurylase (ATPS) complex in some bacteria and lower eukaryotes. ATPS catalyzes the production of ATP sulfurylase (APS) and pyrophosphate (PPi) from ATP and sulfate. CysD, which catalyzes ATP hydrolysis, is a member of the ATP pyrophosphatase (ATP PPase) family. CysN hydrolysis of GTP is required for CysD hydrolysis of ATP; however, CysN hydrolysis of GTP is not dependent on CysD hydrolysis of ATP. CysN is an example of lateral gene transfer followed by acquisition of new function. In many organisms, an ATPS exists which is not GTP-dependent and shares no sequence or structural similarity to CysN.

>PF01935 DUF87: Domain of unknown function DUF87; InterPro: IPR002789 The function of this domain is unknown

Probab=93.56  E-value=0.095  Score=42.64  Aligned_cols=33  Identities=24%  Similarity=0.146  Sum_probs=28.9

Q ss_pred             CCCCCcHHHHHHHHHHHHH-hcCCCCeEEEEecCCC
Q psy14655          5 SKGGVGKSTTTVNLATAMK-ICYPDKEIGILDADVF   39 (261)
Q Consensus         5 ~KGGvGKTT~a~~lA~~la-~~g~~~~VllvD~D~~   39 (261)
                      ++-|+|||+++..|...+. +.+  .+++++|..-.
T Consensus        30 G~TGsGKS~~~~~ll~~l~~~~~--~~~ii~D~~GE   63 (229)
T PF01935_consen   30 GTTGSGKSNTVKVLLEELLKKKG--AKVIIFDPHGE   63 (229)
T ss_pred             CCCCCCHHHHHHHHHHHHHhcCC--CCEEEEcCCCc
Confidence            5669999999999999999 787  99999998543

It contains several conserved aspartates and histidines that could be metal ligands.

>COG3367 Uncharacterized conserved protein [Function unknown]

Probab=93.53  E-value=1.2  Score=37.94  Aligned_cols=132  Identities=17%  Similarity=0.213  Sum_probs=80.1

Q ss_pred             ccCCCCCcHHHHHHHHHHHHHhcCCCCeEEEEecCCCCCCcccccCCCCCCCCCcCCccccccccCceeecCCCCcccch
Q psy14655          3 ASSKGGVGKSTTTVNLATAMKICYPDKEIGILDADVFGPSIPILMNLPDTPLLNKDNLMIPLVNYGVKCLSMGNLITEKS   82 (261)
Q Consensus         3 ~s~KGGvGKTT~a~~lA~~la~~g~~~~VllvD~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~   82 (261)
                      ++.---+||=|+|..|.+.+-..|  .++-+|-....+ -+   . .+  .++.            ++-++         
T Consensus       154 vGTd~~vGKrTTa~~L~~~~~e~G--~~a~fvaTgqtg-il---~-~~--~gvv------------vdav~---------  203 (339)
T COG3367         154 VGTDCAVGKRTTALELREAAREEG--IKAGFVATGQTG-IL---I-AD--DGVV------------VDAVV---------  203 (339)
T ss_pred             eccccccchhHHHHHHHHHHHHhC--CccceEecCcee-eE---E-ec--CceE------------ecchh---------
Confidence            344445899999999999999999  999999887553 21   1 11  0000            00001         


Q ss_pred             hhhhhchHHHHHHHHHHHHhccCCCCEEEEeCCCCCChhH----HHHhhhcCCCeEEEEeCCCcchHHH-------HHHH
Q psy14655         83 AAIWRGLMVMQALNKLTVQVQWGPCDILFIDTPPGTGDTH----LSLIQNLFIDTAIIITIPDTMSLQV-------AQRG  151 (261)
Q Consensus        83 ~~~~~~~~~~~~l~~~l~~l~~~~yd~IiiD~~~~~~~~~----~~~~~~~~ad~viiv~~~~~~s~~~-------~~~~  151 (261)
                           ..+....+..+.-.+...++|+|+|-..+++.+..    ...+.....|.++++-.|+.....+       +...
T Consensus       204 -----~DfaAGave~~v~~~~e~~~Dii~VEGQgsl~HP~y~vtl~il~gs~PDavvL~H~P~r~~~~g~P~~ip~leev  278 (339)
T COG3367         204 -----MDFAAGAVESAVYEAEEKNPDIIFVEGQGSLTHPAYGVTLGILHGSAPDAVVLCHDPNRKYRDGFPEPIPPLEEV  278 (339)
T ss_pred             -----HHHHHHHHHHHHHHhhhcCCCEEEEeccccccCCCcccchhhhcCCCCCeEEEEecCCCccccCCCCcCCCHHHH
Confidence                 01122223333333331489999999987765433    4445444479999999998766552       2333


Q ss_pred             HHHHHhC-CCCeEEEEEcC
Q psy14655        152 YTMFKKL-NIPVAGLVMNM  169 (261)
Q Consensus       152 ~~~l~~~-~~~~~giv~N~  169 (261)
                      +....-. +.+.+++.+|-
T Consensus       279 i~l~e~l~~a~Vvgi~lNt  297 (339)
T COG3367         279 IALYELLSNAKVVGIALNT  297 (339)
T ss_pred             HHHHHHccCCcEEEEEecc
Confidence            3333332 47889999996

>cd04116 Rab9 Rab9 subfamily

Probab=93.50  E-value=0.62  Score=35.59  Aligned_cols=65  Identities=15%  Similarity=0.115  Sum_probs=39.2

Q ss_pred             CCCCEEEEeCCCCCC--hhHHHHhhhcCCCeEEEEeCC-CcchHHHHHHHHHHHHhC-------CCCeEEEEEcCCCC
Q psy14655        105 GPCDILFIDTPPGTG--DTHLSLIQNLFIDTAIIITIP-DTMSLQVAQRGYTMFKKL-------NIPVAGLVMNMNSV  172 (261)
Q Consensus       105 ~~yd~IiiD~~~~~~--~~~~~~~~~~~ad~viiv~~~-~~~s~~~~~~~~~~l~~~-------~~~~~giv~N~~~~  172 (261)
                      ..+.+.|.|+|+...  ......+..  +|.++++... +..+...+...+..+...       +.+ +-+|.|+.+.
T Consensus        52 ~~~~l~i~D~~G~~~~~~~~~~~~~~--~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~~p-iilv~nK~Dl  126 (170)
T cd04116          52 HFVTLQIWDTAGQERFRSLRTPFYRG--SDCCLLTFAVDDSQSFQNLSNWKKEFIYYADVKEPESFP-FVVLGNKNDI  126 (170)
T ss_pred             eEEEEEEEeCCChHHHHHhHHHHhcC--CCEEEEEEECCCHHHHHhHHHHHHHHHHhcccccCCCCc-EEEEEECccc
Confidence            346788899986432  122233344  8888888774 455677776666544321       234 5589999664

Rab9 is found in late endosomes, together with mannose 6-phosphate receptors (MPRs) and the tail-interacting protein of 47 kD (TIP47). Rab9 is a key mediator of vesicular transport from late endosomes to the trans-Golgi network (TGN) by redirecting the MPRs. Rab9 has been identified as a key component for the replication of several viruses, including HIV1, Ebola, Marburg, and measles, making it a potential target for inhibiting a variety of viruses. 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, CX

>COG1102 Cmk Cytidylate kinase [Nucleotide transport and metabolism]

Probab=93.48  E-value=0.058  Score=41.20  Aligned_cols=23  Identities=30%  Similarity=0.384  Sum_probs=19.9

Q ss_pred             cccCCCCCcHHHHHHHHHHHHHh
Q psy14655          2 IASSKGGVGKSTTTVNLATAMKI   24 (261)
Q Consensus         2 v~s~KGGvGKTT~a~~lA~~la~   24 (261)
                      .+|++-|+||||+|..||..+..
T Consensus         4 tIsG~pGsG~TTva~~lAe~~gl   26 (179)
T COG1102           4 TISGLPGSGKTTVARELAEHLGL   26 (179)
T ss_pred             EeccCCCCChhHHHHHHHHHhCC
Confidence            47899999999999999987743

>cd04117 Rab15 Rab15 subfamily

Probab=93.46  E-value=0.8  Score=34.79  Aligned_cols=65  Identities=11%  Similarity=-0.055  Sum_probs=41.5

Q ss_pred             CCCEEEEeCCCCCCh--hHHHHhhhcCCCeEEEEeC-CCcchHHHHHHHHHHHHhCC--CCeEEEEEcCCCC
Q psy14655        106 PCDILFIDTPPGTGD--THLSLIQNLFIDTAIIITI-PDTMSLQVAQRGYTMFKKLN--IPVAGLVMNMNSV  172 (261)
Q Consensus       106 ~yd~IiiD~~~~~~~--~~~~~~~~~~ad~viiv~~-~~~~s~~~~~~~~~~l~~~~--~~~~giv~N~~~~  172 (261)
                      .+.+.|.|+++....  ........  +|.++++.+ .+..++..+..+++.+....  ...+-+|.|+.+.
T Consensus        48 ~~~l~i~D~~g~~~~~~~~~~~~~~--~~~~i~v~d~~~~~sf~~~~~~~~~~~~~~~~~~~iilvgnK~Dl  117 (161)
T cd04117          48 KVRIQIWDTAGQERYQTITKQYYRR--AQGIFLVYDISSERSYQHIMKWVSDVDEYAPEGVQKILIGNKADE  117 (161)
T ss_pred             EEEEEEEeCCCcHhHHhhHHHHhcC--CcEEEEEEECCCHHHHHHHHHHHHHHHHhCCCCCeEEEEEECccc
Confidence            456778899753321  12223333  889999987 56678888877777665432  1246688999664

Rab15 colocalizes with the transferrin receptor in early endosome compartments, but not with late endosomal markers. It codistributes with Rab4 and Rab5 on early/sorting endosomes, and with Rab11 on pericentriolar recycling endosomes. It is believed to function as an inhibitory GTPase that regulates distinct steps in early endocytic trafficking. 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

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

Probab=93.44  E-value=0.062  Score=42.45  Aligned_cols=30  Identities=20%  Similarity=0.179  Sum_probs=22.6

Q ss_pred             cccCCCCCcHHHHHHHHHHHHHhcCCCCeEEEEecC
Q psy14655          2 IASSKGGVGKSTTTVNLATAMKICYPDKEIGILDAD   37 (261)
Q Consensus         2 v~s~KGGvGKTT~a~~lA~~la~~g~~~~VllvD~D   37 (261)
                      .+++..|+||||+|..|+..+      ..+.+|..|
T Consensus         3 ~i~G~sgsGKTtla~~l~~~~------~~~~~i~~D   32 (187)
T cd02024           3 GISGVTNSGKTTLAKLLQRIL------PNCCVIHQD   32 (187)
T ss_pred             EEECCCCCCHHHHHHHHHHHc------CCCeEEccc
Confidence            356788999999999998876      235556655

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.

>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=93.44  E-value=0.094  Score=38.22  Aligned_cols=34  Identities=21%  Similarity=0.140  Sum_probs=27.2

Q ss_pred             cccCCCCCcHHHHHHHHHHHHHhcCCCCeEEEEecCCCC
Q psy14655          2 IASSKGGVGKSTTTVNLATAMKICYPDKEIGILDADVFG   40 (261)
Q Consensus         2 v~s~KGGvGKTT~a~~lA~~la~~g~~~~VllvD~D~~~   40 (261)
                      +..+.-|+||||++..+|..+   +  .+++-+|+..-.
T Consensus         2 ll~G~~G~GKT~l~~~la~~l---~--~~~~~i~~~~~~   35 (132)
T PF00004_consen    2 LLHGPPGTGKTTLARALAQYL---G--FPFIEIDGSELI   35 (132)
T ss_dssp             EEESSTTSSHHHHHHHHHHHT---T--SEEEEEETTHHH
T ss_pred             EEECcCCCCeeHHHHHHHhhc---c--cccccccccccc
Confidence            455777999999999999987   5  788888776543

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 ....

>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=93.43  E-value=0.073  Score=43.17  Aligned_cols=38  Identities=24%  Similarity=0.335  Sum_probs=31.1

Q ss_pred             cccCCCCCcHHHHHHHHHHHHHhcCCCCeEEEEecCCC
Q psy14655          2 IASSKGGVGKSTTTVNLATAMKICYPDKEIGILDADVF   39 (261)
Q Consensus         2 v~s~KGGvGKTT~a~~lA~~la~~g~~~~VllvD~D~~   39 (261)
                      ++.+.-|+|||.+...++.++.+..++.+|++++++.-
T Consensus        38 ~l~G~~G~GKTHLL~Ai~~~~~~~~~~~~v~y~~~~~f   75 (219)
T PF00308_consen   38 FLYGPSGLGKTHLLQAIANEAQKQHPGKRVVYLSAEEF   75 (219)
T ss_dssp             EEEESTTSSHHHHHHHHHHHHHHHCTTS-EEEEEHHHH
T ss_pred             EEECCCCCCHHHHHHHHHHHHHhccccccceeecHHHH
Confidence            45678899999999999999988655599999998753

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.

>TIGR00554 panK_bact pantothenate kinase, bacterial type

Probab=93.40  E-value=0.12  Score=43.80  Aligned_cols=38  Identities=24%  Similarity=0.266  Sum_probs=29.0

Q ss_pred             ccCCCCCcHHHHHHHHHHHHHhcCCCCeEEEEecCCCC
Q psy14655          3 ASSKGGVGKSTTTVNLATAMKICYPDKEIGILDADVFG   40 (261)
Q Consensus         3 ~s~KGGvGKTT~a~~lA~~la~~g~~~~VllvD~D~~~   40 (261)
                      +++--|+||||++..|...+.+...+.+|.++..|...
T Consensus        67 IaG~~GSGKSTlar~L~~ll~~~~~~g~V~vi~~D~f~  104 (290)
T TIGR00554        67 IAGSVAVGKSTTARILQALLSRWPEHRKVELITTDGFL  104 (290)
T ss_pred             EECCCCCCHHHHHHHHHHHHhhcCCCCceEEEeccccc
Confidence            45777999999999999888754212578888888654

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.

>PRK05800 cobU adenosylcobinamide kinase/adenosylcobinamide-phosphate guanylyltransferase; Validated

Probab=93.36  E-value=0.46  Score=36.90  Aligned_cols=30  Identities=17%  Similarity=0.145  Sum_probs=22.0

Q ss_pred             cccCCCCCcHHHHHHHHHHHHHhcCCCCeEEEEec
Q psy14655          2 IASSKGGVGKSTTTVNLATAMKICYPDKEIGILDA   36 (261)
Q Consensus         2 v~s~KGGvGKTT~a~~lA~~la~~g~~~~VllvD~   36 (261)
                      ++.+.-|+||||+|..++..+   +  .++++|..
T Consensus         5 li~G~~~sGKS~~a~~l~~~~---~--~~~~~iat   34 (170)
T PRK05800          5 LVTGGARSGKSRFAERLAAQS---G--LQVLYIAT   34 (170)
T ss_pred             EEECCCCccHHHHHHHHHHHc---C--CCcEeCcC
Confidence            456778999999999987653   4  56665544

>PRK07261 topology modulation protein; Provisional

Probab=93.36  E-value=0.069  Score=41.53  Aligned_cols=21  Identities=29%  Similarity=0.281  Sum_probs=17.2

Q ss_pred             cccCCCCCcHHHHHHHHHHHH
Q psy14655          2 IASSKGGVGKSTTTVNLATAM   22 (261)
Q Consensus         2 v~s~KGGvGKTT~a~~lA~~l   22 (261)
                      ++-+..|+||||+|..|+..+
T Consensus         4 ~i~G~~GsGKSTla~~l~~~~   24 (171)
T PRK07261          4 AIIGYSGSGKSTLARKLSQHY   24 (171)
T ss_pred             EEEcCCCCCHHHHHHHHHHHh
Confidence            355789999999999987654

>PRK13973 thymidylate kinase; Provisional

Probab=93.36  E-value=0.1  Score=42.03  Aligned_cols=29  Identities=24%  Similarity=0.252  Sum_probs=25.4

Q ss_pred             CCCCCcHHHHHHHHHHHHHhcCCCCeEEEEe
Q psy14655          5 SKGGVGKSTTTVNLATAMKICYPDKEIGILD   35 (261)
Q Consensus         5 ~KGGvGKTT~a~~lA~~la~~g~~~~VllvD   35 (261)
                      +=-|+||||.+..|+..|...|  .+|....
T Consensus        10 G~dGsGKtTq~~~l~~~l~~~g--~~~~~~~   38 (213)
T PRK13973         10 GGEGAGKSTQIRLLAERLRAAG--YDVLVTR   38 (213)
T ss_pred             cCCCCCHHHHHHHHHHHHHHCC--CeEEEEE
Confidence            4459999999999999999999  9997763

>cd04164 trmE TrmE (MnmE, ThdF, MSS1) is a 3-domain protein found in bacteria and eukaryotes

Probab=93.35  E-value=0.81  Score=34.06  Aligned_cols=63  Identities=14%  Similarity=0.107  Sum_probs=35.3

Q ss_pred             CCCCEEEEeCCCCCChh----------HHHHhhhcCCCeEEEEeCCCcchHHHHHHHHHHHHhCCCCeEEEEEcCCCC
Q psy14655        105 GPCDILFIDTPPGTGDT----------HLSLIQNLFIDTAIIITIPDTMSLQVAQRGYTMFKKLNIPVAGLVMNMNSV  172 (261)
Q Consensus       105 ~~yd~IiiD~~~~~~~~----------~~~~~~~~~ad~viiv~~~~~~s~~~~~~~~~~l~~~~~~~~giv~N~~~~  172 (261)
                      .++.++++|+|+.....          ....+..  +|.++++++.+...-..-..+...  ..+.+ +-+|+|+.+.
T Consensus        47 ~~~~~~i~DtpG~~~~~~~~~~~~~~~~~~~~~~--~~~~v~v~d~~~~~~~~~~~~~~~--~~~~~-vi~v~nK~D~  119 (157)
T cd04164          47 GGIPVRLIDTAGIRETEDEIEKIGIERAREAIEE--ADLVLFVIDASRGLDEEDLEILEL--PADKP-IIVVLNKSDL  119 (157)
T ss_pred             CCEEEEEEECCCcCCCcchHHHHHHHHHHHHHhh--CCEEEEEEECCCCCCHHHHHHHHh--hcCCC-EEEEEEchhc
Confidence            45678999998643211          1123333  899999998764222222222222  22334 6699999664

It controls modification of the uridine at the wobble position (U34) of tRNAs that read codons ending with A or G in the mixed codon family boxes. TrmE contains a GTPase domain that forms a canonical Ras-like fold. It functions a molecular switch GTPase, and apparently uses a conformational change associated with GTP hydrolysis to promote the tRNA modification reaction, in which the conserved cysteine in the C-terminal domain is thought to function as a catalytic residue. In bacteria that are able to survive in extremely low pH conditions, TrmE regulates glutamate-dependent acid resistance.

>PRK07413 hypothetical protein; Validated

Probab=93.30  E-value=0.44  Score=41.77  Aligned_cols=30  Identities=17%  Similarity=0.035  Sum_probs=25.8

Q ss_pred             CCCCcHHHHHHHHHHHHHhcCCCC------eEEEEecC
Q psy14655          6 KGGVGKSTTTVNLATAMKICYPDK------EIGILDAD   37 (261)
Q Consensus         6 KGGvGKTT~a~~lA~~la~~g~~~------~VllvD~D   37 (261)
                      --|=||||-|..+|...+-+|  .      ||++|=+=
T Consensus        27 G~GKGKTTAAlGlalRA~G~G--~~~~~~~rV~ivQFl   62 (382)
T PRK07413         27 GEGKGKSQAALGVVLRTIGLG--ICEKRQTRVLLLRFL   62 (382)
T ss_pred             CCCCCHHHHHHHHHHHHhcCC--CCcCCCCeEEEEEEE
Confidence            347799999999999999998  8      99998653

>PRK11537 putative GTP-binding protein YjiA; Provisional

Probab=93.28  E-value=1  Score=38.74  Aligned_cols=142  Identities=13%  Similarity=0.112  Sum_probs=71.6

Q ss_pred             cccCCCCCcHHHHHHHHHHHHHhcCCCCeEEEEecCCCCCCcccc-cCCCCCCCCCcCCccccccccCceeecCCCCccc
Q psy14655          2 IASSKGGVGKSTTTVNLATAMKICYPDKEIGILDADVFGPSIPIL-MNLPDTPLLNKDNLMIPLVNYGVKCLSMGNLITE   80 (261)
Q Consensus         2 v~s~KGGvGKTT~a~~lA~~la~~g~~~~VllvD~D~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~   80 (261)
                      ++++-=|+||||+--++...  ..|  .|+.+|-.|.-.-+.+.. ++...      .+ +... ..|  |+.+.     
T Consensus         8 iltGFLGaGKTTll~~ll~~--~~~--~riaVi~NEfG~v~iD~~ll~~~~------~~-v~eL-~~G--CiCCs-----   68 (318)
T PRK11537          8 LLTGFLGAGKTTLLRHILNE--QHG--YKIAVIENEFGEVSVDDQLIGDRA------TQ-IKTL-TNG--CICCS-----   68 (318)
T ss_pred             EEEECCCCCHHHHHHHHHhc--ccC--CcccccccCcCCccccHHHHhCcC------ce-EEEE-CCC--EEEEc-----
Confidence            45666799999999998754  356  899999888754333211 11000      00 0000 011  11111     


Q ss_pred             chhhhhhchHHHHHHHHHHHHhcc--CCCCEEEEeCCCCCChhHH-HHh-h------hcCCCeEEEEeCCCcchH--HHH
Q psy14655         81 KSAAIWRGLMVMQALNKLTVQVQW--GPCDILFIDTPPGTGDTHL-SLI-Q------NLFIDTAIIITIPDTMSL--QVA  148 (261)
Q Consensus        81 ~~~~~~~~~~~~~~l~~~l~~l~~--~~yd~IiiD~~~~~~~~~~-~~~-~------~~~ad~viiv~~~~~~s~--~~~  148 (261)
                      .      .......+.+++.....  ..+|+|||.+.+..++... ..+ .      ...-+.++.++++.....  ...
T Consensus        69 ~------~~~l~~~l~~l~~~~~~~~~~~d~IvIEttG~a~p~~i~~~~~~~~~l~~~~~l~~vvtvvDa~~~~~~~~~~  142 (318)
T PRK11537         69 R------SNELEDALLDLLDNLDKGNIQFDRLVIECTGMADPGPIIQTFFSHEVLCQRYLLDGVIALVDAVHADEQMNQF  142 (318)
T ss_pred             c------CchHHHHHHHHHHHHhccCCCCCEEEEECCCccCHHHHHHHHhcChhhcccEEeccEEEEEEhhhhhhhcccc
Confidence            0      11233445555544331  1599999999865443221 111 0      001366888887653221  111


Q ss_pred             HHHHHHHHhCCCCeEEEEEcCCCC
Q psy14655        149 QRGYTMFKKLNIPVAGLVMNMNSV  172 (261)
Q Consensus       149 ~~~~~~l~~~~~~~~giv~N~~~~  172 (261)
                      ....+.+...+.    +|+|+.+.
T Consensus       143 ~~~~~Qi~~AD~----IvlnK~Dl  162 (318)
T PRK11537        143 TIAQSQVGYADR----ILLTKTDV  162 (318)
T ss_pred             HHHHHHHHhCCE----EEEecccc
Confidence            223345555543    88998664

>PRK07004 replicative DNA helicase; Provisional

Probab=93.26  E-value=0.091  Score=47.60  Aligned_cols=38  Identities=13%  Similarity=0.345  Sum_probs=33.2

Q ss_pred             cccCCCCCcHHHHHHHHHHHHHh-cCCCCeEEEEecCCCCC
Q psy14655          2 IASSKGGVGKSTTTVNLATAMKI-CYPDKEIGILDADVFGP   41 (261)
Q Consensus         2 v~s~KGGvGKTT~a~~lA~~la~-~g~~~~VllvD~D~~~~   41 (261)
                      |+++.-|+|||+++.++|..+|. .|  ++|+++-+.+...
T Consensus       217 viaarpg~GKT~~al~ia~~~a~~~~--~~v~~fSlEM~~~  255 (460)
T PRK07004        217 IVAGRPSMGKTAFSMNIGEYVAVEYG--LPVAVFSMEMPGT  255 (460)
T ss_pred             EEEeCCCCCccHHHHHHHHHHHHHcC--CeEEEEeCCCCHH
Confidence            56788899999999999998885 67  9999999998753

>COG1160 Predicted GTPases [General function prediction only]

Probab=93.24  E-value=1.7  Score=38.83  Aligned_cols=65  Identities=17%  Similarity=0.129  Sum_probs=41.1

Q ss_pred             CCCCEEEEeCCCCCC-h--h--------HHHHhhhcCCCeEEEEeCCCcchHHHHHHHHHHHHhCCCCeEEEEEcCCCC
Q psy14655        105 GPCDILFIDTPPGTG-D--T--------HLSLIQNLFIDTAIIITIPDTMSLQVAQRGYTMFKKLNIPVAGLVMNMNSV  172 (261)
Q Consensus       105 ~~yd~IiiD~~~~~~-~--~--------~~~~~~~~~ad~viiv~~~~~~s~~~~~~~~~~l~~~~~~~~giv~N~~~~  172 (261)
                      ....+++|||++-.. .  .        +..++.-  ||.++.|++....-...=..+.+.|+..+.+ +-+|+|+++.
T Consensus        49 ~~~~f~lIDTgGl~~~~~~~l~~~i~~Qa~~Ai~e--ADvilfvVD~~~Git~~D~~ia~~Lr~~~kp-viLvvNK~D~  124 (444)
T COG1160          49 LGREFILIDTGGLDDGDEDELQELIREQALIAIEE--ADVILFVVDGREGITPADEEIAKILRRSKKP-VILVVNKIDN  124 (444)
T ss_pred             cCceEEEEECCCCCcCCchHHHHHHHHHHHHHHHh--CCEEEEEEeCCCCCCHHHHHHHHHHHhcCCC-EEEEEEcccC
Confidence            566799999985431 1  1        1223333  8999999986664344444566777755555 5589999664

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

Probab=93.15  E-value=0.1  Score=40.52  Aligned_cols=37  Identities=14%  Similarity=0.101  Sum_probs=29.3

Q ss_pred             cccCCCCCcHHHHHHHHHHHHHhcCCCCeEEEEecCCCC
Q psy14655          2 IASSKGGVGKSTTTVNLATAMKICYPDKEIGILDADVFG   40 (261)
Q Consensus         2 v~s~KGGvGKTT~a~~lA~~la~~g~~~~VllvD~D~~~   40 (261)
                      ++.+..|+|||++...+...+.+.+  .-++.++++...
T Consensus        28 ll~G~~G~GKT~ll~~~~~~~~~~~--~~~~~~~~~~~~   64 (185)
T PF13191_consen   28 LLTGESGSGKTSLLRALLDRLAERG--GYVISINCDDSE   64 (185)
T ss_dssp             EE-B-TTSSHHHHHHHHHHHHHHHT----EEEEEEETTT
T ss_pred             EEECCCCCCHHHHHHHHHHHHHhcC--CEEEEEEEeccc
Confidence            5667889999999999999999886  459999999883

>COG2403 Predicted GTPase [General function prediction only]

Probab=93.14  E-value=0.089  Score=45.43  Aligned_cols=33  Identities=18%  Similarity=0.317  Sum_probs=30.2

Q ss_pred             cccCCCCCcHHHHHHHHHHHHHhcCCCCeEEEEec
Q psy14655          2 IASSKGGVGKSTTTVNLATAMKICYPDKEIGILDA   36 (261)
Q Consensus         2 v~s~KGGvGKTT~a~~lA~~la~~g~~~~VllvD~   36 (261)
                      |++..-|+|||+++.-+|+.|..+|  ++|++|=.
T Consensus       131 V~atrtg~GKsaVS~~v~r~l~erg--yrv~vVrh  163 (449)
T COG2403         131 VTATRTGVGKSAVSRYVARLLRERG--YRVCVVRH  163 (449)
T ss_pred             EEEeccccchhHHHHHHHHHHHHcC--CceEEEec
Confidence            5667779999999999999999999  99999976

>PLN02796 D-glycerate 3-kinase

Probab=92.98  E-value=0.11  Score=44.86  Aligned_cols=35  Identities=26%  Similarity=0.301  Sum_probs=28.9

Q ss_pred             ccCCCCCcHHHHHHHHHHHHHhcCCCCeEEEEecCCC
Q psy14655          3 ASSKGGVGKSTTTVNLATAMKICYPDKEIGILDADVF   39 (261)
Q Consensus         3 ~s~KGGvGKTT~a~~lA~~la~~g~~~~VllvD~D~~   39 (261)
                      +++.-|+||||++..|+..+...|  .++..|-+|-.
T Consensus       105 I~G~sGSGKSTLa~~L~~lL~~~g--~~~g~IsiDdf  139 (347)
T PLN02796        105 ISAPQGCGKTTLVFALVYLFNATG--RRAASLSIDDF  139 (347)
T ss_pred             EECCCCCcHHHHHHHHHHHhcccC--CceeEEEECCc
Confidence            456789999999999999998877  78888777643

>COG0468 RecA RecA/RadA recombinase [DNA replication, recombination, and repair]

Probab=92.92  E-value=0.13  Score=43.21  Aligned_cols=34  Identities=15%  Similarity=0.129  Sum_probs=30.1

Q ss_pred             CCCCCcHHHHHHHHHHHHHhcCCCCeEEEEecCCCC
Q psy14655          5 SKGGVGKSTTTVNLATAMKICYPDKEIGILDADVFG   40 (261)
Q Consensus         5 ~KGGvGKTT~a~~lA~~la~~g~~~~VllvD~D~~~   40 (261)
                      +-.|+||||+|.+++....+.|  .+|++||....-
T Consensus        67 G~~gsGKT~lal~~~~~aq~~g--~~a~fIDtE~~l  100 (279)
T COG0468          67 GPESSGKTTLALQLVANAQKPG--GKAAFIDTEHAL  100 (279)
T ss_pred             cCCCcchhhHHHHHHHHhhcCC--CeEEEEeCCCCC
Confidence            4569999999999999999999  899999988643

>PF13604 AAA_30: AAA domain; PDB: 1W36_G 3K70_G 3UPU_B 3GPL_A 3E1S_A 3GP8_A

Probab=92.87  E-value=0.12  Score=41.15  Aligned_cols=34  Identities=26%  Similarity=0.279  Sum_probs=27.3

Q ss_pred             cccCCCCCcHHHHHHHHHHHHHhcCCCCeEEEEecC
Q psy14655          2 IASSKGGVGKSTTTVNLATAMKICYPDKEIGILDAD   37 (261)
Q Consensus         2 v~s~KGGvGKTT~a~~lA~~la~~g~~~~VllvD~D   37 (261)
                      ++.+..|+||||+...++..+...|  .+|+++-..
T Consensus        22 ~l~G~aGtGKT~~l~~~~~~~~~~g--~~v~~~apT   55 (196)
T PF13604_consen   22 VLQGPAGTGKTTLLKALAEALEAAG--KRVIGLAPT   55 (196)
T ss_dssp             EEEESTTSTHHHHHHHHHHHHHHTT----EEEEESS
T ss_pred             EEEECCCCCHHHHHHHHHHHHHhCC--CeEEEECCc
Confidence            4557789999999999999999999  999998544

>cd01882 BMS1 Bms1

Probab=92.84  E-value=0.49  Score=38.49  Aligned_cols=65  Identities=9%  Similarity=0.085  Sum_probs=45.3

Q ss_pred             CCCCEEEEeCCCCCChhHHHHhhhcCCCeEEEEeCCCcchHHHHHHHHHHHHhCCCCeEEEEEcCCCC
Q psy14655        105 GPCDILFIDTPPGTGDTHLSLIQNLFIDTAIIITIPDTMSLQVAQRGYTMFKKLNIPVAGLVMNMNSV  172 (261)
Q Consensus       105 ~~yd~IiiD~~~~~~~~~~~~~~~~~ad~viiv~~~~~~s~~~~~~~~~~l~~~~~~~~giv~N~~~~  172 (261)
                      ....++++|||... .........  +|.++++++...........++..+...+.+.+-+|+|+.+.
T Consensus        81 ~~~~i~~vDtPg~~-~~~l~~ak~--aDvVllviDa~~~~~~~~~~i~~~l~~~g~p~vi~VvnK~D~  145 (225)
T cd01882          81 KKRRLTFIECPNDI-NAMIDIAKV--ADLVLLLIDASFGFEMETFEFLNILQVHGFPRVMGVLTHLDL  145 (225)
T ss_pred             CCceEEEEeCCchH-HHHHHHHHh--cCEEEEEEecCcCCCHHHHHHHHHHHHcCCCeEEEEEecccc
Confidence            45568999999655 333344454  899999998765544455667788877787755569998663

Bms1 is an essential, evolutionarily conserved, nucleolar protein. Its depletion interferes with processing of the 35S pre-rRNA at sites A0, A1, and A2, and the formation of 40S subunits. Bms1, the putative endonuclease Rc11, and the essential U3 small nucleolar RNA form a stable subcomplex that is believed to control an early step in the formation of the 40S subumit. The C-terminal domain of Bms1 contains a GTPase-activating protein (GAP) that functions intramolecularly. It is believed that Rc11 activates Bms1 by acting as a guanine-nucleotide exchange factor (GEF) to promote GDP/GTP exchange, and that activated (GTP-bound) Bms1 delivers Rc11 to the preribosomes.

>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=92.75  E-value=0.073  Score=44.74  Aligned_cols=39  Identities=18%  Similarity=0.171  Sum_probs=27.4

Q ss_pred             cccCCCCCcHHHHHHHHHHHHHhcCCCCeEEEEecCCCC
Q psy14655          2 IASSKGGVGKSTTTVNLATAMKICYPDKEIGILDADVFG   40 (261)
Q Consensus         2 v~s~KGGvGKTT~a~~lA~~la~~g~~~~VllvD~D~~~   40 (261)
                      .+.+-||+||||+|.+++........-..++.|++....
T Consensus        23 ~I~G~~G~GKT~LA~~~~~~~~~~~~f~~v~wv~~~~~~   61 (287)
T PF00931_consen   23 AIVGMGGIGKTTLARQVARDLRIKNRFDGVIWVSLSKNP   61 (287)
T ss_dssp             EEEESTTSSHHHHHHHHHCHHHHCCCCTEEEEEEEES-S
T ss_pred             EEEcCCcCCcceeeeeccccccccccccccccccccccc
Confidence            356779999999999999885432211467778887654

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.

>PLN03046 D-glycerate 3-kinase; Provisional

Probab=92.69  E-value=0.14  Score=45.44  Aligned_cols=35  Identities=26%  Similarity=0.347  Sum_probs=29.5

Q ss_pred             ccCCCCCcHHHHHHHHHHHHHhcCCCCeEEEEecCCC
Q psy14655          3 ASSKGGVGKSTTTVNLATAMKICYPDKEIGILDADVF   39 (261)
Q Consensus         3 ~s~KGGvGKTT~a~~lA~~la~~g~~~~VllvD~D~~   39 (261)
                      +++--|+||||++..|...+...|  .++..|-.|-.
T Consensus       217 IsG~qGSGKSTLa~~L~~lL~~~g--~~vgvISiDDf  251 (460)
T PLN03046        217 FSAPQGCGKTTLVFALDYLFRVTG--RKSATLSIDDF  251 (460)
T ss_pred             EECCCCCCHHHHHHHHHHHhcccC--CceEEEEECCc
Confidence            467779999999999998888778  88998877744

>PF05970 PIF1: PIF1-like helicase; InterPro: IPR010285 This entry represents PIF1 helicase and related proteins

Probab=92.61  E-value=0.1  Score=45.72  Aligned_cols=33  Identities=15%  Similarity=0.193  Sum_probs=28.4

Q ss_pred             CcccCCCCCcHHHHHHHHHHHHHhcCCCCeEEEEe
Q psy14655          1 MIASSKGGVGKSTTTVNLATAMKICYPDKEIGILD   35 (261)
Q Consensus         1 ~v~s~KGGvGKTT~a~~lA~~la~~g~~~~VllvD   35 (261)
                      +|+++.||+|||++...+...+...+  ++|+++-
T Consensus        25 ~fv~G~~GtGKs~l~~~i~~~~~~~~--~~~~~~a   57 (364)
T PF05970_consen   25 FFVTGPAGTGKSFLIKAIIDYLRSRG--KKVLVTA   57 (364)
T ss_pred             EEEEcCCCCChhHHHHHHHHHhcccc--ceEEEec
Confidence            37889999999999999999998887  7877654

The PIF1 helicase inhibits telomerase activity and is cell cycle regulated [, ].

>cd04177 RSR1 RSR1 subgroup

Probab=92.59  E-value=0.64  Score=35.51  Aligned_cols=64  Identities=19%  Similarity=0.208  Sum_probs=39.1

Q ss_pred             CCCEEEEeCCCCCC--hhHHHHhhhcCCCeEEEEeC-CCcchHHHHHHHHHHHHh----CCCCeEEEEEcCCCC
Q psy14655        106 PCDILFIDTPPGTG--DTHLSLIQNLFIDTAIIITI-PDTMSLQVAQRGYTMFKK----LNIPVAGLVMNMNSV  172 (261)
Q Consensus       106 ~yd~IiiD~~~~~~--~~~~~~~~~~~ad~viiv~~-~~~~s~~~~~~~~~~l~~----~~~~~~giv~N~~~~  172 (261)
                      .+.+.++|+|+...  ......+..  ++.++++.. .+..++.......+.+.+    .+.+++ ++.|+.+.
T Consensus        48 ~~~~~i~Dt~G~~~~~~~~~~~~~~--~~~~vlv~~~~~~~s~~~~~~~~~~i~~~~~~~~~pii-iv~nK~D~  118 (168)
T cd04177          48 QCDLEILDTAGTEQFTAMRELYIKS--GQGFLLVYSVTSEASLNELGELREQVLRIKDSDNVPMV-LVGNKADL  118 (168)
T ss_pred             EEEEEEEeCCCcccchhhhHHHHhh--CCEEEEEEECCCHHHHHHHHHHHHHHHHhhCCCCCCEE-EEEEChhc
Confidence            45778899986432  222333344  788877776 555577777766665543    245544 78898653

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

>cd04173 Rnd2_Rho7 Rnd2/Rho7 subfamily

Probab=92.54  E-value=0.55  Score=38.17  Aligned_cols=65  Identities=12%  Similarity=-0.010  Sum_probs=40.2

Q ss_pred             CCCCEEEEeCCCCCChh--HHHHhhhcCCCeEEEEeC-CCcchHHHHHH-HHHHHHhC--CCCeEEEEEcCCCC
Q psy14655        105 GPCDILFIDTPPGTGDT--HLSLIQNLFIDTAIIITI-PDTMSLQVAQR-GYTMFKKL--NIPVAGLVMNMNSV  172 (261)
Q Consensus       105 ~~yd~IiiD~~~~~~~~--~~~~~~~~~ad~viiv~~-~~~~s~~~~~~-~~~~l~~~--~~~~~giv~N~~~~  172 (261)
                      ..+.+.|.|+++.....  ....+..  +|.++++.+ .+..++..+.. +...+...  +.+ +-+|.|+.+.
T Consensus        47 ~~v~L~iwDt~G~e~~~~l~~~~~~~--~d~illvfdis~~~Sf~~i~~~w~~~~~~~~~~~p-iiLVgnK~DL  117 (222)
T cd04173          47 RRIELNMWDTSGSSYYDNVRPLAYPD--SDAVLICFDISRPETLDSVLKKWQGETQEFCPNAK-VVLVGCKLDM  117 (222)
T ss_pred             EEEEEEEEeCCCcHHHHHHhHHhccC--CCEEEEEEECCCHHHHHHHHHHHHHHHHhhCCCCC-EEEEEECccc
Confidence            45788899998643221  1222333  899999998 55567777743 33444432  344 5589999775

Rnd2/Rho7 is a member of the novel Rho subfamily Rnd, together with Rnd1/Rho6 and Rnd3/RhoE/Rho8. Rnd2/Rho7 is transiently expressed in radially migrating cells in the brain while they are within the subventricular zone of the hippocampus and cerebral cortex. These migrating cells typically develop into pyramidal neurons. Cells that exogenously expressed Rnd2/Rho7 failed to migrate to upper layers of the brain, suggesting that Rnd2/Rho7 plays a role in the radial migration and morphological changes of developing pyramidal neurons, and that Rnd2/Rho7 degradation is necessary for proper cellular migration. The Rnd2/Rho7 GEF Rapostlin is found primarily in the brain and together with Rnd2/Rho7 induces dendrite branching. Unlike Rnd1/Rho6 and Rnd3/RhoE/Rho8, which are RhoA antagonists, Rnd2/Rho7 binds the GEF Pragmin and significantly stimulates RhoA activity and Rho-A mediated cell contraction. Rnd2/Rho7 is also found to be expressed in sperma

>TIGR00362 DnaA chromosomal replication initiator protein DnaA

Probab=92.45  E-value=0.14  Score=45.68  Aligned_cols=37  Identities=11%  Similarity=0.193  Sum_probs=31.2

Q ss_pred             cccCCCCCcHHHHHHHHHHHHHhcCCCCeEEEEecCC
Q psy14655          2 IASSKGGVGKSTTTVNLATAMKICYPDKEIGILDADV   38 (261)
Q Consensus         2 v~s~KGGvGKTT~a~~lA~~la~~g~~~~VllvD~D~   38 (261)
                      +..+.-|+|||+++..++..+.+++++.+|+++.++.
T Consensus       140 ~l~G~~G~GKThL~~ai~~~l~~~~~~~~v~yi~~~~  176 (405)
T TIGR00362       140 FIYGGVGLGKTHLLHAIGNEILENNPNAKVVYVSSEK  176 (405)
T ss_pred             EEECCCCCcHHHHHHHHHHHHHHhCCCCcEEEEEHHH
Confidence            5678899999999999999999873339999998753

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).

>PRK00131 aroK shikimate kinase; Reviewed

Probab=92.40  E-value=0.11  Score=39.94  Aligned_cols=21  Identities=33%  Similarity=0.270  Sum_probs=18.9

Q ss_pred             cccCCCCCcHHHHHHHHHHHH
Q psy14655          2 IASSKGGVGKSTTTVNLATAM   22 (261)
Q Consensus         2 v~s~KGGvGKTT~a~~lA~~l   22 (261)
                      ++.+..|+||||+|..||..|
T Consensus         8 ~l~G~~GsGKstla~~La~~l   28 (175)
T PRK00131          8 VLIGFMGAGKSTIGRLLAKRL   28 (175)
T ss_pred             EEEcCCCCCHHHHHHHHHHHh
Confidence            567889999999999999887

>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=92.39  E-value=0.17  Score=39.30  Aligned_cols=28  Identities=21%  Similarity=0.224  Sum_probs=23.0

Q ss_pred             cccCCCCCcHHHHHHHHHHHHHhcCCCCeE
Q psy14655          2 IASSKGGVGKSTTTVNLATAMKICYPDKEI   31 (261)
Q Consensus         2 v~s~KGGvGKTT~a~~lA~~la~~g~~~~V   31 (261)
                      +..++-|+||||+...+...|.+.|  .+|
T Consensus         3 ~iTG~pG~GKTTll~k~i~~l~~~~--~~v   30 (168)
T PF03266_consen    3 FITGPPGVGKTTLLKKVIEELKKKG--LPV   30 (168)
T ss_dssp             EEES-TTSSHHHHHHHHHHHHHHTC--GGE
T ss_pred             EEECcCCCCHHHHHHHHHHHhhccC--Ccc
Confidence            5678899999999999999998766  554

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.

>COG0125 Tmk Thymidylate kinase [Nucleotide transport and metabolism]

Probab=92.36  E-value=0.18  Score=40.57  Aligned_cols=28  Identities=18%  Similarity=0.148  Sum_probs=24.6

Q ss_pred             CCCCcHHHHHHHHHHHHHhcCCCCeEEEEe
Q psy14655          6 KGGVGKSTTTVNLATAMKICYPDKEIGILD   35 (261)
Q Consensus         6 KGGvGKTT~a~~lA~~la~~g~~~~VllvD   35 (261)
                      =-|+||||.+..|+..|..+|  .+|++.=
T Consensus        11 iDGaGKTT~~~~L~~~l~~~g--~~v~~tr   38 (208)
T COG0125          11 IDGAGKTTQAELLKERLEERG--IKVVLTR   38 (208)
T ss_pred             CCCCCHHHHHHHHHHHHHHcC--CeEEEEe
Confidence            359999999999999999999  8887753

>PRK05537 bifunctional sulfate adenylyltransferase subunit 1/adenylylsulfate kinase protein; Validated

Probab=92.34  E-value=0.13  Score=47.72  Aligned_cols=36  Identities=28%  Similarity=0.352  Sum_probs=31.2

Q ss_pred             cccCCCCCcHHHHHHHHHHHHHh-cCCCCeEEEEecCCC
Q psy14655          2 IASSKGGVGKSTTTVNLATAMKI-CYPDKEIGILDADVF   39 (261)
Q Consensus         2 v~s~KGGvGKTT~a~~lA~~la~-~g~~~~VllvD~D~~   39 (261)
                      ++.+--|+||||++..||..|.. .|  .++.++|.|.-
T Consensus       396 vl~Gl~GSGKSTia~~La~~L~~~~g--~~~~~lD~D~v  432 (568)
T PRK05537        396 FFTGLSGAGKSTIAKALMVKLMEMRG--RPVTLLDGDVV  432 (568)
T ss_pred             EEECCCCChHHHHHHHHHHHhhhccC--ceEEEeCCcHH
Confidence            45677899999999999999987 66  88999999855

>PRK03003 GTP-binding protein Der; Reviewed

Probab=92.33  E-value=0.74  Score=41.91  Aligned_cols=64  Identities=20%  Similarity=0.157  Sum_probs=38.2

Q ss_pred             CCCCEEEEeCCCCC-------ChhH------HHHhhhcCCCeEEEEeCCCcc-hHHHHHHHHHHHHhCCCCeEEEEEcCC
Q psy14655        105 GPCDILFIDTPPGT-------GDTH------LSLIQNLFIDTAIIITIPDTM-SLQVAQRGYTMFKKLNIPVAGLVMNMN  170 (261)
Q Consensus       105 ~~yd~IiiD~~~~~-------~~~~------~~~~~~~~ad~viiv~~~~~~-s~~~~~~~~~~l~~~~~~~~giv~N~~  170 (261)
                      .+..+.|+|||+..       +...      ...+..  ||.+++|++.+.. +.... ..+..+...+.+ +-+|+|+.
T Consensus       257 ~~~~~~l~DTaG~~~~~~~~~~~e~~~~~~~~~~i~~--ad~vilV~Da~~~~s~~~~-~~~~~~~~~~~p-iIiV~NK~  332 (472)
T PRK03003        257 GGKTWRFVDTAGLRRRVKQASGHEYYASLRTHAAIEA--AEVAVVLIDASEPISEQDQ-RVLSMVIEAGRA-LVLAFNKW  332 (472)
T ss_pred             CCEEEEEEECCCccccccccchHHHHHHHHHHHHHhc--CCEEEEEEeCCCCCCHHHH-HHHHHHHHcCCC-EEEEEECc
Confidence            34567788998521       0111      112334  8999999986553 33333 456666666666 55899997


Q ss_pred             CC
Q psy14655        171 SV  172 (261)
Q Consensus       171 ~~  172 (261)
                      +.
T Consensus       333 Dl  334 (472)
T PRK03003        333 DL  334 (472)
T ss_pred             cc
Confidence            64

>cd00882 Ras_like_GTPase Ras-like GTPase superfamily

Probab=92.29  E-value=0.53  Score=34.28  Aligned_cols=65  Identities=17%  Similarity=0.040  Sum_probs=37.3

Q ss_pred             CCCCEEEEeCCCCCChh--HHHHhhhcCCCeEEEEeCCCcc-hHHHHHHH----HHHHHhCCCCeEEEEEcCCCC
Q psy14655        105 GPCDILFIDTPPGTGDT--HLSLIQNLFIDTAIIITIPDTM-SLQVAQRG----YTMFKKLNIPVAGLVMNMNSV  172 (261)
Q Consensus       105 ~~yd~IiiD~~~~~~~~--~~~~~~~~~ad~viiv~~~~~~-s~~~~~~~----~~~l~~~~~~~~giv~N~~~~  172 (261)
                      ..+++.++|+|+.....  .......  +|.+++++..+.. +.......    .......+.+ +-+++|+.+.
T Consensus        43 ~~~~~~l~D~~g~~~~~~~~~~~~~~--~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~-~ivv~nk~D~  114 (157)
T cd00882          43 KKVKLQIWDTAGQERFRSLRRLYYRG--ADGIILVYDVTDRESFENVKEWLLLILINKEGENIP-IILVGNKIDL  114 (157)
T ss_pred             EEEEEEEEecCChHHHHhHHHHHhcC--CCEEEEEEECcCHHHHHHHHHHHHHHHHhhccCCCc-EEEEEecccc
Confidence            46789999998643222  2233344  8999999886654 33333332    1122223444 5688898654

The Ras-like superfamily of small GTPases consists of several families with an extremely high degree of structural and functional similarity. The Ras superfamily is divided into at least four families in eukaryotes: the Ras, Rho, Rab, and Sar1/Arf families. This superfamily also includes proteins like the GTP translation factors, Era-like GTPases, and G-alpha chain of the heterotrimeric G proteins. Members of the Ras superfamily regulate a wide variety of cellular functions: the Ras family regulates gene expression, the Rho family regulates cytoskeletal reorganization and gene expression, the Rab and Sar1/Arf families regulate vesicle trafficking, and the Ran family regulates nucleocytoplasmic transport and microtubule organization. The GTP translation factor family regulate initiation, elongation, termination, and release in translation, and the Era-like GTPase family regulates cell division, sporulation, and DNA replication. Memb

>PRK10463 hydrogenase nickel incorporation protein HypB; Provisional

Probab=92.26  E-value=0.89  Score=38.46  Aligned_cols=33  Identities=21%  Similarity=0.232  Sum_probs=26.9

Q ss_pred             CCCCCcHHHHHHHHHHHHHhcCCCCeEEEEecCCCC
Q psy14655          5 SKGGVGKSTTTVNLATAMKICYPDKEIGILDADVFG   40 (261)
Q Consensus         5 ~KGGvGKTT~a~~lA~~la~~g~~~~VllvD~D~~~   40 (261)
                      +.-|+||||+...+...|...   .++.+|+-|...
T Consensus       111 G~pGsGKTTLl~~l~~~l~~~---~~~~VI~gD~~t  143 (290)
T PRK10463        111 SSPGSGKTTLLTETLMRLKDS---VPCAVIEGDQQT  143 (290)
T ss_pred             CCCCCCHHHHHHHHHHHhccC---CCEEEECCCcCc
Confidence            557999999999999988654   588888888653

>PRK05506 bifunctional sulfate adenylyltransferase subunit 1/adenylylsulfate kinase protein; Provisional

Probab=92.23  E-value=0.14  Score=48.43  Aligned_cols=38  Identities=21%  Similarity=0.178  Sum_probs=33.3

Q ss_pred             cccCCCCCcHHHHHHHHHHHHHhcCCCCeEEEEecCCCCC
Q psy14655          2 IASSKGGVGKSTTTVNLATAMKICYPDKEIGILDADVFGP   41 (261)
Q Consensus         2 v~s~KGGvGKTT~a~~lA~~la~~g~~~~VllvD~D~~~~   41 (261)
                      ++.+..|+||||+|..|+..|...|  ..+.++|-|.-..
T Consensus       464 ~~~G~~gsGKst~a~~l~~~l~~~~--~~~~~l~~D~~r~  501 (632)
T PRK05506        464 WFTGLSGSGKSTIANLVERRLHALG--RHTYLLDGDNVRH  501 (632)
T ss_pred             EecCCCCchHHHHHHHHHHHHHHcC--CCEEEEcChhhhh
Confidence            4677889999999999999998888  8999999997653

>PLN00023 GTP-binding protein; Provisional

Probab=92.23  E-value=2.4  Score=36.55  Aligned_cols=66  Identities=8%  Similarity=-0.063  Sum_probs=44.1

Q ss_pred             CCCCEEEEeCCCCCCh--hHHHHhhhcCCCeEEEEeC-CCcchHHHHHHHHHHHHhCC--------------CCeEEEEE
Q psy14655        105 GPCDILFIDTPPGTGD--THLSLIQNLFIDTAIIITI-PDTMSLQVAQRGYTMFKKLN--------------IPVAGLVM  167 (261)
Q Consensus       105 ~~yd~IiiD~~~~~~~--~~~~~~~~~~ad~viiv~~-~~~~s~~~~~~~~~~l~~~~--------------~~~~giv~  167 (261)
                      ..+.+-|.|+++.-..  .....+..  +|.+|+|.+ .+..+...+...++.+....              --.+.+|.
T Consensus        81 k~v~LqIWDTAGqErfrsL~~~yyr~--AdgiILVyDITdr~SFenL~kWl~eI~~~~~~s~p~~s~~~~~~~ipIILVG  158 (334)
T PLN00023         81 RDFFVELWDVSGHERYKDCRSLFYSQ--INGVIFVHDLSQRRTKTSLQKWASEVAATGTFSAPLGSGGPGGLPVPYIVIG  158 (334)
T ss_pred             ceEEEEEEECCCChhhhhhhHHhccC--CCEEEEEEeCCCHHHHHHHHHHHHHHHHhcccccccccccccCCCCcEEEEE
Confidence            4577889999864322  22233444  899999987 55677778888777776431              12466899


Q ss_pred             cCCCC
Q psy14655        168 NMNSV  172 (261)
Q Consensus       168 N~~~~  172 (261)
                      |+++.
T Consensus       159 NK~DL  163 (334)
T PLN00023        159 NKADI  163 (334)
T ss_pred             ECccc
Confidence            99875

>KOG3062|consensus

Probab=92.22  E-value=0.78  Score=37.14  Aligned_cols=35  Identities=29%  Similarity=0.340  Sum_probs=27.7

Q ss_pred             CcccCCCCCcHHHHHHHHHHHHHhcCCCCeEEEEe
Q psy14655          1 MIASSKGGVGKSTTTVNLATAMKICYPDKEIGILD   35 (261)
Q Consensus         1 ~v~s~KGGvGKTT~a~~lA~~la~~g~~~~VllvD   35 (261)
                      +|+++---+||||.|.+|..+|+..|.++.|.++|
T Consensus         4 Vvi~G~P~SGKstrA~~L~~~l~~~~~K~~v~ii~   38 (281)
T KOG3062|consen    4 VVICGLPCSGKSTRAVELREALKERGTKQSVRIID   38 (281)
T ss_pred             EEEeCCCCCCchhHHHHHHHHHHhhcccceEEEec
Confidence            35677778999999999999999998223566665

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

Probab=92.20  E-value=0.14  Score=41.20  Aligned_cols=33  Identities=21%  Similarity=0.279  Sum_probs=24.6

Q ss_pred             cccCCCCCcHHHHHHHHHHHH--------HhcCCCCeEEEEec
Q psy14655          2 IASSKGGVGKSTTTVNLATAM--------KICYPDKEIGILDA   36 (261)
Q Consensus         2 v~s~KGGvGKTT~a~~lA~~l--------a~~g~~~~VllvD~   36 (261)
                      ++.+--|+||||+.+.++..+        ...+  .++|++--
T Consensus        21 ~i~GpPGTGKT~~l~~~i~~~~~~~~~~~~~~~--~~il~~~~   61 (236)
T PF13086_consen   21 LIQGPPGTGKTTTLASIIAQLLQRFKSRSADRG--KKILVVSP   61 (236)
T ss_dssp             EEE-STTSSHHHHHHHHHHHH-------HCCCS--S-EEEEES
T ss_pred             EEECCCCCChHHHHHHHHHHhccchhhhhhhcc--ccceeecC
Confidence            456777999999999999998        4555  88888753

>PLN02924 thymidylate kinase

Probab=92.18  E-value=0.15  Score=41.40  Aligned_cols=30  Identities=20%  Similarity=0.106  Sum_probs=25.7

Q ss_pred             cCCCCCcHHHHHHHHHHHHHhcCCCCeEEEEe
Q psy14655          4 SSKGGVGKSTTTVNLATAMKICYPDKEIGILD   35 (261)
Q Consensus         4 s~KGGvGKTT~a~~lA~~la~~g~~~~VllvD   35 (261)
                      =+--|+||||.+..|+..|...|  .+|.++.
T Consensus        22 EGiDGsGKsTq~~~L~~~l~~~g--~~v~~~~   51 (220)
T PLN02924         22 EGLDRSGKSTQCAKLVSFLKGLG--VAAELWR   51 (220)
T ss_pred             ECCCCCCHHHHHHHHHHHHHhcC--CCceeee
Confidence            35569999999999999999999  8886654

>cd00046 DEXDc DEAD-like helicases superfamily

Probab=92.07  E-value=0.21  Score=36.20  Aligned_cols=33  Identities=12%  Similarity=0.166  Sum_probs=26.5

Q ss_pred             cccCCCCCcHHHHHHHHHHHHHhcCCCCeEEEE
Q psy14655          2 IASSKGGVGKSTTTVNLATAMKICYPDKEIGIL   34 (261)
Q Consensus         2 v~s~KGGvGKTT~a~~lA~~la~~g~~~~Vllv   34 (261)
                      ++.+.-|+|||+++..++..+...++..+++++
T Consensus         4 ~i~~~~G~GKT~~~~~~~~~~~~~~~~~~~lv~   36 (144)
T cd00046           4 LLAAPTGSGKTLAALLPILELLDSLKGGQVLVL   36 (144)
T ss_pred             EEECCCCCchhHHHHHHHHHHHhcccCCCEEEE
Confidence            456778999999999999999975334677777

A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region.

>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=92.06  E-value=0.16  Score=37.68  Aligned_cols=40  Identities=18%  Similarity=0.155  Sum_probs=30.8

Q ss_pred             ccCCCCCcHHHHHHHHHHHHHhcCCCCeEEEEecCCCCCCcccccC
Q psy14655          3 ASSKGGVGKSTTTVNLATAMKICYPDKEIGILDADVFGPSIPILMN   48 (261)
Q Consensus         3 ~s~KGGvGKTT~a~~lA~~la~~g~~~~VllvD~D~~~~~~~~~~~   48 (261)
                      .-+.-|+|||+++..+|..+   +  .++..+-+.... +...++|
T Consensus         4 L~G~~G~GKt~l~~~la~~~---~--~~~~~i~~~~~~-~~~dl~g   43 (139)
T PF07728_consen    4 LVGPPGTGKTTLARELAALL---G--RPVIRINCSSDT-TEEDLIG   43 (139)
T ss_dssp             EEESSSSSHHHHHHHHHHHH---T--CEEEEEE-TTTS-THHHHHC
T ss_pred             EECCCCCCHHHHHHHHHHHh---h--cceEEEEecccc-cccccee
Confidence            44567999999999999999   6  899999888775 3445544

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.

>TIGR02782 TrbB_P P-type conjugative transfer ATPase TrbB

Probab=92.05  E-value=0.16  Score=43.24  Aligned_cols=34  Identities=21%  Similarity=0.324  Sum_probs=28.1

Q ss_pred             cccCCCCCcHHHHHHHHHHHHHhcCCCCeEEEEe
Q psy14655          2 IASSKGGVGKSTTTVNLATAMKICYPDKEIGILD   35 (261)
Q Consensus         2 v~s~KGGvGKTT~a~~lA~~la~~g~~~~VllvD   35 (261)
                      ++++..|+||||+...|...+....++.+++.|+
T Consensus       136 lI~G~tGSGKTTll~al~~~i~~~~~~~ri~tiE  169 (299)
T TIGR02782       136 LVVGGTGSGKTTLANALLAEIAKNDPTDRVVIIE  169 (299)
T ss_pred             EEECCCCCCHHHHHHHHHHHhhccCCCceEEEEC
Confidence            5788999999999999999888752238898887

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.

>cd01883 EF1_alpha Eukaryotic elongation factor 1 (EF1) alpha subfamily

Probab=92.02  E-value=0.45  Score=38.49  Aligned_cols=66  Identities=9%  Similarity=0.048  Sum_probs=41.7

Q ss_pred             CCCCEEEEeCCCCCCh--hHHHHhhhcCCCeEEEEeCCCcc-------hHHHHHHHHHHHHhCCCCeEEEEEcCCCC
Q psy14655        105 GPCDILFIDTPPGTGD--THLSLIQNLFIDTAIIITIPDTM-------SLQVAQRGYTMFKKLNIPVAGLVMNMNSV  172 (261)
Q Consensus       105 ~~yd~IiiD~~~~~~~--~~~~~~~~~~ad~viiv~~~~~~-------s~~~~~~~~~~l~~~~~~~~giv~N~~~~  172 (261)
                      .++.+.++|+|+....  .....+..  +|.+++|+.....       ....+...+......+.+.+-+++|+.+.
T Consensus        75 ~~~~i~liDtpG~~~~~~~~~~~~~~--~d~~i~VvDa~~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiivvNK~Dl  149 (219)
T cd01883          75 EKYRFTILDAPGHRDFVPNMITGASQ--ADVAVLVVDARKGEFEAGFEKGGQTREHALLARTLGVKQLIVAVNKMDD  149 (219)
T ss_pred             CCeEEEEEECCChHHHHHHHHHHhhh--CCEEEEEEECCCCccccccccccchHHHHHHHHHcCCCeEEEEEEcccc
Confidence            6789999999964321  12233333  8999999986653       12234444555555665556689999764

EF1 is responsible for the GTP-dependent binding of aminoacyl-tRNAs to the ribosomes. EF1 is composed of four subunits: the alpha chain which binds GTP and aminoacyl-tRNAs, the gamma chain that probably plays a role in anchoring the complex to other cellular components and the beta and delta (or beta') chains. This subfamily is the alpha subunit, and represents the counterpart of bacterial EF-Tu for the archaea (aEF1-alpha) and eukaryotes (eEF1-alpha). eEF1-alpha interacts with the actin of the eukaryotic cytoskeleton and may thereby play a role in cellular transformation and apoptosis. EF-Tu can have no such role in bacteria. In humans, the isoform eEF1A2 is overexpressed in 2/3 of breast cancers and has been identified as a putative oncogene. This subfamily also includes Hbs1, a G protein known to be important for efficient growth and protein synthesis under conditions of limiting translation initiation in

>PRK13507 formate--tetrahydrofolate ligase; Provisional

Probab=91.97  E-value=0.24  Score=45.20  Aligned_cols=45  Identities=31%  Similarity=0.225  Sum_probs=35.1

Q ss_pred             cccCCCCCcHHHHHHHHHHHHHhcCCCCeEEEEecCCCCCCcccccCCCC
Q psy14655          2 IASSKGGVGKSTTTVNLATAMKICYPDKEIGILDADVFGPSIPILMNLPD   51 (261)
Q Consensus         2 v~s~KGGvGKTT~a~~lA~~la~~g~~~~VllvD~D~~~~~~~~~~~~~~   51 (261)
                      +.-..-|.||||++..|+..|.+.|  +++.+.=   ..||+.-.||+..
T Consensus        71 itPTP~GEGKtTttIGL~~aL~~lg--k~~~~~l---RePSlGP~FGiKG  115 (587)
T PRK13507         71 ITPTPLGEGKSTTTMGLVQGLGKRG--KKVSGAI---RQPSGGPTMNIKG  115 (587)
T ss_pred             cCCCCCCCCccchhhhHHHHHHhhc--CceEEEE---ecCCcCCcCCccc
Confidence            3445679999999999999999999  8887653   4456666677764

>PRK13946 shikimate kinase; Provisional

Probab=91.90  E-value=0.14  Score=40.26  Aligned_cols=30  Identities=40%  Similarity=0.393  Sum_probs=23.6

Q ss_pred             cccCCCCCcHHHHHHHHHHHHHhcCCCCeEEEEecCC
Q psy14655          2 IASSKGGVGKSTTTVNLATAMKICYPDKEIGILDADV   38 (261)
Q Consensus         2 v~s~KGGvGKTT~a~~lA~~la~~g~~~~VllvD~D~   38 (261)
                      ++.+-.|+||||++..||..|   |  .+  ++|.|.
T Consensus        14 ~l~G~~GsGKsti~~~LA~~L---g--~~--~id~D~   43 (184)
T PRK13946         14 VLVGLMGAGKSTVGRRLATML---G--LP--FLDADT   43 (184)
T ss_pred             EEECCCCCCHHHHHHHHHHHc---C--CC--eECcCH
Confidence            456778999999999999888   5  55  577773

>PLN02759 Formate--tetrahydrofolate ligase

Probab=91.86  E-value=0.32  Score=44.74  Aligned_cols=46  Identities=28%  Similarity=0.277  Sum_probs=35.6

Q ss_pred             cccCCCCCcHHHHHHHHHHHHHh-cCCCCeEEEEecCCCCCCcccccCCCCC
Q psy14655          2 IASSKGGVGKSTTTVNLATAMKI-CYPDKEIGILDADVFGPSIPILMNLPDT   52 (261)
Q Consensus         2 v~s~KGGvGKTT~a~~lA~~la~-~g~~~~VllvD~D~~~~~~~~~~~~~~~   52 (261)
                      +.-..-|.||||++..|+..|.+ .|  +++++.   ...||+.-.||+.+-
T Consensus        77 itPTP~GEGKTTttIGL~~aL~~~lg--k~~~~~---lRePSlGP~FGiKGG  123 (637)
T PLN02759         77 ITPTPLGEGKSTTTIGLCQALGAYLD--KKVVTC---LRQPSQGPTFGIKGG  123 (637)
T ss_pred             cCCCCCCCCchhHHHHHHHHHHHHhC--CeeEEE---eecCCcCCcCCcccc
Confidence            34456799999999999999997 89  888775   344566666887643

>PF01580 FtsK_SpoIIIE: FtsK/SpoIIIE family; InterPro: IPR002543 The FtsK/SpoIIIE domain is found extensively in a wide variety of proteins from prokaryotes and plasmids [] some of which contain up to three copies

Probab=91.86  E-value=0.17  Score=40.34  Aligned_cols=43  Identities=28%  Similarity=0.476  Sum_probs=28.0

Q ss_pred             cccCCCCCcHHHHHHHHHHHHHhcCC--CCeEEEEecCCCCCCcccc
Q psy14655          2 IASSKGGVGKSTTTVNLATAMKICYP--DKEIGILDADVFGPSIPIL   46 (261)
Q Consensus         2 v~s~KGGvGKTT~a~~lA~~la~~g~--~~~VllvD~D~~~~~~~~~   46 (261)
                      ++.+..|+|||++..+++..++....  +.++.++|..  +..+..+
T Consensus        42 li~G~tgsGKS~~l~~ll~~l~~~~~p~~~~l~iiD~k--~~~l~~~   86 (205)
T PF01580_consen   42 LIAGATGSGKSTLLRTLLLSLALTYSPDDVQLYIIDPK--GSDLAPL   86 (205)
T ss_dssp             EEE--TTSSHHHHHHHHHHHHHTT--TTTEEEEEE-TT--SSCCGGG
T ss_pred             EEEcCCCCCccHHHHHHHHHHHHHhcCCccEEEEEcCC--ccccchh
Confidence            46778899999999999999998311  2667777765  3344444

The domain contains a putative ATP binding P-loop motif. A mutation in FtsK causes a temperature sensitive block in cell division and it is involved in peptidoglycan synthesis or modification []. The SpoIIIE protein is implicated in intercellular chromosomal DNA transfer []. ; GO: 0000166 nucleotide binding, 0003677 DNA binding, 0005524 ATP binding, 0007049 cell cycle, 0007059 chromosome segregation, 0051301 cell division, 0016021 integral to membrane; PDB: 2IUS_E 2IUU_A 2IUT_A.

>PRK00149 dnaA chromosomal replication initiation protein; Reviewed

Probab=91.75  E-value=0.19  Score=45.41  Aligned_cols=37  Identities=11%  Similarity=0.160  Sum_probs=31.7

Q ss_pred             cccCCCCCcHHHHHHHHHHHHHhcCCCCeEEEEecCC
Q psy14655          2 IASSKGGVGKSTTTVNLATAMKICYPDKEIGILDADV   38 (261)
Q Consensus         2 v~s~KGGvGKTT~a~~lA~~la~~g~~~~VllvD~D~   38 (261)
                      +..+.-|+|||+++..+|..+.+++++.+|+++.++-
T Consensus       152 ~l~G~~G~GKThL~~ai~~~~~~~~~~~~v~yi~~~~  188 (450)
T PRK00149        152 FIYGGVGLGKTHLLHAIGNYILEKNPNAKVVYVTSEK  188 (450)
T ss_pred             EEECCCCCCHHHHHHHHHHHHHHhCCCCeEEEEEHHH
Confidence            5678899999999999999999884349999998864

>TIGR02640 gas_vesic_GvpN gas vesicle protein GvpN

Probab=91.72  E-value=0.19  Score=41.90  Aligned_cols=40  Identities=18%  Similarity=0.257  Sum_probs=30.0

Q ss_pred             ccCCCCCcHHHHHHHHHHHHHhcCCCCeEEEEecCCCCCCcccccC
Q psy14655          3 ASSKGGVGKSTTTVNLATAMKICYPDKEIGILDADVFGPSIPILMN   48 (261)
Q Consensus         3 ~s~KGGvGKTT~a~~lA~~la~~g~~~~VllvD~D~~~~~~~~~~~   48 (261)
                      ..+--|+|||++|..+|..+   |  .++..+.++... ....++|
T Consensus        26 L~G~~GtGKT~lA~~la~~l---g--~~~~~i~~~~~~-~~~dllg   65 (262)
T TIGR02640        26 LRGPAGTGKTTLAMHVARKR---D--RPVMLINGDAEL-TTSDLVG   65 (262)
T ss_pred             EEcCCCCCHHHHHHHHHHHh---C--CCEEEEeCCccC-CHHHHhh
Confidence            34667999999999999744   7  899999998754 3334444

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).

>TIGR02655 circ_KaiC circadian clock protein KaiC

Probab=91.72  E-value=0.21  Score=45.56  Aligned_cols=35  Identities=14%  Similarity=0.071  Sum_probs=30.0

Q ss_pred             ccCCCCCcHHHHHHHHHHHHHhc-CCCCeEEEEecCCC
Q psy14655          3 ASSKGGVGKSTTTVNLATAMKIC-YPDKEIGILDADVF   39 (261)
Q Consensus         3 ~s~KGGvGKTT~a~~lA~~la~~-g~~~~VllvD~D~~   39 (261)
                      +.+--|+||||+|.+++..-+++ |  .++++|.++..
T Consensus        26 i~G~pGsGKT~la~qfl~~g~~~~g--e~~lyvs~eE~   61 (484)
T TIGR02655        26 VSGTSGTGKTLFSIQFLYNGIIHFD--EPGVFVTFEES   61 (484)
T ss_pred             EEcCCCCCHHHHHHHHHHHHHHhCC--CCEEEEEEecC
Confidence            45677999999999999887776 8  99999999854

Members of this family are the circadian clock protein KaiC, part of the kaiABC operon that controls circadian rhythm. It may be universal in Cyanobacteria. Each member has two copies of the KaiC domain (Pfam model pfam06745), which is also found in other proteins. KaiC performs autophosphorylation and acts as its own transcriptional repressor.

>PRK05124 cysN sulfate adenylyltransferase subunit 1; Provisional

Probab=91.68  E-value=0.45  Score=43.35  Aligned_cols=66  Identities=17%  Similarity=0.101  Sum_probs=43.4

Q ss_pred             CCCCEEEEeCCCCCCh--hHHHHhhhcCCCeEEEEeCCCcchHHHHHHHHHHHHhCCCCeEEEEEcCCCC
Q psy14655        105 GPCDILFIDTPPGTGD--THLSLIQNLFIDTAIIITIPDTMSLQVAQRGYTMFKKLNIPVAGLVMNMNSV  172 (261)
Q Consensus       105 ~~yd~IiiD~~~~~~~--~~~~~~~~~~ad~viiv~~~~~~s~~~~~~~~~~l~~~~~~~~giv~N~~~~  172 (261)
                      +++.++|+|||+....  .....+..  +|.+++|++....-..........+...+.+.+-+++|+.+.
T Consensus       105 ~~~~i~~iDTPGh~~f~~~~~~~l~~--aD~allVVDa~~G~~~qt~~~~~l~~~lg~~~iIvvvNKiD~  172 (474)
T PRK05124        105 EKRKFIIADTPGHEQYTRNMATGAST--CDLAILLIDARKGVLDQTRRHSFIATLLGIKHLVVAVNKMDL  172 (474)
T ss_pred             CCcEEEEEECCCcHHHHHHHHHHHhh--CCEEEEEEECCCCccccchHHHHHHHHhCCCceEEEEEeecc
Confidence            5678999999974321  12233343  899999998765544444455555666666656689999764

>TIGR02034 CysN sulfate adenylyltransferase, large subunit

Probab=91.68  E-value=0.36  Score=43.06  Aligned_cols=66  Identities=17%  Similarity=0.135  Sum_probs=46.0

Q ss_pred             CCCCEEEEeCCCCCC--hhHHHHhhhcCCCeEEEEeCCCcchHHHHHHHHHHHHhCCCCeEEEEEcCCCC
Q psy14655        105 GPCDILFIDTPPGTG--DTHLSLIQNLFIDTAIIITIPDTMSLQVAQRGYTMFKKLNIPVAGLVMNMNSV  172 (261)
Q Consensus       105 ~~yd~IiiD~~~~~~--~~~~~~~~~~~ad~viiv~~~~~~s~~~~~~~~~~l~~~~~~~~giv~N~~~~  172 (261)
                      +++.+.|+|||+...  ......+..  +|.+++|+.....-.....+.+..+...+.+.+-+++|+.+.
T Consensus        78 ~~~~~~liDtPGh~~f~~~~~~~~~~--aD~allVVda~~G~~~qt~~~~~~~~~~~~~~iivviNK~D~  145 (406)
T TIGR02034        78 DKRKFIVADTPGHEQYTRNMATGAST--ADLAVLLVDARKGVLEQTRRHSYIASLLGIRHVVLAVNKMDL  145 (406)
T ss_pred             CCeEEEEEeCCCHHHHHHHHHHHHhh--CCEEEEEEECCCCCccccHHHHHHHHHcCCCcEEEEEEeccc
Confidence            567899999996432  223334444  999999999776655556666666777677666689999764

Homologous to this E.coli activation pathway are nodPQH gene products found among members of the Rhizobiaceae family. These gene products have been shown to exhibit ATP sulfurase and APS kinase activity, yet are involved in Nod factor sulfation, and sulfation of other macromolecules. With members of the Rhizobiaceae family, nodQ often appears as a fusion of cysN (large subunit of ATP sulfurase) and cysC (APS kinase).

>PRK12422 chromosomal replication initiation protein; Provisional

Probab=91.58  E-value=0.18  Score=45.47  Aligned_cols=35  Identities=14%  Similarity=0.128  Sum_probs=30.3

Q ss_pred             cccCCCCCcHHHHHHHHHHHHHhcCCCCeEEEEecCC
Q psy14655          2 IASSKGGVGKSTTTVNLATAMKICYPDKEIGILDADV   38 (261)
Q Consensus         2 v~s~KGGvGKTT~a~~lA~~la~~g~~~~VllvD~D~   38 (261)
                      +..+.-|+|||+++..+|..+.+.|  .+|+++..+.
T Consensus       145 ~L~G~~G~GKTHLl~Ai~~~l~~~~--~~v~yi~~~~  179 (445)
T PRK12422        145 YLFGPEGSGKTHLMQAAVHALRESG--GKILYVRSEL  179 (445)
T ss_pred             EEEcCCCCCHHHHHHHHHHHHHHcC--CCEEEeeHHH
Confidence            3456779999999999999999888  9999998763

>cd01888 eIF2_gamma eIF2-gamma (gamma subunit of initiation factor 2)

Probab=91.49  E-value=0.56  Score=37.40  Aligned_cols=64  Identities=16%  Similarity=0.166  Sum_probs=39.3

Q ss_pred             CCEEEEeCCCCCC--hhHHHHhhhcCCCeEEEEeCCCcc-hHHHHHHHHHHHHhCCCCeEEEEEcCCCC
Q psy14655        107 CDILFIDTPPGTG--DTHLSLIQNLFIDTAIIITIPDTM-SLQVAQRGYTMFKKLNIPVAGLVMNMNSV  172 (261)
Q Consensus       107 yd~IiiD~~~~~~--~~~~~~~~~~~ad~viiv~~~~~~-s~~~~~~~~~~l~~~~~~~~giv~N~~~~  172 (261)
                      +.+.|+|||+...  ......+..  +|.+++|++.+.. ........+..+...+.+.+-+|+|+.+.
T Consensus        83 ~~i~~iDtPG~~~~~~~~~~~~~~--~D~~llVvd~~~~~~~~~t~~~l~~~~~~~~~~iiivvNK~Dl  149 (203)
T cd01888          83 RHVSFVDCPGHEILMATMLSGAAV--MDGALLLIAANEPCPQPQTSEHLAALEIMGLKHIIIVQNKIDL  149 (203)
T ss_pred             cEEEEEECCChHHHHHHHHHhhhc--CCEEEEEEECCCCCCCcchHHHHHHHHHcCCCcEEEEEEchhc
Confidence            6789999996432  112222333  7999999987652 22233445555555565556689999664

eIF2 is a heterotrimeric translation initiation factor that consists of alpha, beta, and gamma subunits. The GTP-bound gamma subunit also binds initiator methionyl-tRNA and delivers it to the 40S ribosomal subunit. Following hydrolysis of GTP to GDP, eIF2:GDP is released from the ribosome. The gamma subunit has no intrinsic GTPase activity, but is stimulated by the GTPase activating protein (GAP) eIF5, and GDP/GTP exchange is stimulated by the guanine nucleotide exchange factor (GEF) eIF2B. eIF2B is a heteropentamer, and the epsilon chain binds eIF2. Both eIF5 and eIF2B-epsilon are known to bind strongly to eIF2-beta, but have also been shown to bind directly to eIF2-gamma. It is possible that eIF2-beta serves simply as a high-affinity docking site for eIF5 and eIF2B-epsilon, or that eIF2-beta serves a regulatory role. eIF2-gamma is found only in eukaryotes and archaea. It is closely related to SelB, the sel

>PF02421 FeoB_N: Ferrous iron transport protein B; InterPro: IPR011619 Escherichia coli has an iron(II) transport system (feo) which may make an important contribution to the iron supply of the cell under anaerobic conditions

Probab=91.40  E-value=1.1  Score=34.21  Aligned_cols=64  Identities=17%  Similarity=0.174  Sum_probs=39.8

Q ss_pred             CCCCEEEEeCCCCCC--------hhHHHHhhhcCCCeEEEEeCCCcchHHHHHHHHHHHHhCCCCeEEEEEcCCC
Q psy14655        105 GPCDILFIDTPPGTG--------DTHLSLIQNLFIDTAIIITIPDTMSLQVAQRGYTMFKKLNIPVAGLVMNMNS  171 (261)
Q Consensus       105 ~~yd~IiiD~~~~~~--------~~~~~~~~~~~ad~viiv~~~~~~s~~~~~~~~~~l~~~~~~~~giv~N~~~  171 (261)
                      .+..+.++|+|+..+        ......+.....|.++.|++++..  +.-..+...+.+.+.|.+ +++||++
T Consensus        45 ~~~~~~lvDlPG~ysl~~~s~ee~v~~~~l~~~~~D~ii~VvDa~~l--~r~l~l~~ql~e~g~P~v-vvlN~~D  116 (156)
T PF02421_consen   45 GDQQVELVDLPGIYSLSSKSEEERVARDYLLSEKPDLIIVVVDATNL--ERNLYLTLQLLELGIPVV-VVLNKMD  116 (156)
T ss_dssp             TTEEEEEEE----SSSSSSSHHHHHHHHHHHHTSSSEEEEEEEGGGH--HHHHHHHHHHHHTTSSEE-EEEETHH
T ss_pred             cCceEEEEECCCcccCCCCCcHHHHHHHHHhhcCCCEEEEECCCCCH--HHHHHHHHHHHHcCCCEE-EEEeCHH
Confidence            568999999997432        112233322338999999997663  344456677778888844 8999954

FeoB has been identified as part of this transport system and may play a role in the transport of ferrous iron. FeoB is a large 700-800 amino acid integral membrane protein. The N terminus contains a P-loop motif suggesting that iron transport may be ATP dependent [].; GO: 0005525 GTP binding, 0015093 ferrous iron transmembrane transporter activity, 0015684 ferrous iron transport, 0016021 integral to membrane; PDB: 3TAH_B 3B1X_A 3SS8_A 3B1W_C 3B1V_A 3LX5_A 3B1Y_A 3LX8_A 3B1Z_A 3K53_B ....

>PRK06547 hypothetical protein; Provisional

Probab=91.40  E-value=0.16  Score=39.49  Aligned_cols=21  Identities=29%  Similarity=0.428  Sum_probs=17.4

Q ss_pred             cccCCCCCcHHHHHHHHHHHH
Q psy14655          2 IASSKGGVGKSTTTVNLATAM   22 (261)
Q Consensus         2 v~s~KGGvGKTT~a~~lA~~l   22 (261)
                      .+.+..|+||||+|..||..+
T Consensus        19 ~i~G~~GsGKTt~a~~l~~~~   39 (172)
T PRK06547         19 LIDGRSGSGKTTLAGALAART   39 (172)
T ss_pred             EEECCCCCCHHHHHHHHHHHh
Confidence            356789999999999988763

>PRK07773 replicative DNA helicase; Validated

Probab=91.40  E-value=0.22  Score=48.98  Aligned_cols=38  Identities=18%  Similarity=0.293  Sum_probs=33.5

Q ss_pred             cccCCCCCcHHHHHHHHHHHHHhc-CCCCeEEEEecCCCCC
Q psy14655          2 IASSKGGVGKSTTTVNLATAMKIC-YPDKEIGILDADVFGP   41 (261)
Q Consensus         2 v~s~KGGvGKTT~a~~lA~~la~~-g~~~~VllvD~D~~~~   41 (261)
                      ++++.-|+|||+++.|+|...|.+ |  .+|+++-+++...
T Consensus       221 vIagrPg~GKT~fal~ia~~~a~~~~--~~V~~fSlEms~~  259 (886)
T PRK07773        221 IVAARPSMGKTTFGLDFARNCAIRHR--LAVAIFSLEMSKE  259 (886)
T ss_pred             EEEeCCCCCcHHHHHHHHHHHHHhcC--CeEEEEecCCCHH
Confidence            567889999999999999999865 6  9999999998753

>PF06414 Zeta_toxin: Zeta toxin; InterPro: IPR010488 This entry represents a domain originally identified in bacterial zeta toxin proteins, where it comprises the whole protein []

Probab=91.35  E-value=0.11  Score=41.48  Aligned_cols=35  Identities=34%  Similarity=0.406  Sum_probs=25.9

Q ss_pred             cccCCCCCcHHHHHHHHHHHHHhcCCCCeEEEEecCCCC
Q psy14655          2 IASSKGGVGKSTTTVNLATAMKICYPDKEIGILDADVFG   40 (261)
Q Consensus         2 v~s~KGGvGKTT~a~~lA~~la~~g~~~~VllvD~D~~~   40 (261)
                      |+.+-.|+||||++..+...+.  +  ...+.||.|.-.
T Consensus        19 i~aG~~GsGKSt~~~~~~~~~~--~--~~~v~i~~D~~r   53 (199)
T PF06414_consen   19 IIAGQPGSGKSTLARQLLEEFG--G--GGIVVIDADEFR   53 (199)
T ss_dssp             EEES-TTSTTHHHHHHHHHHT---T--T-SEEE-GGGGG
T ss_pred             EEeCCCCCCHHHHHHHhhhhcc--C--CCeEEEehHHHH
Confidence            5678899999999998877776  5  688999999754

It has subsequently been found in a number of other proteins, such as polynucleotide kinase and 2',3'-cyclic-nucleotide 3'-phosphodiesterase. It appears to function as a kinase domain [, ].; GO: 0005524 ATP binding, 0016301 kinase activity; PDB: 2P5T_H 1GVN_B 3Q8X_D.

>COG0572 Udk Uridine kinase [Nucleotide transport and metabolism]

Probab=91.32  E-value=0.24  Score=39.88  Aligned_cols=34  Identities=18%  Similarity=0.385  Sum_probs=26.1

Q ss_pred             ccCCCCCcHHHHHHHHHHHHHhcCCCCeEEEEecCCCC
Q psy14655          3 ASSKGGVGKSTTTVNLATAMKICYPDKEIGILDADVFG   40 (261)
Q Consensus         3 ~s~KGGvGKTT~a~~lA~~la~~g~~~~VllvD~D~~~   40 (261)
                      +++-+|+||||+|..|...|..    .++.+|-.|---
T Consensus        13 IaG~SgSGKTTva~~l~~~~~~----~~~~~I~~D~YY   46 (218)
T COG0572          13 IAGGSGSGKTTVAKELSEQLGV----EKVVVISLDDYY   46 (218)
T ss_pred             EeCCCCCCHHHHHHHHHHHhCc----CcceEeeccccc
Confidence            4567899999999999998843    477777777543

>PRK00411 cdc6 cell division control protein 6; Reviewed

Probab=91.31  E-value=0.33  Score=42.87  Aligned_cols=39  Identities=13%  Similarity=0.106  Sum_probs=32.0

Q ss_pred             cccCCCCCcHHHHHHHHHHHHHhcCCCCeEEEEecCCCC
Q psy14655          2 IASSKGGVGKSTTTVNLATAMKICYPDKEIGILDADVFG   40 (261)
Q Consensus         2 v~s~KGGvGKTT~a~~lA~~la~~g~~~~VllvD~D~~~   40 (261)
                      ++.+..|+||||++..++..+...+++..++.|+|....
T Consensus        59 lI~G~~GtGKT~l~~~v~~~l~~~~~~~~~v~in~~~~~   97 (394)
T PRK00411         59 LIYGPPGTGKTTTVKKVFEELEEIAVKVVYVYINCQIDR   97 (394)
T ss_pred             EEECCCCCCHHHHHHHHHHHHHHhcCCcEEEEEECCcCC
Confidence            567899999999999999999876434788888887553

>PRK06851 hypothetical protein; Provisional

Probab=91.29  E-value=0.42  Score=41.84  Aligned_cols=40  Identities=20%  Similarity=0.194  Sum_probs=33.3

Q ss_pred             cccCCCCCcHHHHHHHHHHHHHhcCCCCeEEEEecCCCCCCc
Q psy14655          2 IASSKGGVGKSTTTVNLATAMKICYPDKEIGILDADVFGPSI   43 (261)
Q Consensus         2 v~s~KGGvGKTT~a~~lA~~la~~g~~~~VllvD~D~~~~~~   43 (261)
                      ++.+.-|+||||+...++..+.++|  .+|.+.=|-....++
T Consensus       218 ~i~G~pG~GKstl~~~i~~~a~~~G--~~v~~~hC~~dPdsl  257 (367)
T PRK06851        218 FLKGRPGTGKSTMLKKIAKAAEERG--FDVEVYHCGFDPDSL  257 (367)
T ss_pred             EEeCCCCCcHHHHHHHHHHHHHhCC--CeEEEEeCCCCCCCc
Confidence            4567779999999999999999999  999998776554444

>PRK14489 putative bifunctional molybdopterin-guanine dinucleotide biosynthesis protein MobA/MobB; Provisional

Probab=91.27  E-value=0.4  Score=42.13  Aligned_cols=35  Identities=20%  Similarity=0.221  Sum_probs=30.9

Q ss_pred             cCCCCCcHHHHHHHHHHHHHhcCCCCeEEEEecCCCC
Q psy14655          4 SSKGGVGKSTTTVNLATAMKICYPDKEIGILDADVFG   40 (261)
Q Consensus         4 s~KGGvGKTT~a~~lA~~la~~g~~~~VllvD~D~~~   40 (261)
                      .+.-|+||||+...|...|.++|  ++|.+|--|...
T Consensus       211 ~g~~~~GKtt~~~~l~~~l~~~g--~~v~~iKh~~h~  245 (366)
T PRK14489        211 VGYSGTGKTTLLEKLIPELIARG--YRIGLIKHSHHR  245 (366)
T ss_pred             ecCCCCCHHHHHHHHHHHHHHcC--CEEEEEEECCcc
Confidence            35679999999999999999999  999999877653

>PRK06761 hypothetical protein; Provisional

Probab=91.24  E-value=0.25  Score=41.67  Aligned_cols=35  Identities=29%  Similarity=0.348  Sum_probs=28.6

Q ss_pred             cccCCCCCcHHHHHHHHHHHHHhcCCCCeEEE-EecCC
Q psy14655          2 IASSKGGVGKSTTTVNLATAMKICYPDKEIGI-LDADV   38 (261)
Q Consensus         2 v~s~KGGvGKTT~a~~lA~~la~~g~~~~Vll-vD~D~   38 (261)
                      ++.+-.|+||||++..++..|...|  .++-. .+.|+
T Consensus         7 vI~G~~GsGKTTla~~L~~~L~~~g--~~v~~~~~~~~   42 (282)
T PRK06761          7 IIEGLPGFGKSTTAKMLNDILSQNG--IEVELYLEGNL   42 (282)
T ss_pred             EEECCCCCCHHHHHHHHHHhcCcCc--eEEEEEecCCC
Confidence            4667789999999999999998888  88764 56554

>KOG0461|consensus

Probab=91.24  E-value=1.7  Score=37.55  Aligned_cols=66  Identities=15%  Similarity=0.117  Sum_probs=32.3

Q ss_pred             CCCCEEEEeCCCCCChhHHHHhhhcC-CCeEEEEeCCCcchHHHHHHHHHHHHhCCCCeEEEEEcCCCC
Q psy14655        105 GPCDILFIDTPPGTGDTHLSLIQNLF-IDTAIIITIPDTMSLQVAQRGYTMFKKLNIPVAGLVMNMNSV  172 (261)
Q Consensus       105 ~~yd~IiiD~~~~~~~~~~~~~~~~~-ad~viiv~~~~~~s~~~~~~~~~~l~~~~~~~~giv~N~~~~  172 (261)
                      +...+-++|||+..+ ..+..+..+. -|..++|++....---++...+ .+-..-.+...+|+|+...
T Consensus        68 e~lq~tlvDCPGHas-LIRtiiggaqiiDlm~lviDv~kG~QtQtAEcL-iig~~~c~klvvvinkid~  134 (522)
T KOG0461|consen   68 EQLQFTLVDCPGHAS-LIRTIIGGAQIIDLMILVIDVQKGKQTQTAECL-IIGELLCKKLVVVINKIDV  134 (522)
T ss_pred             ccceeEEEeCCCcHH-HHHHHHhhhheeeeeeEEEehhcccccccchhh-hhhhhhccceEEEEecccc
Confidence            556889999986443 3333333211 5777777764332211111111 1111223446678887543

>PTZ00132 GTP-binding nuclear protein Ran; Provisional

Probab=91.19  E-value=0.93  Score=36.34  Aligned_cols=65  Identities=22%  Similarity=0.103  Sum_probs=37.6

Q ss_pred             CCCCEEEEeCCCCCCh--hHHHHhhhcCCCeEEEEeC-CCcchHHHHHHHHHHHHhC--CCCeEEEEEcCCCC
Q psy14655        105 GPCDILFIDTPPGTGD--THLSLIQNLFIDTAIIITI-PDTMSLQVAQRGYTMFKKL--NIPVAGLVMNMNSV  172 (261)
Q Consensus       105 ~~yd~IiiD~~~~~~~--~~~~~~~~~~ad~viiv~~-~~~~s~~~~~~~~~~l~~~--~~~~~giv~N~~~~  172 (261)
                      ..+.+.+.|+++....  ........  ++.++++.+ .+..++..+...+..+...  +.+ +.++.|+.+.
T Consensus        56 ~~i~i~~~Dt~g~~~~~~~~~~~~~~--~~~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~-i~lv~nK~Dl  125 (215)
T PTZ00132         56 GPICFNVWDTAGQEKFGGLRDGYYIK--GQCAIIMFDVTSRITYKNVPNWHRDIVRVCENIP-IVLVGNKVDV  125 (215)
T ss_pred             eEEEEEEEECCCchhhhhhhHHHhcc--CCEEEEEEECcCHHHHHHHHHHHHHHHHhCCCCC-EEEEEECccC
Confidence            4467778888753221  11222333  778888877 4556666666666655432  333 4577898654

>TIGR00235 udk uridine kinase

Probab=91.11  E-value=0.19  Score=40.30  Aligned_cols=33  Identities=24%  Similarity=0.257  Sum_probs=23.9

Q ss_pred             cccCCCCCcHHHHHHHHHHHHHhcCCCCeEEEEecCC
Q psy14655          2 IASSKGGVGKSTTTVNLATAMKICYPDKEIGILDADV   38 (261)
Q Consensus         2 v~s~KGGvGKTT~a~~lA~~la~~g~~~~VllvD~D~   38 (261)
                      .+.+..|+||||++..|+..+..    ..+.++..|.
T Consensus        10 ~I~G~sGsGKSTl~~~l~~~l~~----~~~~~i~~D~   42 (207)
T TIGR00235        10 GIGGGSGSGKTTVARKIYEQLGK----LEIVIISQDN   42 (207)
T ss_pred             EEECCCCCCHHHHHHHHHHHhcc----cCCeEecccc
Confidence            35678999999999999987753    2445555544

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

>PRK12339 2-phosphoglycerate kinase; Provisional

Probab=91.06  E-value=0.14  Score=40.80  Aligned_cols=32  Identities=25%  Similarity=0.365  Sum_probs=24.3

Q ss_pred             cccCCCCCcHHHHHHHHHHHHHhcCCCCeEEEEecCCC
Q psy14655          2 IASSKGGVGKSTTTVNLATAMKICYPDKEIGILDADVF   39 (261)
Q Consensus         2 v~s~KGGvGKTT~a~~lA~~la~~g~~~~VllvD~D~~   39 (261)
                      ++++..|+||||+|..||..+   |  ..+ ++.-|.-
T Consensus         7 ~i~G~~G~GKst~a~~l~~~~---~--~~~-~~~~D~~   38 (197)
T PRK12339          7 FIGGIPGVGKTSISGYIARHR---A--IDI-VLSGDYL   38 (197)
T ss_pred             EEECCCCCCHHHHHHHHHHhc---C--CeE-EehhHHH
Confidence            578899999999999998875   5  543 5666643

>TIGR02880 cbbX_cfxQ probable Rubsico expression protein CbbX

Probab=91.02  E-value=0.24  Score=41.86  Aligned_cols=36  Identities=17%  Similarity=0.190  Sum_probs=27.0

Q ss_pred             cccCCCCCcHHHHHHHHHHHHHhcCC--CCeEEEEecC
Q psy14655          2 IASSKGGVGKSTTTVNLATAMKICYP--DKEIGILDAD   37 (261)
Q Consensus         2 v~s~KGGvGKTT~a~~lA~~la~~g~--~~~VllvD~D   37 (261)
                      +..+.-|+||||+|..+|..+.+.|.  ..+++.++++
T Consensus        62 ll~G~pGTGKT~lA~~ia~~l~~~g~~~~~~~v~v~~~   99 (284)
T TIGR02880        62 SFTGNPGTGKTTVALRMAQILHRLGYVRKGHLVSVTRD   99 (284)
T ss_pred             EEEcCCCCCHHHHHHHHHHHHHHcCCcccceEEEecHH
Confidence            34567899999999999999998761  1246666653

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.

>COG1855 ATPase (PilT family) [General function prediction only]

Probab=91.01  E-value=0.23  Score=44.25  Aligned_cols=30  Identities=27%  Similarity=0.184  Sum_probs=25.4

Q ss_pred             cccCCCCCcHHHHHHHHHHHHHhcCCCCeEEE
Q psy14655          2 IASSKGGVGKSTTTVNLATAMKICYPDKEIGI   33 (261)
Q Consensus         2 v~s~KGGvGKTT~a~~lA~~la~~g~~~~Vll   33 (261)
                      ++++--|.||||.|+.||.+++.+|  +=|=-
T Consensus       267 LIAG~PGaGKsTFaqAlAefy~~~G--kiVKT  296 (604)
T COG1855         267 LIAGAPGAGKSTFAQALAEFYASQG--KIVKT  296 (604)
T ss_pred             EEecCCCCChhHHHHHHHHHHHhcC--cEEee
Confidence            4677889999999999999999999  64433

>COG1663 LpxK Tetraacyldisaccharide-1-P 4'-kinase [Cell envelope biogenesis, outer membrane]

Probab=90.95  E-value=0.21  Score=42.77  Aligned_cols=33  Identities=27%  Similarity=0.425  Sum_probs=31.1

Q ss_pred             CCCCcHHHHHHHHHHHHHhcCCCCeEEEEecCCCC
Q psy14655          6 KGGVGKSTTTVNLATAMKICYPDKEIGILDADVFG   40 (261)
Q Consensus         6 KGGvGKTT~a~~lA~~la~~g~~~~VllvD~D~~~   40 (261)
                      -||.|||-++..||..|.++|  .++.++--.+-+
T Consensus        57 vGGtGKTP~vi~la~~l~~rG--~~~gvvSRGYgg   89 (336)
T COG1663          57 VGGTGKTPVVIWLAEALQARG--VRVGVVSRGYGG   89 (336)
T ss_pred             ECCCCcCHHHHHHHHHHHhcC--CeeEEEecCcCC
Confidence            499999999999999999999  999999988876

>TIGR01313 therm_gnt_kin carbohydrate kinase, thermoresistant glucokinase family

Probab=90.94  E-value=0.17  Score=38.71  Aligned_cols=31  Identities=26%  Similarity=0.342  Sum_probs=23.7

Q ss_pred             cccCCCCCcHHHHHHHHHHHHHhcCCCCeEEEEecCCC
Q psy14655          2 IASSKGGVGKSTTTVNLATAMKICYPDKEIGILDADVF   39 (261)
Q Consensus         2 v~s~KGGvGKTT~a~~lA~~la~~g~~~~VllvD~D~~   39 (261)
                      ++.+-.|+||||++..|+..+   |    ..+||.|.-
T Consensus         2 ~l~G~~GsGKSTla~~l~~~l---~----~~~v~~D~~   32 (163)
T TIGR01313         2 VLMGVAGSGKSTIASALAHRL---G----AKFIEGDDL   32 (163)
T ss_pred             EEECCCCCCHHHHHHHHHHhc---C----CeEEeCccc
Confidence            567888999999999999776   3    245677654

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.

>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=90.92  E-value=0.2  Score=41.93  Aligned_cols=32  Identities=22%  Similarity=0.216  Sum_probs=28.6

Q ss_pred             cccCCCCCcHHHHHHHHHHHHHhcCCCCeEEEEe
Q psy14655          2 IASSKGGVGKSTTTVNLATAMKICYPDKEIGILD   35 (261)
Q Consensus         2 v~s~KGGvGKTT~a~~lA~~la~~g~~~~VllvD   35 (261)
                      ++++..|+||||+...+...+-...  .+++.|+
T Consensus       131 li~G~tGSGKTT~l~all~~i~~~~--~~iv~iE  162 (270)
T PF00437_consen  131 LISGPTGSGKTTLLNALLEEIPPED--ERIVTIE  162 (270)
T ss_dssp             EEEESTTSSHHHHHHHHHHHCHTTT--SEEEEEE
T ss_pred             EEECCCccccchHHHHHhhhccccc--cceEEec
Confidence            5788899999999999998888876  8999998

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 ....

>PF01268 FTHFS: Formate--tetrahydrofolate ligase; InterPro: IPR000559 Formate--tetrahydrofolate ligase (6

Probab=90.86  E-value=0.11  Score=47.21  Aligned_cols=46  Identities=28%  Similarity=0.336  Sum_probs=29.9

Q ss_pred             cccCCCCCcHHHHHHHHHHHHHhcCCCCeEEEEecCCCCCCcccccCCCCC
Q psy14655          2 IASSKGGVGKSTTTVNLATAMKICYPDKEIGILDADVFGPSIPILMNLPDT   52 (261)
Q Consensus         2 v~s~KGGvGKTT~a~~lA~~la~~g~~~~VllvD~D~~~~~~~~~~~~~~~   52 (261)
                      +.-..-|.||||++..|+..|++.|  +++.+.   ...||+.-.||+.+-
T Consensus        62 itPTp~GEGKtTttiGL~~al~~lg--~~~~~~---lRePSlGP~fG~KGG  107 (557)
T PF01268_consen   62 ITPTPAGEGKTTTTIGLAQALNRLG--KKAIAA---LREPSLGPVFGIKGG  107 (557)
T ss_dssp             SS--TTS-SHHHHHHHHHHHHHHTT----EEEE---E----CHHHHCST-S
T ss_pred             cCCCCCCCCceeHHHHHHHHHHhcC--CceEEE---EecCCCCCccCcccc
Confidence            3445679999999999999999999  887765   455677777888753

3.4.3 from EC) (formyltetrahydrofolate synthetase) (FTHFS) is one of the enzymes participating in the transfer of one-carbon units, an essential element of various biosynthetic pathways. In many of these processes the transfers of one-carbon units are mediated by the coenzyme tetrahydrofolate (THF). In eukaryotes the FTHFS activity is expressed by a multifunctional enzyme, C-1-tetrahydrofolate synthase (C1-THF synthase), which also catalyses the dehydrogenase and cyclohydrolase activities. Two forms of C1-THF synthases are known [], one is located in the mitochondrial matrix, while the second one is cytoplasmic. In both forms the FTHFS domain consists of about 600 amino acid residues and is located in the C-terminal section of C1-THF synthase. In prokaryotes FTHFS activity is expressed by a monofunctional homotetrameric enzyme of about 560 amino acid residues []. The crystal structure of N(10)-formyltetrahydrofolate synthetase from Moorella thermoacetica shows that the subunit is composed of three domains organised around three mixed beta-sheets. There are two cavities between adjacent domains. One of them was identified as the nucleotide binding site by homology modelling. The large domain contains a seven-stranded beta-sheet surrounded by helices on both sides. The second domain contains a five-stranded beta-sheet with two alpha-helices packed on one side while the other two are a wall of the active site cavity. The third domain contains a four-stranded beta-sheet forming a half-barrel. The concave side is covered by two helices while the convex side is another wall of the large cavity. Arg 97 is likely involved in formyl phosphate binding. The tetrameric molecule is relatively flat with the shape of the letter X, and the active sites are located at the end of the subunits far from the subunit interface [].; GO: 0004329 formate-tetrahydrofolate ligase activity, 0005524 ATP binding, 0009396 folic acid-containing compound biosynthetic process; PDB: 2EO2_A 3DO6_B 1FPM_A 3RBO_A 3PZX_B 3QB6_A 1FP7_A 3SIN_B 1EG7_A 3QUS_A ....

>COG2074 2-phosphoglycerate kinase [Carbohydrate transport and metabolism]

Probab=90.81  E-value=0.15  Score=41.90  Aligned_cols=23  Identities=39%  Similarity=0.525  Sum_probs=19.6

Q ss_pred             cccCCCCCcHHHHHHHHHHHHHh
Q psy14655          2 IASSKGGVGKSTTTVNLATAMKI   24 (261)
Q Consensus         2 v~s~KGGvGKTT~a~~lA~~la~   24 (261)
                      +.++-.||||||+|..+|..|.-
T Consensus        93 LIGGasGVGkStIA~ElA~rLgI  115 (299)
T COG2074          93 LIGGASGVGKSTIAGELARRLGI  115 (299)
T ss_pred             EecCCCCCChhHHHHHHHHHcCC
Confidence            46788899999999999988843

>cd03113 CTGs CTP synthetase (CTPs) is a two-domain protein, which consists of an N-terminal synthetase domain and C-terminal glutaminase domain

Probab=90.79  E-value=5.4  Score=32.86  Aligned_cols=33  Identities=18%  Similarity=0.195  Sum_probs=30.2

Q ss_pred             CCCcHHHHHHHHHHHHHhcCCCCeEEEEecCCCCC
Q psy14655          7 GGVGKSTTTVNLATAMKICYPDKEIGILDADVFGP   41 (261)
Q Consensus         7 GGvGKTT~a~~lA~~la~~g~~~~VllvD~D~~~~   41 (261)
                      .|.||-.+|+.++..|..+|  .+|-++-+||--+
T Consensus        11 s~lgkgi~~as~g~ll~~~g--~~v~~~K~DpYlN   43 (255)
T cd03113          11 SSLGKGITAASLGRLLKARG--LKVTAQKLDPYLN   43 (255)
T ss_pred             cCcchHHHHHHHHHHHHHCC--CeEEEEeeccccc
Confidence            47899999999999999999  9999999999653

The enzymes hydrolyze the amide bond of glutamine to ammonia and glutamate at the glutaminase domains and transfer nascent ammonia to the acceptor substrate at the synthetase domain to form an aminated product. Glutaminase domains have evolved from the same ancestor, whereas the synthetase domains are evolutionarily unrelated and have different functions. This protein family is classified based on the N-terminal synthetase domain.

>PRK14087 dnaA chromosomal replication initiation protein; Provisional

Probab=90.75  E-value=0.31  Score=44.04  Aligned_cols=37  Identities=14%  Similarity=0.276  Sum_probs=30.1

Q ss_pred             cccCCCCCcHHHHHHHHHHHHHhcCCCCeEEEEecCC
Q psy14655          2 IASSKGGVGKSTTTVNLATAMKICYPDKEIGILDADV   38 (261)
Q Consensus         2 v~s~KGGvGKTT~a~~lA~~la~~g~~~~VllvD~D~   38 (261)
                      +..+.-|+|||+++..++..+.+..++.+|+++.++.
T Consensus       145 ~i~G~~G~GKTHLl~Ai~~~l~~~~~~~~v~yv~~~~  181 (450)
T PRK14087        145 FIYGESGMGKTHLLKAAKNYIESNFSDLKVSYMSGDE  181 (450)
T ss_pred             EEECCCCCcHHHHHHHHHHHHHHhCCCCeEEEEEHHH
Confidence            4668889999999999999888643349999988753

>TIGR00437 feoB ferrous iron transporter FeoB

Probab=90.71  E-value=0.84  Score=42.79  Aligned_cols=65  Identities=18%  Similarity=0.079  Sum_probs=35.7

Q ss_pred             CCCCEEEEeCCCCCChh--------HHHHhhhcCCCeEEEEeCCCcchHHHHHHHHHHHHhCCCCeEEEEEcCCCC
Q psy14655        105 GPCDILFIDTPPGTGDT--------HLSLIQNLFIDTAIIITIPDTMSLQVAQRGYTMFKKLNIPVAGLVMNMNSV  172 (261)
Q Consensus       105 ~~yd~IiiD~~~~~~~~--------~~~~~~~~~ad~viiv~~~~~~s~~~~~~~~~~l~~~~~~~~giv~N~~~~  172 (261)
                      +++.+.++|+|+..+..        ....+....+|.++.|++.+...  ........+.+.+.+ +-++.||.+.
T Consensus        39 ~~~~i~lvDtPG~~~~~~~s~~e~v~~~~l~~~~aDvvI~VvDat~le--r~l~l~~ql~~~~~P-iIIVlNK~Dl  111 (591)
T TIGR00437        39 QGEDIEIVDLPGIYSLTTFSLEEEVARDYLLNEKPDLVVNVVDASNLE--RNLYLTLQLLELGIP-MILALNLVDE  111 (591)
T ss_pred             CCeEEEEEECCCccccCccchHHHHHHHHHhhcCCCEEEEEecCCcch--hhHHHHHHHHhcCCC-EEEEEehhHH
Confidence            34567888998643311        11111211278888888865532  222333344455666 4488999764

FeoB (773 amino acids in E. coli), a cytoplasmic membrane protein required for iron(II) update, is encoded in an operon with FeoA (75 amino acids), which is also required, and is regulated by Fur. There appear to be two copies in Archaeoglobus fulgidus and Clostridium acetobutylicum.

>cd01852 AIG1 AIG1 (avrRpt2-induced gene 1)

Probab=90.71  E-value=2.4  Score=33.47  Aligned_cols=67  Identities=7%  Similarity=0.062  Sum_probs=33.8

Q ss_pred             CCCCEEEEeCCCCCChh------HHHHh---h--hcCCCeEEEEeCCCcchHHHHHHHHHHHHhC-C---CCeEEEEEcC
Q psy14655        105 GPCDILFIDTPPGTGDT------HLSLI---Q--NLFIDTAIIITIPDTMSLQVAQRGYTMFKKL-N---IPVAGLVMNM  169 (261)
Q Consensus       105 ~~yd~IiiD~~~~~~~~------~~~~~---~--~~~ad~viiv~~~~~~s~~~~~~~~~~l~~~-~---~~~~giv~N~  169 (261)
                      .+..++|||||+..+..      .....   .  ....|.+++|+..+..+- .-..+++.+.+. +   .+...+|+++
T Consensus        47 ~~~~i~viDTPG~~d~~~~~~~~~~~i~~~~~~~~~g~~~illVi~~~~~t~-~d~~~l~~l~~~fg~~~~~~~ivv~T~  125 (196)
T cd01852          47 DGRRVNVIDTPGLFDTSVSPEQLSKEIVRCLSLSAPGPHAFLLVVPLGRFTE-EEEQAVETLQELFGEKVLDHTIVLFTR  125 (196)
T ss_pred             CCeEEEEEECcCCCCccCChHHHHHHHHHHHHhcCCCCEEEEEEEECCCcCH-HHHHHHHHHHHHhChHhHhcEEEEEEC
Confidence            45578889998643211      00110   0  011577788877555433 233445555442 2   2345577777


Q ss_pred             CCC
Q psy14655        170 NSV  172 (261)
Q Consensus       170 ~~~  172 (261)
                      .+.
T Consensus       126 ~d~  128 (196)
T cd01852         126 GDD  128 (196)
T ss_pred             ccc
Confidence            553

This represents Arabidoposis protein AIG1 that appears to be involved in plant resistance to bacteria. The Arabidopsis disease resistance gene RPS2 is involved in recognition of bacterial pathogens carrying the avirulence gene avrRpt2. AIG1 exhibits RPS2- and avrRpt1-dependent induction early after infection with Pseudomonas syringae carrying avrRpt2. This subfamily also includes IAN-4 protein, which has GTP-binding activity and shares sequence homology with a novel family of putative GTP-binding proteins: the immuno-associated nucleotide (IAN) family. The evolutionary conservation of the IAN family provides a unique example of a plant pathogen response gene conserved in animals. The IAN/IMAP subfamily has been proposed to regulate apoptosis in vertebrates and angiosperm plants, particularly in relation to cancer, diabetes, and infections. The human IAN genes were renamed GIMAP (GTPase of the immunity associated proteins).

>cd01890 LepA LepA subfamily

Probab=90.69  E-value=1.4  Score=33.84  Aligned_cols=64  Identities=14%  Similarity=0.084  Sum_probs=39.3

Q ss_pred             CCCCEEEEeCCCCCC--hhHHHHhhhcCCCeEEEEeCCCcc-hHHHHHHHHHHHHhCCCCeEEEEEcCCCC
Q psy14655        105 GPCDILFIDTPPGTG--DTHLSLIQNLFIDTAIIITIPDTM-SLQVAQRGYTMFKKLNIPVAGLVMNMNSV  172 (261)
Q Consensus       105 ~~yd~IiiD~~~~~~--~~~~~~~~~~~ad~viiv~~~~~~-s~~~~~~~~~~l~~~~~~~~giv~N~~~~  172 (261)
                      ..+.+.|+|||+...  ......+..  +|.+++|++.+.. +...... ...+...+.+ +.+|.|+.+.
T Consensus        65 ~~~~~~l~Dt~G~~~~~~~~~~~~~~--ad~~i~v~D~~~~~~~~~~~~-~~~~~~~~~~-iiiv~NK~Dl  131 (179)
T cd01890          65 QEYLLNLIDTPGHVDFSYEVSRSLAA--CEGALLLVDATQGVEAQTLAN-FYLALENNLE-IIPVINKIDL  131 (179)
T ss_pred             CcEEEEEEECCCChhhHHHHHHHHHh--cCeEEEEEECCCCccHhhHHH-HHHHHHcCCC-EEEEEECCCC
Confidence            567889999996433  223334444  9999999986553 3333322 2333345666 5589999664

LepA belongs to the GTPase family of and exhibits significant homology to the translation factors EF-G and EF-Tu, indicating its possible involvement in translation and association with the ribosome. LepA is ubiquitous in bacteria and eukaryota (e.g. yeast GUF1p), but is missing from archaea. This pattern of phyletic distribution suggests that LepA evolved through a duplication of the EF-G gene in bacteria, followed by early transfer into the eukaryotic lineage, most likely from the promitochondrial endosymbiont. Yeast GUF1p is not essential and mutant cells did not reveal any marked phenotype.

>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=90.60  E-value=0.12  Score=38.51  Aligned_cols=31  Identities=29%  Similarity=0.352  Sum_probs=23.9

Q ss_pred             cccCCCCCcHHHHHHHHHHHHHhcCCCCeEEEEecCCC
Q psy14655          2 IASSKGGVGKSTTTVNLATAMKICYPDKEIGILDADVF   39 (261)
Q Consensus         2 v~s~KGGvGKTT~a~~lA~~la~~g~~~~VllvD~D~~   39 (261)
                      ++.+.-|+||||++..++..+.       ..+|+.|.-
T Consensus         3 i~~G~pgsGKSt~a~~l~~~~~-------~~~i~~D~~   33 (143)
T PF13671_consen    3 ILCGPPGSGKSTLAKRLAKRLG-------AVVISQDEI   33 (143)
T ss_dssp             EEEESTTSSHHHHHHHHHHHST-------EEEEEHHHH
T ss_pred             EEECCCCCCHHHHHHHHHHHCC-------CEEEeHHHH
Confidence            5678889999999988875542       567888863

...

>PRK00698 tmk thymidylate kinase; Validated

Probab=90.59  E-value=0.31  Score=38.66  Aligned_cols=32  Identities=19%  Similarity=0.164  Sum_probs=26.1

Q ss_pred             cccCCCCCcHHHHHHHHHHHHHhcCCCCeEEEEe
Q psy14655          2 IASSKGGVGKSTTTVNLATAMKICYPDKEIGILD   35 (261)
Q Consensus         2 v~s~KGGvGKTT~a~~lA~~la~~g~~~~VllvD   35 (261)
                      ++-+--|+||||++..|+..|...|  ..|....
T Consensus         7 ~ieG~~gsGKsT~~~~L~~~l~~~~--~~~~~~~   38 (205)
T PRK00698          7 TIEGIDGAGKSTQIELLKELLEQQG--RDVVFTR   38 (205)
T ss_pred             EEECCCCCCHHHHHHHHHHHHHHcC--CceeEee
Confidence            3456779999999999999998888  7766543

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

Probab=90.59  E-value=0.16  Score=38.20  Aligned_cols=32  Identities=28%  Similarity=0.333  Sum_probs=24.4

Q ss_pred             cccCCCCCcHHHHHHHHHHHHHhcCCCCeEEEEecCCCC
Q psy14655          2 IASSKGGVGKSTTTVNLATAMKICYPDKEIGILDADVFG   40 (261)
Q Consensus         2 v~s~KGGvGKTT~a~~lA~~la~~g~~~~VllvD~D~~~   40 (261)
                      ++++.-|+||||+|..|+..+   +  .  .++|.|.-.
T Consensus         3 ~l~G~~GsGKST~a~~l~~~~---~--~--~~i~~D~~~   34 (150)
T cd02021           3 VVMGVSGSGKSTVGKALAERL---G--A--PFIDGDDLH   34 (150)
T ss_pred             EEEcCCCCCHHHHHHHHHhhc---C--C--EEEeCcccc
Confidence            567889999999999998764   3  3  456777654

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

>PTZ00327 eukaryotic translation initiation factor 2 gamma subunit; Provisional

Probab=90.57  E-value=0.66  Score=42.05  Aligned_cols=65  Identities=12%  Similarity=0.153  Sum_probs=44.9

Q ss_pred             CCCEEEEeCCCCCC--hhHHHHhhhcCCCeEEEEeCCCcc-hHHHHHHHHHHHHhCCCCeEEEEEcCCCC
Q psy14655        106 PCDILFIDTPPGTG--DTHLSLIQNLFIDTAIIITIPDTM-SLQVAQRGYTMFKKLNIPVAGLVMNMNSV  172 (261)
Q Consensus       106 ~yd~IiiD~~~~~~--~~~~~~~~~~~ad~viiv~~~~~~-s~~~~~~~~~~l~~~~~~~~giv~N~~~~  172 (261)
                      ...+.|+|+|+...  ..+...+..  +|.+++|+.++.. ...++.+.+..+...+.+.+-+++|+++.
T Consensus       116 ~~~i~~IDtPGH~~fi~~m~~g~~~--~D~alLVVda~~g~~~~qT~ehl~i~~~lgi~~iIVvlNKiDl  183 (460)
T PTZ00327        116 KRHVSFVDCPGHDILMATMLNGAAV--MDAALLLIAANESCPQPQTSEHLAAVEIMKLKHIIILQNKIDL  183 (460)
T ss_pred             cceEeeeeCCCHHHHHHHHHHHHhh--CCEEEEEEECCCCccchhhHHHHHHHHHcCCCcEEEEEecccc
Confidence            45789999997432  122333333  8999999998764 34455566677777788777789999764

>COG0305 DnaB Replicative DNA helicase [DNA replication, recombination, and repair]

Probab=90.34  E-value=0.42  Score=42.65  Aligned_cols=38  Identities=21%  Similarity=0.343  Sum_probs=32.7

Q ss_pred             cccCCCCCcHHHHHHHHHHHHHhcCCCCeEEEEecCCCC
Q psy14655          2 IASSKGGVGKSTTTVNLATAMKICYPDKEIGILDADVFG   40 (261)
Q Consensus         2 v~s~KGGvGKTT~a~~lA~~la~~g~~~~VllvD~D~~~   40 (261)
                      ++++.-|.|||++|.|+|..+|... +++|+++-+.+..
T Consensus       200 i~AaRP~mGKTafalnia~n~a~~~-~~~v~iFSLEM~~  237 (435)
T COG0305         200 IVAARPGMGKTALALNIALNAAADG-RKPVAIFSLEMSE  237 (435)
T ss_pred             EEccCCCCChHHHHHHHHHHHHHhc-CCCeEEEEccCCH
Confidence            5678899999999999999999865 4779999888764

>PRK12317 elongation factor 1-alpha; Reviewed

Probab=90.30  E-value=0.89  Score=40.76  Aligned_cols=66  Identities=12%  Similarity=0.137  Sum_probs=43.3

Q ss_pred             CCCCEEEEeCCCCCCh--hHHHHhhhcCCCeEEEEeCCCc--chHHHHHHHHHHHHhCCCCeEEEEEcCCCC
Q psy14655        105 GPCDILFIDTPPGTGD--THLSLIQNLFIDTAIIITIPDT--MSLQVAQRGYTMFKKLNIPVAGLVMNMNSV  172 (261)
Q Consensus       105 ~~yd~IiiD~~~~~~~--~~~~~~~~~~ad~viiv~~~~~--~s~~~~~~~~~~l~~~~~~~~giv~N~~~~  172 (261)
                      +++.+.|+|||+....  .....+..  +|.+++|++.+.  .-.......+..+...+.+.+-+++|+.+.
T Consensus        82 ~~~~i~liDtpG~~~~~~~~~~~~~~--aD~~ilVvDa~~~~~~~~~~~~~~~~~~~~~~~~iivviNK~Dl  151 (425)
T PRK12317         82 DKYYFTIVDCPGHRDFVKNMITGASQ--ADAAVLVVAADDAGGVMPQTREHVFLARTLGINQLIVAINKMDA  151 (425)
T ss_pred             CCeEEEEEECCCcccchhhHhhchhc--CCEEEEEEEcccCCCCCcchHHHHHHHHHcCCCeEEEEEEcccc
Confidence            6789999999974322  12223333  899999998765  323344455556666676657789999764

>COG2759 MIS1 Formyltetrahydrofolate synthetase [Nucleotide transport and metabolism]

Probab=90.25  E-value=0.18  Score=44.62  Aligned_cols=42  Identities=29%  Similarity=0.313  Sum_probs=32.6

Q ss_pred             CCCCCcHHHHHHHHHHHHHhcCCCCeEEEEecCCCCCCcccccCCCC
Q psy14655          5 SKGGVGKSTTTVNLATAMKICYPDKEIGILDADVFGPSIPILMNLPD   51 (261)
Q Consensus         5 ~KGGvGKTT~a~~lA~~la~~g~~~~VllvD~D~~~~~~~~~~~~~~   51 (261)
                      .--|.||||++..|+.+|.+.|  +++.+-=   ..||+.-.||+..
T Consensus        63 TPaGEGKsTttiGL~~al~~lg--K~~i~al---RePSlGP~fGiKG  104 (554)
T COG2759          63 TPAGEGKTTTTIGLVDALNKLG--KKAIIAL---REPSLGPVFGIKG  104 (554)
T ss_pred             CCCCCCcceeeehHHHHHHhcC--chheEEe---ccCCcCCcccccc
Confidence            4469999999999999999999  8876643   3456666677764

>PRK13695 putative NTPase; Provisional

Probab=90.20  E-value=0.42  Score=37.05  Aligned_cols=29  Identities=28%  Similarity=0.329  Sum_probs=23.9

Q ss_pred             cccCCCCCcHHHHHHHHHHHHHhcCCCCeEE
Q psy14655          2 IASSKGGVGKSTTTVNLATAMKICYPDKEIG   32 (261)
Q Consensus         2 v~s~KGGvGKTT~a~~lA~~la~~g~~~~Vl   32 (261)
                      ++.+..|+||||+...++..+...|  .++.
T Consensus         4 ~ltG~~G~GKTTll~~i~~~l~~~G--~~~~   32 (174)
T PRK13695          4 GITGPPGVGKTTLVLKIAELLKEEG--YKVG   32 (174)
T ss_pred             EEECCCCCCHHHHHHHHHHHHHHCC--CeEE
Confidence            3457789999999999999888777  7764

>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=90.17  E-value=0.24  Score=36.87  Aligned_cols=21  Identities=33%  Similarity=0.384  Sum_probs=18.1

Q ss_pred             cccCCCCCcHHHHHHHHHHHH
Q psy14655          2 IASSKGGVGKSTTTVNLATAM   22 (261)
Q Consensus         2 v~s~KGGvGKTT~a~~lA~~l   22 (261)
                      ++++.-|+||||+|..||..+
T Consensus         3 ~i~G~~GsGKst~a~~la~~~   23 (147)
T cd02020           3 AIDGPAGSGKSTVAKLLAKKL   23 (147)
T ss_pred             EEECCCCCCHHHHHHHHHHHh
Confidence            467889999999999998765

>PRK13764 ATPase; Provisional

Probab=90.14  E-value=0.33  Score=45.30  Aligned_cols=32  Identities=25%  Similarity=0.225  Sum_probs=28.2

Q ss_pred             cccCCCCCcHHHHHHHHHHHHHhcCCCCeEEEEe
Q psy14655          2 IASSKGGVGKSTTTVNLATAMKICYPDKEIGILD   35 (261)
Q Consensus         2 v~s~KGGvGKTT~a~~lA~~la~~g~~~~VllvD   35 (261)
                      ++++.-|+||||++..|+..+...+  +.|+.++
T Consensus       261 LIsG~TGSGKTTll~AL~~~i~~~~--riV~TiE  292 (602)
T PRK13764        261 LIAGAPGAGKSTFAQALAEFYADMG--KIVKTME  292 (602)
T ss_pred             EEECCCCCCHHHHHHHHHHHHhhCC--CEEEEEC
Confidence            5678889999999999999999887  8887776

>PRK12338 hypothetical protein; Provisional

Probab=90.01  E-value=0.18  Score=43.14  Aligned_cols=33  Identities=27%  Similarity=0.481  Sum_probs=24.2

Q ss_pred             cccCCCCCcHHHHHHHHHHHHHhcCCCCeEEEEecCCCC
Q psy14655          2 IASSKGGVGKSTTTVNLATAMKICYPDKEIGILDADVFG   40 (261)
Q Consensus         2 v~s~KGGvGKTT~a~~lA~~la~~g~~~~VllvD~D~~~   40 (261)
                      ++++..|+||||+|..||..+   |  .+. +++-|.-.
T Consensus         8 ~i~G~sGsGKST~a~~la~~l---~--~~~-~~~tD~~r   40 (319)
T PRK12338          8 LIGSASGIGKSTIASELARTL---N--IKH-LIETDFIR   40 (319)
T ss_pred             EEECCCCCCHHHHHHHHHHHC---C--CeE-EccChHHH
Confidence            467889999999999999876   4  443 44555543

>PF08303 tRNA_lig_kinase: tRNA ligase kinase domain; InterPro: IPR015966 This entry represents a kinase domain found in fungal tRNA ligases []

Probab=90.01  E-value=0.2  Score=38.48  Aligned_cols=17  Identities=29%  Similarity=0.450  Sum_probs=14.4

Q ss_pred             CCCcHHHHHHHHHHHHH
Q psy14655          7 GGVGKSTTTVNLATAMK   23 (261)
Q Consensus         7 GGvGKTT~a~~lA~~la   23 (261)
                      =|+||||++..|+..+-
T Consensus         8 iGCGKTTva~aL~~LFg   24 (168)
T PF08303_consen    8 IGCGKTTVALALSNLFG   24 (168)
T ss_pred             CCcCHHHHHHHHHHHcC
Confidence            39999999998887774

Please see the following relevant references: [, ].; GO: 0003972 RNA ligase (ATP) activity, 0005524 ATP binding, 0006388 tRNA splicing, via endonucleolytic cleavage and ligation

>KOG0462|consensus

Probab=89.99  E-value=1.1  Score=41.04  Aligned_cols=63  Identities=13%  Similarity=0.124  Sum_probs=49.0

Q ss_pred             CCEEEEeCCCCC--ChhHHHHhhhcCCCeEEEEeCCCcchHHHHHHHHHHHHhCCCCeEEEEEcCCCC
Q psy14655        107 CDILFIDTPPGT--GDTHLSLIQNLFIDTAIIITIPDTMSLQVAQRGYTMFKKLNIPVAGLVMNMNSV  172 (261)
Q Consensus       107 yd~IiiD~~~~~--~~~~~~~~~~~~ad~viiv~~~~~~s~~~~~~~~~~l~~~~~~~~giv~N~~~~  172 (261)
                      |-+=+||||+..  +..+...+.+  ||.+++++.....-..++....-..-+.++.++ .|+|+.+.
T Consensus       125 ylLNLIDTPGHvDFs~EVsRslaa--c~G~lLvVDA~qGvqAQT~anf~lAfe~~L~iI-pVlNKIDl  189 (650)
T KOG0462|consen  125 YLLNLIDTPGHVDFSGEVSRSLAA--CDGALLVVDASQGVQAQTVANFYLAFEAGLAII-PVLNKIDL  189 (650)
T ss_pred             eEEEeecCCCcccccceehehhhh--cCceEEEEEcCcCchHHHHHHHHHHHHcCCeEE-EeeeccCC
Confidence            778899999875  3444555555  999999999999888888777776666777744 88999765

>PRK14491 putative bifunctional molybdopterin-guanine dinucleotide biosynthesis protein MobB/MoeA; Provisional

Probab=89.89  E-value=0.49  Score=44.36  Aligned_cols=33  Identities=15%  Similarity=0.200  Sum_probs=29.6

Q ss_pred             CCCCCcHHHHHHHHHHHHHhcCCCCeEEEEecCCC
Q psy14655          5 SKGGVGKSTTTVNLATAMKICYPDKEIGILDADVF   39 (261)
Q Consensus         5 ~KGGvGKTT~a~~lA~~la~~g~~~~VllvD~D~~   39 (261)
                      +.-|+||||+...|...|.++|  +||.+|-.|..
T Consensus        17 G~s~sGKTTlie~li~~L~~~G--~rVavIKh~~h   49 (597)
T PRK14491         17 AYSGTGKTTLLEQLIPELNQRG--LRLAVIKHAHH   49 (597)
T ss_pred             cCCCCCHHHHHHHHHHHHHhCC--ceEEEEEcCCc
Confidence            3469999999999999999999  99999998654

>COG1100 GTPase SAR1 and related small G proteins [General function prediction only]

Probab=89.79  E-value=0.9  Score=36.32  Aligned_cols=65  Identities=12%  Similarity=0.025  Sum_probs=37.3

Q ss_pred             CCCEEEEeCCCCCChh--HHHHhhhcCCCeEEEEeCCCc-chH-HHHHHHHHHHHhCC--CCeEEEEEcCCCC
Q psy14655        106 PCDILFIDTPPGTGDT--HLSLIQNLFIDTAIIITIPDT-MSL-QVAQRGYTMFKKLN--IPVAGLVMNMNSV  172 (261)
Q Consensus       106 ~yd~IiiD~~~~~~~~--~~~~~~~~~ad~viiv~~~~~-~s~-~~~~~~~~~l~~~~--~~~~giv~N~~~~  172 (261)
                      .+++.++|+++.....  .......  ++.++++..... .+. .......+.+....  .-.+-++.|+.+.
T Consensus        53 ~~~~~~~Dt~gq~~~~~~~~~y~~~--~~~~l~~~d~~~~~~~~~~~~~~~~~l~~~~~~~~~iilv~nK~Dl  123 (219)
T COG1100          53 NIKLQLWDTAGQEEYRSLRPEYYRG--ANGILIVYDSTLRESSDELTEEWLEELRELAPDDVPILLVGNKIDL  123 (219)
T ss_pred             EEEEEeecCCCHHHHHHHHHHHhcC--CCEEEEEEecccchhhhHHHHHHHHHHHHhCCCCceEEEEeccccc
Confidence            4678888997543321  2222233  788888887553 444 44444555665543  2346688898664

>PRK13976 thymidylate kinase; Provisional

Probab=89.78  E-value=0.4  Score=38.58  Aligned_cols=30  Identities=20%  Similarity=0.205  Sum_probs=22.9

Q ss_pred             cCCCCCcHHHHHHHHHHHHHhc-CCCCeEEEE
Q psy14655          4 SSKGGVGKSTTTVNLATAMKIC-YPDKEIGIL   34 (261)
Q Consensus         4 s~KGGvGKTT~a~~lA~~la~~-g~~~~Vllv   34 (261)
                      -+=-|+||||.+..|+..|... | ..+|.+.
T Consensus         6 EGiDGsGKsTq~~~L~~~L~~~~g-~~~v~~~   36 (209)
T PRK13976          6 EGIDGSGKTTQSRLLAEYLSDIYG-ENNVVLT   36 (209)
T ss_pred             ECCCCCCHHHHHHHHHHHHHHhcC-CcceEEe
Confidence            3456999999999999999986 4 1356543

>TIGR03783 Bac_Flav_CT_G Bacteroides conjugation system ATPase, TraG family

Probab=89.75  E-value=0.4  Score=46.68  Aligned_cols=36  Identities=22%  Similarity=0.098  Sum_probs=31.9

Q ss_pred             cccCCCCCcHHHHHHHHHHHHHhcCCCCeEEEEecCCC
Q psy14655          2 IASSKGGVGKSTTTVNLATAMKICYPDKEIGILDADVF   39 (261)
Q Consensus         2 v~s~KGGvGKTT~a~~lA~~la~~g~~~~VllvD~D~~   39 (261)
                      ++-++.|+||||+...++..+.+.|  .+|+++|.+..
T Consensus       442 ~I~G~sGsGKS~l~~~l~~~~~~~g--~~vviiD~g~s  477 (829)
T TIGR03783       442 FILGPSGSGKSFFTNHLVRQYYEQG--THILLVDTGNS  477 (829)
T ss_pred             EEECCCCCCHHHHHHHHHHHHHhcC--CEEEEECCCcc
Confidence            5668899999999999999999999  99999998743

Members of this family include the predicted ATPase, TraG, encoded by transfer region genes of conjugative transposons of Bacteroides, such as CTnDOT, found on the main chromosome. Members also include TraG homologs borne on plasmids in Bacteroides. The protein family is related to the conjugative transfer system ATPase VirB4.

>PRK04220 2-phosphoglycerate kinase; Provisional

Probab=89.73  E-value=0.32  Score=41.27  Aligned_cols=33  Identities=24%  Similarity=0.386  Sum_probs=25.1

Q ss_pred             cccCCCCCcHHHHHHHHHHHHHhcCCCCeEEEEecCCCC
Q psy14655          2 IASSKGGVGKSTTTVNLATAMKICYPDKEIGILDADVFG   40 (261)
Q Consensus         2 v~s~KGGvGKTT~a~~lA~~la~~g~~~~VllvD~D~~~   40 (261)
                      ++++-.|+||||+|..||..|   |  .++ +|-.|.-.
T Consensus        96 lI~G~sgsGKStlA~~La~~l---~--~~~-vi~~D~~r  128 (301)
T PRK04220         96 LIGGASGVGTSTIAFELASRL---G--IRS-VIGTDSIR  128 (301)
T ss_pred             EEECCCCCCHHHHHHHHHHHh---C--CCE-EEechHHH
Confidence            467888999999999999888   4  443 45566654

>PLN02348 phosphoribulokinase

Probab=89.70  E-value=0.45  Score=41.93  Aligned_cols=37  Identities=19%  Similarity=0.236  Sum_probs=27.4

Q ss_pred             ccCCCCCcHHHHHHHHHHHHHhcCC-------------CCeEEEEecCCC
Q psy14655          3 ASSKGGVGKSTTTVNLATAMKICYP-------------DKEIGILDADVF   39 (261)
Q Consensus         3 ~s~KGGvGKTT~a~~lA~~la~~g~-------------~~~VllvD~D~~   39 (261)
                      +++-.|+||||+|..|+..|...+.             +..+.+|-+|-.
T Consensus        54 IaG~SGSGKSTfA~~L~~~Lg~~~~~~~~~~~~~~~l~~~~~~VI~lDDY  103 (395)
T PLN02348         54 LAADSGCGKSTFMRRLTSVFGGAAKPPKGGNPDSNTLISDTTTVICLDDY  103 (395)
T ss_pred             EECCCCCCHHHHHHHHHHHHhhccCCCccccccccccccCceEEEEcccc
Confidence            4577899999999999999975420             135777777744

>cd02026 PRK Phosphoribulokinase (PRK) is an enzyme involved in the Benson-Calvin cycle in chloroplasts or photosynthetic prokaryotes

Probab=89.69  E-value=0.29  Score=41.17  Aligned_cols=31  Identities=26%  Similarity=0.251  Sum_probs=23.5

Q ss_pred             ccCCCCCcHHHHHHHHHHHHHhcCCCCeEEEEe
Q psy14655          3 ASSKGGVGKSTTTVNLATAMKICYPDKEIGILD   35 (261)
Q Consensus         3 ~s~KGGvGKTT~a~~lA~~la~~g~~~~VllvD   35 (261)
                      +.+-.|+||||++..|+..+...+  ..|+..|
T Consensus         4 I~G~sGsGKSTl~~~L~~ll~~~~--~~vi~~D   34 (273)
T cd02026           4 VAGDSGCGKSTFLRRLTSLFGSDL--VTVICLD   34 (273)
T ss_pred             EECCCCCCHHHHHHHHHHhhCCCc--eEEEECc
Confidence            457789999999999998886555  4555544

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.

>CHL00181 cbbX CbbX; Provisional

Probab=89.56  E-value=0.36  Score=40.91  Aligned_cols=36  Identities=17%  Similarity=0.167  Sum_probs=26.3

Q ss_pred             cccCCCCCcHHHHHHHHHHHHHhcCC--CCeEEEEecC
Q psy14655          2 IASSKGGVGKSTTTVNLATAMKICYP--DKEIGILDAD   37 (261)
Q Consensus         2 v~s~KGGvGKTT~a~~lA~~la~~g~--~~~VllvD~D   37 (261)
                      +..+.-|+||||+|..+|..+...|.  ..+++.++.+
T Consensus        63 ll~G~pGtGKT~lAr~la~~~~~~g~~~~~~~~~v~~~  100 (287)
T CHL00181         63 SFTGSPGTGKTTVALKMADILYKLGYIKKGHLLTVTRD  100 (287)
T ss_pred             EEECCCCCCHHHHHHHHHHHHHHcCCCCCCceEEecHH
Confidence            45677899999999999999987661  1236666643

>PTZ00386 formyl tetrahydrofolate synthetase; Provisional

Probab=89.52  E-value=0.48  Score=43.56  Aligned_cols=46  Identities=24%  Similarity=0.172  Sum_probs=34.8

Q ss_pred             cccCCCCCcHHHHHHHHHHHHH-hcCCCCeEEEEecCCCCCCcccccCCCCC
Q psy14655          2 IASSKGGVGKSTTTVNLATAMK-ICYPDKEIGILDADVFGPSIPILMNLPDT   52 (261)
Q Consensus         2 v~s~KGGvGKTT~a~~lA~~la-~~g~~~~VllvD~D~~~~~~~~~~~~~~~   52 (261)
                      +.-..-|.||||++..|+..|. +.|  +++.+.=   ..||+.-.||+.+-
T Consensus        76 itPTP~GEGKtTttIGL~~aL~~~lg--k~~~~~l---RePSlGP~FGiKGG  122 (625)
T PTZ00386         76 MNPTPLGEGKSTTTIGLAQSLGAHLH--RKTFACI---RQPSQGPTFGIKGG  122 (625)
T ss_pred             cCCCCCCCCccchhhhhHHHHHHHhC--cceEEEE---ecCCcCCcCCcccc
Confidence            3445679999999999999999 789  8877653   44555556887653

>cd01889 SelB_euk SelB subfamily

Probab=89.49  E-value=1.8  Score=33.96  Aligned_cols=66  Identities=14%  Similarity=0.099  Sum_probs=38.0

Q ss_pred             CCCCEEEEeCCCCCChhHHHHhhh-cCCCeEEEEeCCCcchHHHHHHHHHHHHhCCCCeEEEEEcCCCC
Q psy14655        105 GPCDILFIDTPPGTGDTHLSLIQN-LFIDTAIIITIPDTMSLQVAQRGYTMFKKLNIPVAGLVMNMNSV  172 (261)
Q Consensus       105 ~~yd~IiiD~~~~~~~~~~~~~~~-~~ad~viiv~~~~~~s~~~~~~~~~~l~~~~~~~~giv~N~~~~  172 (261)
                      .++.+.|+|||+. .......... ..+|.+++|+......-......+......+.+ +-+++|+.+.
T Consensus        66 ~~~~~~i~DtpG~-~~~~~~~~~~~~~~d~vi~VvD~~~~~~~~~~~~~~~~~~~~~~-~iiv~NK~Dl  132 (192)
T cd01889          66 ENLQITLVDCPGH-ASLIRTIIGGAQIIDLMLLVVDATKGIQTQTAECLVIGEILCKK-LIVVLNKIDL  132 (192)
T ss_pred             cCceEEEEECCCc-HHHHHHHHHHHhhCCEEEEEEECCCCccHHHHHHHHHHHHcCCC-EEEEEECccc
Confidence            5789999999964 2222222221 117899999986653222222333334444665 4489999663

SelB is an elongation factor needed for the co-translational incorporation of selenocysteine. Selenocysteine is coded by a UGA stop codon in combination with a specific downstream mRNA hairpin. In bacteria, the C-terminal part of SelB recognizes this hairpin, while the N-terminal part binds GTP and tRNA in analogy with elongation factor Tu (EF-Tu). It specifically recognizes the selenocysteine charged tRNAsec, which has a UCA anticodon, in an EF-Tu like manner. This allows insertion of selenocysteine at in-frame UGA stop codons. In E. coli SelB binds GTP, selenocysteyl-tRNAsec and a stem-loop structure immediately downstream of the UGA codon (the SECIS sequence). The absence of active SelB prevents the participation of selenocysteyl-tRNAsec in translation. Archaeal and animal mechanisms of selenocysteine incorporation are more complex. Although the SECIS elements have different secondary structures and conserved elements between archaea and euk

>PF00350 Dynamin_N: Dynamin family; InterPro: IPR001401 Membrane transport between compartments in eukaryotic cells requires proteins that allow the budding and scission of nascent cargo vesicles from one compartment and their targeting and fusion with another

Probab=89.36  E-value=0.74  Score=35.15  Aligned_cols=61  Identities=13%  Similarity=0.099  Sum_probs=36.8

Q ss_pred             CCCEEEEeCCCCCC------hhHHHHhhhcCCCeEEEEeCCCcchH-HHHHHHHHHHHhCCCCeEEEEEcC
Q psy14655        106 PCDILFIDTPPGTG------DTHLSLIQNLFIDTAIIITIPDTMSL-QVAQRGYTMFKKLNIPVAGLVMNM  169 (261)
Q Consensus       106 ~yd~IiiD~~~~~~------~~~~~~~~~~~ad~viiv~~~~~~s~-~~~~~~~~~l~~~~~~~~giv~N~  169 (261)
                      ..+++|+|+|+..+      ......+..  +|.+++|+.++.... .....+.+...... ....+|+|+
T Consensus       100 ~~~~~lvDtPG~~~~~~~~~~~~~~~~~~--~d~vi~V~~~~~~~~~~~~~~l~~~~~~~~-~~~i~V~nk  167 (168)
T PF00350_consen  100 LRNLTLVDTPGLNSTNSEHTEITEEYLPK--ADVVIFVVDANQDLTESDMEFLKQMLDPDK-SRTIFVLNK  167 (168)
T ss_dssp             SCSEEEEEEEEBHSSHTTTSHHHHHHHST--TEEEEEEEETTSTGGGHHHHHHHHHHTTTC-SSEEEEEE-
T ss_pred             ccceEEEeCCccccchhhhHHHHHHhhcc--CCEEEEEeccCcccchHHHHHHHHHhcCCC-CeEEEEEcC
Confidence            46799999985422      223344444  999999998777444 44444444444433 346677775

Dynamins are large GTPases that belong to a protein superfamily [] that, in eukaryotic cells, includes classical dynamins, dynamin-like proteins, OPA1, Mx proteins, mitofusins and guanylate-binding proteins/atlastins [, , , ], and are involved in the scission of a wide range of vesicles and organelles. They play a role in many processes including budding of transport vesicles, division of organelles, cytokinesis and pathogen resistance. The minimal distinguishing architectural features that are common to all dynamins and are distinct from other GTPases are the structure of the large GTPase domain (300 amino acids) and the presence of two additional domains; the middle domain and the GTPase effector domain (GED), which are involved in oligomerization and regulation of the GTPase activity. This entry represents the GTPase domain, containing the GTP-binding motifs that are needed for guanine-nucleotide binding and hydrolysis. The conservation of these motifs is absolute except for the the final motif in guanylate-binding proteins. The GTPase catalytic activity can be stimulated by oligomerisation of the protein, which is mediated by interactions between the GTPase domain, the middle domain and the GED.; GO: 0003924 GTPase activity, 0005525 GTP binding; PDB: 1JWY_B 1JX2_B 3ZVR_A 2AKA_B 3L43_B 2X2F_D 2X2E_D 3SNH_A 3ZYS_D 3ZYC_D ....

>PRK14086 dnaA chromosomal replication initiation protein; Provisional

Probab=89.36  E-value=0.44  Score=44.49  Aligned_cols=37  Identities=14%  Similarity=0.319  Sum_probs=30.7

Q ss_pred             cccCCCCCcHHHHHHHHHHHHHhcCCCCeEEEEecCC
Q psy14655          2 IASSKGGVGKSTTTVNLATAMKICYPDKEIGILDADV   38 (261)
Q Consensus         2 v~s~KGGvGKTT~a~~lA~~la~~g~~~~VllvD~D~   38 (261)
                      |+.+.-|+|||.++..+|..+.+..++++|+++.++-
T Consensus       318 ~LyG~sGsGKTHLL~AIa~~a~~~~~g~~V~Yitaee  354 (617)
T PRK14086        318 FIYGESGLGKTHLLHAIGHYARRLYPGTRVRYVSSEE  354 (617)
T ss_pred             EEECCCCCCHHHHHHHHHHHHHHhCCCCeEEEeeHHH
Confidence            5678889999999999999998642239999999864

>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=89.34  E-value=0.14  Score=37.76  Aligned_cols=22  Identities=32%  Similarity=0.534  Sum_probs=14.7

Q ss_pred             CCCCCcHHHHHHHHHHHHHhcC
Q psy14655          5 SKGGVGKSTTTVNLATAMKICY   26 (261)
Q Consensus         5 ~KGGvGKTT~a~~lA~~la~~g   26 (261)
                      +--|+||||++..||..+...-
T Consensus         6 g~PG~GKT~la~~lA~~~~~~f   27 (131)
T PF07726_consen    6 GVPGVGKTTLAKALARSLGLSF   27 (131)
T ss_dssp             S---HHHHHHHHHHHHHTT--E
T ss_pred             CCCccHHHHHHHHHHHHcCCce
Confidence            3459999999999998876544

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.

>PRK13948 shikimate kinase; Provisional

Probab=89.32  E-value=0.36  Score=37.93  Aligned_cols=30  Identities=27%  Similarity=0.309  Sum_probs=22.5

Q ss_pred             cccCCCCCcHHHHHHHHHHHHHhcCCCCeEEEEecCC
Q psy14655          2 IASSKGGVGKSTTTVNLATAMKICYPDKEIGILDADV   38 (261)
Q Consensus         2 v~s~KGGvGKTT~a~~lA~~la~~g~~~~VllvD~D~   38 (261)
                      +..+--|+||||++..||..|   |  .+  +||+|.
T Consensus        14 ~LiG~~GsGKSTvg~~La~~l---g--~~--~iD~D~   43 (182)
T PRK13948         14 ALAGFMGTGKSRIGWELSRAL---M--LH--FIDTDR   43 (182)
T ss_pred             EEECCCCCCHHHHHHHHHHHc---C--CC--EEECCH
Confidence            345667999999999998776   4  44  459994

>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=89.32  E-value=0.5  Score=36.73  Aligned_cols=37  Identities=19%  Similarity=0.223  Sum_probs=30.6

Q ss_pred             ccCCCCCcHHHHHHHHHHHHH-hcCCCCeEEEEecCCCCC
Q psy14655          3 ASSKGGVGKSTTTVNLATAMK-ICYPDKEIGILDADVFGP   41 (261)
Q Consensus         3 ~s~KGGvGKTT~a~~lA~~la-~~g~~~~VllvD~D~~~~   41 (261)
                      ..+--|+|||.+|..||..|- ...  .+.+.+|+-....
T Consensus         8 l~GpsGvGKT~la~~la~~l~~~~~--~~~~~~d~s~~~~   45 (171)
T PF07724_consen    8 LAGPSGVGKTELAKALAELLFVGSE--RPLIRIDMSEYSE   45 (171)
T ss_dssp             EESSTTSSHHHHHHHHHHHHT-SSC--CEEEEEEGGGHCS
T ss_pred             EECCCCCCHHHHHHHHHHHhccCCc--cchHHHhhhcccc
Confidence            345679999999999999998 565  8999999887653

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 ....

>smart00053 DYNc Dynamin, GTPase

Probab=89.29  E-value=8.6  Score=31.66  Aligned_cols=65  Identities=12%  Similarity=-0.038  Sum_probs=37.2

Q ss_pred             CCCEEEEeCCCCCCh---------------hHHHHhhhcCCCeEEEEeCCCc-chHHHHHHHHHHHHhCCCCeEEEEEcC
Q psy14655        106 PCDILFIDTPPGTGD---------------THLSLIQNLFIDTAIIITIPDT-MSLQVAQRGYTMFKKLNIPVAGLVMNM  169 (261)
Q Consensus       106 ~yd~IiiD~~~~~~~---------------~~~~~~~~~~ad~viiv~~~~~-~s~~~~~~~~~~l~~~~~~~~giv~N~  169 (261)
                      ..|+.|+|+|+-...               .....+.. ..+.++.|+.... ..-.+...+.+.+...+.+ .-+|+|+
T Consensus       124 ~~~ltLIDlPGl~~~~~~~~~~~~~~~i~~lv~~yi~~-~~~IIL~Vvda~~d~~~~d~l~ia~~ld~~~~r-ti~ViTK  201 (240)
T smart00053      124 VLNLTLIDLPGITKVAVGDQPPDIEEQIKDMIKQFISK-EECLILAVTPANVDLANSDALKLAKEVDPQGER-TIGVITK  201 (240)
T ss_pred             CCceEEEeCCCccccccCCccHHHHHHHHHHHHHHHhC-ccCeEEEEEECCCCCCchhHHHHHHHHHHcCCc-EEEEEEC
Confidence            379999999975421               11122221 1345555554332 2334455777788777766 4477898


Q ss_pred             CCC
Q psy14655        170 NSV  172 (261)
Q Consensus       170 ~~~  172 (261)
                      .+.
T Consensus       202 ~D~  204 (240)
T smart00053      202 LDL  204 (240)
T ss_pred             CCC
Confidence            664

Large GTPases that mediate vesicle trafficking. Dynamin participates in the endocytic uptake of receptors, associated ligands, and plasma membrane following an exocytic event.

>PF01202 SKI: Shikimate kinase; InterPro: IPR000623 Shikimate kinase (2

Probab=89.24  E-value=0.3  Score=37.35  Aligned_cols=25  Identities=36%  Similarity=0.310  Sum_probs=20.6

Q ss_pred             CCcHHHHHHHHHHHHHhcCCCCeEEEEecCCC
Q psy14655          8 GVGKSTTTVNLATAMKICYPDKEIGILDADVF   39 (261)
Q Consensus         8 GvGKTT~a~~lA~~la~~g~~~~VllvD~D~~   39 (261)
                      |+||||++..||..|..       -++|+|..
T Consensus         2 GsGKStvg~~lA~~L~~-------~fiD~D~~   26 (158)
T PF01202_consen    2 GSGKSTVGKLLAKRLGR-------PFIDLDDE   26 (158)
T ss_dssp             TSSHHHHHHHHHHHHTS-------EEEEHHHH
T ss_pred             CCcHHHHHHHHHHHhCC-------CccccCHH
Confidence            89999999999988854       46888864

7.1.71 from EC) catalyses the fifth step in the biosynthesis of aromatic amino acids from chorismate (the so-called shikimate pathway) []. The enzyme catalyses the following reaction: ATP + shikimate = ADP + shikimate-3-phosphate The protein is found in bacteria (gene aroK or aroL), plants and fungi (where it is part of a multifunctional enzyme that catalyses five consecutive steps in this pathway). In 1994, the 3D structure of shikimate kinase was predicted to be very close to that of adenylate kinase, suggesting a functional similarity as well as an evolutionary relationship []. This prediction has since been confirmed experimentally. The protein is reported to possess an alpha/beta fold, consisting of a central sheet of five parallel beta-strands flanked by alpha-helices. Such a topology is very similar to that of adenylate kinase [].; GO: 0004765 shikimate kinase activity, 0005524 ATP binding; PDB: 3VAA_C 1KO8_B 1KO4_B 1KO1_A 1KOF_A 1KNQ_A 1KO5_A 1KAG_A 2PT5_D 1SHK_A ....

>COG3854 SpoIIIAA ncharacterized protein conserved in bacteria [Function unknown]

Probab=89.24  E-value=0.53  Score=38.39  Aligned_cols=33  Identities=27%  Similarity=0.408  Sum_probs=26.8

Q ss_pred             CCCCCcHHHHHHHHHHHHHhc---CCCCeEEEEecC
Q psy14655          5 SKGGVGKSTTTVNLATAMKIC---YPDKEIGILDAD   37 (261)
Q Consensus         5 ~KGGvGKTT~a~~lA~~la~~---g~~~~VllvD~D   37 (261)
                      +.-|+||||+-..+|+.++.-   -.++||.+||--
T Consensus       144 gpP~~GKTTlLRdiaR~~s~g~~~~l~kkv~IiDer  179 (308)
T COG3854         144 GPPQVGKTTLLRDIARLLSDGINQFLPKKVGIIDER  179 (308)
T ss_pred             cCCCCChHHHHHHHHHHhhccccccCCceEEEEecc
Confidence            456999999999999999953   124999999964

>PF10662 PduV-EutP: Ethanolamine utilisation - propanediol utilisation; InterPro: IPR012381 Members of this family function in ethanolamine [] and propanediol [] degradation pathways

Probab=89.23  E-value=6  Score=29.75  Aligned_cols=63  Identities=11%  Similarity=0.052  Sum_probs=34.8

Q ss_pred             CCCCEEEE--eCCCCCChhHHHHhhhcCCCeEEEEeCCCcc-hHHHHHHHHHHHHhCCCCeEEEEEc
Q psy14655        105 GPCDILFI--DTPPGTGDTHLSLIQNLFIDTAIIITIPDTM-SLQVAQRGYTMFKKLNIPVAGLVMN  168 (261)
Q Consensus       105 ~~yd~Iii--D~~~~~~~~~~~~~~~~~ad~viiv~~~~~~-s~~~~~~~~~~l~~~~~~~~giv~N  168 (261)
                      .+.|+|++  |+....+...-........-.+=+++..+.. +-.+..+..+.|+..|.+.+ +.++
T Consensus        62 ~dad~V~ll~dat~~~~~~pP~fa~~f~~pvIGVITK~Dl~~~~~~i~~a~~~L~~aG~~~i-f~vS  127 (143)
T PF10662_consen   62 QDADVVLLLQDATEPRSVFPPGFASMFNKPVIGVITKIDLPSDDANIERAKKWLKNAGVKEI-FEVS  127 (143)
T ss_pred             hhCCEEEEEecCCCCCccCCchhhcccCCCEEEEEECccCccchhhHHHHHHHHHHcCCCCe-EEEE
Confidence            56776665  5443222111112222214444444446665 67788888889999998877 4444

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

>cd00227 CPT Chloramphenicol (Cm) phosphotransferase (CPT)

Probab=89.12  E-value=0.32  Score=37.80  Aligned_cols=21  Identities=24%  Similarity=0.371  Sum_probs=18.5

Q ss_pred             cccCCCCCcHHHHHHHHHHHH
Q psy14655          2 IASSKGGVGKSTTTVNLATAM   22 (261)
Q Consensus         2 v~s~KGGvGKTT~a~~lA~~l   22 (261)
                      ++++-.|+||||+|..|+..+
T Consensus         6 ~l~G~~gsGKst~a~~l~~~~   26 (175)
T cd00227           6 ILNGGSSAGKSSIARALQSVL   26 (175)
T ss_pred             EEECCCCCCHHHHHHHHHHhh
Confidence            678889999999999998776

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

>PRK05506 bifunctional sulfate adenylyltransferase subunit 1/adenylylsulfate kinase protein; Provisional

Probab=89.09  E-value=0.83  Score=43.25  Aligned_cols=66  Identities=20%  Similarity=0.142  Sum_probs=44.6

Q ss_pred             CCCCEEEEeCCCCCC--hhHHHHhhhcCCCeEEEEeCCCcchHHHHHHHHHHHHhCCCCeEEEEEcCCCC
Q psy14655        105 GPCDILFIDTPPGTG--DTHLSLIQNLFIDTAIIITIPDTMSLQVAQRGYTMFKKLNIPVAGLVMNMNSV  172 (261)
Q Consensus       105 ~~yd~IiiD~~~~~~--~~~~~~~~~~~ad~viiv~~~~~~s~~~~~~~~~~l~~~~~~~~giv~N~~~~  172 (261)
                      .++.++|+|||+...  ......+..  +|.+++|+..+..........+..+...+.+.+-+++|+.+.
T Consensus       102 ~~~~~~liDtPG~~~f~~~~~~~~~~--aD~~llVvda~~g~~~~t~e~~~~~~~~~~~~iivvvNK~D~  169 (632)
T PRK05506        102 PKRKFIVADTPGHEQYTRNMVTGAST--ADLAIILVDARKGVLTQTRRHSFIASLLGIRHVVLAVNKMDL  169 (632)
T ss_pred             CCceEEEEECCChHHHHHHHHHHHHh--CCEEEEEEECCCCccccCHHHHHHHHHhCCCeEEEEEEeccc
Confidence            567899999996432  112233343  899999998766554555555666666676667789999764

>cd04103 Centaurin_gamma Centaurin gamma

Probab=89.05  E-value=2.2  Score=32.37  Aligned_cols=60  Identities=18%  Similarity=0.208  Sum_probs=40.5

Q ss_pred             CCCEEEEeCCCCCChhHHHHhhhcCCCeEEEEeC-CCcchHHHHHHHHHHHHhC----CCCeEEEEEcCCC
Q psy14655        106 PCDILFIDTPPGTGDTHLSLIQNLFIDTAIIITI-PDTMSLQVAQRGYTMFKKL----NIPVAGLVMNMNS  171 (261)
Q Consensus       106 ~yd~IiiD~~~~~~~~~~~~~~~~~ad~viiv~~-~~~~s~~~~~~~~~~l~~~----~~~~~giv~N~~~  171 (261)
                      .+.+-|.|+++....   .....  +|.+++|.+ .+..++..+...+..+...    +.+ +.+|.|+.+
T Consensus        46 ~~~l~i~D~~g~~~~---~~~~~--~~~~ilv~d~~~~~sf~~~~~~~~~i~~~~~~~~~p-iilvgnK~D  110 (158)
T cd04103          46 SHLLLIRDEGGAPDA---QFASW--VDAVIFVFSLENEASFQTVYNLYHQLSSYRNISEIP-LILVGTQDA  110 (158)
T ss_pred             EEEEEEEECCCCCch---hHHhc--CCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCC-EEEEeeHHH
Confidence            355777888765332   23344  888888887 7778888888777766543    234 558999844

The centaurins (alpha, beta, gamma, and delta) are large, multi-domain proteins that all contain an ArfGAP domain and ankyrin repeats, and in some cases, numerous additional domains. Centaurin gamma contains an additional GTPase domain near its N-terminus. The specific function of this GTPase domain has not been well characterized, but centaurin gamma 2 (CENTG2) may play a role in the development of autism. Centaurin gamma 1 is also called PIKE (phosphatidyl inositol (PI) 3-kinase enhancer) and centaurin gamma 2 is also known as AGAP (ArfGAP protein with a GTPase-like domain, ankyrin repeats and a Pleckstrin homology domain) or GGAP. Three isoforms of PIKE have been identified. PIKE-S (short) and PIKE-L (long) are brain-specific isoforms, with PIKE-S restricted to the nucleus and PIKE-L found in multiple cellular compartments. A third isoform, PIKE-A was identified in human glioblastoma brain cancers and has been found in various tissues.

>TIGR01420 pilT_fam pilus retraction protein PilT

Probab=89.04  E-value=4  Score=35.52  Aligned_cols=33  Identities=21%  Similarity=0.262  Sum_probs=24.9

Q ss_pred             cccCCCCCcHHHHHHHHHHHHHhcCCCCeEEEEe
Q psy14655          2 IASSKGGVGKSTTTVNLATAMKICYPDKEIGILD   35 (261)
Q Consensus         2 v~s~KGGvGKTT~a~~lA~~la~~g~~~~VllvD   35 (261)
                      ++++.-|+||||+...+...+.... +.+++.++
T Consensus       126 li~G~tGSGKTT~l~al~~~i~~~~-~~~i~tiE  158 (343)
T TIGR01420       126 LVTGPTGSGKSTTLASMIDYINKNA-AGHIITIE  158 (343)
T ss_pred             EEECCCCCCHHHHHHHHHHhhCcCC-CCEEEEEc
Confidence            5678889999999999988876542 15666653

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.

>PRK07413 hypothetical protein; Validated

Probab=88.98  E-value=1.3  Score=38.93  Aligned_cols=30  Identities=27%  Similarity=0.062  Sum_probs=25.2

Q ss_pred             CCCCcHHHHHHHHHHHHHhcCCCC------eEEEEecC
Q psy14655          6 KGGVGKSTTTVNLATAMKICYPDK------EIGILDAD   37 (261)
Q Consensus         6 KGGvGKTT~a~~lA~~la~~g~~~------~VllvD~D   37 (261)
                      --|=||||-|..+|...+-+|  +      ||+++=+=
T Consensus       208 G~GKGKTTAAlGlAlRA~G~G--~~~~~~~rV~ivQFl  243 (382)
T PRK07413        208 GEGKGKSTSALGKALQAIGRG--ISQDKSHRVLILQWL  243 (382)
T ss_pred             CCCCCchHHHHHHHHHHhcCC--CCcccCceEEEEEEC
Confidence            347799999999999999998  7      99997543

>COG0480 FusA Translation elongation factors (GTPases) [Translation, ribosomal structure and biogenesis]

Probab=88.90  E-value=1.7  Score=41.49  Aligned_cols=63  Identities=17%  Similarity=0.155  Sum_probs=53.3

Q ss_pred             CCCEEEEeCCCCCC--hhHHHHhhhcCCCeEEEEeCCCcchHHHHHHHHHHHHhCCCCeEEEEEcCCC
Q psy14655        106 PCDILFIDTPPGTG--DTHLSLIQNLFIDTAIIITIPDTMSLQVAQRGYTMFKKLNIPVAGLVMNMNS  171 (261)
Q Consensus       106 ~yd~IiiD~~~~~~--~~~~~~~~~~~ad~viiv~~~~~~s~~~~~~~~~~l~~~~~~~~giv~N~~~  171 (261)
                      +|.+-+||||+..+  ..+..++..  +|..++|+.+...-.-+++.+.+.+.+.+.+.+ +++|+++
T Consensus        75 ~~~iNlIDTPGHVDFt~EV~rslrv--lDgavvVvdaveGV~~QTEtv~rqa~~~~vp~i-~fiNKmD  139 (697)
T COG0480          75 DYRINLIDTPGHVDFTIEVERSLRV--LDGAVVVVDAVEGVEPQTETVWRQADKYGVPRI-LFVNKMD  139 (697)
T ss_pred             ceEEEEeCCCCccccHHHHHHHHHh--hcceEEEEECCCCeeecHHHHHHHHhhcCCCeE-EEEECcc
Confidence            48999999999875  335566666  999999999999999999999999999999966 7789865

>PF02367 UPF0079: Uncharacterised P-loop hydrolase UPF0079; InterPro: IPR003442 This group consists of bacterial proteins, which contain a P-loop

Probab=88.64  E-value=0.29  Score=35.79  Aligned_cols=21  Identities=38%  Similarity=0.387  Sum_probs=16.3

Q ss_pred             CCCCCcHHHHHHHHHHHHHhc
Q psy14655          5 SKGGVGKSTTTVNLATAMKIC   25 (261)
Q Consensus         5 ~KGGvGKTT~a~~lA~~la~~   25 (261)
                      +.=|+||||++..++..|...
T Consensus        22 GdLGaGKTtf~r~l~~~lg~~   42 (123)
T PF02367_consen   22 GDLGAGKTTFVRGLARALGID   42 (123)
T ss_dssp             ESTTSSHHHHHHHHHHHTT--
T ss_pred             CCCCCCHHHHHHHHHHHcCCC
Confidence            444999999999999988443

They are probably essential to bacteria as members are found in all genomes so far sequenced and no equivalent genes have been found in the archaea and eukaryotes, suggesting the protein may be involved in cell wall biosynthesis. The sequence of YjeE, from Haemophilus influenzae, has been determined to 1.7-A resolution. The protein has a nucleotide-binding fold with a four-stranded parallel beta-sheet flanked by antiparallel beta-strands on each side. The topology of the beta-sheet is unique among P-loop proteins and has features of different families of enzymes. ADP has been shown to bind to the P-loop in the presence of Mg2+ and ATPase activity has been confirmed by kinetic measurements [].; PDB: 1HTW_A 1FL9_A.

>PF13521 AAA_28: AAA domain; PDB: 1LW7_A

Probab=88.64  E-value=0.36  Score=36.98  Aligned_cols=25  Identities=20%  Similarity=0.151  Sum_probs=17.7

Q ss_pred             cccCCCCCcHHHHHHHHHHHHHhcCCCCeEE
Q psy14655          2 IASSKGGVGKSTTTVNLATAMKICYPDKEIG   32 (261)
Q Consensus         2 v~s~KGGvGKTT~a~~lA~~la~~g~~~~Vl   32 (261)
                      ++.+--|+||||++..|+..    |  ..++
T Consensus         3 ~i~G~~stGKTTL~~~L~~~----g--~~~v   27 (163)
T PF13521_consen    3 VITGGPSTGKTTLIEALAAR----G--YPVV   27 (163)
T ss_dssp             EEE--TTSHHHHHHHHHHHH----T---EEE
T ss_pred             EEECCCCCCHHHHHHHHHHc----C--CeEE
Confidence            45667799999999999966    7  6644

>PRK05306 infB translation initiation factor IF-2; Validated

Probab=88.59  E-value=1.7  Score=42.15  Aligned_cols=65  Identities=18%  Similarity=0.176  Sum_probs=45.7

Q ss_pred             CCCCEEEEeCCCCCChh--HHHHhhhcCCCeEEEEeCCCcchHHHHHHHHHHHHhCCCCeEEEEEcCCCC
Q psy14655        105 GPCDILFIDTPPGTGDT--HLSLIQNLFIDTAIIITIPDTMSLQVAQRGYTMFKKLNIPVAGLVMNMNSV  172 (261)
Q Consensus       105 ~~yd~IiiD~~~~~~~~--~~~~~~~~~ad~viiv~~~~~~s~~~~~~~~~~l~~~~~~~~giv~N~~~~  172 (261)
                      .++.+.|+|||+.....  .......  +|.+|+|+..+......+...+..+...+.+ +-+++|+++.
T Consensus       335 ~~~~ItfiDTPGhe~F~~m~~rga~~--aDiaILVVdAddGv~~qT~e~i~~a~~~~vP-iIVviNKiDl  401 (787)
T PRK05306        335 NGGKITFLDTPGHEAFTAMRARGAQV--TDIVVLVVAADDGVMPQTIEAINHAKAAGVP-IIVAINKIDK  401 (787)
T ss_pred             CCEEEEEEECCCCccchhHHHhhhhh--CCEEEEEEECCCCCCHhHHHHHHHHHhcCCc-EEEEEECccc
Confidence            35678999999754322  2222333  8999999987766566666777777778888 5589999774

>PRK10512 selenocysteinyl-tRNA-specific translation factor; Provisional

Probab=88.57  E-value=1.5  Score=41.27  Aligned_cols=65  Identities=15%  Similarity=0.214  Sum_probs=46.6

Q ss_pred             CCCEEEEeCCCCCC--hhHHHHhhhcCCCeEEEEeCCCcchHHHHHHHHHHHHhCCCCeEEEEEcCCCC
Q psy14655        106 PCDILFIDTPPGTG--DTHLSLIQNLFIDTAIIITIPDTMSLQVAQRGYTMFKKLNIPVAGLVMNMNSV  172 (261)
Q Consensus       106 ~yd~IiiD~~~~~~--~~~~~~~~~~~ad~viiv~~~~~~s~~~~~~~~~~l~~~~~~~~giv~N~~~~  172 (261)
                      +.-+-|+|||+.-.  ......+..  +|.+++|+..+..-.......+..+...+.+.+.+|+|+++.
T Consensus        50 g~~i~~IDtPGhe~fi~~m~~g~~~--~D~~lLVVda~eg~~~qT~ehl~il~~lgi~~iIVVlNKiDl  116 (614)
T PRK10512         50 GRVLGFIDVPGHEKFLSNMLAGVGG--IDHALLVVACDDGVMAQTREHLAILQLTGNPMLTVALTKADR  116 (614)
T ss_pred             CcEEEEEECCCHHHHHHHHHHHhhc--CCEEEEEEECCCCCcHHHHHHHHHHHHcCCCeEEEEEECCcc
Confidence            34578999996421  222233344  899999999887666777777888888888876799999764

>PRK13833 conjugal transfer protein TrbB; Provisional

Probab=88.50  E-value=0.58  Score=40.30  Aligned_cols=34  Identities=24%  Similarity=0.391  Sum_probs=26.5

Q ss_pred             cccCCCCCcHHHHHHHHHHHHHhcCCCCeEEEEe
Q psy14655          2 IASSKGGVGKSTTTVNLATAMKICYPDKEIGILD   35 (261)
Q Consensus         2 v~s~KGGvGKTT~a~~lA~~la~~g~~~~VllvD   35 (261)
                      ++++.-|+||||+...|...+.+.-++.+++.|+
T Consensus       148 lI~G~tGSGKTTll~aL~~~i~~~~~~~rivtiE  181 (323)
T PRK13833        148 VISGGTGSGKTTLANAVIAEIVASAPEDRLVILE  181 (323)
T ss_pred             EEECCCCCCHHHHHHHHHHHHhcCCCCceEEEec
Confidence            5788899999999999988876432237887776

>TIGR00376 DNA helicase, putative

Probab=88.45  E-value=0.47  Score=44.86  Aligned_cols=32  Identities=19%  Similarity=0.182  Sum_probs=28.3

Q ss_pred             cccCCCCCcHHHHHHHHHHHHHhcCCCCeEEEEe
Q psy14655          2 IASSKGGVGKSTTTVNLATAMKICYPDKEIGILD   35 (261)
Q Consensus         2 v~s~KGGvGKTT~a~~lA~~la~~g~~~~VllvD   35 (261)
                      ++.+.-|+||||+.+.+...+.+.|  .+||++-
T Consensus       177 lI~GpPGTGKT~t~~~ii~~~~~~g--~~VLv~a  208 (637)
T TIGR00376       177 LIHGPPGTGKTRTLVELIRQLVKRG--LRVLVTA  208 (637)
T ss_pred             EEEcCCCCCHHHHHHHHHHHHHHcC--CCEEEEc
Confidence            4567789999999999999999999  8999975

The gene product may represent a DNA helicase. Eukaryotic members of this family have been characterized as binding certain single-stranded G-rich DNA sequences (GGGGT and GGGCT). A number of related proteins are characterized as helicases.

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

Probab=88.44  E-value=0.35  Score=40.23  Aligned_cols=23  Identities=26%  Similarity=0.377  Sum_probs=19.7

Q ss_pred             cccCCCCCcHHHHHHHHHHHHHh
Q psy14655          2 IASSKGGVGKSTTTVNLATAMKI   24 (261)
Q Consensus         2 v~s~KGGvGKTT~a~~lA~~la~   24 (261)
                      ++.+..|+||||++..++..+..
T Consensus        47 ~l~G~~G~GKTtl~~~l~~~l~~   69 (269)
T TIGR03015        47 LITGEVGAGKTTLIRNLLKRLDQ   69 (269)
T ss_pred             EEEcCCCCCHHHHHHHHHHhcCC
Confidence            56788999999999999887763

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.

>TIGR02881 spore_V_K stage V sporulation protein K

Probab=88.40  E-value=0.38  Score=40.09  Aligned_cols=25  Identities=28%  Similarity=0.279  Sum_probs=21.2

Q ss_pred             cccCCCCCcHHHHHHHHHHHHHhcC
Q psy14655          2 IASSKGGVGKSTTTVNLATAMKICY   26 (261)
Q Consensus         2 v~s~KGGvGKTT~a~~lA~~la~~g   26 (261)
                      +..+.-|+||||+|..+|..+.+.+
T Consensus        46 ll~GppGtGKTtlA~~ia~~l~~~~   70 (261)
T TIGR02881        46 IFKGNPGTGKTTVARILGKLFKEMN   70 (261)
T ss_pred             EEEcCCCCCHHHHHHHHHHHHHhcC
Confidence            4567789999999999999987655

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.

>COG0532 InfB Translation initiation factor 2 (IF-2; GTPase) [Translation, ribosomal structure and biogenesis]

Probab=88.38  E-value=1.3  Score=40.21  Aligned_cols=65  Identities=22%  Similarity=0.242  Sum_probs=49.9

Q ss_pred             CCEEEEeCCCCCChhHHHHhhhcCCCeEEEEeCCCcchHHHHHHHHHHHHhCCCCeEEEEEcCCCC
Q psy14655        107 CDILFIDTPPGTGDTHLSLIQNLFIDTAIIITIPDTMSLQVAQRGYTMFKKLNIPVAGLVMNMNSV  172 (261)
Q Consensus       107 yd~IiiD~~~~~~~~~~~~~~~~~ad~viiv~~~~~~s~~~~~~~~~~l~~~~~~~~giv~N~~~~  172 (261)
                      --+.|+|||+.-.-..+.+--+..+|.+++|+..+..-+-++...++.++..+.|++ +.+|+.+.
T Consensus        55 ~~itFiDTPGHeAFt~mRaRGa~vtDIaILVVa~dDGv~pQTiEAI~hak~a~vP~i-VAiNKiDk  119 (509)
T COG0532          55 PGITFIDTPGHEAFTAMRARGASVTDIAILVVAADDGVMPQTIEAINHAKAAGVPIV-VAINKIDK  119 (509)
T ss_pred             ceEEEEcCCcHHHHHHHHhcCCccccEEEEEEEccCCcchhHHHHHHHHHHCCCCEE-EEEecccC
Confidence            478999999754332222222222899999999999999999999999999999955 88898664

>PRK09866 hypothetical protein; Provisional

Probab=88.32  E-value=2.5  Score=39.82  Aligned_cols=64  Identities=9%  Similarity=0.042  Sum_probs=41.6

Q ss_pred             CCCEEEEeCCCCCCh-------hHHHHhhhcCCCeEEEEeCCCc-chHHHHHHHHHHHHhCCC-CeEEEEEcCCCC
Q psy14655        106 PCDILFIDTPPGTGD-------THLSLIQNLFIDTAIIITIPDT-MSLQVAQRGYTMFKKLNI-PVAGLVMNMNSV  172 (261)
Q Consensus       106 ~yd~IiiD~~~~~~~-------~~~~~~~~~~ad~viiv~~~~~-~s~~~~~~~~~~l~~~~~-~~~giv~N~~~~  172 (261)
                      .+.+||+|||+--..       .....+..  ||.|+.|++... .+..+ ..+++.+.+.+. ..+.+|+|+++.
T Consensus       229 ~~QIIFVDTPGIhk~~~~~L~k~M~eqL~e--ADvVLFVVDat~~~s~~D-eeIlk~Lkk~~K~~PVILVVNKIDl  301 (741)
T PRK09866        229 PGQLTLLDTPGPNEAGQPHLQKMLNQQLAR--ASAVLAVLDYTQLKSISD-EEVREAILAVGQSVPLYVLVNKFDQ  301 (741)
T ss_pred             cCCEEEEECCCCCCccchHHHHHHHHHHhh--CCEEEEEEeCCCCCChhH-HHHHHHHHhcCCCCCEEEEEEcccC
Confidence            578999999964221       12334444  999999999765 33333 445677776663 236689999764

>PF09848 DUF2075: Uncharacterized conserved protein (DUF2075); InterPro: IPR018647 This domain, found in putative ATP/GTP binding proteins, has no known function

Probab=88.25  E-value=0.45  Score=41.54  Aligned_cols=35  Identities=23%  Similarity=0.284  Sum_probs=28.1

Q ss_pred             cccCCCCCcHHHHHHHHHHHH--HhcCCCCeEEEEecCC
Q psy14655          2 IASSKGGVGKSTTTVNLATAM--KICYPDKEIGILDADV   38 (261)
Q Consensus         2 v~s~KGGvGKTT~a~~lA~~l--a~~g~~~~VllvD~D~   38 (261)
                      |+.+.-|+|||.++.+++..+  ...+  .+++++-...
T Consensus         5 ~I~G~aGTGKTvla~~l~~~l~~~~~~--~~~~~l~~n~   41 (352)
T PF09848_consen    5 LITGGAGTGKTVLALNLAKELQNSEEG--KKVLYLCGNH   41 (352)
T ss_pred             EEEecCCcCHHHHHHHHHHHhhccccC--CceEEEEecc
Confidence            677888999999999999999  6666  6776665443

It is found in some proteins described as Schlafen family members, which may have a role in hematopoeitic cell differentiation [].

>PRK11058 GTPase HflX; Provisional

Probab=88.24  E-value=6.3  Score=35.45  Aligned_cols=63  Identities=14%  Similarity=0.093  Sum_probs=35.1

Q ss_pred             CEEEEeCCCCCCh---hHH-------HHhhhcCCCeEEEEeCCCcc-hHHHHH---HHHHHHHhCCCCeEEEEEcCCCCC
Q psy14655        108 DILFIDTPPGTGD---THL-------SLIQNLFIDTAIIITIPDTM-SLQVAQ---RGYTMFKKLNIPVAGLVMNMNSVL  173 (261)
Q Consensus       108 d~IiiD~~~~~~~---~~~-------~~~~~~~ad~viiv~~~~~~-s~~~~~---~~~~~l~~~~~~~~giv~N~~~~~  173 (261)
                      .++|+||++....   ...       .....  ||.+++|++.+.. +.....   .+++.+...+.+ +-+|.|+++..
T Consensus       246 ~~~l~DTaG~~r~lp~~lve~f~~tl~~~~~--ADlIL~VvDaS~~~~~e~l~~v~~iL~el~~~~~p-vIiV~NKiDL~  322 (426)
T PRK11058        246 ETVLADTVGFIRHLPHDLVAAFKATLQETRQ--ATLLLHVVDAADVRVQENIEAVNTVLEEIDAHEIP-TLLVMNKIDML  322 (426)
T ss_pred             eEEEEecCcccccCCHHHHHHHHHHHHHhhc--CCEEEEEEeCCCccHHHHHHHHHHHHHHhccCCCC-EEEEEEcccCC
Confidence            6778888865332   111       11223  8999999986543 333333   333333333455 45899998863

>PRK13894 conjugal transfer ATPase TrbB; Provisional

Probab=88.22  E-value=0.62  Score=40.08  Aligned_cols=36  Identities=22%  Similarity=0.326  Sum_probs=26.8

Q ss_pred             cccCCCCCcHHHHHHHHHHHHHhcCCCCeEEEEecC
Q psy14655          2 IASSKGGVGKSTTTVNLATAMKICYPDKEIGILDAD   37 (261)
Q Consensus         2 v~s~KGGvGKTT~a~~lA~~la~~g~~~~VllvD~D   37 (261)
                      ++++.-|+||||+...|+..+....+..+++.|+-.
T Consensus       152 lI~G~tGSGKTTll~aL~~~~~~~~~~~rivtIEd~  187 (319)
T PRK13894        152 LVIGGTGSGKTTLVNAIINEMVIQDPTERVFIIEDT  187 (319)
T ss_pred             EEECCCCCCHHHHHHHHHHhhhhcCCCceEEEEcCC
Confidence            567888999999999999877533333778777643

>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=88.10  E-value=0.46  Score=38.09  Aligned_cols=33  Identities=21%  Similarity=0.146  Sum_probs=24.3

Q ss_pred             cccCCCCCcHHHHHHHHHHHHHhcCCCCeEEEE
Q psy14655          2 IASSKGGVGKSTTTVNLATAMKICYPDKEIGIL   34 (261)
Q Consensus         2 v~s~KGGvGKTT~a~~lA~~la~~g~~~~Vllv   34 (261)
                      ++.++-|+|||++|...|..+-..|.-.|++++
T Consensus        23 ~~~G~AGTGKT~LA~a~Al~~v~~g~~~kiii~   55 (205)
T PF02562_consen   23 IVNGPAGTGKTFLALAAALELVKEGEYDKIIIT   55 (205)
T ss_dssp             EEE--TTSSTTHHHHHHHHHHHHTTS-SEEEEE
T ss_pred             EEECCCCCcHHHHHHHHHHHHHHhCCCcEEEEE
Confidence            567888999999999999988877633566665

; GO: 0005524 ATP binding; PDB: 3B85_A.

>PRK10646 ADP-binding protein; Provisional

Probab=88.08  E-value=0.34  Score=36.88  Aligned_cols=21  Identities=24%  Similarity=0.248  Sum_probs=17.1

Q ss_pred             cCCCCCcHHHHHHHHHHHHHh
Q psy14655          4 SSKGGVGKSTTTVNLATAMKI   24 (261)
Q Consensus         4 s~KGGvGKTT~a~~lA~~la~   24 (261)
                      .+-=|+||||++..++..|.-
T Consensus        34 ~GdLGaGKTtf~rgl~~~Lg~   54 (153)
T PRK10646         34 YGDLGAGKTTFSRGFLQALGH   54 (153)
T ss_pred             ECCCCCCHHHHHHHHHHHcCC
Confidence            344499999999999999843

>TIGR02788 VirB11 P-type DNA transfer ATPase VirB11

Probab=88.00  E-value=4.3  Score=34.70  Aligned_cols=31  Identities=26%  Similarity=0.275  Sum_probs=24.0

Q ss_pred             cccCCCCCcHHHHHHHHHHHHHhcCCCCeEEEEe
Q psy14655          2 IASSKGGVGKSTTTVNLATAMKICYPDKEIGILD   35 (261)
Q Consensus         2 v~s~KGGvGKTT~a~~lA~~la~~g~~~~VllvD   35 (261)
                      ++++..|+||||+...|...+...   .+++.|+
T Consensus       148 li~G~tGsGKTTll~al~~~~~~~---~~iv~ie  178 (308)
T TIGR02788       148 IISGGTGSGKTTFLKSLVDEIPKD---ERIITIE  178 (308)
T ss_pred             EEECCCCCCHHHHHHHHHccCCcc---ccEEEEc
Confidence            567888999999998888777543   5677775

The VirB11 protein is found in the vir locus of Agrobacterium Ti plasmids where it is involved in the type IV secretion system for DNA transfer. VirB11 is believed to be an ATPase. VirB11 is a homolog of the P-like conjugation system TrbB protein and the Flp pilus sytem protein TadA.

>PHA02530 pseT polynucleotide kinase; Provisional

Probab=87.96  E-value=0.39  Score=40.76  Aligned_cols=32  Identities=22%  Similarity=0.199  Sum_probs=24.3

Q ss_pred             cccCCCCCcHHHHHHHHHHHHHhcCCCCeEEEEecCCC
Q psy14655          2 IASSKGGVGKSTTTVNLATAMKICYPDKEIGILDADVF   39 (261)
Q Consensus         2 v~s~KGGvGKTT~a~~lA~~la~~g~~~~VllvD~D~~   39 (261)
                      ++.+.-|+||||+|..|+..+.      ....||.|.-
T Consensus         6 il~G~pGSGKSTla~~L~~~~~------~~~~l~~D~~   37 (300)
T PHA02530          6 LTVGVPGSGKSTWAREFAAKNP------KAVNVNRDDL   37 (300)
T ss_pred             EEEcCCCCCHHHHHHHHHHHCC------CCEEEeccHH
Confidence            5678899999999999887651      3467777653

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	261
2ph1_A	262	Crystal Structure Of Nucleotide-Binding Protein Af2		5e-25
3kb1_A	262	Crystal Structure Of The Nucleotide-Binding Protein		2e-22
3vx3_A	248	Crystal Structure Of [nife] Hydrogenase Maturation		6e-13

>pdb|2PH1|A Chain A, Crystal Structure Of Nucleotide-Binding Protein Af2382 From Archaeoglobus Fulgidus, Northeast Structural Genomics Target Gr165 Length = 262

Iteration: 1
 Score =  111 bits (277), Expect = 5e-25,   Method: Compositional matrix adjust.
 Identities = 65/198 (32%), Positives = 99/198 (50%), Gaps = 5/198 (2%)
Query: 2   IASSKGGVGKSTTTVNLATAMKICYPDKEIGILDADVFGPSIPILMNLPDTPLLNKDNLM 61
           + S KGGVGKST T  LA  +      K++GILDAD  GPSIPIL  L +  +      +
Sbjct: 23  VXSGKGGVGKSTVTALLA--VHYARQGKKVGILDADFLGPSIPILFGLRNARIAVSAEGL 80
Query: 62  IPLVN--YGVKCLSMGNLI-TEKSAAIWRGLMVMQALNKLTVQVQWGPCDILFIDTPPGT 118
            P++   YG+K  S   L+  E +  IWRG ++   + +   +V WG  D L ID PPGT
Sbjct: 81  EPVLTQKYGIKVXSXQFLLPKENTPVIWRGPLIAGXIREFLGRVAWGELDHLLIDLPPGT 140
Query: 119 GDTHLSLIQNLFXXXXXXXXXXXXMSLQVAQRGYTMFKKLNIPVAGLVMNMNSVLCPSCN 178
           GD  L++ Q+              ++  + ++     ++ N  V GLV N +  +CP+C 
Sbjct: 141 GDAPLTVXQDAKPTGVVVVSTPQELTAVIVEKAINXAEETNTSVLGLVENXSYFVCPNCG 200
Query: 179 HMFELYENNLHQFEAKNF 196
           H   ++     +  AK +
Sbjct: 201 HKSYIFGEGKGESLAKKY 218

>pdb|3KB1|A Chain A, Crystal Structure Of The Nucleotide-Binding Protein Af_226 In Complex With Adp From Archaeoglobus Fulgidus, Northeast Structural Genomics Consortium Target Gr157 Length = 262

Iteration: 1
 Score =  102 bits (254), Expect = 2e-22,   Method: Compositional matrix adjust.
 Identities = 61/186 (32%), Positives = 92/186 (49%), Gaps = 5/186 (2%)
Query: 2   IASSKGGVGKSTTTVNLATAMKICYPDKEIGILDADVFGPSIPILMNLPDTPLLNKDNLM 61
           + S KGGVGKST T  LA  +      K++GILDAD  GPSIP L  L    +   D  +
Sbjct: 23  VXSGKGGVGKSTVTALLA--VHYAKQGKKVGILDADFLGPSIPHLFGLEKGKVAVSDEGL 80
Query: 62  IPLV--NYGVKCLSMGNLITEK-SAAIWRGLMVMQALNKLTVQVQWGPCDILFIDTPPGT 118
            P++    G+K  S+  L+ ++ +  IWRG ++   + +   +V WG  D L ID PPGT
Sbjct: 81  EPVLTQRLGIKVXSIQFLLPKRETPVIWRGPLIAGXIREFLGRVAWGELDYLLIDLPPGT 140
Query: 119 GDTHLSLIQNLFXXXXXXXXXXXXMSLQVAQRGYTMFKKLNIPVAGLVMNMNSVLCPSCN 178
           GD  L++ Q+              ++  V ++  T  ++    V G+V N     CP+C 
Sbjct: 141 GDAPLTVXQDAKPNGAVIVSTPQELTAAVVEKAITXAEQTKTAVLGIVENXAYFECPNCG 200
Query: 179 HMFELY 184
               L+
Sbjct: 201 ERTYLF 206

>pdb|3VX3|A Chain A, Crystal Structure Of [nife] Hydrogenase Maturation Protein Hypb From Thermococcus Kodakarensis Kod1 Length = 248

Iteration: 1
 Score = 70.9 bits (172), Expect = 6e-13,   Method: Compositional matrix adjust.
 Identities = 48/169 (28%), Positives = 76/169 (44%), Gaps = 3/169 (1%)
Query: 2   IASSKGGVGKSTTTVNLATAMKICYPDKEIGILDADVFGPSIPILMNLPDTPLLNKDNLM 61
           + S KGGVGKS  +  LA  +        +G+LD D  G S  +++         +D  +
Sbjct: 24  VVSGKGGVGKSLVSTTLALVL--AEKGYRVGLLDLDFHGASDHVILGFEPKEFPEEDRGV 81
Query: 62  IPLVNYGVKCLSMGNLITEKSAAIWRGLMVMQALNKLTVQVQWGPCDILFIDTPPGTGDT 121
           +P   +G+K +++    TE      RG  +  AL +L    +W   D L ID PPG GD 
Sbjct: 82  VPPTVHGIKFMTIA-YYTEDRPTPLRGKEISDALIELLTITRWDELDYLVIDMPPGLGDQ 140
Query: 122 HLSLIQNLFXXXXXXXXXXXXMSLQVAQRGYTMFKKLNIPVAGLVMNMN 170
            L +++ L             +SL V ++   + K+    V G+V NM 
Sbjct: 141 LLDVLRFLKRGEFLVVATPSKLSLNVVRKLIELLKEEGHKVIGVVENMK 189

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	261
2ph1_A	262	Nucleotide-binding protein; alpha-beta protein, st	8e-75
3kjh_A	254	CO dehydrogenase/acetyl-COA synthase complex, acce	2e-16
1hyq_A	263	MIND, cell division inhibitor (MIND-1); MINC, FTSZ	1e-13
3fkq_A	373	NTRC-like two-domain protein; RER070207001320, str	7e-13
3cwq_A	209	Para family chromosome partitioning protein; alpha	1e-12
4dzz_A	206	Plasmid partitioning protein PARF; deviant walker	1e-10
3ea0_A	245	ATPase, para family; alpha-beta-alpha sandwich, st	1e-10
3q9l_A	260	Septum site-determining protein MIND; ATPase, bact	4e-10
1g3q_A	237	MIND ATPase, cell division inhibitor; alpha-beta-a	3e-08
1ihu_A	589	Arsenical pump-driving ATPase; aluminum fluoride,	5e-08
1ihu_A	589	Arsenical pump-driving ATPase; aluminum fluoride,	6e-07
3io3_A	348	DEHA2D07832P; chaperone, membrane traffic, ATPase;	8e-08
2woj_A	354	ATPase GET3; tail-anchored, membrane protein, targ	5e-07
2xj4_A	286	MIPZ; replication, cell division, ATPase, WACA; 1.	8e-07
3bfv_A	271	CAPA1, CAPB2, membrane protein CAPA1, protein tyro	1e-06
3ez9_A	403	Para; DNA binding, winged-HTH, partition, biosynth	1e-06
3ez2_A	398	Plasmid partition protein A; type IA, DNA binding,	3e-06
3k9g_A	267	PF-32 protein; ssgcid, SBRI, decode biostructures,	9e-06
3la6_A	286	Tyrosine-protein kinase WZC; P-loop protein, nucle	1e-05
3cio_A	299	ETK, tyrosine-protein kinase ETK; WZC, escherichia	1e-05
3zq6_A	324	Putative arsenical pump-driving ATPase; tail-ancho	2e-05
1wcv_1	257	SOJ, segregation protein; ATPase, bacterial, chrom	2e-05
2woo_A	329	ATPase GET3; tail-anchored, membrane protein, targ	3e-05
2oze_A	298	ORF delta'; para, walker type atpases, DNA segrega	5e-05
3ug7_A	349	Arsenical pump-driving ATPase; tail-anchored, memb	5e-05
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	7e-05
3pg5_A	361	Uncharacterized protein; structural genomics, PSI-	1e-04
3iqw_A	334	Tail-anchored protein targeting factor GET3; ATPas	5e-04
3igf_A	374	ALL4481 protein; two-domained protein consisting o	7e-04

>2ph1_A Nucleotide-binding protein; alpha-beta protein, structural genomics, PSI-2, protein STRU initiative; 2.70A {Archaeoglobus fulgidus dsm 4304} PDB: 3kb1_A* Length = 262

 Score =  227 bits (581), Expect = 8e-75
 Identities = 67/182 (36%), Positives = 102/182 (56%), Gaps = 5/182 (2%)

Query: 1   MIASSKGGVGKSTTTVNLATAMKICYPDKEIGILDADVFGPSIPILMNLPDTPLLNKDNL 60
            + S KGGVGKST T  LA         K++GILDAD  GPSIPIL  L +  +      
Sbjct: 22  AVMSGKGGVGKSTVTALLAVHYA--RQGKKVGILDADFLGPSIPILFGLRNARIAVSAEG 79

Query: 61  MIPLV--NYGVKCLSMGNLIT-EKSAAIWRGLMVMQALNKLTVQVQWGPCDILFIDTPPG 117
           + P++   YG+K +SM  L+  E +  IWRG ++   + +   +V WG  D L ID PPG
Sbjct: 80  LEPVLTQKYGIKVMSMQFLLPKENTPVIWRGPLIAGMIREFLGRVAWGELDHLLIDLPPG 139

Query: 118 TGDTHLSLIQNLFIDTAIIITIPDTMSLQVAQRGYTMFKKLNIPVAGLVMNMNSVLCPSC 177
           TGD  L+++Q+      ++++ P  ++  + ++   M ++ N  V GLV NM+  +CP+C
Sbjct: 140 TGDAPLTVMQDAKPTGVVVVSTPQELTAVIVEKAINMAEETNTSVLGLVENMSYFVCPNC 199

Query: 178 NH 179
            H
Sbjct: 200 GH 201

>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* Length = 254

 Score = 75.6 bits (186), Expect = 2e-16
 Identities = 36/195 (18%), Positives = 62/195 (31%), Gaps = 32/195 (16%)

Query: 2   IASS-KGGVGKSTTTVNLATAMKICYPDKEIGILDAD-------VFGPSIPILMNLPDTP 53
           +A + KGGVGK+T    L   M       +I  +D D         G SI     +    
Sbjct: 3   LAVAGKGGVGKTTVAAGLIKIM--ASDYDKIYAVDGDPDSCLGQTLGLSIEEAYAITPL- 59

Query: 54  LLNKDNLMIPLVNYGVKCL-SMGNLITEKSAAIWRG---LMVM---------------QA 94
           +  KD +     + G+  L    +   +K          L+ M                 
Sbjct: 60  IEMKDEIREKTGDGGLLILNPKVDGDLDKYGRYIDDKIFLIRMGEIKKGGSQCYCRENSF 119

Query: 95  LNKLTVQVQWGPCDILFIDTPPGTGDTHLSLIQNLFIDTAIIITIPDTMSLQVAQRGYTM 154
           L  +   +     + + +D   G    HL+      +D  I +  P+  S++       +
Sbjct: 120 LGSVVSALFLDKKEAVVMDMGAGIE--HLTRGTAKAVDMMIAVIEPNLNSIKTGLNIEKL 177

Query: 155 FKKLNIPVAGLVMNM 169
              L I     V+N 
Sbjct: 178 AGDLGIKKVRYVINK 192

>1hyq_A MIND, cell division inhibitor (MIND-1); MINC, FTSZ, bacterial cell division, cell cycle; 2.60A {Archaeoglobus fulgidus} SCOP: c.37.1.10 Length = 263

 Score = 68.0 bits (167), Expect = 1e-13
 Identities = 39/177 (22%), Positives = 73/177 (41%), Gaps = 21/177 (11%)

Query: 2   IASSKGGVGKSTTTVNLATAMKICYPDKEIGILDADVFGPSIPILMNLPDTP-----LLN 56
           +AS KGG GK+T T NL  A+       ++ I+DAD+   ++ +++ +   P     +L 
Sbjct: 7   VASGKGGTGKTTITANLGVALAQL--GHDVTIVDADITMANLELILGMEGLPVTLQNVLA 64

Query: 57  KD----NLMIPLVNYGVKCLSMGNLITEKSAAIWRGLMVMQALNKLTVQVQWGPCDILFI 112
            +      +      GVK +  G  +     A    L     L ++         DIL +
Sbjct: 65  GEARIDEAIYV-GPGGVKVVPAGVSLEGLRKANPEKL--EDVLTQIM-----ESTDILLL 116

Query: 113 DTPPGTGDTHLSLIQNLFIDTAIIITIPDTMSLQVAQRGYTMFKKLNIPVAGLVMNM 169
           D P G   + +  I        +++  P+  S+    +   + ++L   V G+V+N 
Sbjct: 117 DAPAGLERSAVIAI--AAAQELLLVVNPEISSITDGLKTKIVAERLGTKVLGVVVNR 171

>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} Length = 373

 Score = 66.5 bits (162), Expect = 7e-13
 Identities = 35/191 (18%), Positives = 57/191 (29%), Gaps = 32/191 (16%)

Query: 2   IASSKGGVGKSTTTVNLATAMKICYPDKEIGILDADVFGPSIPILMNLPDTPLL------ 55
             S  GGVG ST     A A       K++  L+ +  G +  +         +      
Sbjct: 148 FTSPCGGVGTSTVAAACAIAHANM--GKKVFYLNIEQCG-TTDVFFQAEGNATMSDVIYS 204

Query: 56  ---NKDNLMIPL------VNYGVKCLSMGNLITEK---SAAIWRGLMVMQALNKLTVQVQ 103
               K NL++ L         GV   S   +  +    S A    L     +  +     
Sbjct: 205 LKSRKANLLLKLESCIKQSQEGVSYFSSTKVALDILEISYADIDTL-----IGNIQ---G 256

Query: 104 WGPCDILFIDTPPGTGDTHLSLIQNLFIDTAIIITIPDTMSLQVAQRGYTMFKKL-NIPV 162
               D + +D P       L L+        I++     +S     R Y     L     
Sbjct: 257 MDNYDEIIVDLPFSLEIEKLKLLSKA--WRIIVVNDGSQLSNYKFMRAYESVVLLEQNDD 314

Query: 163 AGLVMNMNSVL 173
             ++ NMN + 
Sbjct: 315 INIIRNMNMIY 325

>3cwq_A Para family chromosome partitioning protein; alpha-beta protein, structural genomics, PSI-2, protein STRU initiative; HET: ADP; 2.47A {Synechocystis SP} Length = 209

 Score = 64.4 bits (157), Expect = 1e-12
 Identities = 44/240 (18%), Positives = 77/240 (32%), Gaps = 72/240 (30%)

Query: 2   IASSKGGVGKSTTTVNLATAMKICYPDKEIGILDADVFGPSIPILMNLPDTPLLNKDNLM 61
           +AS KGGVGK+TT V+L+  + +     E  ++D D   P                    
Sbjct: 5   VASFKGGVGKTTTAVHLSAYLAL---QGETLLIDGD---P-------------------- 38

Query: 62  IPLVNYGVKCLSMGNLITEKSAAIW--RGLMVMQALNKLTVQVQWGPCDILFIDTPPGTG 119
                              +SA  W  RG +  + +++            + IDT     
Sbjct: 39  ------------------NRSATGWGKRGSLPFKVVDERQAAKYAPKYQNIVIDTQARPE 80

Query: 120 DTHLSLIQNLFIDTAIIITIPDTMSLQVAQRGYTMFKKLNIPVAGLVMNMNSVLCPSCNH 179
           D  L  + +   D  +I + PD ++L          +KL      +++ +     P    
Sbjct: 81  DEDLEALADGC-DLLVIPSTPDALALDALMLTIETLQKLGNNRFRILLTI----IPP--- 132

Query: 180 MFELYENNLHQFEAKNFLKSYERKLYGIHMWNFLIPLCNLIIKIRNVAYGNSHGHGNTVH 239
                  +    EA+  L +              +PL    I  R  A+  +  +G  V 
Sbjct: 133 -----YPSKDGDEARQLLTTAG------------LPLFKRGI-KRYSAFQKASLNGVVVS 174

>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* Length = 206

 Score = 58.5 bits (142), Expect = 1e-10
 Identities = 34/251 (13%), Positives = 60/251 (23%), Gaps = 84/251 (33%)

Query: 1   MIASSKGGVGKSTTTVNLATAMKICYPDKEIGILDAD---------VFGPSIPILMNLPD 51
              + KGG GK+T  +N+ATA+        I ++D D           G +   +     
Sbjct: 5   SFLNPKGGSGKTTAVINIATALSRS--GYNIAVVDTDPQMSLTNWSKAGKAAFDVFTAAS 62

Query: 52  TPLLNKDNLMIPLVNYGVKCLSMGNLITEKSAAIWRGLMVMQALNKLTVQVQWGPCDILF 111
              +    +   L +Y                                        D   
Sbjct: 63  EKDV--YGIRKDLADY----------------------------------------DFAI 80

Query: 112 IDTPPGTGDTHLSLIQNLFIDTAIIITIPDTMSLQVAQRGYTMFKKLNIP---VAGLVMN 168
           +D          + +     D  II   P  +    A    T+ +         A  ++ 
Sbjct: 81  VDGAGSLSVITSAAVMV--SDLVIIPVTPSPLDFSAAGSVVTVLEAQAYSRKVEARFLIT 138

Query: 169 MNSVLCPSCNHMFELYENNLHQFEAKNFLKSYERKLYGIHMWNFLIPLCNLIIKIRNVAY 228
                      M             K  +K       G+  +   I         +   Y
Sbjct: 139 R----KIEMATMLN---------VLKESIKD-----TGVKAFRTAIT--------QRQVY 172

Query: 229 GNSHGHGNTVH 239
             S   G++V 
Sbjct: 173 VKSILDGDSVF 183

>3ea0_A ATPase, para family; alpha-beta-alpha sandwich, structural genomics, PSI-2, prote structure initiative; HET: ATP; 2.20A {Chlorobium tepidum} Length = 245

 Score = 58.8 bits (143), Expect = 1e-10
 Identities = 32/182 (17%), Positives = 64/182 (35%), Gaps = 23/182 (12%)

Query: 2   IASSKGGVGKSTTTVNLATAMKICYPDKEIGILDADVFGPSIPILMNLPDTP------LL 55
             S+KGG G S    N A A+    PD  +  +D  +    + + ++             
Sbjct: 9   FVSAKGGDGGSCIAANFAFAL-SQEPDIHVLAVDISLPFGDLDMYLSGNTHSQDLADISN 67

Query: 56  NKDNLMIPLVN-YGVKCLSMGNLIT-----EKSAAIWRGLMVMQALNKLTVQVQWGPCDI 109
             D L   L++          +LI      EK   I    +    ++           D 
Sbjct: 68  ASDRLDKSLLDTMVQHISPSLDLIPSPATFEKIVNIEPERVS-DLIHIAASF-----YDY 121

Query: 110 LFIDTPPGTGDTHLSLIQNLFIDTAIIITIPDTMSLQVAQRGYTMFKKLNIPVA--GLVM 167
           + +D         + +++   +D   I+T P   SL+ A +   + K+   P++   +++
Sbjct: 122 IIVDFGASIDHVGVWVLE--HLDELCIVTTPSLQSLRRAGQLLKLCKEFEKPISRIEIIL 179

Query: 168 NM 169
           N 
Sbjct: 180 NR 181

>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* Length = 260

 Score = 57.6 bits (140), Expect = 4e-10
 Identities = 33/189 (17%), Positives = 68/189 (35%), Gaps = 34/189 (17%)

Query: 2   IASSKGGVGKSTTTVNLATAMKICYPDKEIGILDAD--------VFGPSIPILMNLPDTP 53
           + S KGGVGK+T++  +AT +      K+  ++D          + G    ++ +  +  
Sbjct: 7   VTSGKGGVGKTTSSAAIATGL--AQKGKKTVVIDFAIGLRNLDLIMGCERRVVYDFVN-- 62

Query: 54  LLNK----DNLMIPLVNYGVKCLSMGNLITEKSAAIWRGLM-VMQALNKLTVQVQWGPCD 108
           ++      +  +I         +   +   +K A    G+  V+  L  +         +
Sbjct: 63  VIQGDATLNQALIKDKRTENLYILPASQTRDKDALTREGVAKVLDDLKAM-------DFE 115

Query: 109 ILFIDTPPGTGDTHLSLIQNLFIDTAIIITIPDTMSLQ--------VAQRGYTMFKKLNI 160
            +  D+P G     L  +   F D AII T P+  S++        +A +          
Sbjct: 116 FIVCDSPAGIETGALMAL--YFADEAIITTNPEVSSVRDSDRILGILASKSRRAENGEEP 173

Query: 161 PVAGLVMNM 169
               L++  
Sbjct: 174 IKEHLLLTR 182

>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* Length = 237

 Score = 51.7 bits (125), Expect = 3e-08
 Identities = 36/189 (19%), Positives = 71/189 (37%), Gaps = 44/189 (23%)

Query: 2   IASSKGGVGKSTTTVNLATAMKICYPDKEIGILDADVFGPSIPILMNLPDTPLLNKDNLM 61
           I S KGG GK+T T NL+ A+      +++  +D D     +  + NL  + +L  D+  
Sbjct: 7   IVSGKGGTGKTTVTANLSVALGDR--GRKVLAVDGD-----LT-MANL--SLVLGVDDPD 56

Query: 62  IPLVNY---------GVKCLSMGNL------ITEKSAAIWRGLMVMQALNKLTVQVQWGP 106
           + L +           +      N+      +  +         + + +  L  +     
Sbjct: 57  VTLHDVLAGEANVEDAIYMTQFDNVYVLPGAVDWEHVLKADPRKLPEVIKSLKDK----- 111

Query: 107 CDILFIDTPPGTGDTHLSLIQNLFI------DTAIIITIPDTMSLQVAQRGYTMFKKLNI 160
            D + ID P G        +Q   +      + A+++T P+   L    +   + KK  +
Sbjct: 112 FDFILIDCPAG--------LQLDAMSAMLSGEEALLVTNPEISCLTDTMKVGIVLKKAGL 163

Query: 161 PVAGLVMNM 169
            + G V+N 
Sbjct: 164 AILGFVLNR 172

>1ihu_A Arsenical pump-driving ATPase; aluminum fluoride, ADP, ARSA ATPase, ATP binding site, hydro; HET: ADP; 2.15A {Escherichia coli} SCOP: c.37.1.10 c.37.1.10 PDB: 1f48_A* 1ii0_A* 1ii9_A* Length = 589

 Score = 52.2 bits (125), Expect = 5e-08
 Identities = 35/228 (15%), Positives = 66/228 (28%), Gaps = 71/228 (31%)

Query: 6   KGGVGKSTTTVNLATAMKICYPDKEIGIL--D-----ADVFGPSIPILMNLPDTPLLNKD 58
           KGGVGK  T+++ ATA+++    K + ++  D       VF  +I    N     + +  
Sbjct: 16  KGGVGK--TSISCATAIRLAEQGKRVLLVSTDPASNVGQVFSQTIG---NTI-QAIASVP 69

Query: 59  NL-----------------MIPLVNYGVKCLSMGNLITEKSAAIWRGLMVMQ-ALNKLTV 100
            L                 ++  +   +    + ++  + S A    +         LT 
Sbjct: 70  GLSALEIDPQAAAQQYRARIVDPIKGVLPDDVVSSINEQLSGACTTEIAAFDEFTGLLTD 129

Query: 101 QVQWGPCDILFIDTPPGTGDT-----------------------------------HLSL 125
                  D +  DT P TG T                                     + 
Sbjct: 130 ASLLTRFDHIIFDTAP-TGHTIRLLQLPGAWSSFIDSNPEGASCLGPMAGLEKQREQYAY 188

Query: 126 IQNLFID----TAIIITIPDTMSLQVAQRGYTMFKKLNIPVAGLVMNM 169
                 D      +++      +LQ   R +     + +    LV+N 
Sbjct: 189 AVEALSDPKRTRLVLVARLQKSTLQEVARTHLELAAIGLKNQYLVING 236

>1ihu_A Arsenical pump-driving ATPase; aluminum fluoride, ADP, ARSA ATPase, ATP binding site, hydro; HET: ADP; 2.15A {Escherichia coli} SCOP: c.37.1.10 c.37.1.10 PDB: 1f48_A* 1ii0_A* 1ii9_A* Length = 589

 Score = 49.2 bits (117), Expect = 6e-07
 Identities = 16/102 (15%), Positives = 32/102 (31%), Gaps = 27/102 (26%)

Query: 94  ALNKLTVQVQWGPCDILFIDTPPGTGDT----------------------HLSLIQNLFI 131
                +  ++      + +DT P TG T                      H +    L  
Sbjct: 428 VFQAFSRVIREAGKRFVVMDTAP-TGHTLLLLDATGAYHREIAKKMGEKGHFTTPMMLLQ 486

Query: 132 D----TAIIITIPDTMSLQVAQRGYTMFKKLNIPVAGLVMNM 169
           D      +++T+P+T  +  A       ++  I   G ++N 
Sbjct: 487 DPERTKVLLVTLPETTPVLEAANLQADLERAGIHPWGWIINN 528

>3io3_A DEHA2D07832P; chaperone, membrane traffic, ATPase; HET: ADP; 1.80A {Debaryomyces hansenii} Length = 348

 Score = 51.4 bits (123), Expect = 8e-08
 Identities = 42/296 (14%), Positives = 78/296 (26%), Gaps = 95/296 (32%)

Query: 6   KGGVGKSTTTVNLATAMKICYPDKEIGIL--D-----ADVFGPSIPILMNLPDTPLLNKD 58
           KGGVGK+TT+ ++A  + +  P+++  ++  D     +D F              +    
Sbjct: 26  KGGVGKTTTSSSVAVQLALAQPNEQFLLISTDPAHNLSDAFCQKFG---KDA-RKVEGLP 81

Query: 59  NL--------------MIPLVNYGVKCLSMGNLITEKSAAIWRGL---MVMQALNKL--- 98
           NL                    Y          +         G+   +    + K    
Sbjct: 82  NLSCMEIDPEAAMSDLQQQASQYNNDPNDPLKSMMSDMTGSIPGIDEALSFMEVLKHIKN 141

Query: 99  ------TVQVQWGPCDILFIDTPPGTGDT------------------------------- 121
                            +  DT P TG T                               
Sbjct: 142 QKVLEGEDNSNAISYKTIIFDTAP-TGHTLRFLQLPSTLEKLLSKFKDLSGKLGPMLSMM 200

Query: 122 -----------------HLSLIQNLFID----TAIIITIPDTMSLQVAQRGYTMFKKLNI 160
                            ++S +   F +    T I + I + +SL   +R        N+
Sbjct: 201 GGGQQQDIFEKLNEVQKNVSEVNEQFTNPELTTFICVCISEFLSLYETERMIQELMSYNM 260

Query: 161 PVAGLVMNMNSVLCPSCNHMFELYENNLHQFEAKNFLKSYERKLYGIHMWNFLIPL 216
            V  +V+N   +L    +        +  + + K  L          H+    +PL
Sbjct: 261 DVNSIVVNQ--LLFAEGDDHSCKRCESRWKMQKKY-LDQMGELYEDYHL--VKMPL 311

>2woj_A ATPase GET3; tail-anchored, membrane protein, targeting factor, endoplasmic reticulum, TRC40, ATP-binding, golgi apparatus; HET: ADP; 1.99A {Saccharomyces cerevisiae} PDB: 3h84_A 3zs8_A 3zs9_A* 3sja_A 3sjb_A 3sjc_A 3sjd_A* 3idq_A 3a36_A 3a37_A* Length = 354

 Score = 49.1 bits (117), Expect = 5e-07
 Identities = 38/253 (15%), Positives = 74/253 (29%), Gaps = 94/253 (37%)

Query: 6   KGGVGKSTTTVNLATAMKICYPDKEIGIL--D-----ADVFGPSIPILMNLPDTPLLNKD 58
           KGGVGK+T++ ++A  M +  P+K+  ++  D     +D FG             +   +
Sbjct: 26  KGGVGKTTSSCSIAIQMALSQPNKQFLLISTDPAHNLSDAFGEKFG---KDA-RKVTGMN 81

Query: 59  NL-------------------------MIPLVNYGVKCLSMGNLITEKSAAI--WRGLMV 91
           NL                                 +  L  G  + + + +I      + 
Sbjct: 82  NLSCMEIDPSAALKDMNDMAVSRANNNGSDGQGDDLGSLLQGGALADLTGSIPGIDEALS 141

Query: 92  MQALNKLTVQVQW---GPCDILFIDTPPGTGDT--------------------------- 121
              + K   + +       D +  DT P TG T                           
Sbjct: 142 FMEVMKHIKRQEQGEGETFDTVIFDTAP-TGHTLRFLQLPNTLSKLLEKFGEITNKLGPM 200

Query: 122 ---------------------HLSLIQNLFID----TAIIITIPDTMSLQVAQRGYTMFK 156
                                ++  I+  F D    T + + I + +SL   +R      
Sbjct: 201 LNSFMGAGNVDISGKLNELKANVETIRQQFTDPDLTTFVCVCISEFLSLYETERLIQELI 260

Query: 157 KLNIPVAGLVMNM 169
             ++ V  +++N 
Sbjct: 261 SYDMDVNSIIVNQ 273

>2xj4_A MIPZ; replication, cell division, ATPase, WACA; 1.60A {Caulobacter vibrioides} PDB: 2xj9_A* 2xit_A Length = 286

 Score = 48.2 bits (115), Expect = 8e-07
 Identities = 14/36 (38%), Positives = 22/36 (61%), Gaps = 2/36 (5%)

Query: 2  IASSKGGVGKSTTTVNLATAMKICYPDKEIGILDAD 37
          + + KGG GKST  V+L TA+   Y   ++ ++D D
Sbjct: 9  VGNEKGGAGKSTIAVHLVTAL--LYGGAKVAVIDLD 42

>3bfv_A CAPA1, CAPB2, membrane protein CAPA1, protein tyrosine kinase; chimerical protein, P-loop protein, capsule biogenesis/degradation; HET: ADP; 1.80A {Staphylococcus aureus} PDB: 2ved_A* Length = 271

 Score = 47.6 bits (114), Expect = 1e-06
 Identities = 38/192 (19%), Positives = 64/192 (33%), Gaps = 47/192 (24%)

Query: 1   MIASSKGGVGKSTTTVNLATAMKICYPDKEIGILDADVFGPSIPILMNLPDTP-----LL 55
           +I S   G GKST   NLA A        +  I+D D+  P+   + NLP+       LL
Sbjct: 86  VITSEAPGAGKSTIAANLAVAY--AQAGYKTLIVDGDMRKPTQHYIFNLPNNEGLSSLLL 143

Query: 56  NKDNLMIPLVNYGVKCLSMGNLITEKSAAIWRG--------LMVMQALNKLTVQVQWGPC 107
           N       +++  ++ L    ++T        G        L+  +A   L   +     
Sbjct: 144 NWSTYQDSIISTEIEDLD---VLT-------SGPIPPNPSELITSRAFANLYDTLL-MNY 192

Query: 108 DILFIDTPPGTGDTHLSLIQNLFIDTAIIITIPDTMSLQVAQRGYT----------MFKK 157
           + + IDTPP           N   D  +         + V                + + 
Sbjct: 193 NFVIIDTPP----------VNTVTDAQLFSKFTGN-VVYVVNSENNNKDEVKKGKELIEA 241

Query: 158 LNIPVAGLVMNM 169
               + G+V+N 
Sbjct: 242 TGAKLLGVVLNR 253

>3ez9_A Para; DNA binding, winged-HTH, partition, biosynthetic protein; 2.80A {Salmonella enterica subsp} PDB: 3ezf_A Length = 403

 Score = 47.8 bits (114), Expect = 1e-06
 Identities = 12/40 (30%), Positives = 21/40 (52%), Gaps = 4/40 (10%)

Query: 2   IASSKGGVGKSTTTVNLATAMKICYPDKEIG----ILDAD 37
           + + KGGV K+ +TV LA A+++            ++D D
Sbjct: 116 VVNLKGGVSKTVSTVTLAHALRVHQDLLRHDLRILVIDLD 155

>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 Length = 398

 Score = 46.7 bits (111), Expect = 3e-06
 Identities = 32/214 (14%), Positives = 61/214 (28%), Gaps = 52/214 (24%)

Query: 2   IASSKGGVGKSTTTVNLATAMKICYPDKEIG----ILDAD-------VFGPSIPILMNLP 50
           I++ KGGV K+ +TV+LA AM+             ++D D              I +   
Sbjct: 113 ISNLKGGVSKTVSTVSLAHAMRAHPHLLMEDLRILVIDLDPQSSATMFLSHKHSIGIVNA 172

Query: 51  DTPLLNKDNLMIPL-VNYGVKCLSMGNL---------------ITEKSAAIWRGLMVMQA 94
            +      N+     +   +    +  +                 E       G  +   
Sbjct: 173 TSAQAMLQNVSREELLEEFIVPSVVPGVDVMPASIDDAFIASDWRELCNEHLPGQNIHAV 232

Query: 95  LNKLTVQVQWGPCDILFIDTPPGTGDTHLSLI-QN-LFIDTAIIITIP------------ 140
           L +  +       D + +D+ P     HL    +N L     +   +P            
Sbjct: 233 LKENVIDKLKSDYDFILVDSGP-----HLDAFLKNALASANILFTPLPPATVDFHSSLKY 287

Query: 141 -----DTMSLQVAQRGYTMFKKLNIPVAGLVMNM 169
                + + L ++  G       NI     + N 
Sbjct: 288 VARLPELVKL-ISDEGCECQLATNIGFMSKLSNK 320

>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 Length = 267

 Score = 44.9 bits (107), Expect = 9e-06
 Identities = 14/21 (66%), Positives = 17/21 (80%)

Query: 2  IASSKGGVGKSTTTVNLATAM 22
          IAS KGGVGKST+ + LAT +
Sbjct: 32 IASIKGGVGKSTSAIILATLL 52

>3la6_A Tyrosine-protein kinase WZC; P-loop protein, nucleotide binding domain, walker A motif, B protein kinase, oligomerization; HET: ADP; 3.20A {Escherichia coli} Length = 286

 Score = 44.6 bits (106), Expect = 1e-05
 Identities = 35/192 (18%), Positives = 65/192 (33%), Gaps = 47/192 (24%)

Query: 1   MIASSKGGVGKSTTTVNLATAMKICYPDKEIGILDADVFGPSIPILMNLPDTP-----LL 55
           M+      +G +    NLA  +     +K + ++D D+       L+   +       L+
Sbjct: 96  MMTGVSPSIGMTFVCANLAAVI--SQTNKRVLLIDCDMRKGYTHELLGTNNVNGLSEILI 153

Query: 56  NKDNLMIPLVNYGVKCLSMGNLITEKSAAIWRG--------LMVMQALNKLTVQVQWGPC 107
            + ++        +       LI        RG        L++ +   +L         
Sbjct: 154 GQGDITTAAKPTSIAKFD---LIP-------RGQVPPNPSELLMSERFAELVNWAS-KNY 202

Query: 108 DILFIDTPPGTGDTHLSLIQNLFIDTAIIITIPDTMSLQVAQRGYT----------MFKK 157
           D++ IDTPP               D AI+     T +L VA+               F++
Sbjct: 203 DLVLIDTPP----------ILAVTDAAIVGRHVGT-TLMVARYAVNTLKEVETSLSRFEQ 251

Query: 158 LNIPVAGLVMNM 169
             IPV G+++N 
Sbjct: 252 NGIPVKGVILNS 263

>3cio_A ETK, tyrosine-protein kinase ETK; WZC, escherichia coli tyrosine kinase domain, signaling protein, transferase, inner membrane, membrane; 2.50A {Escherichia coli} Length = 299

 Score = 44.2 bits (105), Expect = 1e-05
 Identities = 37/192 (19%), Positives = 68/192 (35%), Gaps = 47/192 (24%)

Query: 1   MIASSKGGVGKSTTTVNLATAMKICYPDKEIGILDADVFGPSIPILMNLPDTP-----LL 55
           MI  +    GK+  +  LA  +     D+++  +DAD+       L  + +       L 
Sbjct: 108 MITGATPDSGKTFVSSTLAAVI--AQSDQKVLFIDADLRRGYSHNLFTVSNEHGLSEYLA 165

Query: 56  NKDNLMIPLVNYGVKCLSMGNLITEKSAAIWRG--------LMVMQALNKLTVQVQWGPC 107
            KD L   + ++G        +IT       RG        L++   + +L         
Sbjct: 166 GKDELNKVIQHFGKGGFD---VIT-------RGQVPPNPSELLMRDRMRQLLEWAN-DHY 214

Query: 108 DILFIDTPPGTGDTHLSLIQNLFIDTAIIITIPDTMSLQVAQRGYT----------MFKK 157
           D++ +DTPP               D A++     T SL VA+ G              ++
Sbjct: 215 DLVIVDTPP----------MLAVSDAAVVGRSVGT-SLLVARFGLNTAKEVSLSMQRLEQ 263

Query: 158 LNIPVAGLVMNM 169
             + + G ++N 
Sbjct: 264 AGVNIKGAILNG 275

>3zq6_A Putative arsenical pump-driving ATPase; tail-anchored, membrane protein; HET: ADP; 2.11A {Methanothermobacter thermautotrophicusorganism_taxid} Length = 324

 Score = 44.1 bits (104), Expect = 2e-05
 Identities = 16/65 (24%), Positives = 30/65 (46%), Gaps = 3/65 (4%)

Query: 133 TAIIITIPDTMSLQVAQRGYTMFKKLNIPVAGLVMNM---NSVLCPSCNHMFELYENNLH 189
           +  ++ IP+ MS+  ++R     +K +I   G+++N        C  CN   +L +  L 
Sbjct: 224 SFKMVVIPEEMSIYESERAMKALEKYSIHADGVIVNQVLPEESDCEFCNARRKLQQERLK 283

Query: 190 QFEAK 194
           Q   K
Sbjct: 284 QIREK 288

>1wcv_1 SOJ, segregation protein; ATPase, bacterial, chromosome segregation; 1.6A {Thermus thermophilus} PDB: 2bej_A* 2bek_A* Length = 257

 Score = 43.7 bits (104), Expect = 2e-05
 Identities = 12/21 (57%), Positives = 17/21 (80%)

Query: 2  IASSKGGVGKSTTTVNLATAM 22
          +A+ KGGVGK+TT +NLA  +
Sbjct: 11 LANQKGGVGKTTTAINLAAYL 31

>2woo_A ATPase GET3; tail-anchored, membrane protein, targeting factor, endoplasmic reticulum, TRC40, ATP-binding, golgi apparatus; 3.01A {Schizosaccharomyces pombe} Length = 329

 Score = 43.6 bits (103), Expect = 3e-05
 Identities = 14/66 (21%), Positives = 25/66 (37%), Gaps = 4/66 (6%)

Query: 133 TAIIITIPDTMSLQVAQRGYTMFKKLNIPVAGLVMNM----NSVLCPSCNHMFELYENNL 188
           T + + I + +SL   +R         I    +V+N      +  CP C    ++ +  L
Sbjct: 223 TFVCVCISEFLSLYETERMIQELTSYEIDTHNIVVNQLLLDPNTTCPQCMARRKMQQKYL 282

Query: 189 HQFEAK 194
            Q E  
Sbjct: 283 AQIEEL 288

>2oze_A ORF delta'; para, walker type atpases, DNA segregation, PSM19035, plasmid, DNA binding protein; HET: AGS EPE; 1.83A {Streptococcus pyogenes} Length = 298

 Score = 43.0 bits (102), Expect = 5e-05
 Identities = 8/21 (38%), Positives = 9/21 (42%)

Query: 2  IASSKGGVGKSTTTVNLATAM 22
              KGGVGKS  +   A   
Sbjct: 41 NNYFKGGVGKSKLSTMFAYLT 61

>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* Length = 349

 Score = 43.0 bits (101), Expect = 5e-05
 Identities = 16/65 (24%), Positives = 28/65 (43%), Gaps = 3/65 (4%)

Query: 133 TAIIITIPDTMSLQVAQRGYTMFKKLNIPVAGLVMNM---NSVLCPSCNHMFELYENNLH 189
              ++ IP+ MS+  ++R     +K  IP+  +++N      V C  C    EL    L 
Sbjct: 239 AFRLVVIPEEMSILESERAMKALQKYGIPIDAVIVNQLIPEDVQCDFCRARRELQLKRLE 298

Query: 190 QFEAK 194
             + K
Sbjct: 299 MIKEK 303

>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 = 42.9 bits (100), Expect = 7e-05
 Identities = 53/322 (16%), Positives = 100/322 (31%), Gaps = 99/322 (30%)

Query: 7   GGVGKSTTTVNLATAMKICYPDKEIGILDADVFGPSIPILMNL-----PDTPLLNKDNLM 61
            G GK+     +  A+ +C   K    +D  +F       +NL     P+T L     L+
Sbjct: 159 LGSGKTW----V--ALDVCLSYKVQCKMDFKIF------WLNLKNCNSPETVLEMLQKLL 206

Query: 62  IPLV-NYGVKCLSMGNLITEKSAAIWR------------GLMVM------QALNKLTVQV 102
             +  N+  +     N+     +                 L+V+      +A N   +  
Sbjct: 207 YQIDPNWTSRSDHSSNIKLRIHSIQAELRRLLKSKPYENCLLVLLNVQNAKAWNAFNLS- 265

Query: 103 QWGPCDILF-------IDTPPGTGDTHLSLIQNLFIDTAIIITIPDTMSLQVAQRGYTMF 155
               C IL         D       TH+SL        ++ +T  +  SL          
Sbjct: 266 ----CKILLTTRFKQVTDFLSAATTTHISL-----DHHSMTLTPDEVKSL---------L 307

Query: 156 -KKLNIPVAGL---VMNMN----SVLCPSCNHMFELYENNLHQFEAK---------NFLK 198
            K L+     L   V+  N    S++  S       ++N  H    K         N L+
Sbjct: 308 LKYLDCRPQDLPREVLTTNPRRLSIIAESIRDGLATWDNWKHVNCDKLTTIIESSLNVLE 367

Query: 199 SYE-RKLY---GIHMWNFLIP---LCNL------------IIKIRNVAYGNSHGHGNTVH 239
             E RK++    +   +  IP   L  +            + K+   +        +T+ 
Sbjct: 368 PAEYRKMFDRLSVFPPSAHIPTILLSLIWFDVIKSDVMVVVNKLHKYSLVEKQPKESTIS 427

Query: 240 HHHV-LNLIGEEDQKSGPYKKL 260
              + L L  + + +   ++ +
Sbjct: 428 IPSIYLELKVKLENEYALHRSI 449

>3pg5_A Uncharacterized protein; structural genomics, PSI-biology, protein structure initiati northeast structural genomics consortium, NESG; 3.30A {Corynebacterium diphtheriae} Length = 361

 Score = 41.3 bits (97), Expect = 1e-04
 Identities = 9/21 (42%), Positives = 14/21 (66%)

Query: 2  IASSKGGVGKSTTTVNLATAM 22
            ++KGGVGK+T + N+A   
Sbjct: 6  FFNNKGGVGKTTLSTNVAHYF 26

>3iqw_A Tail-anchored protein targeting factor GET3; ATPase, Zn binding, protein transport; HET: ANP; 3.00A {Chaetomium thermophilum} PDB: 3iqx_A* 3ibg_A* Length = 334

 Score = 39.5 bits (92), Expect = 5e-04
 Identities = 9/37 (24%), Positives = 16/37 (43%)

Query: 133 TAIIITIPDTMSLQVAQRGYTMFKKLNIPVAGLVMNM 169
           T + + IP+ +SL   +R         I    +V+N 
Sbjct: 224 TFVCVCIPEFLSLYETERMIQELANYGIDTHCIVVNQ 260

>3igf_A ALL4481 protein; two-domained protein consisting of the N-terminal alpha-beta the C-terminal all beta domain., structural genomics; 2.00A {Nostoc SP} Length = 374

 Score = 39.5 bits (92), Expect = 7e-04
 Identities = 4/41 (9%), Positives = 18/41 (43%)

Query: 133 TAIIITIPDTMSLQVAQRGYTMFKKLNIPVAGLVMNMNSVL 173
            A ++T  D + +   +  +   +++ + + G++   +   
Sbjct: 216 AAFLVTTADPLEVVSVRYLWGSAQQIGLTIGGVIQVSSQTE 256

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	261
2ph1_A	262	Nucleotide-binding protein; alpha-beta protein, st	100.0
1wcv_1	257	SOJ, segregation protein; ATPase, bacterial, chrom	99.97
3ea0_A	245	ATPase, para family; alpha-beta-alpha sandwich, st	99.97
3kjh_A	254	CO dehydrogenase/acetyl-COA synthase complex, acce	99.97
1g3q_A	237	MIND ATPase, cell division inhibitor; alpha-beta-a	99.97
4dzz_A	206	Plasmid partitioning protein PARF; deviant walker	99.97
3q9l_A	260	Septum site-determining protein MIND; ATPase, bact	99.96
1hyq_A	263	MIND, cell division inhibitor (MIND-1); MINC, FTSZ	99.96
3pg5_A	361	Uncharacterized protein; structural genomics, PSI-	99.96
2oze_A	298	ORF delta'; para, walker type atpases, DNA segrega	99.96
3end_A	307	Light-independent protochlorophyllide reductase ir	99.96
3ez9_A	403	Para; DNA binding, winged-HTH, partition, biosynth	99.96
3fwy_A	314	Light-independent protochlorophyllide reductase I	99.96
1cp2_A	269	CP2, nitrogenase iron protein; oxidoreductase; 1.9	99.95
3ez2_A	398	Plasmid partition protein A; type IA, DNA binding,	99.95
3la6_A	286	Tyrosine-protein kinase WZC; P-loop protein, nucle	99.95
2afh_E	289	Nitrogenase iron protein 1; nitrogen fixation, iro	99.95
3k9g_A	267	PF-32 protein; ssgcid, SBRI, decode biostructures,	99.95
3bfv_A	271	CAPA1, CAPB2, membrane protein CAPA1, protein tyro	99.95
3cwq_A	209	Para family chromosome partitioning protein; alpha	99.94
3cio_A	299	ETK, tyrosine-protein kinase ETK; WZC, escherichia	99.94
2xj4_A	286	MIPZ; replication, cell division, ATPase, WACA; 1.	99.94
3ug7_A	349	Arsenical pump-driving ATPase; tail-anchored, memb	99.9
3zq6_A	324	Putative arsenical pump-driving ATPase; tail-ancho	99.9
3fkq_A	373	NTRC-like two-domain protein; RER070207001320, str	99.89
2woj_A	354	ATPase GET3; tail-anchored, membrane protein, targ	99.89
3iqw_A	334	Tail-anchored protein targeting factor GET3; ATPas	99.87
2woo_A	329	ATPase GET3; tail-anchored, membrane protein, targ	99.87
3io3_A	348	DEHA2D07832P; chaperone, membrane traffic, ATPase;	99.85
1byi_A	224	Dethiobiotin synthase; biotin synthesis, cyclo-lig	99.84
1ihu_A	589	Arsenical pump-driving ATPase; aluminum fluoride,	99.8
3igf_A	374	ALL4481 protein; two-domained protein consisting o	99.78
1ihu_A	589	Arsenical pump-driving ATPase; aluminum fluoride,	99.77
2xxa_A	433	Signal recognition particle protein; protein trans	99.64
1yrb_A	262	ATP(GTP)binding protein; GTPase, P-loop, rossman f	99.6
1j8m_F	297	SRP54, signal recognition 54 kDa protein; signalin	99.59
1ls1_A	295	Signal recognition particle protein; FFH, SRP54, S	99.51
1zu4_A	320	FTSY; GTPase, signal recognition particle, SRP, re	99.49
2ffh_A	425	Protein (FFH); SRP54, signal recognition particle,	99.47
3of5_A	228	Dethiobiotin synthetase; structural genomics, cent	99.41
3dm5_A	443	SRP54, signal recognition 54 kDa protein; protein-	99.4
2v3c_C	432	SRP54, signal recognition 54 kDa protein; nucleoti	99.37
2j37_W	504	Signal recognition particle 54 kDa protein (SRP54)	99.31
3fgn_A	251	Dethiobiotin synthetase; biotin biosynthesis, BIOD	99.26
3kl4_A	433	SRP54, signal recognition 54 kDa protein; signal r	99.25
3qxc_A	242	Dethiobiotin synthetase; DTBS, structural genomics	99.24
3p32_A	355	Probable GTPase RV1496/MT1543; structural genomics	99.15
1vma_A	306	Cell division protein FTSY; TM0570, structural gen	99.1
2px0_A	296	Flagellar biosynthesis protein FLHF; SRP GTPase, f	99.05
2r8r_A	228	Sensor protein; KDPD, PFAM02702, MCSG, structural	98.91
2p67_A	341	LAO/AO transport system kinase; ARGK, structural G	98.64
3e70_C	328	DPA, signal recognition particle receptor; FTSY, S	98.06
2obn_A	349	Hypothetical protein; structural genomics, joint c	98.0
1g5t_A	196	COB(I)alamin adenosyltransferase; P-loop protein,	97.95
2yhs_A	503	FTSY, cell division protein FTSY; cell cycle, prot	97.9
2rdo_7	704	EF-G, elongation factor G; elongation factor G, EF	97.89
3pzx_A	557	Formate--tetrahydrofolate ligase; HET: TOE; 2.20A	97.81
2h5e_A	529	Peptide chain release factor RF-3; beta barrel, tr	97.8
4a0g_A	831	Adenosylmethionine-8-amino-7-oxononanoate aminotra	97.78
1u94_A	356	RECA protein, recombinase A; homologous recombinat	97.64
2www_A	349	Methylmalonic aciduria type A protein, mitochondri	97.61
3vqt_A	548	RF-3, peptide chain release factor 3; translation,	97.54
1rj9_A	304	FTSY, signal recognition protein; SRP-GTPase domai	97.53
1xp8_A	366	RECA protein, recombinase A; recombination, radior	97.39
2qm8_A	337	GTPase/ATPase; G protein, G3E, metallochaperone, c	97.37
1dar_A	691	EF-G, elongation factor G; ribosomal translocase,	97.24
3iev_A	308	GTP-binding protein ERA; ERA, GTPase, KH domain, a	97.18
2xex_A	693	Elongation factor G; GTPase, translation, biosynth	97.17
3tr5_A	528	RF-3, peptide chain release factor 3; protein synt	97.14
2c78_A	405	Elongation factor TU-A; hydrolase, GTPase, transla	97.11
1d2e_A	397	Elongation factor TU (EF-TU); G-protein, beta-barr	97.08
1wf3_A	301	GTP-binding protein; GTPase, riken structural geno	96.88
1xjc_A	169	MOBB protein homolog; structural genomics, midwest	96.86
3io5_A	333	Recombination and repair protein; storage dimer, i	96.68
3t1o_A	198	Gliding protein MGLA; G domain containing protein,	96.66
2g0t_A	350	Conserved hypothetical protein; structural genomic	96.66
4fn5_A	709	EF-G 1, elongation factor G 1; translation, transl	96.61
2yvu_A	186	Probable adenylyl-sulfate kinase; transferase, str	96.54
1z2a_A	168	RAS-related protein RAB-23; RAB GTPase, vesicular	96.46
3j25_A	638	Tetracycline resistance protein TETM; antibiotic r	96.46
2b8t_A	223	Thymidine kinase; deoxyribonucleoside kinase, zinc	96.44
2dyk_A	161	GTP-binding protein; GTPase, ribosome-binding prot	96.43
1xx6_A	191	Thymidine kinase; NESG, northeast structural genom	96.28
2cvh_A	220	DNA repair and recombination protein RADB; filamen	96.26
2nzj_A	175	GTP-binding protein REM 1; GDP/GTP binding, GTP hy	96.21
3bh0_A	315	DNAB-like replicative helicase; ATPase, replicatio	96.2
2dr3_A	247	UPF0273 protein PH0284; RECA superfamily ATPase, h	96.11
3a4m_A	260	L-seryl-tRNA(SEC) kinase; P-loop motif, walker A m	96.11
3sjy_A	403	Translation initiation factor 2 subunit gamma; zin	96.09
1z0j_A	170	RAB-22, RAS-related protein RAB-22A; RAB GTPase, R	96.07
2efe_B	181	Small GTP-binding protein-like; GEF, GTPase, VPS9,	96.05
2w58_A	202	DNAI, primosome component (helicase loader); ATP-b	96.03
2zr9_A	349	Protein RECA, recombinase A; recombination, RECA m	96.01
4dcu_A	456	GTP-binding protein ENGA; GTPase, GDP, protein bin	96.0
3p26_A	483	Elongation factor 1 alpha-like protein; GTP/GDP bi	95.92
4a1f_A	338	DNAB helicase, replicative DNA helicase; hydrolase	95.92
1ky3_A	182	GTP-binding protein YPT7P; vesicular traffic, GTP	95.91
3bgw_A	444	DNAB-like replicative helicase; ATPase, replicatio	95.91
2wsm_A	221	Hydrogenase expression/formation protein (HYPB); m	95.77
1ega_A	301	Protein (GTP-binding protein ERA); GTPase, RNA-bin	95.71
2w0m_A	235	SSO2452; RECA, SSPF, unknown FUN; 2.0A {Sulfolobus	95.7
2bcg_Y	206	Protein YP2, GTP-binding protein YPT1; RABGTPase,	95.68
2dy1_A	665	Elongation factor G; translocation, GTP complex, s	95.68
2lkc_A	178	Translation initiation factor IF-2; NMR {Geobacill	95.67
1rz3_A	201	Hypothetical protein rbstp0775; MCSG, structural g	95.66
1wms_A	177	RAB-9, RAB9, RAS-related protein RAB-9A; GTPase, p	95.65
1np6_A	174	Molybdopterin-guanine dinucleotide biosynthesis pr	95.64
1z0f_A	179	RAB14, member RAS oncogene family; RAB GTPase, ves	95.58
2j9r_A	214	Thymidine kinase; TK1, DNK, lasso, transferase, AT	95.51
3b9q_A	302	Chloroplast SRP receptor homolog, alpha subunit CP	95.48
1z08_A	170	RAS-related protein RAB-21; RAB GTPase, vesicular	95.43
2gf9_A	189	RAS-related protein RAB-3D; G-protein, structural	95.43
1ek0_A	170	Protein (GTP-binding protein YPT51); vesicular tra	95.41
3bos_A	242	Putative DNA replication factor; P-loop containing	95.38
3avx_A	1289	Elongation factor TS, elongation factor TU, linke	95.36
1nks_A	194	Adenylate kinase; thermophilic, transferase; HET:	95.36
2hjg_A	436	GTP-binding protein ENGA; GTPase ENGA KH-domain, h	95.36
3tkl_A	196	RAS-related protein RAB-1A; vesicle trafficking, p	95.29
2il1_A	192	RAB12; G-protein, GDP, GTPase, predicted, structur	95.19
2zts_A	251	Putative uncharacterized protein PH0186; KAIC like	95.19
1g16_A	170	RAS-related protein SEC4; G protein RAB, signaling	95.17
2og2_A	359	Putative signal recognition particle receptor; nuc	95.16
1zbd_A	203	Rabphilin-3A; G protein, effector, RABCDR, synapti	95.16
3i8s_A	274	Ferrous iron transport protein B; GTPase, GPCR, ir	95.15
3q85_A	169	GTP-binding protein REM 2; G-domain, CAV2 beta, si	95.14
3ec2_A	180	DNA replication protein DNAC; helicase loader, rep	95.13
1x3s_A	195	RAS-related protein RAB-18; GTPase, GNP, structura	95.12
2q6t_A	444	DNAB replication FORK helicase; hydrolase; 2.90A {	95.11
2xtp_A	260	GTPase IMAP family member 2; immune system, G prot	95.09
2ew1_A	201	RAS-related protein RAB-30; G-protein, GTP analogu	95.06
3hr8_A	356	Protein RECA; alpha and beta proteins (A/B, A+B),	95.05
2r6a_A	454	DNAB helicase, replicative helicase; replication,	95.02
3izy_P	537	Translation initiation factor IF-2, mitochondrial;	94.97
2ywe_A	600	GTP-binding protein LEPA; G domain, beta-barrel, f	94.96
3tw8_B	181	RAS-related protein RAB-35; longin domain, RAB GTP	94.95
1vg8_A	207	RAS-related protein RAB-7; GTP-binding protein, pr	94.94
2bme_A	186	RAB4A, RAS-related protein RAB4A; GTP-binding prot	94.93
1kht_A	192	Adenylate kinase; phosphotransferase, signaling pr	94.93
1q57_A	503	DNA primase/helicase; dntpase, DNA replication, tr	94.92
3cph_A	213	RAS-related protein SEC4; RAB GTPase, prenylation,	94.9
1jbk_A	195	CLPB protein; beta barrel, chaperone; 1.80A {Esche	94.89
2hf9_A	226	Probable hydrogenase nickel incorporation protein	94.86
3kkq_A	183	RAS-related protein M-RAS; GTP-binding, GTPase, si	94.8
1a7j_A	290	Phosphoribulokinase; transferase, calvin cycle; 2.	94.79
3ihw_A	184	Centg3; RAS, centaurin, GTPase, structural genomic	94.76
2j69_A	695	Bacterial dynamin-like protein; FZO, FZL, GTPase,	94.75
2gks_A	546	Bifunctional SAT/APS kinase; transferase, sulfuryl	94.73
1z06_A	189	RAS-related protein RAB-33B; RAB GTPase, RAB33B GT	94.73
3hjn_A	197	DTMP kinase, thymidylate kinase; ATP-binding, nucl	94.69
1mky_A	439	Probable GTP-binding protein ENGA; GTPase, DER, KH	94.68
1zo1_I	501	IF2, translation initiation factor 2; E. coli, rib	94.62
4dkx_A	216	RAS-related protein RAB-6A; GTP binding fold, memb	94.57
1n0u_A	842	EF-2, elongation factor 2; G-protein, CIS-proline,	94.56
2pez_A	179	Bifunctional 3'-phosphoadenosine 5'- phosphosulfat	94.5
1m7g_A	211	Adenylylsulfate kinase; APS kinase, transferase, s	94.45
2qgz_A	308	Helicase loader, putative primosome component; str	94.43
1cr0_A	296	DNA primase/helicase; RECA-type protein fold, tran	94.39
1uj2_A	252	Uridine-cytidine kinase 2; alpha/beta mononucleoti	94.39
2z43_A	324	DNA repair and recombination protein RADA; archaea	94.36
2p65_A	187	Hypothetical protein PF08_0063; CLPB, malaria, str	94.31
3lxw_A	247	GTPase IMAP family member 1; immunity, structural	94.27
3uie_A	200	Adenylyl-sulfate kinase 1, chloroplastic; rossmann	94.23
2pbr_A	195	DTMP kinase, thymidylate kinase; transferase, nucl	94.11
2kjq_A	149	DNAA-related protein; solution structure, NESG, st	94.08
3mca_A	592	HBS1, elongation factor 1 alpha-like protein; prot	94.06
2z0h_A	197	DTMP kinase, thymidylate kinase; ATP-binding, nucl	94.04
1v5w_A	343	DMC1, meiotic recombination protein DMC1/LIM15 hom	93.93
4i1u_A	210	Dephospho-COA kinase; structural genomics, niaid,	93.87
1nrj_B	218	SR-beta, signal recognition particle receptor beta	93.76
2o52_A	200	RAS-related protein RAB-4B; G-protein, GDP, struct	93.73
1qhx_A	178	CPT, protein (chloramphenicol phosphotransferase);	93.7
2orw_A	184	Thymidine kinase; TMTK, TP4A, transferase; HET: 4T	93.63
2elf_A	370	Protein translation elongation factor 1A; tRNA, py	93.54
1n0w_A	243	DNA repair protein RAD51 homolog 1; DNA repair, ho	93.5
1nlf_A	279	Regulatory protein REPA; replicative DNA helicase	93.48
1l8q_A	324	Chromosomal replication initiator protein DNAA; AA	93.47
2qby_B	384	CDC6 homolog 3, cell division control protein 6 ho	93.43
3e2i_A	219	Thymidine kinase; Zn-binding, ATP-binding, DNA syn	93.16
1f60_A	458	Elongation factor EEF1A; protein-protein complex,	93.1
3j2k_7	439	ERF3, eukaryotic polypeptide chain release factor	93.0
2v1u_A	387	Cell division control protein 6 homolog; DNA repli	92.95
2qby_A	386	CDC6 homolog 1, cell division control protein 6 ho	92.84
1zun_B	434	Sulfate adenylate transferase, subunit 1/adenylyls	92.78
1h65_A	270	Chloroplast outer envelope protein OEP34; GTPase,	92.76
1g8f_A	511	Sulfate adenylyltransferase; alpha-beta protein, b	92.69
3k53_A	271	Ferrous iron transport protein B; GTPase fold, hel	92.68
1w5s_A	412	Origin recognition complex subunit 2 ORC2; replica	92.59
2chg_A	226	Replication factor C small subunit; DNA-binding pr	92.54
1x6v_B	630	Bifunctional 3'-phosphoadenosine 5'- phosphosulfat	92.46
4hlc_A	205	DTMP kinase, thymidylate kinase; TMK, MRSA, pipiri	92.45
3n70_A	145	Transport activator; sigma-54, ntpase, PSI, MCSG,	92.35
1jny_A	435	EF-1-alpha, elongation factor 1-alpha, EF-TU, TUF-	92.33
1nn5_A	215	Similar to deoxythymidylate kinase (thymidylate K;	92.23
2z4s_A	440	Chromosomal replication initiator protein DNAA; AA	92.2
4dcu_A	456	GTP-binding protein ENGA; GTPase, GDP, protein bin	91.99
3cmw_A	1706	Protein RECA, recombinase A; homologous recombinat	91.98
2f1r_A	171	Molybdopterin-guanine dinucleotide biosynthesis pr	91.97
3def_A	262	T7I23.11 protein; chloroplast, TOC33, GTPase, hydr	91.95
3tqc_A	321	Pantothenate kinase; biosynthesis of cofactors, pr	91.88
2ce2_X	166	GTPase HRAS; signaling protein, guanine nucleotide	91.86
1fnn_A	389	CDC6P, cell division control protein 6; ORC1, AAA	91.83
3c8u_A	208	Fructokinase; YP_612366.1, putative fructose trans	91.78
3cmw_A	1706	Protein RECA, recombinase A; homologous recombinat	91.74
1gtv_A	214	TMK, thymidylate kinase; transferase, transferase	91.72
2wwf_A	212	Thymidilate kinase, putative; transferase, malaria	91.27
2vhj_A	331	Ntpase P4, P4; non- hydrolysable ATP analogue, hyd	91.23
4fcw_A	311	Chaperone protein CLPB; AAA domain; HET: ADP; 2.35	91.22
2axn_A	520	6-phosphofructo-2-kinase/fructose-2,6- biphosphata	91.19
3syl_A	309	Protein CBBX; photosynthesis, rubisco activase, AA	91.17
2bjv_A	265	PSP operon transcriptional activator; AAA, transcr	91.12
3upu_A	459	ATP-dependent DNA helicase DDA; RECA-like domain,	91.06
4edh_A	213	DTMP kinase, thymidylate kinase; structural genomi	91.02
1sq5_A	308	Pantothenate kinase; P-loop, transferase; HET: PAU	90.97
3e1s_A	574	Exodeoxyribonuclease V, subunit RECD; alpha and be	90.96
3cmu_A	2050	Protein RECA, recombinase A; homologous recombinat	90.9
2ewv_A	372	Twitching motility protein PILT; pilus retraction	90.82
3lw7_A	179	Adenylate kinase related protein (ADKA-like); AMP,	90.64
1ly1_A	181	Polynucleotide kinase; PNK, phosphatase, transfera	90.63
2ehv_A	251	Hypothetical protein PH0186; KAIC, RECA ATPase, un	90.58
1gvn_B	287	Zeta; postsegregational killing system, plasmid; 1	90.51
1odf_A	290	YGR205W, hypothetical 33.3 kDa protein in ADE3-Ser	90.46
1m8p_A	573	Sulfate adenylyltransferase; rossmann fold, phosph	90.46
3kb2_A	173	SPBC2 prophage-derived uncharacterized protein YOR	90.4
3geh_A	462	MNME, tRNA modification GTPase MNME; G protein, U3	89.98
2v54_A	204	DTMP kinase, thymidylate kinase; nucleotide biosyn	89.9
2p5t_B	253	PEZT; postsegregational killing system, phosphoryl	89.88
3t15_A	293	Ribulose bisphosphate carboxylase/oxygenase activ	89.85
4bas_A	199	ADP-ribosylation factor, putative (small GTPase, p	89.79
3clv_A	208	RAB5 protein, putative; malaria, GTPase, structura	89.72
4dhe_A	223	Probable GTP-binding protein ENGB; melioidosis, RA	89.69
3trf_A	185	Shikimate kinase, SK; amino acid biosynthesis, tra	89.68
4ag6_A	392	VIRB4 ATPase, type IV secretory pathway VIRB4 comp	89.65
3jvv_A	356	Twitching mobility protein; hexameric P-loop ATPas	89.63
2rhm_A	193	Putative kinase; P-loop containing nucleoside trip	89.6
3do6_A	543	Formate--tetrahydrofolate ligase; TM1766, putative	89.46
3izq_1	611	HBS1P, elongation factor 1 alpha-like protein; NO-	89.28
2i1q_A	322	DNA repair and recombination protein RADA; ATPase,	89.22
1zj6_A	187	ADP-ribosylation factor-like protein 5; ARL, GTP-b	89.2
3con_A	190	GTPase NRAS; structural genomics consortium, SGC,	89.15
3lda_A	400	DNA repair protein RAD51; DNA binding protein, ATP	89.14
2a5y_B	549	CED-4; apoptosis; HET: ATP; 2.60A {Caenorhabditis	89.05
3cmu_A	2050	Protein RECA, recombinase A; homologous recombinat	89.0
3ld9_A	223	DTMP kinase, thymidylate kinase; ssgcid, NIH, niai	88.96
1ofh_A	310	ATP-dependent HSL protease ATP-binding subunit HSL	88.94
3lv8_A	236	DTMP kinase, thymidylate kinase; structural genomi	88.77
2h57_A	190	ADP-ribosylation factor-like protein 6; GTP, GTPas	88.68
1y63_A	184	LMAJ004144AAA protein; structural genomics, protei	88.59
2qz4_A	262	Paraplegin; AAA+, SPG7, protease, ADP, structural	88.58
3v9p_A	227	DTMP kinase, thymidylate kinase; ssgcid, STRU geno	88.49
2plr_A	213	DTMP kinase, probable thymidylate kinase; TMP-bind	88.46
1via_A	175	Shikimate kinase; structural genomics, transferase	88.44
3t61_A	202	Gluconokinase; PSI-biology, structural genomics, p	88.38
2hxs_A	178	RAB-26, RAS-related protein RAB-28; GTPase, signal	88.38
1r5b_A	467	Eukaryotic peptide chain release factor GTP-bindi	88.34
4tmk_A	213	Protein (thymidylate kinase); ATP:DTMP phosphotran	88.29
3vaa_A	199	Shikimate kinase, SK; structural genomics, center	88.29
1r6b_X	758	CLPA protein; AAA+, N-terminal domain, CLPS, cryst	88.22
3a8t_A	339	Adenylate isopentenyltransferase; rossmann fold pr	88.16
2pt5_A	168	Shikimate kinase, SK; aromatic amino acid biosynth	88.13
1e6c_A	173	Shikimate kinase; phosphoryl transfer, ADP, shikim	88.13
3iij_A	180	Coilin-interacting nuclear ATPase protein; alpha a	88.12
2cdn_A	201	Adenylate kinase; phosphoryl transfer, associative	88.11
2iyv_A	184	Shikimate kinase, SK; transferase, aromatic amino	88.02
3d3q_A	340	TRNA delta(2)-isopentenylpyrophosphate transferase	87.99
2jaq_A	205	Deoxyguanosine kinase; transferase, deoxyribonucle	87.99
1r8s_A	164	ADP-ribosylation factor 1; protein transport/excha	87.93
1wb1_A	482	Translation elongation factor SELB; selenocysteine	87.88
3bc1_A	195	RAS-related protein RAB-27A; RAB27, GTPase, RAB, s	87.87
1s0u_A	408	EIF-2-gamma, translation initiation factor 2 gamma	87.86
2fna_A	357	Conserved hypothetical protein; structural genomic	87.78
1tev_A	196	UMP-CMP kinase; ploop, NMP binding region, LID reg	87.71
2ze6_A	253	Isopentenyl transferase; crown GALL tumor, cytokin	87.69
1kk1_A	410	EIF2gamma; initiation of translation; HET: GNP; 1.	87.65
4a74_A	231	DNA repair and recombination protein RADA; hydrola	87.64
1pzn_A	349	RAD51, DNA repair and recombination protein RAD51,	87.61
1s1m_A	545	CTP synthase; CTP synthetase, UTP:ammonia ligase (	87.45
2h17_A	181	ADP-ribosylation factor-like protein 5A; GDP, GTPa	87.43
3cm0_A	186	Adenylate kinase; ATP-binding, cytoplasm, nucleoti	87.36
1zp6_A	191	Hypothetical protein ATU3015; alpha-beta protein.,	87.27
1zuh_A	168	Shikimate kinase; alpha-beta protein, transferase;	87.08
2a9k_A	187	RAS-related protein RAL-A; bacterial ADP-ribosyltr	87.02
1njg_A	250	DNA polymerase III subunit gamma; rossman-like fol	86.98
1u8z_A	168	RAS-related protein RAL-A; GNP, GTP, GMPPNP, GPPNH	86.89
1w36_D	608	RECD, exodeoxyribonuclease V alpha chain; recombin	86.77
1sxj_A	516	Activator 1 95 kDa subunit; clamp loader, processi	86.67
1c1y_A	167	RAS-related protein RAP-1A; GTP-binding proteins,	86.67
2erx_A	172	GTP-binding protein DI-RAS2; GTP hydrolysis, trans	86.64
1g7s_A	594	Translation initiation factor IF2/EIF5B; translati	86.59
2g6b_A	180	RAS-related protein RAB-26; G-protein, GTP analogu	86.58
3oes_A	201	GTPase rhebl1; small GTPase, structural genomics,	86.56
2b6h_A	192	ADP-ribosylation factor 5; membrane trafficking, G	86.55
2bwj_A	199	Adenylate kinase 5; phosphoryl transfer reaction,	86.54
4eaq_A	229	DTMP kinase, thymidylate kinase; structural genomi	86.49
3fb4_A	216	Adenylate kinase; psychrophIle, phosphotransferase	86.48
3h4m_A	285	Proteasome-activating nucleotidase; ATPase, PAN, A	86.45
2qt1_A	207	Nicotinamide riboside kinase 1; non-protein kinase	86.36
2xb4_A	223	Adenylate kinase; ATP-binding, nucleotide-binding,	86.15
1c9k_A	180	COBU, adenosylcobinamide kinase; alpha/beta struct	86.12
2c95_A	196	Adenylate kinase 1; transferase, AP4A, nucleotide	86.06
2p5s_A	199	RAS and EF-hand domain containing; G-protein, RAB,	85.96
1e4v_A	214	Adenylate kinase; transferase(phosphotransferase);	85.93
2fg5_A	192	RAB-22B, RAS-related protein RAB-31; G-protein, GT	85.89
1hqc_A	324	RUVB; extended AAA-ATPase domain, complex with nuc	85.88
3llu_A	196	RAS-related GTP-binding protein C; structural geno	85.86
1um8_A	376	ATP-dependent CLP protease ATP-binding subunit CL;	85.8
1qf9_A	194	UMP/CMP kinase, protein (uridylmonophosphate/cytid	85.78
3te6_A	318	Regulatory protein SIR3; heterochromatin, gene sil	85.75
1z6t_A	591	APAF-1, apoptotic protease activating factor 1; ca	85.74
1kag_A	173	SKI, shikimate kinase I; transferase, structural g	85.7
1vco_A	550	CTP synthetase; tetramer, riken structural genomic	85.67
1d2n_A	272	N-ethylmaleimide-sensitive fusion protein; hexamer	85.58
3be4_A	217	Adenylate kinase; malaria, cryptosporidium parvum	85.57
2atx_A	194	Small GTP binding protein TC10; GTPase, P-loop, al	85.55
1ojl_A	304	Transcriptional regulatory protein ZRAR; response	85.55
1aky_A	220	Adenylate kinase; ATP:AMP phosphotransferase, myok	85.54
1lv7_A	257	FTSH; alpha/beta domain, four helix bundle, hydrol	85.54
2qtf_A	364	Protein HFLX, GTP-binding protein; beta-alpha-barr	85.51
1r2q_A	170	RAS-related protein RAB-5A; GTPase, GNP, atomic re	85.47
4b3f_X	646	DNA-binding protein smubp-2; hydrolase, helicase;	85.46
2if2_A	204	Dephospho-COA kinase; alpha-beta protein, structur	85.43
2atv_A	196	RERG, RAS-like estrogen-regulated growth inhibitor	85.4
1tf7_A	525	KAIC; homohexamer, hexamer, circadian clock protei	85.34
2orv_A	234	Thymidine kinase; TP4A (P1-(5'-adenosyl)P4-(5'- (2	85.24
2jeo_A	245	Uridine-cytidine kinase 1; UCK, transferase, ATP-b	85.23
2fv8_A	207	H6, RHO-related GTP-binding protein RHOB; GDP/GTP	85.14
1upt_A	171	ARL1, ADP-ribosylation factor-like protein 1; hydr	85.06
3crm_A	323	TRNA delta(2)-isopentenylpyrophosphate transferase	84.98
1kao_A	167	RAP2A; GTP-binding protein, small G protein, GDP,	84.96
3cb4_D	599	GTP-binding protein LEPA; GTPase, OB-fold, membran	84.91
1knq_A	175	Gluconate kinase; ALFA/beta structure, transferase	84.9
1zd9_A	188	ADP-ribosylation factor-like 10B; transport protei	84.9
2vli_A	183	Antibiotic resistance protein; transferase, tunica	84.89
4ehx_A	315	Tetraacyldisaccharide 4'-kinase; membrane protein,	84.81
3aez_A	312	Pantothenate kinase; transferase, homodimer, COA b	84.8
3dl0_A	216	Adenylate kinase; phosphotransferase, zinc coordin	84.71
1jwy_B	315	Dynamin A GTPase domain; dynamin, GTPase, GDP, myo	84.62
2qpt_A	550	EH domain-containing protein-2; protein-nucleotide	84.62
1qvr_A	854	CLPB protein; coiled coil, AAA ATPase, chaperone;	84.59
3iby_A	256	Ferrous iron transport protein B; G protein, G dom	84.56
3asz_A	211	Uridine kinase; cytidine phosphorylation, transfer	84.53
2qor_A	204	Guanylate kinase; phosphotransferase, purine metab	84.44
2gco_A	201	H9, RHO-related GTP-binding protein RHOC; GTPase,s	84.38
1ak2_A	233	Adenylate kinase isoenzyme-2; nucleoside monophosp	84.05
1zak_A	222	Adenylate kinase; ATP:AMP-phosphotransferase, tran	84.04
4dsu_A	189	GTPase KRAS, isoform 2B; small G-protein, signalin	84.01
1ksh_A	186	ARF-like protein 2; small GTPase, small GTP-bindin	84.01
1ukz_A	203	Uridylate kinase; transferase; HET: ADP AMP; 1.90A	83.94
1zd8_A	227	GTP:AMP phosphotransferase mitochondrial; ATP:AMP	83.89
1ex7_A	186	Guanylate kinase; substrate-induced FIT, domain mo	83.79
2f6r_A	281	COA synthase, bifunctional coenzyme A synthase; 18	83.64
4eun_A	200	Thermoresistant glucokinase; putative sugar kinase	83.57
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	83.57
2eyu_A	261	Twitching motility protein PILT; pilus retraction	83.5
1bif_A	469	6-phosphofructo-2-kinase/ fructose-2,6-bisphospha;	83.33
3u61_B	324	DNA polymerase accessory protein 44; AAA+, ATP hyd	83.14
3d8b_A	357	Fidgetin-like protein 1; AAA+, ATPase, ADP, SGC, s	83.09
2qp9_X	355	Vacuolar protein sorting-associated protein 4; ATP	83.02
3tqf_A	181	HPR(Ser) kinase; transferase, hydrolase; 2.80A {Co	83.0
3b9p_A	297	CG5977-PA, isoform A; AAA ATPase, ATP-binding, nuc	82.98
3eie_A	322	Vacuolar protein sorting-associated protein 4; AAA	82.98
3pqc_A	195	Probable GTP-binding protein ENGB; rossmann fold,	82.93
3hws_A	363	ATP-dependent CLP protease ATP-binding subunit CL;	82.9
3pxg_A	468	Negative regulator of genetic competence CLPC/MEC;	82.89
2r62_A	268	Cell division protease FTSH homolog; ATPase domain	82.85
1sxj_B	323	Activator 1 37 kDa subunit; clamp loader, processi	82.61
1iqp_A	327	RFCS; clamp loader, extended AAA-ATPase domain, co	82.58
3tlx_A	243	Adenylate kinase 2; structural genomics, structura	82.53
3cr8_A	552	Sulfate adenylyltranferase, adenylylsulfate kinase	82.49
1xwi_A	322	SKD1 protein; VPS4B, AAA ATPase, protein transport	82.35
1ltq_A	301	Polynucleotide kinase; phosphatase, alpha/beta, P-	82.32
3pxi_A	758	Negative regulator of genetic competence CLPC/MEC;	82.17
3q72_A	166	GTP-binding protein RAD; G-domain, CAV2 beta, sign	82.16
2hup_A	201	RAS-related protein RAB-43; G-protein, GDP, struct	82.05
2iwr_A	178	Centaurin gamma 1; ANK repeat, zinc-finger, GTP-bi	82.04
1kgd_A	180	CASK, peripheral plasma membrane CASK; maguk, guan	82.04
2yc2_C	208	IFT27, small RAB-related GTPase; transport protein	81.91
2bov_A	206	RAla, RAS-related protein RAL-A; C3BOT, exoenzyme,	81.89
1uf9_A	203	TT1252 protein; P-loop, nucleotide binding domain,	81.88
2gk6_A	624	Regulator of nonsense transcripts 1; UPF1, helicas	81.75
2grj_A	192	Dephospho-COA kinase; TM1387, EC 2.7.1.24, dephosp	81.58
3t5g_A	181	GTP-binding protein RHEB; immunoglobulin-like beta	81.54
3cf0_A	301	Transitional endoplasmic reticulum ATPase; AAA, P9	81.52
2fu5_C	183	RAS-related protein RAB-8A; MSS4:RAB8 protein comp	81.39
3qq5_A	423	Small GTP-binding protein; hydrogenase, H-cluster,	81.33
2r2a_A	199	Uncharacterized protein; zonular occludens toxin,	81.01
1cke_A	227	CK, MSSA, protein (cytidine monophosphate kinase);	80.92
3ake_A	208	Cytidylate kinase; CMP kinase, CMP complex, open c	80.81
1e9r_A	437	Conjugal transfer protein TRWB; coupling protein,	80.69
2aka_B	299	Dynamin-1; fusion protein, GTPase domain, myosin,	80.14
1svi_A	195	GTP-binding protein YSXC; ENGB, GTPase, GDP, hydro	80.12

>2ph1_A Nucleotide-binding protein; alpha-beta protein, structural genomics, PSI-2, protein STRU initiative; 2.70A {Archaeoglobus fulgidus dsm 4304} PDB: 3kb1_A*

Probab=100.00  E-value=2.8e-33  Score=232.73  Aligned_cols=218  Identities=33%  Similarity=0.584  Sum_probs=160.9

Q ss_pred             CcccCCCCCcHHHHHHHHHHHHHhcCCCCeEEEEecCCCCCCcccccCCCCCCCCCcCCccccc--cccCceeecCCCCc
Q psy14655          1 MIASSKGGVGKSTTTVNLATAMKICYPDKEIGILDADVFGPSIPILMNLPDTPLLNKDNLMIPL--VNYGVKCLSMGNLI   78 (261)
Q Consensus         1 ~v~s~KGGvGKTT~a~~lA~~la~~g~~~~VllvD~D~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~l~~~~~~~~~   78 (261)
                      +|+|+|||+||||+|+|||.+||++|  +|||+||+|+|++++..+++......+.....+.+.  ..++++++|++...
T Consensus        22 ~v~s~kGGvGKTT~a~nLA~~la~~G--~~VlliD~D~~~~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~l~vlp~~~~~   99 (262)
T 2ph1_A           22 AVMSGKGGVGKSTVTALLAVHYARQG--KKVGILDADFLGPSIPILFGLRNARIAVSAEGLEPVLTQKYGIKVMSMQFLL   99 (262)
T ss_dssp             EEECSSSCTTHHHHHHHHHHHHHHTT--CCEEEEECCSSCCHHHHHTTCCSCCCEEETTEEECEECTTTCCEEECGGGGS
T ss_pred             EEEcCCCCCCHHHHHHHHHHHHHHCC--CeEEEEeCCCCCCCHHHHhcCCCccccccccCccccccCCCCeEEEeccccC
Confidence            47899999999999999999999999  999999999999888888888754322222222222  45688999987654


Q ss_pred             ccch-hhhhhchHHHHHHHHHHHHhccCCCCEEEEeCCCCCChhHHHHhhhcCCCeEEEEeCCCcchHHHHHHHHHHHHh
Q psy14655         79 TEKS-AAIWRGLMVMQALNKLTVQVQWGPCDILFIDTPPGTGDTHLSLIQNLFIDTAIIITIPDTMSLQVAQRGYTMFKK  157 (261)
Q Consensus        79 ~~~~-~~~~~~~~~~~~l~~~l~~l~~~~yd~IiiD~~~~~~~~~~~~~~~~~ad~viiv~~~~~~s~~~~~~~~~~l~~  157 (261)
                      .... ...+........++++++.++.++||||||||||+.+...........+|.+|+|+.|+..++.++.++++.+++
T Consensus       100 ~~~~~~~~~~~~~~~~~l~~~l~~l~~~~yD~ViID~pp~~~~~~~~~~~~~~aD~viiv~~~~~~s~~~~~~~~~~l~~  179 (262)
T 2ph1_A          100 PKENTPVIWRGPLIAGMIREFLGRVAWGELDHLLIDLPPGTGDAPLTVMQDAKPTGVVVVSTPQELTAVIVEKAINMAEE  179 (262)
T ss_dssp             TTCSSCCCCCSHHHHHHHHHHHHSBCCCSCSEEEEECCSSSSSHHHHHHHHHCCSEEEEEECSSSCCHHHHHHHHHHHHT
T ss_pred             CCcccchhhcCchHHHHHHHHHHHhhccCCCEEEEECcCCCchHHHHHHhhccCCeEEEEecCccchHHHHHHHHHHHHh
Confidence            3211 111122334566778887775468999999999999865443333223999999999999999999999999999


Q ss_pred             CCCCeEEEEEcCCCCCCCCCCccccccc-chhHHHHHhhhhhhhhhhhhcccccccccCcchhhhhhhccccCCCCCCCC
Q psy14655        158 LNIPVAGLVMNMNSVLCPSCNHMFELYE-NNLHQFEAKNFLKSYERKLYGIHMWNFLIPLCNLIIKIRNVAYGNSHGHGN  236 (261)
Q Consensus       158 ~~~~~~giv~N~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~g~~~~~~~ip~~~~~~~~~~~~~~~a~~~g~  236 (261)
                      .+.+.+|+|+|+++..++.+..+..++. .....+.+          .+|.+++. .||        ++..+.+|...|+
T Consensus       180 ~~~~~~gvV~N~~~~~~~~~~~~~~~~~~~~~~~~~~----------~~g~~~~~-~Ip--------~~~~~~~a~~~g~  240 (262)
T 2ph1_A          180 TNTSVLGLVENMSYFVCPNCGHKSYIFGEGKGESLAK----------KYNIGFFT-SIP--------IEEELIKLADSGR  240 (262)
T ss_dssp             TTCCEEEEEETTCCEECTTTCCEECTTCCCCHHHHHH----------HTTCSEEE-ECC--------BCHHHHHHHHTTC
T ss_pred             CCCCEEEEEECCCccCCcccccccccccccHHHHHHH----------HcCCCeEE-Eee--------CchHHHHhccCCc
Confidence            8999999999998876665555555543 22223222          25666555 699        8889999999999


Q ss_pred             cch
Q psy14655        237 TVH  239 (261)
Q Consensus       237 ~v~  239 (261)
                      |++
T Consensus       241 ~~~  243 (262)
T 2ph1_A          241 IEE  243 (262)
T ss_dssp             GGG
T ss_pred             eee
Confidence            986

>1wcv_1 SOJ, segregation protein; ATPase, bacterial, chromosome segregation; 1.6A {Thermus thermophilus} PDB: 2bej_A* 2bek_A*

Probab=99.97  E-value=7.1e-32  Score=223.60  Aligned_cols=209  Identities=20%  Similarity=0.278  Sum_probs=149.2

Q ss_pred             CcccCCCCCcHHHHHHHHHHHHHhcCCCCeEEEEecCCCCCCcccccCCCCCCCC-------CcCCccccccccCceeec
Q psy14655          1 MIASSKGGVGKSTTTVNLATAMKICYPDKEIGILDADVFGPSIPILMNLPDTPLL-------NKDNLMIPLVNYGVKCLS   73 (261)
Q Consensus         1 ~v~s~KGGvGKTT~a~~lA~~la~~g~~~~VllvD~D~~~~~~~~~~~~~~~~~~-------~~~~~~~~~~~~~l~~~~   73 (261)
                      +|+|+|||+||||+|+|||.+||++|  +|||+||+|+|+ ++..+++.+...++       ...+.+.+  .++++++|
T Consensus        10 ~v~s~kGGvGKTt~a~~LA~~la~~g--~~VlliD~D~~~-~~~~~l~~~~~~~l~~~l~~~~~~~~i~~--~~~l~vlp   84 (257)
T 1wcv_1           10 ALANQKGGVGKTTTAINLAAYLARLG--KRVLLVDLDPQG-NATSGLGVRAERGVYHLLQGEPLEGLVHP--VDGFHLLP   84 (257)
T ss_dssp             EECCSSCCHHHHHHHHHHHHHHHHTT--CCEEEEECCTTC-HHHHHTTCCCSCCHHHHHTTCCGGGTCEE--ETTEEEEC
T ss_pred             EEEeCCCCchHHHHHHHHHHHHHHCC--CCEEEEECCCCc-CHHHHhCCCCCCCHHHHHcCCCHHHHccc--cCCEEEEe
Confidence            47899999999999999999999999  999999999996 56778887653322       11122222  56899999


Q ss_pred             CCCCcccchhhhhhchHHHHHHHHHHHHhccCCCCEEEEeCCCCCChhHHHHhhhcCCCeEEEEeCCCcchHHHHHHHHH
Q psy14655         74 MGNLITEKSAAIWRGLMVMQALNKLTVQVQWGPCDILFIDTPPGTGDTHLSLIQNLFIDTAIIITIPDTMSLQVAQRGYT  153 (261)
Q Consensus        74 ~~~~~~~~~~~~~~~~~~~~~l~~~l~~l~~~~yd~IiiD~~~~~~~~~~~~~~~~~ad~viiv~~~~~~s~~~~~~~~~  153 (261)
                      ++..............   ..+.+.++.   .+||||||||||+.+.....++..  ||.+|+|+.|+..++.++.++++
T Consensus        85 ~~~~~~~~~~~l~~~~---~~l~~~l~~---~~yD~iiiD~pp~~~~~~~~~l~~--aD~viiv~~~~~~s~~~~~~~~~  156 (257)
T 1wcv_1           85 ATPDLVGATVELAGAP---TALREALRD---EGYDLVLLDAPPSLSPLTLNALAA--AEGVVVPVQAEYYALEGVAGLLA  156 (257)
T ss_dssp             CCTTHHHHHHHHTTCT---THHHHHCCC---TTCSEEEEECCSSCCHHHHHHHHH--CSEEEEEEESSTHHHHHHHHHHH
T ss_pred             CChhHHHHHHHHhhHH---HHHHHHhcc---cCCCEEEEeCCCCCCHHHHHHHHH--CCeEEEEecCchHHHHHHHHHHH
Confidence            8765432111111100   334554443   589999999999998887777776  99999999999999999988887


Q ss_pred             HHHh------CCCCeEEEEEcCCCCCCCCCCcccccccchhHHHHHhhhhhhhhhhhhcccccccccCcchhhhhhhccc
Q psy14655        154 MFKK------LNIPVAGLVMNMNSVLCPSCNHMFELYENNLHQFEAKNFLKSYERKLYGIHMWNFLIPLCNLIIKIRNVA  227 (261)
Q Consensus       154 ~l~~------~~~~~~giv~N~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~ip~~~~~~~~~~~~  227 (261)
                      .++.      .+.+.+|+|+|+++.       +...    ....      .+...+.+|.+++.+.||        ++..
T Consensus       157 ~l~~~~~~~~~~~~~~gvv~N~~~~-------~~~~----~~~~------~~~l~~~~~~~~~~~~Ip--------~~~~  211 (257)
T 1wcv_1          157 TLEEVRAGLNPRLRLLGILVTMYDG-------RTLL----AQQV------EAQLRAHFGEKVFWTVIP--------RNVR  211 (257)
T ss_dssp             HHHHHHHHTCTTCEEEEEEEESBCT-------TCSH----HHHH------HHHHHHHHGGGBCSCCCB--------CCHH
T ss_pred             HHHHHHHHhCCCceEEEEEEEeECC-------CcHH----HHHH------HHHHHHHccccccCccCC--------CcHH
Confidence            7764      245667999999542       1111    1111      112234467777777899        8889


Q ss_pred             cCCCCCCCCcchhhhhhhhc
Q psy14655        228 YGNSHGHGNTVHHHHVLNLI  247 (261)
Q Consensus       228 ~~~a~~~g~~v~~~~~~~~~  247 (261)
                      +.+|...|+|++++.+.+.+
T Consensus       212 ~~~a~~~g~~v~~~~~~~~~  231 (257)
T 1wcv_1          212 LAEAPSFGKTIAQHAPTSPG  231 (257)
T ss_dssp             HHHHHHHTCCHHHHCTTSHH
T ss_pred             HHHHHHcCCCHHHhCCCChH
Confidence            99999999999987665443

>3ea0_A ATPase, para family; alpha-beta-alpha sandwich, structural genomics, PSI-2, prote structure initiative; HET: ATP; 2.20A {Chlorobium tepidum}

Probab=99.97  E-value=7.2e-32  Score=221.64  Aligned_cols=210  Identities=16%  Similarity=0.174  Sum_probs=157.3

Q ss_pred             CcccCCCCCcHHHHHHHHHHHHHhc-CCCCeEEEEecCCCCCCcccccC-CCCCCCCCc--------C----Cccccccc
Q psy14655          1 MIASSKGGVGKSTTTVNLATAMKIC-YPDKEIGILDADVFGPSIPILMN-LPDTPLLNK--------D----NLMIPLVN   66 (261)
Q Consensus         1 ~v~s~KGGvGKTT~a~~lA~~la~~-g~~~~VllvD~D~~~~~~~~~~~-~~~~~~~~~--------~----~~~~~~~~   66 (261)
                      +|+|+|||+||||+|+|||.+||++ |  +|||+||+|+|.+++..+|+ .+...++.+        .    ..+.....
T Consensus         8 ~v~s~kGGvGKTt~a~~LA~~la~~~g--~~VlliD~D~~~~~l~~~~~~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~~   85 (245)
T 3ea0_A            8 GFVSAKGGDGGSCIAANFAFALSQEPD--IHVLAVDISLPFGDLDMYLSGNTHSQDLADISNASDRLDKSLLDTMVQHIS   85 (245)
T ss_dssp             EEEESSTTSSHHHHHHHHHHHHTTSTT--CCEEEEECCTTTCCGGGGTCSSCCSCCHHHHHHTGGGCCHHHHHHHSEEEE
T ss_pred             EEECCCCCcchHHHHHHHHHHHHhCcC--CCEEEEECCCCCCCHHHHhCCCCCCCCHHHHHhhHhhhhHHHHHHHhEecC
Confidence            4789999999999999999999998 9  99999999999778888884 443332211        0    01122335


Q ss_pred             cCceeecCCCCcccchhhhhhchHHHHHHHHHHHHhccCCCCEEEEeCCCCCChhHHHHhhhcCCCeEEEEeCCCcchHH
Q psy14655         67 YGVKCLSMGNLITEKSAAIWRGLMVMQALNKLTVQVQWGPCDILFIDTPPGTGDTHLSLIQNLFIDTAIIITIPDTMSLQ  146 (261)
Q Consensus        67 ~~l~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~l~~~~yd~IiiD~~~~~~~~~~~~~~~~~ad~viiv~~~~~~s~~  146 (261)
                      ++++++|.+........      .....+.++++.++ ++||||||||||+.+.....++..  ||.+++|+.|+..++.
T Consensus        86 ~~l~~l~~~~~~~~~~~------~~~~~l~~~l~~l~-~~yD~viiD~p~~~~~~~~~~l~~--ad~viiv~~~~~~~~~  156 (245)
T 3ea0_A           86 PSLDLIPSPATFEKIVN------IEPERVSDLIHIAA-SFYDYIIVDFGASIDHVGVWVLEH--LDELCIVTTPSLQSLR  156 (245)
T ss_dssp             TTEEEECCCSSHHHHHH------CCHHHHHHHHHHHH-HHCSEEEEEEESSCCTTHHHHGGG--CSEEEEEECSSHHHHH
T ss_pred             CCeEEEcCCCChHhhhc------CCHHHHHHHHHHHH-hhCCEEEEeCCCCCchHHHHHHHH--CCEEEEEecCcHHHHH
Confidence            78999998665432211      12346888888888 899999999999998888778777  9999999999999999


Q ss_pred             HHHHHHHHHHhCC--CCeEEEEEcCCCCCCCCCCcccccccchhHHHHHhhhhhhhhhhhhcccccccccCcchhhhhhh
Q psy14655        147 VAQRGYTMFKKLN--IPVAGLVMNMNSVLCPSCNHMFELYENNLHQFEAKNFLKSYERKLYGIHMWNFLIPLCNLIIKIR  224 (261)
Q Consensus       147 ~~~~~~~~l~~~~--~~~~giv~N~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~ip~~~~~~~~~  224 (261)
                      .+.++++.++..+  ...+++|+||++..       ....   .+          ...+.+|.+++.+ ||        +
T Consensus       157 ~~~~~~~~l~~~~~~~~~~~~v~N~~~~~-------~~~~---~~----------~~~~~~~~~v~~~-ip--------~  207 (245)
T 3ea0_A          157 RAGQLLKLCKEFEKPISRIEIILNRADTN-------SRIT---SD----------EIEKVIGRPISKR-IP--------Q  207 (245)
T ss_dssp             HHHHHHHHHHTCSSCCSCEEEEEESTTSC-------TTSC---HH----------HHHHHHTSCEEEE-EC--------C
T ss_pred             HHHHHHHHHHHhCCCccceEEEEecCCCC-------CCCC---HH----------HHHHHhCCCeEEE-CC--------C
Confidence            9999999999876  56799999996531       1111   11          1233467777765 66        5


Q ss_pred             c-cccCCCCCCCCcchhhhhhhhcccc
Q psy14655        225 N-VAYGNSHGHGNTVHHHHVLNLIGEE  250 (261)
Q Consensus       225 ~-~~~~~a~~~g~~v~~~~~~~~~~~~  250 (261)
                      + ..+.+|...|+|++++.+.+.++..
T Consensus       208 ~~~~~~~a~~~g~~v~~~~~~s~~~~~  234 (245)
T 3ea0_A          208 DEDAMQESLLSGQSVLKVAPKSQLSKT  234 (245)
T ss_dssp             CHHHHHHHHHHTSCHHHHCTTSHHHHH
T ss_pred             ChHHHHHHHHcCCCccccCCCCHHHHH
Confidence            5 5888999999999988766555444

>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=99.97  E-value=5.4e-31  Score=217.03  Aligned_cols=201  Identities=17%  Similarity=0.137  Sum_probs=147.4

Q ss_pred             cCCCCCcHHHHHHHHHHHHHhcCCCCeEEEEecCCCCCCcccccCCCCCCC--CC----cCCccc---------------
Q psy14655          4 SSKGGVGKSTTTVNLATAMKICYPDKEIGILDADVFGPSIPILMNLPDTPL--LN----KDNLMI---------------   62 (261)
Q Consensus         4 s~KGGvGKTT~a~~lA~~la~~g~~~~VllvD~D~~~~~~~~~~~~~~~~~--~~----~~~~~~---------------   62 (261)
                      |+|||+||||+|+|||..||++|  +|||+||+|+| ++++.+|+......  +.    ..+.+.               
T Consensus         6 s~kGGvGKTt~a~~LA~~la~~g--~~VlliD~D~~-~~l~~~lg~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l   82 (254)
T 3kjh_A            6 AGKGGVGKTTVAAGLIKIMASDY--DKIYAVDGDPD-SCLGQTLGLSIEEAYAITPLIEMKDEIREKTGDGGLLILNPKV   82 (254)
T ss_dssp             ECSSSHHHHHHHHHHHHHHTTTC--SCEEEEEECTT-SCHHHHTTCCHHHHHTSCCGGGCHHHHHHHHCSSSCCCSSCCC
T ss_pred             ecCCCCCHHHHHHHHHHHHHHCC--CeEEEEeCCCC-cChHHHhCCCcccccccccchhHHHHHHhhccCCcccccCCch
Confidence            88999999999999999999999  99999999998 68888898764321  00    000000               


Q ss_pred             -------cccccCcee-ecCCCCcccchhhhhhchHHHHHHHHHHHHh-ccCCCCEEEEeCCCCCChhHHHHhhhcCCCe
Q psy14655         63 -------PLVNYGVKC-LSMGNLITEKSAAIWRGLMVMQALNKLTVQV-QWGPCDILFIDTPPGTGDTHLSLIQNLFIDT  133 (261)
Q Consensus        63 -------~~~~~~l~~-~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~l-~~~~yd~IiiD~~~~~~~~~~~~~~~~~ad~  133 (261)
                             .....++++ ++.+..........   ......++++++.+ + ++||||||||||+.+.....++..  ||.
T Consensus        83 ~~i~~~~~~~~~~~~~~l~~~~~~~~~~~~~---~~~~~~l~~~l~~l~~-~~yD~viiD~pp~~~~~~~~~l~~--aD~  156 (254)
T 3kjh_A           83 DGDLDKYGRYIDDKIFLIRMGEIKKGGSQCY---CRENSFLGSVVSALFL-DKKEAVVMDMGAGIEHLTRGTAKA--VDM  156 (254)
T ss_dssp             TTSGGGSSEESSSSEEEEECCCCCCCCSSCC---HHHHHHHHHHHHHHHH-TCCSEEEEEECTTCTTCCHHHHTT--CSE
T ss_pred             hccHHhcccccCCeEEEEEecccccCCCCCC---cchHHHHHHHHHHhcc-CCCCEEEEeCCCcccHHHHHHHHH--CCE
Confidence                   012234555 55444322211111   11224588888888 7 899999999999998877777776  999


Q ss_pred             EEEEeCCCcchHHHHHHHHHHHHhCCCCeEEEEEcCCCCCCCCCCcccccccchhHHHHHhhhhhhhhhhhhcccccccc
Q psy14655        134 AIIITIPDTMSLQVAQRGYTMFKKLNIPVAGLVMNMNSVLCPSCNHMFELYENNLHQFEAKNFLKSYERKLYGIHMWNFL  213 (261)
Q Consensus       134 viiv~~~~~~s~~~~~~~~~~l~~~~~~~~giv~N~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~  213 (261)
                      +++|+.|+..++..+.++.+.+.+.+.+.+++|+|+++.              .  ...+      ...+.++...+.+.
T Consensus       157 viiv~~~~~~s~~~~~~~~~~~~~~~~~~~~~v~N~~~~--------------~--~~~~------~~~~~~~~~~~~~~  214 (254)
T 3kjh_A          157 MIAVIEPNLNSIKTGLNIEKLAGDLGIKKVRYVINKVRN--------------I--KEEK------LIKKHLPEDKILGI  214 (254)
T ss_dssp             EEEEECSSHHHHHHHHHHHHHHHHHTCSCEEEEEEEECC--------------H--HHHH------HHHHHSCGGGEEEE
T ss_pred             EEEecCCCHHHHHHHHHHHHHHHHcCCccEEEEEeCCCC--------------h--hHHH------HHHHHhcCCccccc
Confidence            999999999999999999998888888889999998441              0  1111      12233554555677


Q ss_pred             cCcchhhhhhhccccCCCCCCCCcchhhhh
Q psy14655        214 IPLCNLIIKIRNVAYGNSHGHGNTVHHHHV  243 (261)
Q Consensus       214 ip~~~~~~~~~~~~~~~a~~~g~~v~~~~~  243 (261)
                      ||        ++..+.+|...|++++++.+
T Consensus       215 Ip--------~~~~~~~a~~~g~~~~~~~~  236 (254)
T 3kjh_A          215 IP--------YNELFIELSLKGEEIWQSTN  236 (254)
T ss_dssp             EE--------CCHHHHSCSSSSCCTTSTTS
T ss_pred             cc--------CcHHHHHHHhCCCccccCCc
Confidence            99        99999999999999998764

>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=99.97  E-value=2.5e-30  Score=211.53  Aligned_cols=209  Identities=19%  Similarity=0.197  Sum_probs=154.6

Q ss_pred             CcccCCCCCcHHHHHHHHHHHHHhcCCCCeEEEEecCCCCCCcccccCCCCC-CCCC--------cCCccccccccCcee
Q psy14655          1 MIASSKGGVGKSTTTVNLATAMKICYPDKEIGILDADVFGPSIPILMNLPDT-PLLN--------KDNLMIPLVNYGVKC   71 (261)
Q Consensus         1 ~v~s~KGGvGKTT~a~~lA~~la~~g~~~~VllvD~D~~~~~~~~~~~~~~~-~~~~--------~~~~~~~~~~~~l~~   71 (261)
                      +|+|+|||+||||+|+|||.+||++|  +||++||+|+++++++.+|+.+.. .++.        ..+.+.+...+++++
T Consensus         6 ~v~s~kgGvGKTt~a~~LA~~la~~g--~~VlliD~D~~~~~l~~~~~~~~~~~~l~~~l~~~~~~~~~i~~~~~~~l~~   83 (237)
T 1g3q_A            6 SIVSGKGGTGKTTVTANLSVALGDRG--RKVLAVDGDLTMANLSLVLGVDDPDVTLHDVLAGEANVEDAIYMTQFDNVYV   83 (237)
T ss_dssp             EEECSSTTSSHHHHHHHHHHHHHHTT--CCEEEEECCTTSCCHHHHTTCCCCSSCHHHHHTTSSCGGGGCEECSSTTEEE
T ss_pred             EEecCCCCCCHHHHHHHHHHHHHhcC--CeEEEEeCCCCCCChhHhcCCCCCCCCHHHHhcCCCCHHHHhhcCCCCCEEE
Confidence            47899999999999999999999999  999999999988888888988764 2221        112222222378899


Q ss_pred             ecCCCCcccchhhhhhchHHHHHHHHHHHHhccCCCCEEEEeCCCCCChhHHHHhhhcCCCeEEEEeCCCcchHHHHHHH
Q psy14655         72 LSMGNLITEKSAAIWRGLMVMQALNKLTVQVQWGPCDILFIDTPPGTGDTHLSLIQNLFIDTAIIITIPDTMSLQVAQRG  151 (261)
Q Consensus        72 ~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~l~~~~yd~IiiD~~~~~~~~~~~~~~~~~ad~viiv~~~~~~s~~~~~~~  151 (261)
                      +|..... .....  .   ....+.++++.++ .+||||||||||+.+.....++..  +|.+++|+.|+..++.++.++
T Consensus        84 lp~~~~~-~~~~~--~---~~~~l~~~l~~l~-~~yD~viiD~~~~~~~~~~~~~~~--ad~vi~v~~~~~~~~~~~~~~  154 (237)
T 1g3q_A           84 LPGAVDW-EHVLK--A---DPRKLPEVIKSLK-DKFDFILIDCPAGLQLDAMSAMLS--GEEALLVTNPEISCLTDTMKV  154 (237)
T ss_dssp             ECCCCSH-HHHHH--C---CGGGHHHHHHTTG-GGCSEEEEECCSSSSHHHHHHHTT--CSEEEEEECSCHHHHHHHHHH
T ss_pred             EeCCCcc-chhhh--c---CHHHHHHHHHHHH-hcCCEEEEECCCCcCHHHHHHHHH--CCeEEEEecCCcccHHHHHHH
Confidence            9833221 11111  0   0345778888888 899999999999998877777776  999999999999999999999


Q ss_pred             HHHHHhCCCCeEEEEEcCCCCCCCCCCcccccccchhHHHHHhhhhhhhhhhhhcccccccccCcchhhhhhhccccCCC
Q psy14655        152 YTMFKKLNIPVAGLVMNMNSVLCPSCNHMFELYENNLHQFEAKNFLKSYERKLYGIHMWNFLIPLCNLIIKIRNVAYGNS  231 (261)
Q Consensus       152 ~~~l~~~~~~~~giv~N~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~ip~~~~~~~~~~~~~~~a  231 (261)
                      ++.+++.+.+.+++|+|+++....       .  .....+          .+.+|.+++ ..||        ++..+.+|
T Consensus       155 ~~~l~~~~~~~~~vv~N~~~~~~~-------~--~~~~~~----------~~~~~~~~~-~~Ip--------~~~~~~~a  206 (237)
T 1g3q_A          155 GIVLKKAGLAILGFVLNRYGRSDR-------D--IPPEAA----------EDVMEVPLL-AVIP--------EDPAIREG  206 (237)
T ss_dssp             HHHHHHTTCEEEEEEEEEETSCTT-------C--CCHHHH----------HHHHCSCEE-EEEE--------CCHHHHHH
T ss_pred             HHHHHhCCCceEEEEEecCCcccc-------h--hHHHHH----------HHHhCccce-eeCC--------CChHHHHH
Confidence            999998888899999999653110       0  111111          122565554 4689        88889999


Q ss_pred             CCCCCcchhhhhhhhcc
Q psy14655        232 HGHGNTVHHHHVLNLIG  248 (261)
Q Consensus       232 ~~~g~~v~~~~~~~~~~  248 (261)
                      ...|+|++++.+.+.++
T Consensus       207 ~~~g~~v~~~~~~~~~~  223 (237)
T 1g3q_A          207 TLEGIPAVKYKPESKGA  223 (237)
T ss_dssp             HHHTSCHHHHSTTSHHH
T ss_pred             HHcCCCeEEeCCCCHHH
Confidence            99999999886554433

>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=99.97  E-value=4.3e-30  Score=205.57  Aligned_cols=183  Identities=16%  Similarity=0.163  Sum_probs=142.1

Q ss_pred             CcccCCCCCcHHHHHHHHHHHHHhcCCCCeEEEEecCCCCCCcccccCCCCCCCCCcCCccccccccCceeecCCCCccc
Q psy14655          1 MIASSKGGVGKSTTTVNLATAMKICYPDKEIGILDADVFGPSIPILMNLPDTPLLNKDNLMIPLVNYGVKCLSMGNLITE   80 (261)
Q Consensus         1 ~v~s~KGGvGKTT~a~~lA~~la~~g~~~~VllvD~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~   80 (261)
                      +|+|+|||+||||+|.|||..|+++|  +||++||+|+|++ +..+++...               .++++++.+.    
T Consensus         5 ~v~s~kgG~GKTt~a~~la~~la~~g--~~vlliD~D~~~~-~~~~~~~~~---------------~~~~~~~~~~----   62 (206)
T 4dzz_A            5 SFLNPKGGSGKTTAVINIATALSRSG--YNIAVVDTDPQMS-LTNWSKAGK---------------AAFDVFTAAS----   62 (206)
T ss_dssp             EECCSSTTSSHHHHHHHHHHHHHHTT--CCEEEEECCTTCH-HHHHHTTSC---------------CSSEEEECCS----
T ss_pred             EEEeCCCCccHHHHHHHHHHHHHHCC--CeEEEEECCCCCC-HHHHHhcCC---------------CCCcEEecCc----
Confidence            47899999999999999999999999  9999999999975 455554322               2366666542    


Q ss_pred             chhhhhhchHHHHHHHHHHHHhccCCCCEEEEeCCCCCChhHHHHhhhcCCCeEEEEeCCCcchHHHHHHHHHHHHhCC-
Q psy14655         81 KSAAIWRGLMVMQALNKLTVQVQWGPCDILFIDTPPGTGDTHLSLIQNLFIDTAIIITIPDTMSLQVAQRGYTMFKKLN-  159 (261)
Q Consensus        81 ~~~~~~~~~~~~~~l~~~l~~l~~~~yd~IiiD~~~~~~~~~~~~~~~~~ad~viiv~~~~~~s~~~~~~~~~~l~~~~-  159 (261)
                                  ..+.+.++.++ ++||+|||||||+.+.....++..  +|.+++|+.|+..+ ..+.++++.+++.+ 
T Consensus        63 ------------~~l~~~l~~l~-~~yD~viiD~~~~~~~~~~~~l~~--ad~viiv~~~~~~~-~~~~~~~~~l~~~~~  126 (206)
T 4dzz_A           63 ------------EKDVYGIRKDL-ADYDFAIVDGAGSLSVITSAAVMV--SDLVIIPVTPSPLD-FSAAGSVVTVLEAQA  126 (206)
T ss_dssp             ------------HHHHHTHHHHT-TTSSEEEEECCSSSSHHHHHHHHH--CSEEEEEECSCTTT-HHHHHHHHHHHTTSC
T ss_pred             ------------HHHHHHHHHhc-CCCCEEEEECCCCCCHHHHHHHHH--CCEEEEEecCCHHH-HHHHHHHHHHHHHHH
Confidence                        35778888888 889999999999998888888877  99999999999999 99999999998764 


Q ss_pred             ----CCeEEEEEcCCCCCCCCCCcccccccchhHHHHHhhhhhhhhhhhhcccccccccCcchhhhhhhccccCCCCCCC
Q psy14655        160 ----IPVAGLVMNMNSVLCPSCNHMFELYENNLHQFEAKNFLKSYERKLYGIHMWNFLIPLCNLIIKIRNVAYGNSHGHG  235 (261)
Q Consensus       160 ----~~~~giv~N~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~ip~~~~~~~~~~~~~~~a~~~g  235 (261)
                          .+ +++|+|+++.       +.....    .      ..+..++ +|.+++.+.||        ++..+.+|...|
T Consensus       127 ~~~~~~-~~vv~N~~~~-------~~~~~~----~------~~~~l~~-~~~~vl~~~Ip--------~~~~~~~a~~~g  179 (206)
T 4dzz_A          127 YSRKVE-ARFLITRKIE-------MATMLN----V------LKESIKD-TGVKAFRTAIT--------QRQVYVKSILDG  179 (206)
T ss_dssp             GGGCCE-EEEEECSBCT-------TEEEEH----H------HHHHHHH-HTCCBCSSCCB--------CCHHHHHHHHTT
T ss_pred             hCCCCc-EEEEEeccCC-------CchHHH----H------HHHHHHH-cCCceeecccc--------ccHHHHHHHHcC
Confidence                33 5999999552       222211    1      1112222 57788878899        899999999999


Q ss_pred             Ccchhhhhhhhccc
Q psy14655        236 NTVHHHHVLNLIGE  249 (261)
Q Consensus       236 ~~v~~~~~~~~~~~  249 (261)
                      +|+++ .+.+.+..
T Consensus       180 ~~v~~-~~~s~~~~  192 (206)
T 4dzz_A          180 DSVFE-SSDGAAKG  192 (206)
T ss_dssp             CCGGG-SSCHHHHH
T ss_pred             CCccc-CCchHHHH
Confidence            99998 65554443

>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=99.96  E-value=1.8e-30  Score=215.13  Aligned_cols=208  Identities=17%  Similarity=0.192  Sum_probs=153.2

Q ss_pred             CcccCCCCCcHHHHHHHHHHHHHhcCCCCeEEEEecCCCCCCcccccCCCCCCCCCc----------CCccc-cccccCc
Q psy14655          1 MIASSKGGVGKSTTTVNLATAMKICYPDKEIGILDADVFGPSIPILMNLPDTPLLNK----------DNLMI-PLVNYGV   69 (261)
Q Consensus         1 ~v~s~KGGvGKTT~a~~lA~~la~~g~~~~VllvD~D~~~~~~~~~~~~~~~~~~~~----------~~~~~-~~~~~~l   69 (261)
                      +|+|+|||+||||+|+|||.+||++|  +||++||+|++++++..+++.+.......          .+.+. ....+++
T Consensus         6 ~v~s~kgGvGKTt~a~~LA~~la~~g--~~VlliD~D~~~~~~~~~lg~~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~l   83 (260)
T 3q9l_A            6 VVTSGKGGVGKTTSSAAIATGLAQKG--KKTVVIDFAIGLRNLDLIMGCERRVVYDFVNVIQGDATLNQALIKDKRTENL   83 (260)
T ss_dssp             EEECSSTTSSHHHHHHHHHHHHHHTT--CCEEEEECCCSSCCHHHHTTCGGGCCSCHHHHHTTSSCHHHHCEECSSSTTE
T ss_pred             EEECCCCCCcHHHHHHHHHHHHHhCC--CcEEEEECCCCCCChhHHhCCCCcccCCHHHHhcCCCChHHheeccCCCCCE
Confidence            47899999999999999999999999  99999999997788899998865422111          11111 1234689


Q ss_pred             eeecCCCCcccchhhhhhchHHHHHHHHHHHHhccC-CCCEEEEeCCCCCChhHHHHhhhcCCCeEEEEeCCCcchHHHH
Q psy14655         70 KCLSMGNLITEKSAAIWRGLMVMQALNKLTVQVQWG-PCDILFIDTPPGTGDTHLSLIQNLFIDTAIIITIPDTMSLQVA  148 (261)
Q Consensus        70 ~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~l~~~-~yd~IiiD~~~~~~~~~~~~~~~~~ad~viiv~~~~~~s~~~~  148 (261)
                      +++|++.....       .......+.++++.++ . +||||||||||+.+.....++..  ||.+++|+.|+..++..+
T Consensus        84 ~~lp~~~~~~~-------~~~~~~~~~~~l~~l~-~~~yD~viiD~p~~~~~~~~~~l~~--ad~vi~v~~~~~~s~~~~  153 (260)
T 3q9l_A           84 YILPASQTRDK-------DALTREGVAKVLDDLK-AMDFEFIVCDSPAGIETGALMALYF--ADEAIITTNPEVSSVRDS  153 (260)
T ss_dssp             EEECCCSCCCT-------TSSCHHHHHHHHHHHH-HTTCSEEEEECCSSSSHHHHHHHHT--CSEEEEEECSSHHHHHHH
T ss_pred             EEecCCCccch-------hhCCHHHHHHHHHHHh-ccCCCEEEEcCCCCCCHHHHHHHHh--CCEEEEEecCChhHHHHH
Confidence            99998765421       1122345788888888 7 99999999999999887777776  999999999999999999


Q ss_pred             HHHHHHHHhCCC--------CeEEEEEcCCCCCCCCCCcccccccchhHHHHHhhhhhhhhhhhhcccccccccCcchhh
Q psy14655        149 QRGYTMFKKLNI--------PVAGLVMNMNSVLCPSCNHMFELYENNLHQFEAKNFLKSYERKLYGIHMWNFLIPLCNLI  220 (261)
Q Consensus       149 ~~~~~~l~~~~~--------~~~giv~N~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~ip~~~~~  220 (261)
                      .++++.+...+.        ..+++|+|+++.       +.....+..        ..+...+.+|.+++ +.||     
T Consensus       154 ~~~~~~l~~~~~~~~~~~~~~~~~~v~N~~~~-------~~~~~~~~~--------~~~~~~~~~~~~~~-~~Ip-----  212 (260)
T 3q9l_A          154 DRILGILASKSRRAENGEEPIKEHLLLTRYNP-------GRVSRGDML--------SMEDVLEILRIKLV-GVIP-----  212 (260)
T ss_dssp             HHHHHHHTTSSHHHHTTCSCCEEEEEEEEECH-------HHHHTTSSC--------CHHHHHHHHCSEEE-EEEE-----
T ss_pred             HHHHHHHHHhccccccccCCcceEEEEecCCc-------ccccccccc--------CHHHHHHHhCCceE-EecC-----
Confidence            999999986542        478999999442       111111100        00112333576666 5799     


Q ss_pred             hhhhccccCCCCCCCCcchhhhhhh
Q psy14655        221 IKIRNVAYGNSHGHGNTVHHHHVLN  245 (261)
Q Consensus       221 ~~~~~~~~~~a~~~g~~v~~~~~~~  245 (261)
                         ++..+.+|...|+|+++ .+.+
T Consensus       213 ---~~~~~~~a~~~g~~v~~-~~~s  233 (260)
T 3q9l_A          213 ---EDQSVLRASNQGEPVIL-DINA  233 (260)
T ss_dssp             ---CCHHHHHHHHHTCCGGG-CTTC
T ss_pred             ---CChhHHHHHHcCCCeEE-CCCC
Confidence               88889999999999987 4443

>1hyq_A MIND, cell division inhibitor (MIND-1); MINC, FTSZ, bacterial cell division, cell cycle; 2.60A {Archaeoglobus fulgidus} SCOP: c.37.1.10

Probab=99.96  E-value=6.6e-30  Score=212.28  Aligned_cols=201  Identities=22%  Similarity=0.329  Sum_probs=151.0

Q ss_pred             CcccCCCCCcHHHHHHHHHHHHHhcCCCCeEEEEecCCCCCCcccccCCCCC-CCCCc--------CCccccccccCcee
Q psy14655          1 MIASSKGGVGKSTTTVNLATAMKICYPDKEIGILDADVFGPSIPILMNLPDT-PLLNK--------DNLMIPLVNYGVKC   71 (261)
Q Consensus         1 ~v~s~KGGvGKTT~a~~lA~~la~~g~~~~VllvD~D~~~~~~~~~~~~~~~-~~~~~--------~~~~~~~~~~~l~~   71 (261)
                      +|+|+|||+||||+|+|||.+|+++|  +||++||+|++.++++.+|+.+.. .++.+        .+.+.+ ...++++
T Consensus         6 ~v~s~kgGvGKTt~a~~LA~~la~~g--~~VlliD~D~~~~~l~~~l~~~~~~~~l~~~l~~~~~~~~~i~~-~~~~l~~   82 (263)
T 1hyq_A            6 TVASGKGGTGKTTITANLGVALAQLG--HDVTIVDADITMANLELILGMEGLPVTLQNVLAGEARIDEAIYV-GPGGVKV   82 (263)
T ss_dssp             EEEESSSCSCHHHHHHHHHHHHHHTT--CCEEEEECCCSSSSHHHHTTCCCCCCCHHHHHTTSSCGGGGCEE-CGGGCEE
T ss_pred             EEECCCCCCCHHHHHHHHHHHHHhCC--CcEEEEECCCCCCCcchhcCCCCCCCCHHHHHcCCCcHHHhhee-CCCCeEE
Confidence            47899999999999999999999999  999999999987888888988764 22211        111212 2468899


Q ss_pred             ecCCCCcccchhhhhhchHH-HHHHHHHHHHhccCCCCEEEEeCCCCCChhHHHHhhhcCCCeEEEEeCCCcchHHHHHH
Q psy14655         72 LSMGNLITEKSAAIWRGLMV-MQALNKLTVQVQWGPCDILFIDTPPGTGDTHLSLIQNLFIDTAIIITIPDTMSLQVAQR  150 (261)
Q Consensus        72 ~~~~~~~~~~~~~~~~~~~~-~~~l~~~l~~l~~~~yd~IiiD~~~~~~~~~~~~~~~~~ad~viiv~~~~~~s~~~~~~  150 (261)
                      +|..... ....      .. ...+.++++.++ .+|||||||+||+.+.....++..  +|.+|+|+.|+..++.++.+
T Consensus        83 lp~~~~~-~~~~------~~~~~~l~~~l~~l~-~~yD~viiD~~~~~~~~~~~~~~~--ad~vi~v~~~~~~~~~~~~~  152 (263)
T 1hyq_A           83 VPAGVSL-EGLR------KANPEKLEDVLTQIM-ESTDILLLDAPAGLERSAVIAIAA--AQELLLVVNPEISSITDGLK  152 (263)
T ss_dssp             EECCSCH-HHHH------HHCHHHHHHHHHHHH-HTCSEEEEECCSSSSHHHHHHHHH--SSEEEEEECSSHHHHHHHHH
T ss_pred             EcCCCCc-Chhh------ccChHHHHHHHHHHH-hhCCEEEEeCCCCCChHHHHHHHH--CCEEEEEeCCChhHHHHHHH
Confidence            9833221 1111      12 456788888888 899999999999999877777777  99999999999999999999


Q ss_pred             HHHHHHhCCCCeEEEEEcCCCCCCCCCCcccccccchhHHHHHhhhhhhhhhhhhcccccccccCcchhhhhhhccccCC
Q psy14655        151 GYTMFKKLNIPVAGLVMNMNSVLCPSCNHMFELYENNLHQFEAKNFLKSYERKLYGIHMWNFLIPLCNLIIKIRNVAYGN  230 (261)
Q Consensus       151 ~~~~l~~~~~~~~giv~N~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~ip~~~~~~~~~~~~~~~  230 (261)
                      +++.+.+.+.+.+++|+|+++..             ....     ..++. .+.+|.+++ ..||        ++..+.+
T Consensus       153 ~~~~l~~~~~~~~~vv~N~~~~~-------------~~~~-----~~~~~-~~~~~~~~~-~~Ip--------~~~~~~~  204 (263)
T 1hyq_A          153 TKIVAERLGTKVLGVVVNRITTL-------------GIEM-----AKNEI-EAILEAKVI-GLIP--------EDPEVRR  204 (263)
T ss_dssp             HHHHHHHHTCEEEEEEEEEECTT-------------THHH-----HHHHH-HHHTTSCEE-EEEE--------CCHHHHH
T ss_pred             HHHHHHhcCCCeeEEEEccCCcc-------------cccc-----hHHHH-HHHhCCCeE-EECC--------CCHHHHH
Confidence            99999887888999999995421             1100     11111 223566655 4689        8888899


Q ss_pred             CCCCCCcchhhh
Q psy14655        231 SHGHGNTVHHHH  242 (261)
Q Consensus       231 a~~~g~~v~~~~  242 (261)
                      |...|++++++.
T Consensus       205 a~~~g~~v~~~~  216 (263)
T 1hyq_A          205 AAAYGKPVVLRS  216 (263)
T ss_dssp             HHHHTSCHHHHC
T ss_pred             HHHcCCceEEcC
Confidence            999999998764

>3pg5_A Uncharacterized protein; structural genomics, PSI-biology, protein structure initiati northeast structural genomics consortium, NESG; 3.30A {Corynebacterium diphtheriae}

Probab=99.96  E-value=1.2e-29  Score=219.93  Aligned_cols=231  Identities=14%  Similarity=0.132  Sum_probs=130.5

Q ss_pred             CcccCCCCCcHHHHHHHHHHHHHhcCCCCeEEEEecCCCCCCcccccCCCCC-------------------CCCC-----
Q psy14655          1 MIASSKGGVGKSTTTVNLATAMKICYPDKEIGILDADVFGPSIPILMNLPDT-------------------PLLN-----   56 (261)
Q Consensus         1 ~v~s~KGGvGKTT~a~~lA~~la~~g~~~~VllvD~D~~~~~~~~~~~~~~~-------------------~~~~-----   56 (261)
                      +|+|+||||||||+|+|||..||+.|  +|||+||+|+|++.+..+++.+..                   .++.     
T Consensus         5 av~s~KGGvGKTT~a~nLA~~LA~~G--~rVLlID~D~q~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~l~d~l~~   82 (361)
T 3pg5_A            5 SFFNNKGGVGKTTLSTNVAHYFALQG--KRVLYVDCDPQCNATQLMLTEEQTESIYLDGLNDEVAERNSLAKTVYAIFVP   82 (361)
T ss_dssp             EBCCSSCCHHHHHHHHHHHHHHHHTT--CCEEEEECCTTCTTHHHHSCHHHHHHHCCC----CGGGGGHHHHSGGGGGHH
T ss_pred             EEEcCCCCCcHHHHHHHHHHHHHhCC--CcEEEEEcCCCCChhhhhcCchhhhhhhcccccccccccccccCCHHHHHHH
Confidence            48899999999999999999999999  999999999998776655542110                   1110     


Q ss_pred             -------cCC--ccccccccCceeecCCCCcccchhhhhhc-----------hHHHHHHHHHHHHhccC--CCCEEEEeC
Q psy14655         57 -------KDN--LMIPLVNYGVKCLSMGNLITEKSAAIWRG-----------LMVMQALNKLTVQVQWG--PCDILFIDT  114 (261)
Q Consensus        57 -------~~~--~~~~~~~~~l~~~~~~~~~~~~~~~~~~~-----------~~~~~~l~~~l~~l~~~--~yd~IiiD~  114 (261)
                             ..+  .+.....++++++|++.............           ......++++++.++ +  +||||||||
T Consensus        83 ~~~~~~~~~~~~~~~~~~~~~L~llp~~~~l~~~~~~l~~~~~~~~~~~~~~~~~~~~l~~ll~~l~-~~~~yD~VIID~  161 (361)
T 3pg5_A           83 LREGESQIAAEITPMRSERFGVDVLPGHPALSQIEDLMSDSWQSALGRQTGPFRRIHWAGQLAHAME-RDDRYDVIFFDV  161 (361)
T ss_dssp             HHTTCSSCCCCCCCBCCTTTTSEEECCCGGGGTHHHHHHHHHHHHHTTCHHHHTTTTHHHHHHHHHH-HTTCCSEEEEEC
T ss_pred             HhcCCCChhhcceeeccCCCCEEEEeCCchHHHHHHHHHHHhhhhhccccchhhHHHHHHHHHHHHh-hccCCCEEEEEC
Confidence                   011  12233456999999887665433322110           011235788888887 5  999999999


Q ss_pred             CCCCChhHHHHhhhcCCCeEEEEeCCCcchHHHHHHHHHHHHhC--------------------C---------------
Q psy14655        115 PPGTGDTHLSLIQNLFIDTAIIITIPDTMSLQVAQRGYTMFKKL--------------------N---------------  159 (261)
Q Consensus       115 ~~~~~~~~~~~~~~~~ad~viiv~~~~~~s~~~~~~~~~~l~~~--------------------~---------------  159 (261)
                      ||+.+.....++..  ||.+|+|+.|+..++.++.++++.+.+.                    +               
T Consensus       162 pP~l~~~~~~aL~~--aD~viip~~~~~~s~~~~~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~  239 (361)
T 3pg5_A          162 GPSLGPFNRTVLLG--CDAFVTPTATDLFSFHAFGNLARWFDAWVTQYAEIHEGNMAEWKKYSADVEAKTRPLRLGGFDG  239 (361)
T ss_dssp             CSCCSHHHHHHHTT--CSEEEEEECCSHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCSTHHHHTSSSCTTSSSS
T ss_pred             CCCcCHHHHHHHHH--CCEEEEEecCChHHHHHHHHHHHHHHHHHHHHHHHHHhcccccccCCccccccccccccccccc
Confidence            99999888888877  9999999999999999999888877643                    1               


Q ss_pred             --CCeEEEEEcCCCCCCCCCC-cccccccchhHHHHHhhhhhhhhhhhhcccccccccCcchhhhhhhccccCCCCCCCC
Q psy14655        160 --IPVAGLVMNMNSVLCPSCN-HMFELYENNLHQFEAKNFLKSYERKLYGIHMWNFLIPLCNLIIKIRNVAYGNSHGHGN  236 (261)
Q Consensus       160 --~~~~giv~N~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~ip~~~~~~~~~~~~~~~a~~~g~  236 (261)
                        ++++|+|+|+++....... .-...+..+..++...  +. .+...+...    ..|++-..++.....+..|+..|.
T Consensus       240 ~~l~~lG~v~n~~~~r~~~~~~~~~~~~~~~~~~~~~~--~~-~l~~~~~~~----~~~~~l~~i~~~~s~~~~aq~~~~  312 (361)
T 3pg5_A          240 EGLRYLGYTTLEYVKRRANGQEQLVGAFERFRGRFAAE--AE-RISNSLSKH----SNSTLLGHVPHMHSMPATAQDVHA  312 (361)
T ss_dssp             SCCEEEEEEECC-----------------TTHHHHHHH--HH-HHHHHSCSS----CCCCEEEECC--------------
T ss_pred             cccceeeEEEEcchhhcCCCchhhhHHHHHHHHHHHHH--HH-hccccccCC----CCccccccCCchhhHHHHHHHHCC
Confidence              6789999999775321110 0012233333333322  11 111112111    122211122235667789999999


Q ss_pred             cchhhhh
Q psy14655        237 TVHHHHV  243 (261)
Q Consensus       237 ~v~~~~~  243 (261)
                      ||++...
T Consensus       313 Pi~~l~~  319 (361)
T 3pg5_A          313 PIMELSS  319 (361)
T ss_dssp             -------
T ss_pred             CeEECch
Confidence            9997764

>2oze_A ORF delta'; para, walker type atpases, DNA segregation, PSM19035, plasmid, DNA binding protein; HET: AGS EPE; 1.83A {Streptococcus pyogenes}

Probab=99.96  E-value=1.3e-29  Score=214.36  Aligned_cols=210  Identities=16%  Similarity=0.085  Sum_probs=147.9

Q ss_pred             ccc--CCCCCcHHHHHHHHHHHHHhcCCCCeEEEEecCCCCCCcccc---cCCCC-CCCCC-------cCCccccccccC
Q psy14655          2 IAS--SKGGVGKSTTTVNLATAMKICYPDKEIGILDADVFGPSIPIL---MNLPD-TPLLN-------KDNLMIPLVNYG   68 (261)
Q Consensus         2 v~s--~KGGvGKTT~a~~lA~~la~~g~~~~VllvD~D~~~~~~~~~---~~~~~-~~~~~-------~~~~~~~~~~~~   68 (261)
                      |+|  +||||||||+|+|||..||++|  +|||+||+|+|++...++   ++.+. ..++.       ....+.+ ..++
T Consensus        39 v~~~s~KGGvGKTT~a~nLA~~la~~G--~rVlliD~D~q~~~~~~l~~~~~~~~~~~~l~~~l~~~~~~~~~~~-~~~~  115 (298)
T 2oze_A           39 ILNNYFKGGVGKSKLSTMFAYLTDKLN--LKVLMIDKDLQATLTKDLAKTFKVELPRVNFYEGLKNGNLASSIVH-LTDN  115 (298)
T ss_dssp             EEECCSSSSSSHHHHHHHHHHHHHHTT--CCEEEEEECTTCHHHHHHTTTSCCCCCSSCHHHHHHHTCCGGGCEE-SSSS
T ss_pred             EEeccCCCCchHHHHHHHHHHHHHhCC--CeEEEEeCCCCCCHHHHHHHhccCCCCcccHHHHHhcCChhhhhcc-cCCC
Confidence            455  8999999999999999999999  999999999998643222   33321 11110       0111112 2468


Q ss_pred             ceeecCCCCcccchhhhh--hchHHHHHHHHHHHHhccCCCCEEEEeCCCCCChhHHHHhhhcCCCeEEEEeCCCcchHH
Q psy14655         69 VKCLSMGNLITEKSAAIW--RGLMVMQALNKLTVQVQWGPCDILFIDTPPGTGDTHLSLIQNLFIDTAIIITIPDTMSLQ  146 (261)
Q Consensus        69 l~~~~~~~~~~~~~~~~~--~~~~~~~~l~~~l~~l~~~~yd~IiiD~~~~~~~~~~~~~~~~~ad~viiv~~~~~~s~~  146 (261)
                      ++++|++...........  ........+.++++.++ ++||||||||||+.+.....++..  ||.+++|+.|+..++.
T Consensus       116 l~vlp~~~~~~~~~~l~~~~~~~~~~~~l~~~l~~l~-~~yD~IiiD~pp~~~~~~~~~l~~--aD~viiv~~~~~~s~~  192 (298)
T 2oze_A          116 LDLIPGTFDLMLLPKLTRSWTFENESRLLATLLAPLK-SDYDLIIIDTVPTPSVYTNNAIVA--SDYVMIPLQAEEESTN  192 (298)
T ss_dssp             EEEECCCGGGGGHHHHTTTSCHHHHHTHHHHHHGGGG-GGCSEEEEEECSSCSHHHHHHHHH--CSEEEEEECGGGCCHH
T ss_pred             eEEEeCCchHHHHHHHhhhhccccHHHHHHHHHHHHh-cCCCEEEEECCCCccHHHHHHHHH--CCeEEEEecCcHHHHH
Confidence            999998865542221111  01123355888888888 899999999999999887777776  9999999999999999


Q ss_pred             HHHHHHHHHHh------CCCCeEEEEEcCCCCCCCCCCcccccccchhHHHHHhhhhhhhhhhhhcc--cccccccCcch
Q psy14655        147 VAQRGYTMFKK------LNIPVAGLVMNMNSVLCPSCNHMFELYENNLHQFEAKNFLKSYERKLYGI--HMWNFLIPLCN  218 (261)
Q Consensus       147 ~~~~~~~~l~~------~~~~~~giv~N~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~--~~~~~~ip~~~  218 (261)
                      ++.++++.+..      .+.+++|+|+||++.       +.....    .     .+++. .+.+|.  .++.+.||   
T Consensus       193 ~~~~~~~~l~~~~~~~~~~~~~~gvv~n~~~~-------~~~~~~----~-----~~~~~-~~~~~~~~~v~~~~Ip---  252 (298)
T 2oze_A          193 NIQNYISYLIDLQEQFNPGLDMIGFVPYLVDT-------DSATIK----S-----NLEEL-YKQHKEDNLVFQNIIK---  252 (298)
T ss_dssp             HHHHHHHHHHHHHHHHCTTCEEEEEEEEESCT-------TCHHHH----H-----HHHHH-HHHTTTTCCBCSSCEE---
T ss_pred             HHHHHHHHHHHHHHHhCCCCeEEEEEEEEECC-------CcHHHH----H-----HHHHH-HHHhcccccccccccc---
Confidence            99998888765      367789999999553       111111    1     11111 223554  57778899   


Q ss_pred             hhhhhhccccCCCCCCCCcchh-hh
Q psy14655        219 LIIKIRNVAYGNSHGHGNTVHH-HH  242 (261)
Q Consensus       219 ~~~~~~~~~~~~a~~~g~~v~~-~~  242 (261)
                           ++..+.+|...|+|+++ ++
T Consensus       253 -----~~~~~~~a~~~G~~v~~~~~  272 (298)
T 2oze_A          253 -----RSNKVSTWSKNGITEHKGYD  272 (298)
T ss_dssp             -----CCHHHHHHHHHCCCSSSTTH
T ss_pred             -----ccHHHHHHHHcCCChhhhcC
Confidence                 99999999999999986 54

>3ez9_A Para; DNA binding, winged-HTH, partition, biosynthetic protein; 2.80A {Salmonella enterica subsp} PDB: 3ezf_A

Probab=99.96  E-value=2.8e-29  Score=220.82  Aligned_cols=214  Identities=17%  Similarity=0.188  Sum_probs=113.4

Q ss_pred             CcccCCCCCcHHHHHHHHHHHHH------hcCCCCeEEEEecCCCCCCcccccCCCCCCCCC-----------------c
Q psy14655          1 MIASSKGGVGKSTTTVNLATAMK------ICYPDKEIGILDADVFGPSIPILMNLPDTPLLN-----------------K   57 (261)
Q Consensus         1 ~v~s~KGGvGKTT~a~~lA~~la------~~g~~~~VllvD~D~~~~~~~~~~~~~~~~~~~-----------------~   57 (261)
                      +|+|+||||||||+|+|||..||      +.|  +|||+||+|+|+ +++.+|+........                 .
T Consensus       115 av~s~KGGvGKTT~a~nLA~~LA~~g~~~~~g--~rVlliD~D~~~-~l~~~l~~~~~~~~~~~~~~~~l~~~~~~~~~~  191 (403)
T 3ez9_A          115 FVVNLKGGVSKTVSTVTLAHALRVHQDLLRHD--LRILVIDLDPQA-SSTMFLDHTHSIGSILETAAQAMLNNLDAETLR  191 (403)
T ss_dssp             EECCC--------CHHHHHHHHHSCGGGGGGC--CCEEEEEESSSS-GGGSCC----------CCHHHHHHHTCCHHHHH
T ss_pred             EEEcCCCCchHHHHHHHHHHHHHhcchhhcCC--CeEEEEeCCCCC-ChhhhhCCCcccCcccccHHHHHHhcccccccH
Confidence            48999999999999999999999      678  999999999997 678888876432110                 1


Q ss_pred             CCccccccccCceeecCCCCcccchh----hh---hhc-hHHHHHHHHHHHHhccCCCCEEEEeCCCCCChhHHHHhhhc
Q psy14655         58 DNLMIPLVNYGVKCLSMGNLITEKSA----AI---WRG-LMVMQALNKLTVQVQWGPCDILFIDTPPGTGDTHLSLIQNL  129 (261)
Q Consensus        58 ~~~~~~~~~~~l~~~~~~~~~~~~~~----~~---~~~-~~~~~~l~~~l~~l~~~~yd~IiiD~~~~~~~~~~~~~~~~  129 (261)
                      .+.+.+...++++++|++........    ..   ..+ ......++.+++.++ ++||||||||||+.+.....++.. 
T Consensus       192 ~~~i~~~~~~~l~~lp~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~ll~~l~-~~yD~VIID~pP~~~~~~~~al~~-  269 (403)
T 3ez9_A          192 KEVIRPTIVPGVDVIPASIDDGFVASQWRELVEEHLPGQNQYEILRRNIIDRVA-DDYDFIFIDTGPHLDPFLLNGLAA-  269 (403)
T ss_dssp             HTTSEECSSTTEEEECCCTTHHHHHHTHHHHHHHHSTTSCTTSHHHHHTGGGSG-GGCSEEEEEECSSCSHHHHHHHHH-
T ss_pred             HHHHhhcccCCceEEecCcchhhHHHHHHHHHHHhccccchHHHHHHHHHHHHh-hcCCEEEEECCCCccHHHHHHHHH-
Confidence            22334445579999998876421100    00   000 111123356677777 899999999999999888888887 


Q ss_pred             CCCeEEEEeCCCcchHHHHHH-------HHHHHHhC--CCCeEEEEEcCCCCCCCCCCcccccccchhHHHHHhhhhhhh
Q psy14655        130 FIDTAIIITIPDTMSLQVAQR-------GYTMFKKL--NIPVAGLVMNMNSVLCPSCNHMFELYENNLHQFEAKNFLKSY  200 (261)
Q Consensus       130 ~ad~viiv~~~~~~s~~~~~~-------~~~~l~~~--~~~~~giv~N~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  200 (261)
                       ||.+|+|+.|+..++.++..       +++.+++.  +.++.|++.++...            ...  ... + ...+.
T Consensus       270 -aD~vliv~~p~~~~~~~~~~~l~~l~~~~~~l~~~~~~~~l~giv~vl~~~------------~~~--~~~-~-~~~~~  332 (403)
T 3ez9_A          270 -SDLLLTPTPPAQVDFHSTLKYLTRLPEMLEQLEEEGVEPRLSASIGFMSKM------------TGK--RDH-E-TSHSL  332 (403)
T ss_dssp             -CSEEEEEECSSHHHHHHHHHHHHTHHHHHHHHHHTTCCCCCCEEEEEECC---------------C--HHH-H-HHHHH
T ss_pred             -CCEEEEEecCchhhHHHHHHHHHHHHHHHHHHHhcCCCCceeEEEEEEecc------------CCc--hhH-H-HHHHH
Confidence             99999999999887655443       34444444  34455554443221            111  000 0 12223


Q ss_pred             hhhhhcccccccccCcchhhhhhhccccCCCCCCCCcchhhhhh
Q psy14655        201 ERKLYGIHMWNFLIPLCNLIIKIRNVAYGNSHGHGNTVHHHHVL  244 (261)
Q Consensus       201 ~~~~~g~~~~~~~ip~~~~~~~~~~~~~~~a~~~g~~v~~~~~~  244 (261)
                      ..+.+|.+++.+.||        ++..+.++...|.|++++++.
T Consensus       333 ~~~~~g~~vl~~~IP--------~~~~v~~a~~~G~~v~~~~p~  368 (403)
T 3ez9_A          333 AREVYASNILDSSLP--------RLDGFERCGESFDTVISANPQ  368 (403)
T ss_dssp             HHHHHTTSEECCC-------------------------------
T ss_pred             HHHHhhHhhhceeCC--------chHHHHHHHhcCCCceecCCc
Confidence            455588888888899        999999999999999988754

>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=99.96  E-value=2.9e-29  Score=212.81  Aligned_cols=206  Identities=21%  Similarity=0.228  Sum_probs=138.4

Q ss_pred             CcccCCCCCcHHHHHHHHHHHHHhcCCCCeEEEEecCCCCCCcccccCCCCCCCC--------CcCCc----cccccccC
Q psy14655          1 MIASSKGGVGKSTTTVNLATAMKICYPDKEIGILDADVFGPSIPILMNLPDTPLL--------NKDNL----MIPLVNYG   68 (261)
Q Consensus         1 ~v~s~KGGvGKTT~a~~lA~~la~~g~~~~VllvD~D~~~~~~~~~~~~~~~~~~--------~~~~~----~~~~~~~~   68 (261)
                      ||+ +||||||||+|+|||.+||+.|  +|||+||+|||.+++..+.+.......        .....    .......+
T Consensus        52 AIa-GKGGVGKTTtavNLA~aLA~~G--kkVllID~Dpq~~s~~~l~~~~~~~~~~~~~~~~~~~~~~~~~d~i~~~~~~  128 (314)
T 3fwy_A           52 AVY-GKGGIGKSTTSSNLSAAFSILG--KRVLQIGCDPKHDSTFTLTGSLVPTVIDVLKDVDFHPEELRPEDFVFEGFNG  128 (314)
T ss_dssp             EEE-CSTTSSHHHHHHHHHHHHHHTT--CCEEEEEESSSCCTTHHHHTSCCCCHHHHHHHTTSCGGGCCHHHHCEECGGG
T ss_pred             EEE-CCCccCHHHHHHHHHHHHHHCC--CeEEEEecCCCCcccccccCCCCCcchhhHhhhccccccccHhHheeecCCC
Confidence            354 7999999999999999999999  999999999999876544433222111        00010    11233557


Q ss_pred             ceeecCCCCcccchhhhhhchHHHHHHHHHHHHhccCCCCEEEEeCCCCCChhHH-HHhhhcCCCeEEEEeCCCcchHHH
Q psy14655         69 VKCLSMGNLITEKSAAIWRGLMVMQALNKLTVQVQWGPCDILFIDTPPGTGDTHL-SLIQNLFIDTAIIITIPDTMSLQV  147 (261)
Q Consensus        69 l~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~l~~~~yd~IiiD~~~~~~~~~~-~~~~~~~ad~viiv~~~~~~s~~~  147 (261)
                      +.++|++.......   +........+..+.+...++.||||++||+++...... +++..  ||.+++|++|+..++.+
T Consensus       129 i~~v~~~~~~~~~~---~~~~~~~~~~~~l~~~~~~d~~D~v~iD~~~~~~~~~~~~al~a--Ad~viIvt~~e~~Al~~  203 (314)
T 3fwy_A          129 VMCVEAGGPPAGTG---CGGYVVGQTVKLLKQHHLLDDTDVVIFDVLGDVVCGGFAAPLQH--ADQAVVVTANDFDSIYA  203 (314)
T ss_dssp             CEEEECCCCCTTCS---CTTHHHHHHHHHHHHTTTTSSCSEEEEEECCSSCCGGGGGGGGT--CSEEEEEECSSHHHHHH
T ss_pred             eEEEeCCCCcccch---hhhccHHHHHHHHHhcchhhcCceEeeccCCcchhhhhHhHHhh--CCeEEEEeCCcHHHHHH
Confidence            88888776543211   11122233343333322237899999999998765543 44555  99999999999999999


Q ss_pred             HHHHHHHHHhC----CCCeEEEEEcCCCCCCCCCCcccccccchhHHHHHhhhhhhhhhhhhcccccccccCcchhhhhh
Q psy14655        148 AQRGYTMFKKL----NIPVAGLVMNMNSVLCPSCNHMFELYENNLHQFEAKNFLKSYERKLYGIHMWNFLIPLCNLIIKI  223 (261)
Q Consensus       148 ~~~~~~~l~~~----~~~~~giv~N~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~ip~~~~~~~~  223 (261)
                      +.++++.++..    +.++.|+|+|+...            .....+     +.++     ++.+++. .||        
T Consensus       204 ~~~l~~~i~~~~~~~~~~l~GiI~n~~~~------------~~~v~~-----~a~~-----~~~~~lg-~IP--------  252 (314)
T 3fwy_A          204 MNRIIAAVQAKSKNYKVRLAGCVANRSRA------------TDEVDR-----FCKE-----TNFRRLA-HMP--------  252 (314)
T ss_dssp             HHHHHHHHHTTTTTCCCEEEEEEEESCSC------------CHHHHH-----HHHH-----HTCCEEE-EEC--------
T ss_pred             HHHHHHHHHHHhccCCCceEEEEEcCCCc------------hhHHHH-----HHHH-----hCCeEEE-Eec--------
Confidence            99998888764    45678999998432            111111     2222     3444443 489        


Q ss_pred             hccccCCCCCCCCcchhhhhhh
Q psy14655        224 RNVAYGNSHGHGNTVHHHHVLN  245 (261)
Q Consensus       224 ~~~~~~~a~~~g~~v~~~~~~~  245 (261)
                      ++..+++|...|+||++|++.+
T Consensus       253 ~d~~Vr~a~~~G~pvv~~~P~S  274 (314)
T 3fwy_A          253 DLDAIRRSRLKKKTLFEMDEDQ  274 (314)
T ss_dssp             CCHHHHHHHHTTCCTTTSCCCH
T ss_pred             CchHHHHHHHcCCceEEECCCC
Confidence            8888999989999999988655

>1cp2_A CP2, nitrogenase iron protein; oxidoreductase; 1.93A {Clostridium pasteurianum} SCOP: c.37.1.10

Probab=99.95  E-value=3.4e-29  Score=208.61  Aligned_cols=209  Identities=20%  Similarity=0.186  Sum_probs=140.0

Q ss_pred             cCCCCCcHHHHHHHHHHHHHhcCCCCeEEEEecCCCCCCcccccCCCCCCCCCc-----------CCccccccccCceee
Q psy14655          4 SSKGGVGKSTTTVNLATAMKICYPDKEIGILDADVFGPSIPILMNLPDTPLLNK-----------DNLMIPLVNYGVKCL   72 (261)
Q Consensus         4 s~KGGvGKTT~a~~lA~~la~~g~~~~VllvD~D~~~~~~~~~~~~~~~~~~~~-----------~~~~~~~~~~~l~~~   72 (261)
                      ++||||||||+|+|||.+||++|  +|||+||+|+|++.+.++++.....++.+           .+.+ ....++++++
T Consensus         7 s~KGGvGKTT~a~nLA~~la~~G--~~VlliD~D~q~~~~~~~~~~~~~~~l~~~l~~~~~~~~~~~~i-~~~~~~l~vl   83 (269)
T 1cp2_A            7 YGKGGIGKSTTTQNLTSGLHAMG--KTIMVVGCDPKADSTRLLLGGLAQKSVLDTLREEGEDVELDSIL-KEGYGGIRCV   83 (269)
T ss_dssp             EECTTSSHHHHHHHHHHHHHTTT--CCEEEEEECTTSCSSHHHHTSCCCCCHHHHHHHHGGGCCHHHHC-EECGGGCEEE
T ss_pred             ecCCCCcHHHHHHHHHHHHHHCC--CcEEEEcCCCCCCHHHHhcCCCCcccHHHHHhccCcCCCHHHhh-ccCCCCeeEE
Confidence            68999999999999999999999  99999999999988777776554432211           1111 1235689999


Q ss_pred             cCCCCcccchhhhhhchHHHHHHHHHHHHhccCCCCEEEEeCCCCCChh-HHHHhhhcCCCeEEEEeCCCcchHHHHHHH
Q psy14655         73 SMGNLITEKSAAIWRGLMVMQALNKLTVQVQWGPCDILFIDTPPGTGDT-HLSLIQNLFIDTAIIITIPDTMSLQVAQRG  151 (261)
Q Consensus        73 ~~~~~~~~~~~~~~~~~~~~~~l~~~l~~l~~~~yd~IiiD~~~~~~~~-~~~~~~~~~ad~viiv~~~~~~s~~~~~~~  151 (261)
                      |.+....... ...........+.+.++.++ ++||||||||||+.... ....+....||.+++|+.|+..++..+.++
T Consensus        84 ~~~~~~~~~~-~~~~~~~~~~~~~~~l~~l~-~~yD~iiiD~~~~~~~~~~~~~~~~~~aD~viiv~~~~~~s~~~~~~~  161 (269)
T 1cp2_A           84 ESGGPEPGVG-CAGRGIITSINMLEQLGAYT-DDLDYVFYDVLGDVVCGGFAMPIREGKAQEIYIVASGEMMALYAANNI  161 (269)
T ss_dssp             ECCCCCTTSS-CHHHHHHHHHHHHHHTTCCC-TTCSEEEEEEECSSCSTTTTHHHHTTSCCEEEEEECSSHHHHHHHHHH
T ss_pred             eCCCchhhcc-ccCcchhhHHHHHHHHHhhc-cCCCEEEEeCCchhhhhhhhhhhhHhhCCEEEEeecCchhhHHHHHHH
Confidence            9876543211 11111111112333344445 78999999999876432 111111112999999999999999999998


Q ss_pred             HHHHHhC----CCCeEEEEEcCCCCCCCCCCcccccccchhHHHHHhhhhhhhhhhhhcccccccccCcchhhhhhhccc
Q psy14655        152 YTMFKKL----NIPVAGLVMNMNSVLCPSCNHMFELYENNLHQFEAKNFLKSYERKLYGIHMWNFLIPLCNLIIKIRNVA  227 (261)
Q Consensus       152 ~~~l~~~----~~~~~giv~N~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~ip~~~~~~~~~~~~  227 (261)
                      ++.+...    +.+.+|+|+|+++..         ...+....          ..+.+|.+++ ..||        ++..
T Consensus       162 ~~~l~~~~~~~~~~~~gvv~N~~~~~---------~~~~~~~~----------l~~~~~~~v~-~~Ip--------~~~~  213 (269)
T 1cp2_A          162 SKGIQKYAKSGGVRLGGIICNSRKVA---------NEYELLDA----------FAKELGSQLI-HFVP--------RSPM  213 (269)
T ss_dssp             HHHHHHHBTTBBCEEEEEEEECCSSS---------CCHHHHHH----------HHHHHTCCEE-EEEC--------CCHH
T ss_pred             HHHHHHHHhcCCCcEEEEEeecCCcc---------hhHHHHHH----------HHHHcCCccc-ccCC--------CCcH
Confidence            8888753    556789999995420         00111111          1223576666 4799        8889


Q ss_pred             cCCCCCCCCcchhhhhhh
Q psy14655        228 YGNSHGHGNTVHHHHVLN  245 (261)
Q Consensus       228 ~~~a~~~g~~v~~~~~~~  245 (261)
                      +.+|...|+|++++.+.+
T Consensus       214 ~~~a~~~g~~v~~~~~~s  231 (269)
T 1cp2_A          214 VTKAEINKQTVIEYDPTC  231 (269)
T ss_dssp             HHHHHHTTSCHHHHCTTS
T ss_pred             HHHHHHcCCceEEECCCC
Confidence            999999999999876544

>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=99.95  E-value=6.7e-30  Score=224.44  Aligned_cols=214  Identities=16%  Similarity=0.209  Sum_probs=146.3

Q ss_pred             CcccCCCCCcHHHHHHHHHHHHH------hcCCCCeEEEEecCCCCCCcccccCCCCCCCCC-----------------c
Q psy14655          1 MIASSKGGVGKSTTTVNLATAMK------ICYPDKEIGILDADVFGPSIPILMNLPDTPLLN-----------------K   57 (261)
Q Consensus         1 ~v~s~KGGvGKTT~a~~lA~~la------~~g~~~~VllvD~D~~~~~~~~~~~~~~~~~~~-----------------~   57 (261)
                      +|+|+||||||||+|+|||..||      +.|  +|||+||+|+|+ +++.+|+........                 .
T Consensus       112 av~s~KGGvGKTT~a~nLA~~La~~~~~~~~g--~rVlliD~D~q~-~l~~~l~~~~~~~~~~~~~~~~l~~~~~~~~~~  188 (398)
T 3ez2_A          112 FISNLKGGVSKTVSTVSLAHAMRAHPHLLMED--LRILVIDLDPQS-SATMFLSHKHSIGIVNATSAQAMLQNVSREELL  188 (398)
T ss_dssp             EECCSSSSSSHHHHHHHHHHHHHHCTTTGGGC--CCEEEEEECTTC-HHHHHHSCHHHHSSCCSCHHHHHHHCCCHHHHH
T ss_pred             EEEeCCCCccHHHHHHHHHHHHHhcchhhcCC--CeEEEEeCCCCC-ChhHHhCCccccccccccHHHHHHhhccccccH
Confidence            48899999999999999999999      468  999999999986 577888765321100                 0


Q ss_pred             CCccccccccCceeecCCCCcccch----hhh---h-hchHHHHHHHHHHHHhccCCCCEEEEeCCCCCChhHHHHhhhc
Q psy14655         58 DNLMIPLVNYGVKCLSMGNLITEKS----AAI---W-RGLMVMQALNKLTVQVQWGPCDILFIDTPPGTGDTHLSLIQNL  129 (261)
Q Consensus        58 ~~~~~~~~~~~l~~~~~~~~~~~~~----~~~---~-~~~~~~~~l~~~l~~l~~~~yd~IiiD~~~~~~~~~~~~~~~~  129 (261)
                      .+.+.+...++++++|++.......    ...   . ........++++++.++ ++||||||||||+.+.....++.. 
T Consensus       189 ~~~i~~~~~~~l~vlp~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~l~~l~-~~yD~ViiD~pp~~~~~~~~~l~~-  266 (398)
T 3ez2_A          189 EEFIVPSVVPGVDVMPASIDDAFIASDWRELCNEHLPGQNIHAVLKENVIDKLK-SDYDFILVDSGPHLDAFLKNALAS-  266 (398)
T ss_dssp             HHTCEECSSTTEEEECCCTTHHHHHHTHHHHHHHHSTTSCTTSHHHHHTHHHHT-TTCSEEEEEECSCCSHHHHHHHHH-
T ss_pred             HHHhhcccCCCceEecCCchhhhHHHHHHHHHHhhccccChHHHHHHHHHHHhh-ccCCEEEEeCCCCccHHHHHHHHH-
Confidence            1223344557999999887542110    000   0 01111224467778888 899999999999999988888887 


Q ss_pred             CCCeEEEEeCCCcchHHHHHH-------HHHHHHhC--CCCeEEEEEcCCCCCCCCCCcccccccchhHHHHHhhhhhhh
Q psy14655        130 FIDTAIIITIPDTMSLQVAQR-------GYTMFKKL--NIPVAGLVMNMNSVLCPSCNHMFELYENNLHQFEAKNFLKSY  200 (261)
Q Consensus       130 ~ad~viiv~~~~~~s~~~~~~-------~~~~l~~~--~~~~~giv~N~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  200 (261)
                       ||.+|+|+.|+..++..+..       +++.+++.  +.++.|+|.|+....           ......     ...+.
T Consensus       267 -aD~vliv~~p~~~~~~~~~~~l~~l~~~~~~~~~~~~~~~~~giv~~~~~~~-----------~~~~~~-----~~~~~  329 (398)
T 3ez2_A          267 -ANILFTPLPPATVDFHSSLKYVARLPELVKLISDEGCECQLATNIGFMSKLS-----------NKADHK-----YCHSL  329 (398)
T ss_dssp             -CSEEEEEECCSHHHHHHHHHHHHHHHHHHHHHHHTSCCCCCCCEEEEEEEEC-----------SCHHHH-----HHHHH
T ss_pred             -CCEEEEEecCchhhHHHHHHHHHHHHHHHHHHHHcCCCCceeEEEEEEecCC-----------CchhHH-----HHHHH
Confidence             99999999999887655444       33444444  445566666653210           011011     11122


Q ss_pred             hhhhhcccccccccCcchhhhhhhccccCCCCCCCCcchhhhhh
Q psy14655        201 ERKLYGIHMWNFLIPLCNLIIKIRNVAYGNSHGHGNTVHHHHVL  244 (261)
Q Consensus       201 ~~~~~g~~~~~~~ip~~~~~~~~~~~~~~~a~~~g~~v~~~~~~  244 (261)
                      ..+.+|.+++.+.||        ++..+.++...|.|++++.+.
T Consensus       330 l~~~~g~~vl~~~IP--------~~~~i~~a~~~G~~v~~~~p~  365 (398)
T 3ez2_A          330 AKEVFGGDMLDVFLP--------RLDGFERCGESFDTVISANPA  365 (398)
T ss_dssp             HHHHHGGGBCSCCEE--------CCHHHHHHHHTTCCTTTSCTT
T ss_pred             HHHHhcccccceecc--------chHHHHHHHhcCCCceeeccc
Confidence            345578888888899        999999999999999988754

>3la6_A Tyrosine-protein kinase WZC; P-loop protein, nucleotide binding domain, walker A motif, B protein kinase, oligomerization; HET: ADP; 3.20A {Escherichia coli}

Probab=99.95  E-value=3.6e-28  Score=203.77  Aligned_cols=162  Identities=18%  Similarity=0.248  Sum_probs=134.4

Q ss_pred             CcccCCCCCcHHHHHHHHHHHHHhcCCCCeEEEEecCCCCCCcccccCCCCCCCCC--------cCCccccccccCceee
Q psy14655          1 MIASSKGGVGKSTTTVNLATAMKICYPDKEIGILDADVFGPSIPILMNLPDTPLLN--------KDNLMIPLVNYGVKCL   72 (261)
Q Consensus         1 ~v~s~KGGvGKTT~a~~lA~~la~~g~~~~VllvD~D~~~~~~~~~~~~~~~~~~~--------~~~~~~~~~~~~l~~~   72 (261)
                      +|+|.|||+||||+|+|||..||+.|  +|||+||+|++.+++..+|+.+...++.        ..+.+.+...++++++
T Consensus        96 ~vts~kgG~GKTtva~nLA~~lA~~G--~rVLLID~D~~~~~l~~~~~~~~~~gl~~~l~~~~~~~~~i~~~~~~~l~vl  173 (286)
T 3la6_A           96 MMTGVSPSIGMTFVCANLAAVISQTN--KRVLLIDCDMRKGYTHELLGTNNVNGLSEILIGQGDITTAAKPTSIAKFDLI  173 (286)
T ss_dssp             EEEESSSSSSHHHHHHHHHHHHHTTT--CCEEEEECCTTTCCHHHHHTCCCTTCHHHHHHTSSCTTTTCEECSSTTEEEE
T ss_pred             EEECCCCCCcHHHHHHHHHHHHHhCC--CCEEEEeccCCCCCHHHHhCCCCCCCHHHHccCCCCHHHheeccCCCCEEEE
Confidence            47899999999999999999999999  9999999999999999999988765442        2444555566899999


Q ss_pred             cCCCCcccchhhhhhchHHHHHHHHHHHHhccCCCCEEEEeCCCCCChhHHH-HhhhcCCCeEEEEeCCCcchHHHHHHH
Q psy14655         73 SMGNLITEKSAAIWRGLMVMQALNKLTVQVQWGPCDILFIDTPPGTGDTHLS-LIQNLFIDTAIIITIPDTMSLQVAQRG  151 (261)
Q Consensus        73 ~~~~~~~~~~~~~~~~~~~~~~l~~~l~~l~~~~yd~IiiD~~~~~~~~~~~-~~~~~~ad~viiv~~~~~~s~~~~~~~  151 (261)
                      |.+..........     ....+.++++.++ ++||+|||||||........ +...  ||.+++|+.++..+...+.+.
T Consensus       174 ~~g~~~~~~~ell-----~~~~l~~ll~~l~-~~yD~VIIDtpp~~~~~da~~l~~~--aD~vllVv~~~~~~~~~~~~~  245 (286)
T 3la6_A          174 PRGQVPPNPSELL-----MSERFAELVNWAS-KNYDLVLIDTPPILAVTDAAIVGRH--VGTTLMVARYAVNTLKEVETS  245 (286)
T ss_dssp             CCCSCCSCHHHHH-----TSHHHHHHHHHHH-HHCSEEEEECCCTTTCTHHHHHTTT--CSEEEEEEETTTSBHHHHHHH
T ss_pred             eCCCCCCCHHHHh-----chHHHHHHHHHHH-hCCCEEEEcCCCCcchHHHHHHHHH--CCeEEEEEeCCCCcHHHHHHH
Confidence            9998765443332     2356888888888 89999999999987654333 3333  999999999999999999999


Q ss_pred             HHHHHhCCCCeEEEEEcCCCC
Q psy14655        152 YTMFKKLNIPVAGLVMNMNSV  172 (261)
Q Consensus       152 ~~~l~~~~~~~~giv~N~~~~  172 (261)
                      ++.++..+.+++|+|+|+++.
T Consensus       246 ~~~l~~~g~~~~GvVlN~v~~  266 (286)
T 3la6_A          246 LSRFEQNGIPVKGVILNSIFR  266 (286)
T ss_dssp             HHHHHHTTCCCCEEEEEEECC
T ss_pred             HHHHHhCCCCEEEEEEcCccc
Confidence            999999999999999999764

>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=99.95  E-value=4.7e-29  Score=210.03  Aligned_cols=210  Identities=19%  Similarity=0.204  Sum_probs=138.7

Q ss_pred             cCCCCCcHHHHHHHHHHHHHhcCCCCeEEEEecCCCCCCcccccCCCCCCCCCc-------------CCccccccccCce
Q psy14655          4 SSKGGVGKSTTTVNLATAMKICYPDKEIGILDADVFGPSIPILMNLPDTPLLNK-------------DNLMIPLVNYGVK   70 (261)
Q Consensus         4 s~KGGvGKTT~a~~lA~~la~~g~~~~VllvD~D~~~~~~~~~~~~~~~~~~~~-------------~~~~~~~~~~~l~   70 (261)
                      ++||||||||+|+|||.+||++|  +|||+||+|+|++++.++++....+++.+             .+.+ ....++++
T Consensus         8 s~KGGvGKTT~a~nLA~~La~~G--~rVlliD~D~q~~~~~~~~~~~~~~~l~~~l~~~~~~~~~~~~~~i-~~~~~~l~   84 (289)
T 2afh_E            8 YGKGGIGKSTTTQNLVAALAEMG--KKVMIVGCDPKADSTRLILHSKAQNTIMEMAAEAGTVEDLELEDVL-KAGYGGVK   84 (289)
T ss_dssp             EECTTSSHHHHHHHHHHHHHHTT--CCEEEEEECSSSCSSHHHHCCSSCCBHHHHHHTTSSGGGCCHHHHC-EECGGGCE
T ss_pred             eCCCcCcHHHHHHHHHHHHHHCC--CeEEEEecCCCCCHHHHhcCCCCCCcHHHHHhcccccccCCHHHhh-ccCCCCeE
Confidence            68999999999999999999999  99999999999988777776544332210             1111 12356899


Q ss_pred             eecCCCCcccchhhhhhchHHHHHHHHHHHHhccCCCCEEEEeCCCCCChh-HHHHhhhcCCCeEEEEeCCCcchHHHHH
Q psy14655         71 CLSMGNLITEKSAAIWRGLMVMQALNKLTVQVQWGPCDILFIDTPPGTGDT-HLSLIQNLFIDTAIIITIPDTMSLQVAQ  149 (261)
Q Consensus        71 ~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~l~~~~yd~IiiD~~~~~~~~-~~~~~~~~~ad~viiv~~~~~~s~~~~~  149 (261)
                      ++|.+....... ...........+.+.+..++ ++||||||||||..... ....+....||.+++|+.|+..++.++.
T Consensus        85 ~l~~~~~~~~~~-~~~~~~~~~~~l~~~l~~l~-~~yD~ViID~~~~~~~~~~~~~~~~~~aD~viiv~~~~~~s~~~~~  162 (289)
T 2afh_E           85 CVESGGPEPGVG-CAGRGVITAINFLEEEGAYE-DDLDFVFYDVLGDVVCGGFAMPIRENKAQEIYIVCSGEMMAMYAAN  162 (289)
T ss_dssp             EEECCCCCTTTC-CHHHHHHHHHHHHHHTTCSS-TTCSEEEEEEECSSCCTTTTHHHHTTCCCEEEEEECSSHHHHHHHH
T ss_pred             EEeCCCcccccc-ccchhhhHHHHHHHHHHhhc-cCCCEEEEeCCCccccchhhhhhhhhhCCEEEEEecCCHHHHHHHH
Confidence            999876433211 11111111112223333344 68999999999865321 1111111229999999999999999999


Q ss_pred             HHHHHHHhC----CCCeEEEEEcCCCCCCCCCCcccccccchhHHHHHhhhhhhhhhhhhcccccccccCcchhhhhhhc
Q psy14655        150 RGYTMFKKL----NIPVAGLVMNMNSVLCPSCNHMFELYENNLHQFEAKNFLKSYERKLYGIHMWNFLIPLCNLIIKIRN  225 (261)
Q Consensus       150 ~~~~~l~~~----~~~~~giv~N~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~ip~~~~~~~~~~  225 (261)
                      .+++.+...    +.+.+++|+|+++.             ......     .+ ...+.+|.+++ ..||        ++
T Consensus       163 ~~~~~l~~~~~~~~~~~~gvv~N~~~~-------------~~~~~~-----~~-~l~~~~g~~~l-~~Ip--------~~  214 (289)
T 2afh_E          163 NISKGIVKYANSGSVRLGGLICNSRNT-------------DREDEL-----II-ALANKLGTQMI-HFVP--------RD  214 (289)
T ss_dssp             HHHHHHHHHHTTSCCEEEEEEEECCCC-------------TTHHHH-----HH-HHHHHHTSCEE-EEEC--------CC
T ss_pred             HHHHHHHHHHhcCCCceEEEEEecCCc-------------hhHHHH-----HH-HHHHHcCcccc-ccCC--------Cc
Confidence            888877653    66778999998531             001111     11 12233576666 4699        88


Q ss_pred             cccCCCCCCCCcchhhhhhhh
Q psy14655        226 VAYGNSHGHGNTVHHHHVLNL  246 (261)
Q Consensus       226 ~~~~~a~~~g~~v~~~~~~~~  246 (261)
                      ..+.+|...|+|++++.+.+.
T Consensus       215 ~~~~~a~~~g~~v~~~~~~s~  235 (289)
T 2afh_E          215 NVVQRAEIRRMTVIEYDPKAK  235 (289)
T ss_dssp             HHHHHHHHTTSCHHHHCTTSH
T ss_pred             hhHHHHHHcCCCceeeCCCCH
Confidence            899999999999998875443

>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=99.95  E-value=7.9e-29  Score=206.28  Aligned_cols=203  Identities=17%  Similarity=0.098  Sum_probs=128.8

Q ss_pred             CcccCCCCCcHHHHHHHHHHHHHhcCCCCeEEEEecCCCCCCcccccCCCC-------CCCC--------CcCCcccccc
Q psy14655          1 MIASSKGGVGKSTTTVNLATAMKICYPDKEIGILDADVFGPSIPILMNLPD-------TPLL--------NKDNLMIPLV   65 (261)
Q Consensus         1 ~v~s~KGGvGKTT~a~~lA~~la~~g~~~~VllvD~D~~~~~~~~~~~~~~-------~~~~--------~~~~~~~~~~   65 (261)
                      +|+|+|||+||||+|+|||.+|| +|  +|||+||+|+|++....+++...       ..++        ...+.+.+. 
T Consensus        31 ~v~s~kGGvGKTT~a~~LA~~la-~g--~~VlliD~D~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~~~i~~~-  106 (267)
T 3k9g_A           31 TIASIKGGVGKSTSAIILATLLS-KN--NKVLLIDMDTQASITSYFYEKIEKLGINFTKFNIYEILKENVDIDSTIINV-  106 (267)
T ss_dssp             EECCSSSSSCHHHHHHHHHHHHT-TT--SCEEEEEECTTCHHHHHTHHHHHHTTCCTTTSSHHHHHTTSSCGGGGCEEE-
T ss_pred             EEEeCCCCchHHHHHHHHHHHHH-CC--CCEEEEECCCCCCHHHHhhccccccccCcccccHHHHhcCCCCHHHhhccC-
Confidence            47899999999999999999999 89  99999999999865444322110       1111        112222222 


Q ss_pred             ccCceeecCCCCcccchhhhhhchHHHHHHHHHHHHhccCCCCEEEEeCCCCCChhHHHHhhhcCCCeEEEEeCCCcchH
Q psy14655         66 NYGVKCLSMGNLITEKSAAIWRGLMVMQALNKLTVQVQWGPCDILFIDTPPGTGDTHLSLIQNLFIDTAIIITIPDTMSL  145 (261)
Q Consensus        66 ~~~l~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~l~~~~yd~IiiD~~~~~~~~~~~~~~~~~ad~viiv~~~~~~s~  145 (261)
                      .++++++|++...........  ......+.+.++.++ .+||||||||||+.+.....++..  ||.+++|+.|+..++
T Consensus       107 ~~~l~~lp~~~~~~~~~~~~~--~~~~~~l~~~l~~l~-~~yD~viiD~pp~~~~~~~~~l~~--aD~vivv~~~~~~s~  181 (267)
T 3k9g_A          107 DNNLDLIPSYLTLHNFSEDKI--EHKDFLLKTSLGTLY-YKYDYIVIDTNPSLDVTLKNALLC--SDYVIIPMTAEKWAV  181 (267)
T ss_dssp             ETTEEEECCCGGGGGTTTCCC--TTGGGHHHHHHHTTC-TTCSEEEEEECSSCSHHHHHHHTT--CSEEEEEEESCTTHH
T ss_pred             CCCEEEEeCChHHHHHHHhhh--hhHHHHHHHHHHHhh-cCCCEEEEECcCCccHHHHHHHHH--CCeEEEEeCCChHHH
Confidence            478999998865542222111  112346788888888 899999999999999888888876  999999999999999


Q ss_pred             HHHHHHHHHHHhCCCC-eEEEEEcCCCCCCCCCCcccccccchhHHHHHhhhhhhhhhhhhcccccccccCcchhhhhhh
Q psy14655        146 QVAQRGYTMFKKLNIP-VAGLVMNMNSVLCPSCNHMFELYENNLHQFEAKNFLKSYERKLYGIHMWNFLIPLCNLIIKIR  224 (261)
Q Consensus       146 ~~~~~~~~~l~~~~~~-~~giv~N~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~ip~~~~~~~~~  224 (261)
                      ..+.++++.+++.+.+ .+++|+||+..        .....    .+.+      ...+  +..+ ...||        +
T Consensus       182 ~~~~~~~~~l~~~~~~~~~~vv~N~~~~--------~~~~~----~~~~------~l~~--~~~~-~~~Ip--------~  232 (267)
T 3k9g_A          182 ESLDLFNFFVRKLNLFLPIFLIITRFKK--------NRTHK----TLFE------ILKT--KDRF-LGTIS--------E  232 (267)
T ss_dssp             HHHHHHHHHHHTTTCCCCEEEEEEEECT--------TCSCC----HHHH------HHTT--STTE-EEEEE--------C
T ss_pred             HHHHHHHHHHHHHhccCCEEEEEecccC--------cchHH----HHHH------HHhc--Cccc-ceecC--------c
Confidence            9999999999988543 46799999521        11111    1111      1111  2222 24699        9


Q ss_pred             ccccCCCCCCCCcchhh
Q psy14655        225 NVAYGNSHGHGNTVHHH  241 (261)
Q Consensus       225 ~~~~~~a~~~g~~v~~~  241 (261)
                      +..+.++...|.++...
T Consensus       233 ~~~~~~a~~~g~~~~~~  249 (267)
T 3k9g_A          233 REDLNRRIAENNNFDLN  249 (267)
T ss_dssp             ----------------C
T ss_pred             HHHHHHHHHhcCCcchh
Confidence            99999999999987754

>3bfv_A CAPA1, CAPB2, membrane protein CAPA1, protein tyrosine kinase; chimerical protein, P-loop protein, capsule biogenesis/degradation; HET: ADP; 1.80A {Staphylococcus aureus} PDB: 2ved_A*

Probab=99.95  E-value=8.2e-28  Score=200.36  Aligned_cols=162  Identities=22%  Similarity=0.288  Sum_probs=130.8

Q ss_pred             CcccCCCCCcHHHHHHHHHHHHHhcCCCCeEEEEecCCCCCCcccccCCCCCCCCCc--------CCccccccccCceee
Q psy14655          1 MIASSKGGVGKSTTTVNLATAMKICYPDKEIGILDADVFGPSIPILMNLPDTPLLNK--------DNLMIPLVNYGVKCL   72 (261)
Q Consensus         1 ~v~s~KGGvGKTT~a~~lA~~la~~g~~~~VllvD~D~~~~~~~~~~~~~~~~~~~~--------~~~~~~~~~~~l~~~   72 (261)
                      +|+|.|||+||||+|+|||..||+.|  +|||+||+|++.+++..+|+.+...++.+        .+.+.+...++++++
T Consensus        86 ~vts~kgG~GKTt~a~nLA~~lA~~G--~rVLLID~D~~~~~l~~~~~~~~~~gl~~~L~~~~~l~~~i~~~~~~~l~vl  163 (271)
T 3bfv_A           86 VITSEAPGAGKSTIAANLAVAYAQAG--YKTLIVDGDMRKPTQHYIFNLPNNEGLSSLLLNWSTYQDSIISTEIEDLDVL  163 (271)
T ss_dssp             EEECSSTTSSHHHHHHHHHHHHHHTT--CCEEEEECCSSSCCHHHHTTCCCSSSHHHHHTTSSCHHHHEEECSSTTEEEE
T ss_pred             EEECCCCCCcHHHHHHHHHHHHHhCC--CeEEEEeCCCCCccHHHHcCCCCCCCHHHHhCCCCCHHHcEEeCCCCCEEEE
Confidence            47899999999999999999999999  99999999999999989999876544321        223334445799999


Q ss_pred             cCCCCcccchhhhhhchHHHHHHHHHHHHhccCCCCEEEEeCCCCCChhHHH-HhhhcCCCeEEEEeCCCcchHHHHHHH
Q psy14655         73 SMGNLITEKSAAIWRGLMVMQALNKLTVQVQWGPCDILFIDTPPGTGDTHLS-LIQNLFIDTAIIITIPDTMSLQVAQRG  151 (261)
Q Consensus        73 ~~~~~~~~~~~~~~~~~~~~~~l~~~l~~l~~~~yd~IiiD~~~~~~~~~~~-~~~~~~ad~viiv~~~~~~s~~~~~~~  151 (261)
                      |++..........     ....+.++++.++ ++||+|||||||........ +...  ||.+++|+.++..+...+.++
T Consensus       164 ~~g~~~~~~~ell-----~~~~l~~ll~~l~-~~yD~VIIDtpp~~~~~d~~~l~~~--aD~vilVv~~~~~~~~~~~~~  235 (271)
T 3bfv_A          164 TSGPIPPNPSELI-----TSRAFANLYDTLL-MNYNFVIIDTPPVNTVTDAQLFSKF--TGNVVYVVNSENNNKDEVKKG  235 (271)
T ss_dssp             CCCSCCSCHHHHH-----TSHHHHHHHHHHH-HHCSEEEEECCCTTTCSHHHHHHHH--HCEEEEEEETTSCCHHHHHHH
T ss_pred             ECCCCCCCHHHHh-----ChHHHHHHHHHHH-hCCCEEEEeCCCCchHHHHHHHHHH--CCEEEEEEeCCCCcHHHHHHH
Confidence            9988765433322     1345778888888 89999999999987544333 3344  899999999999999999999


Q ss_pred             HHHHHhCCCCeEEEEEcCCCC
Q psy14655        152 YTMFKKLNIPVAGLVMNMNSV  172 (261)
Q Consensus       152 ~~~l~~~~~~~~giv~N~~~~  172 (261)
                      ++.+++.+.+++|+|+|+++.
T Consensus       236 ~~~l~~~~~~~~GvVlN~~~~  256 (271)
T 3bfv_A          236 KELIEATGAKLLGVVLNRMPK  256 (271)
T ss_dssp             HHHHHTTTCEEEEEEEEEECC
T ss_pred             HHHHHhCCCCEEEEEEeCCcC
Confidence            999999999999999999654

>3cwq_A Para family chromosome partitioning protein; alpha-beta protein, structural genomics, PSI-2, protein STRU initiative; HET: ADP; 2.47A {Synechocystis SP}

Probab=99.94  E-value=6.6e-28  Score=193.71  Aligned_cols=174  Identities=21%  Similarity=0.227  Sum_probs=131.5

Q ss_pred             CcccCCCCCcHHHHHHHHHHHHHhcCCCCeEEEEecCCCCCCcccccCCCCCCCCCcCCccccccccCceeecCCCCccc
Q psy14655          1 MIASSKGGVGKSTTTVNLATAMKICYPDKEIGILDADVFGPSIPILMNLPDTPLLNKDNLMIPLVNYGVKCLSMGNLITE   80 (261)
Q Consensus         1 ~v~s~KGGvGKTT~a~~lA~~la~~g~~~~VllvD~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~   80 (261)
                      +|+|+|||+||||+|.|||..|+++|   ||++||+|+|++ +..+++. ++  +       +     .++++..     
T Consensus         4 ~v~s~KGGvGKTT~a~~LA~~la~~g---~VlliD~D~q~~-~~~~~~~-~~--l-------~-----~~vi~~~-----   59 (209)
T 3cwq_A            4 TVASFKGGVGKTTTAVHLSAYLALQG---ETLLIDGDPNRS-ATGWGKR-GS--L-------P-----FKVVDER-----   59 (209)
T ss_dssp             EEEESSTTSSHHHHHHHHHHHHHTTS---CEEEEEECTTCH-HHHHHHH-SC--C-------S-----SEEEEGG-----
T ss_pred             EEEcCCCCCcHHHHHHHHHHHHHhcC---CEEEEECCCCCC-HHHHhcC-CC--C-------C-----cceeCHH-----
Confidence            47899999999999999999999874   999999999974 5555544 11  1       0     1333310     


Q ss_pred             chhhhhhchHHHHHHHHHHHHhccCCCCEEEEeCCCC-CChhHHHHhhhcCCCeEEEEeCCCcchHHHHHHHHHHHHhC-
Q psy14655         81 KSAAIWRGLMVMQALNKLTVQVQWGPCDILFIDTPPG-TGDTHLSLIQNLFIDTAIIITIPDTMSLQVAQRGYTMFKKL-  158 (261)
Q Consensus        81 ~~~~~~~~~~~~~~l~~~l~~l~~~~yd~IiiD~~~~-~~~~~~~~~~~~~ad~viiv~~~~~~s~~~~~~~~~~l~~~-  158 (261)
                                       .++.++ ..||||||||||+ .+.....++..  ||.+|+|+.|+..++..+.++++.++.. 
T Consensus        60 -----------------~l~~l~-~~yD~viiD~p~~~~~~~~~~~l~~--aD~viiv~~~~~~~~~~~~~~~~~l~~~~  119 (209)
T 3cwq_A           60 -----------------QAAKYA-PKYQNIVIDTQARPEDEDLEALADG--CDLLVIPSTPDALALDALMLTIETLQKLG  119 (209)
T ss_dssp             -----------------GHHHHG-GGCSEEEEEEECCCSSSHHHHHHHT--SSEEEEEECSSHHHHHHHHHHHHHHHHTC
T ss_pred             -----------------HHHHhh-hcCCEEEEeCCCCcCcHHHHHHHHH--CCEEEEEecCCchhHHHHHHHHHHHHhcc
Confidence                             344555 8899999999999 78777777776  9999999999999999999999999885 


Q ss_pred             CCCeEEEEEcCCCCCCCCCCccc-ccccchhHHHHHhhhhhhhhhhhhcccccccccCcchhhhhhhccccCCCCCCCCc
Q psy14655        159 NIPVAGLVMNMNSVLCPSCNHMF-ELYENNLHQFEAKNFLKSYERKLYGIHMWNFLIPLCNLIIKIRNVAYGNSHGHGNT  237 (261)
Q Consensus       159 ~~~~~giv~N~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~ip~~~~~~~~~~~~~~~a~~~g~~  237 (261)
                      +.+ +++|+|+++..       . ..    ...      ..+..++ +|.+++.+.||        ++..+.+|...|+|
T Consensus       120 ~~~-~~vv~N~~~~~-------~~~~----~~~------~~~~l~~-~g~~v~~~~Ip--------~~~~~~~a~~~g~~  172 (209)
T 3cwq_A          120 NNR-FRILLTIIPPY-------PSKD----GDE------ARQLLTT-AGLPLFKRGIK--------RYSAFQKASLNGVV  172 (209)
T ss_dssp             SSS-EEEEECSBCCT-------TSCH----HHH------HHHHHHH-TTCCBCSSCCB--------CCTHHHHHHHHTSC
T ss_pred             CCC-EEEEEEecCCc-------cchH----HHH------HHHHHHH-cCCchhhccCC--------CcHHHHHHHHcCCC
Confidence            455 88999995531       1 11    111      1122233 67778877899        89999999999999


Q ss_pred             chhh-hhhh
Q psy14655        238 VHHH-HVLN  245 (261)
Q Consensus       238 v~~~-~~~~  245 (261)
                      ++++ .+.+
T Consensus       173 v~~~~~p~~  181 (209)
T 3cwq_A          173 VSEVSDSKA  181 (209)
T ss_dssp             TTTSSSTTH
T ss_pred             HHHhCCccc
Confidence            9988 6544

>3cio_A ETK, tyrosine-protein kinase ETK; WZC, escherichia coli tyrosine kinase domain, signaling protein, transferase, inner membrane, membrane; 2.50A {Escherichia coli}

Probab=99.94  E-value=4e-27  Score=198.88  Aligned_cols=162  Identities=14%  Similarity=0.242  Sum_probs=130.8

Q ss_pred             CcccCCCCCcHHHHHHHHHHHHHhcCCCCeEEEEecCCCCCCcccccCCCCCCCCCc--------CCccccccccCceee
Q psy14655          1 MIASSKGGVGKSTTTVNLATAMKICYPDKEIGILDADVFGPSIPILMNLPDTPLLNK--------DNLMIPLVNYGVKCL   72 (261)
Q Consensus         1 ~v~s~KGGvGKTT~a~~lA~~la~~g~~~~VllvD~D~~~~~~~~~~~~~~~~~~~~--------~~~~~~~~~~~l~~~   72 (261)
                      +|+|.|||+||||+|+|||..||+.|  +|||+||+|++.+++..+|+.....++.+        .+.+.+...++++++
T Consensus       108 ~vts~kgG~GKTtva~nLA~~lA~~G--~rVLLID~D~r~~~l~~~~~~~~~~gl~~~L~~~~~l~~~i~~~~~~~l~vl  185 (299)
T 3cio_A          108 MITGATPDSGKTFVSSTLAAVIAQSD--QKVLFIDADLRRGYSHNLFTVSNEHGLSEYLAGKDELNKVIQHFGKGGFDVI  185 (299)
T ss_dssp             EEEESSSSSCHHHHHHHHHHHHHHTT--CCEEEEECCTTTCCHHHHTTCCCSSSHHHHHTTSSCHHHHCEEETTTTEEEE
T ss_pred             EEECCCCCCChHHHHHHHHHHHHhCC--CcEEEEECCCCCccHHHHcCCCCCCCHHHHCcCCCCHHHhhhccCCCCEEEE
Confidence            47899999999999999999999999  99999999998889999999876554422        223344445899999


Q ss_pred             cCCCCcccchhhhhhchHHHHHHHHHHHHhccCCCCEEEEeCCCCCChhHHHHh-hhcCCCeEEEEeCCCcchHHHHHHH
Q psy14655         73 SMGNLITEKSAAIWRGLMVMQALNKLTVQVQWGPCDILFIDTPPGTGDTHLSLI-QNLFIDTAIIITIPDTMSLQVAQRG  151 (261)
Q Consensus        73 ~~~~~~~~~~~~~~~~~~~~~~l~~~l~~l~~~~yd~IiiD~~~~~~~~~~~~~-~~~~ad~viiv~~~~~~s~~~~~~~  151 (261)
                      |++..........     ....+.++++.++ ++||+|||||||.........+ ..  +|.+|+|+.++..+...+..+
T Consensus       186 ~~g~~~~~~~ell-----~~~~l~~ll~~l~-~~yD~VIIDtpp~~~~~d~~~l~~~--ad~vilV~~~~~~~~~~~~~~  257 (299)
T 3cio_A          186 TRGQVPPNPSELL-----MRDRMRQLLEWAN-DHYDLVIVDTPPMLAVSDAAVVGRS--VGTSLLVARFGLNTAKEVSLS  257 (299)
T ss_dssp             CCCSCCSCHHHHH-----TSHHHHHHHHHHH-HHCSEEEEECCCTTTCTHHHHHGGG--CSEEEEEEETTTSCTTHHHHH
T ss_pred             ECCCCCCCHHHHh-----CHHHHHHHHHHHH-hCCCEEEEcCCCCchhHHHHHHHHH--CCEEEEEEcCCCChHHHHHHH
Confidence            9987765433222     2345788888888 8999999999998764332233 33  999999999999999999999


Q ss_pred             HHHHHhCCCCeEEEEEcCCCC
Q psy14655        152 YTMFKKLNIPVAGLVMNMNSV  172 (261)
Q Consensus       152 ~~~l~~~~~~~~giv~N~~~~  172 (261)
                      ++.+++.+.+++|+|+|+++.
T Consensus       258 ~~~l~~~~~~~~GvVlN~~~~  278 (299)
T 3cio_A          258 MQRLEQAGVNIKGAILNGVIK  278 (299)
T ss_dssp             HHHHHHTTCCCCCEEEEECCC
T ss_pred             HHHHHhCCCCeEEEEEeCCcc
Confidence            999999999999999999764

>2xj4_A MIPZ; replication, cell division, ATPase, WACA; 1.60A {Caulobacter vibrioides} PDB: 2xj9_A* 2xit_A

Probab=99.94  E-value=4e-28  Score=204.06  Aligned_cols=205  Identities=17%  Similarity=0.131  Sum_probs=139.4

Q ss_pred             CcccCCCCCcHHHHHHHHHHHHHhcCCCCeEEEEecCCCCCCcccccCCCCCCCCCcCCccccccccCc-eeecCCC--C
Q psy14655          1 MIASSKGGVGKSTTTVNLATAMKICYPDKEIGILDADVFGPSIPILMNLPDTPLLNKDNLMIPLVNYGV-KCLSMGN--L   77 (261)
Q Consensus         1 ~v~s~KGGvGKTT~a~~lA~~la~~g~~~~VllvD~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l-~~~~~~~--~   77 (261)
                      +|+|+|||+||||+|+|||..|+++|  +||++||+|+.++++..+++....  +.+  ........++ +++|.+.  .
T Consensus         8 ~v~s~KGGvGKTT~a~nLA~~La~~G--~~VlliD~D~~q~~l~~~l~~~~~--~~~--~~~~~~~~~l~~vl~~~~~~~   81 (286)
T 2xj4_A            8 VVGNEKGGAGKSTIAVHLVTALLYGG--AKVAVIDLDLRQRTSARFFENRRA--WLD--NKKIELPEPLALNLSDNDVAL   81 (286)
T ss_dssp             EECCSSSCTTHHHHHHHHHHHHHHTT--CCEEEEECCTTTCHHHHHHHHHHH--HHH--HHTCCCCCCEEECSSSCHHHH
T ss_pred             EEEcCCCCCCHHHHHHHHHHHHHHCC--CcEEEEECCCCCCCHHHHhCCChh--HhH--hccccCCCchheEeeCCCCCC
Confidence            47899999999999999999999999  999999999933567777764321  000  0000112456 6777532  1


Q ss_pred             cccchhhhhhchHHHHHHHHHHHHhccCCCCEEEEeCCCCCChhHHHHhhhcCCCeEEEEeCCCcchHHHHHHHHHH---
Q psy14655         78 ITEKSAAIWRGLMVMQALNKLTVQVQWGPCDILFIDTPPGTGDTHLSLIQNLFIDTAIIITIPDTMSLQVAQRGYTM---  154 (261)
Q Consensus        78 ~~~~~~~~~~~~~~~~~l~~~l~~l~~~~yd~IiiD~~~~~~~~~~~~~~~~~ad~viiv~~~~~~s~~~~~~~~~~---  154 (261)
                      ....      .......+.+.++.++ .+||||||||||+.+.....++..  ||.+|+|+.|+..++..+.++++.   
T Consensus        82 ~~~~------~~~~~~~l~~~l~~l~-~~yD~viiD~p~~~~~~~~~~l~~--aD~viiv~~~~~~~~~~~~~~~~~~~~  152 (286)
T 2xj4_A           82 AERP------EEEQVAGFEAAFARAM-AECDFILIDTPGGDSAITRMAHGR--ADLVVTPMNDSFVDFDMLGTVDPVTLE  152 (286)
T ss_dssp             TTSC------HHHHHHHHHHHHHHHH-HHCSEEEEECCSSCCHHHHHHHHT--CSEEEEEEESSHHHHTTTEEECTTTCC
T ss_pred             cChh------hhhhHHHHHHHHHHHH-hcCCEEEEcCCCCccHHHHHHHHH--CCEEEEEEcCCccHHHHHHHHHHHhhh
Confidence            1111      1123456888888888 899999999999998888777777  999999999999888776654444   


Q ss_pred             ----------H---Hh-------CCCCeEEEEEcCCCCCCCCCCccc-ccccchhHHHHHhhhhhhhhhhhhcccccccc
Q psy14655        155 ----------F---KK-------LNIPVAGLVMNMNSVLCPSCNHMF-ELYENNLHQFEAKNFLKSYERKLYGIHMWNFL  213 (261)
Q Consensus       155 ----------l---~~-------~~~~~~giv~N~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~  213 (261)
                                +   +.       .+...+++|+|+++.       +. ...    ....+  .+++.. +.+|. .+.+.
T Consensus       153 ~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~vV~N~~~~-------~~~~~~----~~~~~--~l~~~~-~~~g~-~~~~~  217 (286)
T 2xj4_A          153 LTKPSLYSLTVWEGRKQRALSGQRQAMDWVVLRNRLAT-------TEARNR----KRLED--RLNALA-KRVGF-RIGPG  217 (286)
T ss_dssp             EEEECHHHHHHHHHHHHHHHHCSSCCCEEEEEEECCTT-------CCGGGH----HHHHH--HHHHHH-HHHCC-EEEEC
T ss_pred             ccccchhhhhhhcchhhhhhccCCccccEEEEEeeecC-------CCcchh----HHHHH--HHHHHH-HHcCC-ccCCC
Confidence                      4   31       130247899999653       11 111    11111  121111 11566 66778


Q ss_pred             cCcchhhhhhhccccCCCCCCCCcchhhhh
Q psy14655        214 IPLCNLIIKIRNVAYGNSHGHGNTVHHHHV  243 (261)
Q Consensus       214 ip~~~~~~~~~~~~~~~a~~~g~~v~~~~~  243 (261)
                      ||        ++..+.+|...|+|++++.+
T Consensus       218 Ip--------~~~~~~~a~~~g~~v~~~~~  239 (286)
T 2xj4_A          218 LR--------DRVIYRELFPFGLTIADLSP  239 (286)
T ss_dssp             CC--------CCHHHHHHGGGTCCGGGCBT
T ss_pred             CC--------chHHHHHHHHcCCCHHHhCc
Confidence            99        89999999999999999876

>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=99.90  E-value=5e-24  Score=183.64  Aligned_cols=165  Identities=18%  Similarity=0.234  Sum_probs=108.7

Q ss_pred             CcccCCCCCcHHHHHHHHHHHHHhcCCCCeEEEEecCCCCCCcccccCCCCCCCCCcCCccccccccCceee--------
Q psy14655          1 MIASSKGGVGKSTTTVNLATAMKICYPDKEIGILDADVFGPSIPILMNLPDTPLLNKDNLMIPLVNYGVKCL--------   72 (261)
Q Consensus         1 ~v~s~KGGvGKTT~a~~lA~~la~~g~~~~VllvD~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~--------   72 (261)
                      +|+|+|||+||||+|+|||..||+.|  +|||+||+|++ ++++.+|+.+.........     ..+++...        
T Consensus        29 ~v~sgKGGvGKTTvA~~LA~~lA~~G--~rVLlvD~D~~-~~l~~~l~~~~~~~~~~v~-----g~~~l~~~~id~~~~~  100 (349)
T 3ug7_A           29 IMFGGKGGVGKTTMSAATGVYLAEKG--LKVVIVSTDPA-HSLRDIFEQEFGHEPTKVK-----GYDNLYVVEIDPQKAM  100 (349)
T ss_dssp             EEEECSSSTTHHHHHHHHHHHHHHSS--CCEEEEECCTT-CHHHHHHCSCCCSSCEECT-----TCSSEEEEECCHHHHH
T ss_pred             EEEeCCCCccHHHHHHHHHHHHHHCC--CeEEEEeCCCC-CCHHHHhCCCCCcCccccc-----cccceeeeccCHHHHH
Confidence            47899999999999999999999999  99999999996 5788888876432111100     00111111        


Q ss_pred             ---------------cCCCCcccc--hhhhhhchHHHHHHHHHHHHhccCCCCEEEEeCCCCCChhHH------------
Q psy14655         73 ---------------SMGNLITEK--SAAIWRGLMVMQALNKLTVQVQWGPCDILFIDTPPGTGDTHL------------  123 (261)
Q Consensus        73 ---------------~~~~~~~~~--~~~~~~~~~~~~~l~~~l~~l~~~~yd~IiiD~~~~~~~~~~------------  123 (261)
                                     +.+......  .....++......+..+.+.+...+||+|||||||+.+....            
T Consensus       101 ~~~~~~~~~~~~~~l~~~~~~~~~l~~~~~~pg~~e~~~~~~l~~~~~~~~yD~VIiDtpPt~~tlrlL~~p~~~~~~~~  180 (349)
T 3ug7_A          101 EEYKEKLKAQIEENPFLGEMLEDQLEMAALSPGTDESAAFDVFLKYMDSNEFDVVIFDTAPTGHTLRFLGMPEVMDKYMT  180 (349)
T ss_dssp             HHHHHHHHHHGGGCHHHHHHHHHHHHHHHHSTTHHHHHHHHHHHHHHHCCSCSEEEECSCCCTTGGGGGGHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhcccchhhHHHHHHhccCCCHHHHHHHHHHHHHHHhCCCCEEEECCCCChHHHHHHhhHHHHHHHHH
Confidence                           111000000  000111222223344444444447899999999996532100            


Q ss_pred             -------------------------------------------------HHhhhcCCCeEEEEeCCCcchHHHHHHHHHH
Q psy14655        124 -------------------------------------------------SLIQNLFIDTAIIITIPDTMSLQVAQRGYTM  154 (261)
Q Consensus       124 -------------------------------------------------~~~~~~~ad~viiv~~~~~~s~~~~~~~~~~  154 (261)
                                                                       ..+.....+.+++|+.|+..++.++.+.++.
T Consensus       181 ~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~L~d~~~~~~vlV~~p~~~~~~e~~r~~~~  260 (349)
T 3ug7_A          181 KLIKLRKQMSGFMKMMKKLLPFGGKDEDIDYDKMLEELEKMKERIVRARNILSDPERTAFRLVVIPEEMSILESERAMKA  260 (349)
T ss_dssp             HHHHHHHHHHHHHHHHHHHSCC-------CHHHHHHHHHHHHHHHHHHHHHHTCTTTEEEEEEECSSHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHhhccccccccccCCchHHHHHHHHHHHHHHHHHHHHhCCCCceEEEEECCCccHHHHHHHHHHH
Confidence                                                             0111111367999999999999999999999


Q ss_pred             HHhCCCCeEEEEEcCCCCC
Q psy14655        155 FKKLNIPVAGLVMNMNSVL  173 (261)
Q Consensus       155 l~~~~~~~~giv~N~~~~~  173 (261)
                      +++.+++..|+|+||+...
T Consensus       261 l~~~~i~v~gvV~N~~~~~  279 (349)
T 3ug7_A          261 LQKYGIPIDAVIVNQLIPE  279 (349)
T ss_dssp             HHHTTCCEEEEEEEEECCS
T ss_pred             HHHCCCCeeEEEEcCCccc
Confidence            9999999999999998765

>3zq6_A Putative arsenical pump-driving ATPase; tail-anchored, membrane protein; HET: ADP; 2.11A {Methanothermobacter thermautotrophicusorganism_taxid}

Probab=99.90  E-value=2.4e-24  Score=183.96  Aligned_cols=170  Identities=19%  Similarity=0.219  Sum_probs=105.9

Q ss_pred             CcccCCCCCcHHHHHHHHHHHHHhcCCCCeEEEEecCCCCCCcccccCCCCCCCCCc-CCcc---------------ccc
Q psy14655          1 MIASSKGGVGKSTTTVNLATAMKICYPDKEIGILDADVFGPSIPILMNLPDTPLLNK-DNLM---------------IPL   64 (261)
Q Consensus         1 ~v~s~KGGvGKTT~a~~lA~~la~~g~~~~VllvD~D~~~~~~~~~~~~~~~~~~~~-~~~~---------------~~~   64 (261)
                      +|+|+||||||||+|+|||..+|+.|  +|||+||+|++ ++++.+|+.+....... ...+               ...
T Consensus        17 ~v~sgKGGvGKTTvA~~LA~~lA~~G--~rVLlvD~D~~-~~l~~~l~~~~~~~~~~v~~~l~~~~~d~~~~~~~~~~~~   93 (324)
T 3zq6_A           17 VFIGGKGGVGKTTISAATALWMARSG--KKTLVISTDPA-HSLSDSLEREIGHTPTKITENLYAVEIDPEVAMEEYQAKL   93 (324)
T ss_dssp             EEEEESTTSSHHHHHHHHHHHHHHTT--CCEEEEECCSS-CCHHHHHTSCCCSSCEEEETTEEEEECCHHHHHHHHHHHC
T ss_pred             EEEeCCCCchHHHHHHHHHHHHHHCC--CcEEEEeCCCC-cCHHHHhCCcCCCCCccCCCCceeeccChHHHHHHHHHHH
Confidence            47899999999999999999999999  99999999995 57888898764222110 0000               000


Q ss_pred             cccCceeecCCCCc-ccc--hhhhhhchHHHHHHHHHHHHhccCCCCEEEEeCCCCCChhH-------------------
Q psy14655         65 VNYGVKCLSMGNLI-TEK--SAAIWRGLMVMQALNKLTVQVQWGPCDILFIDTPPGTGDTH-------------------  122 (261)
Q Consensus        65 ~~~~l~~~~~~~~~-~~~--~~~~~~~~~~~~~l~~~l~~l~~~~yd~IiiD~~~~~~~~~-------------------  122 (261)
                      ......+++.+... ...  .....++......+.++.+.+...+||+|||||||+.+...                   
T Consensus        94 ~~~~~~~~~~~~~~~~~~l~~~~~~pg~~e~~~~~~~~~~~~~~~yD~VIiDtpPt~~~l~lL~~p~~~~~~~~~l~~~~  173 (324)
T 3zq6_A           94 QEQAAMNPGMGLDMLQDQMDMASMSPGIDEAAAFDQFLRYMTTDEYDIVIFDTAPTGHTLRLLSFPEIMDSWVGKMIKIR  173 (324)
T ss_dssp             ---------------------CTTSTTHHHHHHHHHHHHHHHHCCCSEEEEECCCHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHhhcccchhhhHHHHHHhccCCChHHHHHHHHHHHHHHhCCCCEEEECCCCCHHHHHHHHhHHHHHHHHHHHHHHH
Confidence            00001122222100 000  00011222222334444444433789999999999431100                   


Q ss_pred             ----------------------------------------HHHhhhcCCCeEEEEeCCCcchHHHHHHHHHHHHhCCCCe
Q psy14655        123 ----------------------------------------LSLIQNLFIDTAIIITIPDTMSLQVAQRGYTMFKKLNIPV  162 (261)
Q Consensus       123 ----------------------------------------~~~~~~~~ad~viiv~~~~~~s~~~~~~~~~~l~~~~~~~  162 (261)
                                                              ...+.....+.+++|+.|+..++..+.+.++.+.+.+++.
T Consensus       174 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~l~d~~~~~~vlV~~p~~~~~~~~~~~~~~l~~~gi~v  253 (324)
T 3zq6_A          174 RQIGSMAKAFKNILPFMGDEEEEDRALQDMEATKKQINAAREVMSDPERTSFKMVVIPEEMSIYESERAMKALEKYSIHA  253 (324)
T ss_dssp             HHHHHHHTTTTTTSCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHTCTTTEEEEEEECSSHHHHHHHHHHHHHHHHTTCCE
T ss_pred             HHHHHHHHHHhhhccccCCcccchHHHHHHHHHHHHHHHHHHHhcCCCCCeEEEEeCCcccHHHHHHHHHHHHHHCCCCc
Confidence                                                    0011111135899999999999999999999999999999


Q ss_pred             EEEEEcCCCCC
Q psy14655        163 AGLVMNMNSVL  173 (261)
Q Consensus       163 ~giv~N~~~~~  173 (261)
                      .|+|+|++...
T Consensus       254 ~gvV~N~~~~~  264 (324)
T 3zq6_A          254 DGVIVNQVLPE  264 (324)
T ss_dssp             EEEEEEEECCS
T ss_pred             cEEEEcCCccc
Confidence            99999997764

>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=99.89  E-value=2.3e-23  Score=181.21  Aligned_cols=155  Identities=17%  Similarity=0.184  Sum_probs=111.0

Q ss_pred             CcccCCCCCcHHHHHHHHHHHHHhcCCCCeEEEEecCCCCCCcccccCCCCCCCCCc----------------CCccccc
Q psy14655          1 MIASSKGGVGKSTTTVNLATAMKICYPDKEIGILDADVFGPSIPILMNLPDTPLLNK----------------DNLMIPL   64 (261)
Q Consensus         1 ~v~s~KGGvGKTT~a~~lA~~la~~g~~~~VllvD~D~~~~~~~~~~~~~~~~~~~~----------------~~~~~~~   64 (261)
                      +|+|+|||+||||+|+|||..||++|  +|||+||+| ..++++.++|.++..++.+                .+.+. .
T Consensus       147 av~s~KGGvGKTT~a~nLA~~La~~g--~rVlliD~D-~~~~l~~~lg~~~~~~l~d~l~~~~~~~~~~~~~l~~~i~-~  222 (373)
T 3fkq_A          147 IFTSPCGGVGTSTVAAACAIAHANMG--KKVFYLNIE-QCGTTDVFFQAEGNATMSDVIYSLKSRKANLLLKLESCIK-Q  222 (373)
T ss_dssp             EEECSSTTSSHHHHHHHHHHHHHHHT--CCEEEEECC-TTCCHHHHCCCSCSCCHHHHHHHHHSCCSCHHHHHHHTCE-E
T ss_pred             EEECCCCCChHHHHHHHHHHHHHhCC--CCEEEEECC-CCCCHHHHcCCCCCCCHHHHHhhhhcccccccccHHHHhh-c
Confidence            47899999999999999999999999  999999999 5568899999887654422                11111 2


Q ss_pred             cccCceeecCCCCcccchhhhhhchHHHHHHHHHHHHhc-cCCCCEEEEeCCCCCChhHHHHhhhcCCCeEEEEeCCCcc
Q psy14655         65 VNYGVKCLSMGNLITEKSAAIWRGLMVMQALNKLTVQVQ-WGPCDILFIDTPPGTGDTHLSLIQNLFIDTAIIITIPDTM  143 (261)
Q Consensus        65 ~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~l~-~~~yd~IiiD~~~~~~~~~~~~~~~~~ad~viiv~~~~~~  143 (261)
                      ...+++++|.+.........      ....+..+++.++ ...||+|||||||+.+.....++..  ||.+++|+.|+..
T Consensus       223 ~~~~l~~l~~~~~~~~~~~~------~~~~~~~ll~~l~~~~~yD~VIID~p~~~~~~~~~~l~~--aD~vivv~~~~~~  294 (373)
T 3fkq_A          223 SQEGVSYFSSTKVALDILEI------SYADIDTLIGNIQGMDNYDEIIVDLPFSLEIEKLKLLSK--AWRIIVVNDGSQL  294 (373)
T ss_dssp             CTTSCEECCCCSSGGGGGGC------CHHHHHHHHHHHHHTSCCSEEEEECCCCCCHHHHHHHTT--CSEEEEEECCCHH
T ss_pred             CCCCEEEecCCCChHhHHhC------CHHHHHHHHHHHHhcCCCCEEEEeCCCCCCHHHHHHHHH--CCEEEEEecCCch
Confidence            24789999987654332221      1223444444443 3589999999999999888888877  9999999999998


Q ss_pred             hHHHHHH---HHHHHHhCCCCeEEEEEcC
Q psy14655        144 SLQVAQR---GYTMFKKLNIPVAGLVMNM  169 (261)
Q Consensus       144 s~~~~~~---~~~~l~~~~~~~~giv~N~  169 (261)
                      ++..+..   +++.+... . .+++|.|+
T Consensus       295 s~~~l~~~~~~l~~l~~~-~-~~~vv~N~  321 (373)
T 3fkq_A          295 SNYKFMRAYESVVLLEQN-D-DINIIRNM  321 (373)
T ss_dssp             HHHHHHHHHHHHHHHTTS-T-TCCCGGGE
T ss_pred             HHHHHHHHHHHHHHhccc-C-CcEEEehh
Confidence            8555554   44444442 2 25566565

>2woj_A ATPase GET3; tail-anchored, membrane protein, targeting factor, endoplasmic reticulum, TRC40, ATP-binding, golgi apparatus; HET: ADP; 1.99A {Saccharomyces cerevisiae} PDB: 3h84_A 3zs8_A 3zs9_A* 3sja_A 3sjb_A 3sjc_A 3sjd_A* 3idq_A 3a36_A 3a37_A*

Probab=99.89  E-value=2.1e-23  Score=179.89  Aligned_cols=165  Identities=18%  Similarity=0.219  Sum_probs=110.5

Q ss_pred             CcccCCCCCcHHHHHHHHHHHHH--hcCCCCeEEEEecCCCCCCcccccCCCCCCCCC----cCCcc----------cc-
Q psy14655          1 MIASSKGGVGKSTTTVNLATAMK--ICYPDKEIGILDADVFGPSIPILMNLPDTPLLN----KDNLM----------IP-   63 (261)
Q Consensus         1 ~v~s~KGGvGKTT~a~~lA~~la--~~g~~~~VllvD~D~~~~~~~~~~~~~~~~~~~----~~~~~----------~~-   63 (261)
                      +|+|+||||||||+|+|||..||  +.|  +|||+||+|++ ++++.+|+.+......    ..+..          .. 
T Consensus        21 ~v~sgKGGvGKTTvaanLA~~lA~~~~G--~rVLLvD~D~~-~~l~~~lg~~~~~~~~~v~gl~~l~~~~id~~~~l~~~   97 (354)
T 2woj_A           21 IFVGGKGGVGKTTSSCSIAIQMALSQPN--KQFLLISTDPA-HNLSDAFGEKFGKDARKVTGMNNLSCMEIDPSAALKDM   97 (354)
T ss_dssp             EEEEESTTSSHHHHHHHHHHHHHHHCTT--SCEEEEECCSS-CCHHHHHTSCCCSSCEECTTCSSEEEEECCHHHHHHHH
T ss_pred             EEEeCCCCCcHHHHHHHHHHHHHHhcCC--CeEEEEECCCC-CCHHHHhCCCCCCCceeecCCCceEEEecCHHHHHHHH
Confidence            47899999999999999999999  899  99999999997 7889999986431100    00100          00 


Q ss_pred             ---ccc--c---------CceeecCCCCcccchh--hhhhchHHHHHHHHHHHHhccC------CCCEEEEeCCC-CC--
Q psy14655         64 ---LVN--Y---------GVKCLSMGNLITEKSA--AIWRGLMVMQALNKLTVQVQWG------PCDILFIDTPP-GT--  118 (261)
Q Consensus        64 ---~~~--~---------~l~~~~~~~~~~~~~~--~~~~~~~~~~~l~~~l~~l~~~------~yd~IiiD~~~-~~--  118 (261)
                         ...  +         +++.++.+...   ..  ...++......+.++++.++..      +|||||||||| |.  
T Consensus        98 ~~~~~~~~~~~~~~~~g~~l~~l~~~~~~---~el~~~~pg~~e~~~l~~l~~~l~~~~~~~~~~yD~IIiDtpPtG~tL  174 (354)
T 2woj_A           98 NDMAVSRANNNGSDGQGDDLGSLLQGGAL---ADLTGSIPGIDEALSFMEVMKHIKRQEQGEGETFDTVIFDTAPTGHTL  174 (354)
T ss_dssp             HTC--------------------CCSSHH---HHHHTTSTTHHHHHHHHHHHHHHHHHHHTSCCSCSEEEEECCCHHHHH
T ss_pred             HHHHHhhcccccccchhhhhhhccchhHH---HHHhcCCCChHHHHHHHHHHHHHhcccccccCCCCEEEECCCCchHHH
Confidence               000  0         34444422111   11  1123334446677788777621      79999999999 32  


Q ss_pred             -------------------ChhHH-----------------------------HHhhhcCCCeEEEEeCCCcchHHHHHH
Q psy14655        119 -------------------GDTHL-----------------------------SLIQNLFIDTAIIITIPDTMSLQVAQR  150 (261)
Q Consensus       119 -------------------~~~~~-----------------------------~~~~~~~ad~viiv~~~~~~s~~~~~~  150 (261)
                                         .....                             ..+....+|.+++|+.|+..++.++.+
T Consensus       175 rlL~~p~~~~~~l~~l~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~L~d~~~~~~vlV~~pe~~si~ea~r  254 (354)
T 2woj_A          175 RFLQLPNTLSKLLEKFGEITNKLGPMLNSFMGAGNVDISGKLNELKANVETIRQQFTDPDLTTFVCVCISEFLSLYETER  254 (354)
T ss_dssp             HHHTHHHHHHHHHHCC---------------------CHHHHHHHHHHHHHHHHHHTCTTTEEEEEEEESSHHHHHHHHH
T ss_pred             HHHhhHHHHHHHHHHHHHHHHHHHHHHHHhhcCChHHHHHHHHHHHHHHHHHHHHhcCCCCcEEEEEeCCCcchHHHHHH
Confidence                               00000                             011111378999999999999999999


Q ss_pred             HHHHHHhCCCCeEEEEEcCCC
Q psy14655        151 GYTMFKKLNIPVAGLVMNMNS  171 (261)
Q Consensus       151 ~~~~l~~~~~~~~giv~N~~~  171 (261)
                      +++.+...+++..++|+|++.
T Consensus       255 ~~~~L~~~g~~~~gvVvN~v~  275 (354)
T 2woj_A          255 LIQELISYDMDVNSIIVNQLL  275 (354)
T ss_dssp             HHHHHHHTTCCEEEEEEEEEC
T ss_pred             HHHHHHHcCCCCCEEEEecCC
Confidence            999999999999999999976

>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=99.87  E-value=1.2e-22  Score=173.42  Aligned_cols=163  Identities=17%  Similarity=0.167  Sum_probs=104.7

Q ss_pred             CcccCCCCCcHHHHHHHHHHHHHhcCCCCeEEEEecCCCCCCcccccCCCCCCCCCcCCccccccccCceeecCCC----
Q psy14655          1 MIASSKGGVGKSTTTVNLATAMKICYPDKEIGILDADVFGPSIPILMNLPDTPLLNKDNLMIPLVNYGVKCLSMGN----   76 (261)
Q Consensus         1 ~v~s~KGGvGKTT~a~~lA~~la~~g~~~~VllvD~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~----   76 (261)
                      +|+|+|||+||||+|+|||..||+.|  +|||+||+|++. ++..+|+.+.........     ..+++.....+.    
T Consensus        19 ~~~sgkGGvGKTt~a~~lA~~la~~g--~~vllid~D~~~-~l~~~l~~~~~~~~~~v~-----~~~~L~~~~id~~~~~   90 (334)
T 3iqw_A           19 IFVGGKGGVGKTTTSCSLAIQLAKVR--RSVLLLSTDPAH-NLSDAFSQKFGKEARLVE-----GFDNLYAMEIDPNGSM   90 (334)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHHTTSS--SCEEEEECCSSC-HHHHHHTSCCCSSCEECT-----TCSSEEEEECCC----
T ss_pred             EEEeCCCCccHHHHHHHHHHHHHhCC--CcEEEEECCCCC-ChhHHhccccCCCceeec-----CCCCceeeecCHHHHH
Confidence            47899999999999999999999999  999999999986 677788764321110000     001111111000    


Q ss_pred             ------------------CcccchhhhhhchHHHHHHHHHHHHhccCCCCEEEEeCCCCCChh-----------------
Q psy14655         77 ------------------LITEKSAAIWRGLMVMQALNKLTVQVQWGPCDILFIDTPPGTGDT-----------------  121 (261)
Q Consensus        77 ------------------~~~~~~~~~~~~~~~~~~l~~~l~~l~~~~yd~IiiD~~~~~~~~-----------------  121 (261)
                                        ..........++......+.++.+.+...+||+|||||||.-...                 
T Consensus        91 ~~~~~~~~~~~~~~~~~l~~~~~~~~~~Pg~~e~~~~~~~~~~~~~~~yD~VIiDtpPtg~tLrlL~lp~~l~~~l~~~~  170 (334)
T 3iqw_A           91 QDLLAGQTGDGDAGMGGVGVMQDLAYAIPGIDEAMSFAEVLKQVNSLSYETIVFDTAPTGHTLRFLQFPTVLEKALAKVS  170 (334)
T ss_dssp             ----------------------------CCHHHHHHHHHHHHHHHTSSCSEEEEECCCHHHHHHHHTHHHHC--------
T ss_pred             HHHHHHhhcccccccccchhhHHhhcCCCCHHHHHHHHHHHHHHHhCCCCEEEEeCCCCHHHHHHHHHHHHHHHHHHHHH
Confidence                              000000001122333333444444444479999999999921100                 


Q ss_pred             ------------------------------------------HHHHhhhcCCCeEEEEeCCCcchHHHHHHHHHHHHhCC
Q psy14655        122 ------------------------------------------HLSLIQNLFIDTAIIITIPDTMSLQVAQRGYTMFKKLN  159 (261)
Q Consensus       122 ------------------------------------------~~~~~~~~~ad~viiv~~~~~~s~~~~~~~~~~l~~~~  159 (261)
                                                                ....+.....+.+++|+.|+..++..+.++++.+.+.+
T Consensus       171 ~~~~~~~~~~~~~~~~~g~~p~~~~~~~~~~~l~~~~~~~~~~~~~L~dp~~t~~vlVt~pe~~~~~ea~r~~~~L~~~g  250 (334)
T 3iqw_A          171 QLSGQYGSLLNGILGGSGTLPNGQTLSDVMEKLDSLRVTISEVNAQFKDERLTTFVCVCIPEFLSLYETERMIQELANYG  250 (334)
T ss_dssp             ---------------------------CCHHHHHHHHHHHHHHHHHHTCTTTEEEEEEECSSHHHHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHHHHHHHhhcCCcccccHHHHHHHHHHHHHHHHHHHHHhhCCCCeeEEEEECCCccHHHHHHHHHHHHHHCC
Confidence                                                      00111111135799999999999999999999999999


Q ss_pred             CCeEEEEEcCCC
Q psy14655        160 IPVAGLVMNMNS  171 (261)
Q Consensus       160 ~~~~giv~N~~~  171 (261)
                      ++..|+|+|++.
T Consensus       251 i~v~gvVvN~~~  262 (334)
T 3iqw_A          251 IDTHCIVVNQLL  262 (334)
T ss_dssp             CCEEEEEEEEEC
T ss_pred             CCccEEEECCCc
Confidence            999999999966

>2woo_A ATPase GET3; tail-anchored, membrane protein, targeting factor, endoplasmic reticulum, TRC40, ATP-binding, golgi apparatus; 3.01A {Schizosaccharomyces pombe}

Probab=99.87  E-value=3.1e-22  Score=171.18  Aligned_cols=165  Identities=22%  Similarity=0.220  Sum_probs=106.6

Q ss_pred             CcccCCCCCcHHHHHHHHHHHHHhcCCCCeEEEEecCCCCCCcccccCCCCCCCC----CcCCccc----c---ccc--c
Q psy14655          1 MIASSKGGVGKSTTTVNLATAMKICYPDKEIGILDADVFGPSIPILMNLPDTPLL----NKDNLMI----P---LVN--Y   67 (261)
Q Consensus         1 ~v~s~KGGvGKTT~a~~lA~~la~~g~~~~VllvD~D~~~~~~~~~~~~~~~~~~----~~~~~~~----~---~~~--~   67 (261)
                      +|+|+||||||||+|+|||..||+.|  +||++||+|++ +++..+|+.+.....    ...+...    +   ...  .
T Consensus        22 ~v~sgkGGvGKTTva~~LA~~lA~~G--~rVllvD~D~~-~~l~~~l~~~~~~~~~~~~g~~~l~~~~~~~~~~~~~~~~   98 (329)
T 2woo_A           22 IFVGGKGGVGKTTTSCSLAIQMSKVR--SSVLLISTDPA-HNLSDAFGTKFGKDARKVPGFDNLSAMEIDPNLSIQEMTE   98 (329)
T ss_dssp             EEEECSSSSSHHHHHHHHHHHHHTSS--SCEEEEECCTT-CHHHHHHSSCCCSSCEECTTCSSEEEEECCHHHHHHHHHH
T ss_pred             EEEeCCCCCcHHHHHHHHHHHHHHCC--CeEEEEECCCC-cCHHHHhCCcCCCCCeeccCCCCeeEEecCHHHHHHHHHH
Confidence            47899999999999999999999999  99999999999 678888887521100    0011100    0   000  0


Q ss_pred             C-----ce-eecCCCCcccchhhhhhchHHHHHHHHHHHHhccCCCCEEEEeCCCC-CC------hhH------------
Q psy14655         68 G-----VK-CLSMGNLITEKSAAIWRGLMVMQALNKLTVQVQWGPCDILFIDTPPG-TG------DTH------------  122 (261)
Q Consensus        68 ~-----l~-~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~l~~~~yd~IiiD~~~~-~~------~~~------------  122 (261)
                      +     +. ++|..  . ..-...+++......+.++++.+...+||||||||||. ..      +..            
T Consensus        99 ~~~~~~l~~~l~~~--l-~~l~~~~pg~~e~~~~~~~~~~l~~~~yD~ViiDtpPtg~~l~lL~~p~~~~~~l~~l~~~~  175 (329)
T 2woo_A           99 QADQQNPNNPLSGM--M-QDLAFTIPGIDEALAFAEILKQIKSMEFDCVIFDTAPTGHTLRFLNFPTVLEKALGKLGGLS  175 (329)
T ss_dssp             TC--------CCHH--H-HHHHTTSTTHHHHHHHHHHHHHHHHTCCSEEEEECCSSSCTTTGGGHHHHHHHHHHHHHTSC
T ss_pred             HHhhhhHHHHhhHH--H-HHHhcCCCCHHHHHHHHHHHHHHHhCCCCEEEECCCCchHHHHHHHHHHHHHHHHHHHHHHH
Confidence            0     11 11100  0 00011123333334456666666546899999999993 21      000            


Q ss_pred             ------HHH-------------------------------hhhcCCCeEEEEeCCCcchHHHHHHHHHHHHhCCCCeEEE
Q psy14655        123 ------LSL-------------------------------IQNLFIDTAIIITIPDTMSLQVAQRGYTMFKKLNIPVAGL  165 (261)
Q Consensus       123 ------~~~-------------------------------~~~~~ad~viiv~~~~~~s~~~~~~~~~~l~~~~~~~~gi  165 (261)
                            ...                               +.....+.+++|+.|+..++..+.++++.++..+++..|+
T Consensus       176 ~~~~~~~~~l~~~~g~~~~~d~~~~~l~~~~~~~~~~~~~l~d~~~t~~vlV~~pe~~~i~ea~~~~~~L~~~gi~v~gv  255 (329)
T 2woo_A          176 SRFGPMINQMGSIMGVNANEQDLFGKMESMRANISEVNKQFKNPDLTTFVCVCISEFLSLYETERMIQELTSYEIDTHNI  255 (329)
T ss_dssp             SSCHHHHHHHHHHHC-----CCTTHHHHHHHHHHHHHHHHHTCTTTEEEEEEEESSHHHHHHHHHHHHHHHHHTCEEEEE
T ss_pred             HHHHHHHHHHHhhcCCCCCcHHHHHHHHHHHHHHHHHHHHhcCCCceEEEEEeCCCcchHHHHHHHHHHHHHCCCCCCEE
Confidence                  000                               0000124799999999999999999999999999999999


Q ss_pred             EEcCCC
Q psy14655        166 VMNMNS  171 (261)
Q Consensus       166 v~N~~~  171 (261)
                      |+|++.
T Consensus       256 VvN~~~  261 (329)
T 2woo_A          256 VVNQLL  261 (329)
T ss_dssp             EEEEEC
T ss_pred             EEeCCc
Confidence            999976

>3io3_A DEHA2D07832P; chaperone, membrane traffic, ATPase; HET: ADP; 1.80A {Debaryomyces hansenii}

Probab=99.85  E-value=2e-22  Score=172.96  Aligned_cols=163  Identities=17%  Similarity=0.187  Sum_probs=95.6

Q ss_pred             CcccCCCCCcHHHHHHHHHHHHH--hcCCCCeEEEEecCCCCCCcccccCCCCCCCCCcCCccccccccCceeec-----
Q psy14655          1 MIASSKGGVGKSTTTVNLATAMK--ICYPDKEIGILDADVFGPSIPILMNLPDTPLLNKDNLMIPLVNYGVKCLS-----   73 (261)
Q Consensus         1 ~v~s~KGGvGKTT~a~~lA~~la--~~g~~~~VllvD~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~-----   73 (261)
                      +|+|+|||+||||+|+|||..+|  +.|  +|||+||+|++. ++..+|+.+.........     ..+++....     
T Consensus        21 ~~~~gkGGvGKTt~a~~lA~~la~~~~g--~~vllid~D~~~-~l~~~~~~~~~~~~~~v~-----~~~~L~~~~id~~~   92 (348)
T 3io3_A           21 IFVGGKGGVGKTTTSSSVAVQLALAQPN--EQFLLISTDPAH-NLSDAFCQKFGKDARKVE-----GLPNLSCMEIDPEA   92 (348)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHHHHHCTT--SCEEEEECCSSC-HHHHHHTSCCCSSCEEET-----TEEEEEEEECCC--
T ss_pred             EEEeCCCCCcHHHHHHHHHHHHHHhcCC--CeEEEEECCCCC-ChHHHhccccCCCceecc-----CCCCceEEeeCHHH
Confidence            47889999999999999999999  899  999999999875 678888865321110000     000111110     


Q ss_pred             -------------------CCCCcccchhhhhhchHHHHHHHHHHHHhcc------------CCCCEEEEeCCCCCChhH
Q psy14655         74 -------------------MGNLITEKSAAIWRGLMVMQALNKLTVQVQW------------GPCDILFIDTPPGTGDTH  122 (261)
Q Consensus        74 -------------------~~~~~~~~~~~~~~~~~~~~~l~~~l~~l~~------------~~yd~IiiD~~~~~~~~~  122 (261)
                                         ..... .......++......+.++++.++.            .+||+|||||||.-+...
T Consensus        93 ~~~~~~~~~~~~~~~~~~~l~~~~-~~~~~~~Pg~~e~~~~~~~~~~l~~~~~~~~~~~~~~~~yD~VIiDtpPtg~tLr  171 (348)
T 3io3_A           93 AMSDLQQQASQYNNDPNDPLKSMM-SDMTGSIPGIDEALSFMEVLKHIKNQKVLEGEDNSNAISYKTIIFDTAPTGHTLR  171 (348)
T ss_dssp             ----------------------------------------------------------------CCEEEEECSSHHHHHH
T ss_pred             HHHHHHHHHHhhcccccccHhHHh-HHhhcCCCCHHHHHHHHHHHHHHHhccccccccccccCCCCEEEEcCCCchHHHH
Confidence                               00000 0000011222222345555555552            289999999998321100


Q ss_pred             ---------------------------------------------------HHHhhhcCCCeEEEEeCCCcchHHHHHHH
Q psy14655        123 ---------------------------------------------------LSLIQNLFIDTAIIITIPDTMSLQVAQRG  151 (261)
Q Consensus       123 ---------------------------------------------------~~~~~~~~ad~viiv~~~~~~s~~~~~~~  151 (261)
                                                                         ...+.....+.+++|+.|+..++..+.++
T Consensus       172 lL~lP~~~~~~l~~~~~~~~~~~p~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~L~dp~~t~~vlVt~pe~~~~~ea~r~  251 (348)
T 3io3_A          172 FLQLPSTLEKLLSKFKDLSGKLGPMLSMMGGGQQQDIFEKLNEVQKNVSEVNEQFTNPELTTFICVCISEFLSLYETERM  251 (348)
T ss_dssp             HTC---------------------------------------------CHHHHHHTCTTTEEEEEEEESSHHHHHHHHHH
T ss_pred             HHhhHHHHHHHHHHHHHHHHhhhHHHHhcccCchHHHHHHHHHHHHHHHHHHHHHhCcCceEEEEEecCCccHHHHHHHH
Confidence                                                               01111111357999999999999999999


Q ss_pred             HHHHHhCCCCeEEEEEcCCCC
Q psy14655        152 YTMFKKLNIPVAGLVMNMNSV  172 (261)
Q Consensus       152 ~~~l~~~~~~~~giv~N~~~~  172 (261)
                      ++.+.+.+++..|+|+||+..
T Consensus       252 ~~~L~~~gi~v~gvVvN~~~~  272 (348)
T 3io3_A          252 IQELMSYNMDVNSIVVNQLLF  272 (348)
T ss_dssp             HHHHHHTTCCCCEEEEEEECC
T ss_pred             HHHHHHCCCCccEEEEcCCcc
Confidence            999999999999999999764

>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=99.84  E-value=3.3e-21  Score=155.94  Aligned_cols=164  Identities=12%  Similarity=0.066  Sum_probs=99.0

Q ss_pred             CcccCCCCCcHHHHHHHHHHHHHhcCCCCeEEEEecCCCCCCcccc-cCCCC-CCC-CCc-CCccccccccCceeecCCC
Q psy14655          1 MIASSKGGVGKSTTTVNLATAMKICYPDKEIGILDADVFGPSIPIL-MNLPD-TPL-LNK-DNLMIPLVNYGVKCLSMGN   76 (261)
Q Consensus         1 ~v~s~KGGvGKTT~a~~lA~~la~~g~~~~VllvD~D~~~~~~~~~-~~~~~-~~~-~~~-~~~~~~~~~~~l~~~~~~~   76 (261)
                      +|+|+|||+||||+|.|||.+|+++|  +||+++|  ||.+..... .+... ... +.. .....+....+...++.. 
T Consensus         5 ~v~s~kgGvGKTt~a~nLa~~la~~G--~rVll~d--p~~~~~~~~~~~~~~~d~~~~~~~~~~~~~~~~~~~~~~~~~-   79 (224)
T 1byi_A            5 FVTGTDTEVGKTVASCALLQAAKAAG--YRTAGYK--PVASGSEKTPEGLRNSDALALQRNSSLQLDYATVNPYTFAEP-   79 (224)
T ss_dssp             EEEESSTTSCHHHHHHHHHHHHHHTT--CCEEEEC--SEEESCBCCTTSCBCHHHHHHHHTCSSCCCHHHHCSEEESSC-
T ss_pred             EEEECCCCCCHHHHHHHHHHHHHHCC--CCEEEEc--ceecCCccCCCCcChHHHHHHHHHhCCCCChhhcccEEeCCC-
Confidence            47899999999999999999999999  9999965  554322110 00000 000 000 000000000011111110 


Q ss_pred             CcccchhhhhhchHHHHHHHHHHHHhccCCCCEEEEeCCCCCChh------HHHHhhhcCCCeEEEEeCCCcchHHHHHH
Q psy14655         77 LITEKSAAIWRGLMVMQALNKLTVQVQWGPCDILFIDTPPGTGDT------HLSLIQNLFIDTAIIITIPDTMSLQVAQR  150 (261)
Q Consensus        77 ~~~~~~~~~~~~~~~~~~l~~~l~~l~~~~yd~IiiD~~~~~~~~------~~~~~~~~~ad~viiv~~~~~~s~~~~~~  150 (261)
                      ..................+.+.++.++ ++||||||||||+.+..      ........ .+.+++|+.++..++..+..
T Consensus        80 ~~~~~~~~~~~~~~~~~~l~~~l~~l~-~~yD~viID~p~~l~~p~~~~~~~~~l~~~~-~~~vi~v~~~~~~~~~~~~~  157 (224)
T 1byi_A           80 TSPHIISAQEGRPIESLVMSAGLRALE-QQADWVLVEGAGGWFTPLSDTFTFADWVTQE-QLPVILVVGVKLGCINHAML  157 (224)
T ss_dssp             SCHHHHHHHHTCCCCHHHHHHHHHHHH-TTCSEEEEECSSSTTCEEETTEEHHHHHHHH-TCCEEEEEECSTTHHHHHHH
T ss_pred             CCHHHHHHHcCCCCCHHHHHHHHHHHH-HhCCEEEEEcCCccccCCCcchhHHHHHHHh-CCCEEEEecCCCCcHHHHHH
Confidence            000000000001123456888888888 89999999999988632      11222210 23588899899999999999


Q ss_pred             HHHHHHhCCCCeEEEEEcCCC
Q psy14655        151 GYTMFKKLNIPVAGLVMNMNS  171 (261)
Q Consensus       151 ~~~~l~~~~~~~~giv~N~~~  171 (261)
                      .++.+++.+.++.|+|+|+++
T Consensus       158 ~i~~l~~~~~~i~gvvlN~~~  178 (224)
T 1byi_A          158 TAQVIQHAGLTLAGWVANDVT  178 (224)
T ss_dssp             HHHHHHHTTCCEEEEEEECCS
T ss_pred             HHHHHHHCCCcEEEEEEeCCC
Confidence            999998888999999999965

>1ihu_A Arsenical pump-driving ATPase; aluminum fluoride, ADP, ARSA ATPase, ATP binding site, hydro; HET: ADP; 2.15A {Escherichia coli} SCOP: c.37.1.10 c.37.1.10 PDB: 1f48_A* 1ii0_A* 1ii9_A*

Probab=99.80  E-value=1.9e-19  Score=165.35  Aligned_cols=163  Identities=14%  Similarity=0.173  Sum_probs=107.4

Q ss_pred             CcccCCCCCcHHHHHHHHHHHHHhcCCCCeEEEEecCCCCCCcccccCCCCCCCCCcCCccccccccCceeecCC-----
Q psy14655          1 MIASSKGGVGKSTTTVNLATAMKICYPDKEIGILDADVFGPSIPILMNLPDTPLLNKDNLMIPLVNYGVKCLSMG-----   75 (261)
Q Consensus         1 ~v~s~KGGvGKTT~a~~lA~~la~~g~~~~VllvD~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~-----   75 (261)
                      +|+|+|||+||||+|+|||..+|++|  +|||+||+|++ +++..+|+.+.........     ..+++.....+     
T Consensus        11 ~~~sgkGGvGKTT~a~~lA~~lA~~G--~rVLlvd~D~~-~~l~~~l~~~~~~~~~~v~-----~~~~l~~~~~d~~~~~   82 (589)
T 1ihu_A           11 LFFTGKGGVGKTSISCATAIRLAEQG--KRVLLVSTDPA-SNVGQVFSQTIGNTIQAIA-----SVPGLSALEIDPQAAA   82 (589)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHHHHTT--CCEEEEECCTT-CCHHHHTTSCCCSSCEECT-----TSTTEEEEECCHHHHH
T ss_pred             EEEeCCCcCHHHHHHHHHHHHHHHCC--CcEEEEECCCC-cCHHHHhCCcccCCCceec-----cchhhhhccCCHHHHH
Confidence            37899999999999999999999999  99999999996 6888999886432211100     01111111100     


Q ss_pred             ------------CCcccc--hhh-------hhhchHHHHHHHHHHH--HhccCCCCEEEEeCCCCCChhH----------
Q psy14655         76 ------------NLITEK--SAA-------IWRGLMVMQALNKLTV--QVQWGPCDILFIDTPPGTGDTH----------  122 (261)
Q Consensus        76 ------------~~~~~~--~~~-------~~~~~~~~~~l~~~l~--~l~~~~yd~IiiD~~~~~~~~~----------  122 (261)
                                  ...+..  ...       ........+.+.++++  .++ .+||+|||||||+.....          
T Consensus        83 ~~~~~~~~~~~~~~lp~~~~~~~~~~l~~~~~~e~~~~~~~~~ll~~~~l~-~~yD~VIiDt~P~~~~lrll~lP~~~~~  161 (589)
T 1ihu_A           83 QQYRARIVDPIKGVLPDDVVSSINEQLSGACTTEIAAFDEFTGLLTDASLL-TRFDHIIFDTAPTGHTIRLLQLPGAWSS  161 (589)
T ss_dssp             HHHHHHHHGGGTTTSCHHHHHHHHHHTSSHHHHHHHHHHHHHHHHHCTTHH-HHCSEEEESSCCCHHHHHHHHCGGGGTC
T ss_pred             HHHHHHHHHHHHHhcchhhHHHHHHHhcccchHHHHHHHHHHHHHhchhhc-ccCCEEEECCCCchhHHHHHHhHHHHHH
Confidence                        000000  000       0011122345667776  555 789999999998532100          


Q ss_pred             ----------------------------HHHhhhcCCCeEEEEeCCCcchHHHHHHHHHHHHhCCCCeEEEEEcCCCC
Q psy14655        123 ----------------------------LSLIQNLFIDTAIIITIPDTMSLQVAQRGYTMFKKLNIPVAGLVMNMNSV  172 (261)
Q Consensus       123 ----------------------------~~~~~~~~ad~viiv~~~~~~s~~~~~~~~~~l~~~~~~~~giv~N~~~~  172 (261)
                                                  ...+.....+.+++|+.|+..++..+.++++.+...+++..|+|+|++..
T Consensus       162 ~l~~~~~~~~~l~~~~~l~~~~~~~~~~~~~l~d~~~t~vvlV~~~~~~~~~~~~~~~~~L~~~g~~~~gvVlN~v~~  239 (589)
T 1ihu_A          162 FIDSNPEGASCLGPMAGLEKQREQYAYAVEALSDPKRTRLVLVARLQKSTLQEVARTHLELAAIGLKNQYLVINGVLP  239 (589)
T ss_dssp             CC------CCCCGGGGGCCSCHHHHHHHHHHHHCTTTEEEEEEEESCHHHHHHHHHHHHHHHHHTCCCEEEEEEEECC
T ss_pred             HHHHhhccccccchhhhhhHHHHHHHHHHHHhcCCCCcEEEEEeCCCccHHHHHHHHHHHHHhCCCCCCEEEEcCCcC
Confidence                                        00011100236999999999999999999999999999999999999653

>3igf_A ALL4481 protein; two-domained protein consisting of the N-terminal alpha-beta the C-terminal all beta domain., structural genomics; 2.00A {Nostoc SP}

Probab=99.78  E-value=1.7e-18  Score=149.56  Aligned_cols=158  Identities=13%  Similarity=0.144  Sum_probs=103.8

Q ss_pred             CcccCCCCCcHHHHHHHHHHHHHhcCCCCeEEEEecCCCCCCcccccCCCCCCCCCcCCccccccccCceee--------
Q psy14655          1 MIASSKGGVGKSTTTVNLATAMKICYPDKEIGILDADVFGPSIPILMNLPDTPLLNKDNLMIPLVNYGVKCL--------   72 (261)
Q Consensus         1 ~v~s~KGGvGKTT~a~~lA~~la~~g~~~~VllvD~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~--------   72 (261)
                      +|+++|||+||||+|+|+|..+|+.|  +|||+||+ ++. +++.+|+.........  .     .+++..+        
T Consensus         5 ~~~~gkGG~GKTt~a~~la~~la~~g--~~vllvd~-~~~-~l~~~~~~~~~~~~~~--v-----~~~L~~~eid~~~~~   73 (374)
T 3igf_A            5 LTFLGKSGVARTKIAIAAAKLLASQG--KRVLLAGL-AEP-VLPLLLEQTLTPDPQQ--I-----APNLEVVQFQSSVLL   73 (374)
T ss_dssp             EEEECSBHHHHHHHHHHHHHHHHHTT--CCEEEEEC-SCS-HHHHHHTSCCCSSCEE--E-----ETTEEEEECCHHHHH
T ss_pred             EEEeCCCCCcHHHHHHHHHHHHHHCC--CCeEEEeC-CCC-ChHHhhCCCCCCCccc--c-----cccccccccCHHHHH
Confidence            37899999999999999999999999  99999999 775 7788888763221100  0     0111111        


Q ss_pred             ---------------cCCCCc--ccchhhhhhchHHHHHHHHHHHHhccCCCCEEEEeCCCCCChh--------------
Q psy14655         73 ---------------SMGNLI--TEKSAAIWRGLMVMQALNKLTVQVQWGPCDILFIDTPPGTGDT--------------  121 (261)
Q Consensus        73 ---------------~~~~~~--~~~~~~~~~~~~~~~~l~~~l~~l~~~~yd~IiiD~~~~~~~~--------------  121 (261)
                                     +.....  ........++......+.++.+.+...+||+|||||||.-+..              
T Consensus        74 ~~~~~~~~~~~~~~l~~~~~~~~~~~el~~~Pg~~E~~~l~~~~~~~~~~~yD~VIvDtpPtg~tLrlL~lP~~l~~~l~  153 (374)
T 3igf_A           74 ERNWEEVKKLEAQYLRTPIIKEVYGQELVVLPGMDSALALNAIREYDASGKYDTIVYDGTGDAFTLRMLGLPESLSWYVR  153 (374)
T ss_dssp             HHHHHHHHHHHHHHCSSCSSSSSCGGGCCCCTTHHHHHHHHHHHHHHHTTCCSEEEEECCCSHHHHHHHTHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhhcccccccccchhhhccCCCHHHHHHHHHHHHHHhccCCCEEEEeCCCChHHhhhhhhhHHHHHHHH
Confidence                           111110  0111111223333334445554444478999999999932100              


Q ss_pred             ---------------------------------------------------HHHHhhhcCCCeEEEEeCCCcchHHHHHH
Q psy14655        122 ---------------------------------------------------HLSLIQNLFIDTAIIITIPDTMSLQVAQR  150 (261)
Q Consensus       122 ---------------------------------------------------~~~~~~~~~ad~viiv~~~~~~s~~~~~~  150 (261)
                                                                         ....+.......+++|+.|+..++.++.+
T Consensus       154 ~l~~~~~~~~~g~~~~~~~~~~p~~~~~~~~~~~~d~~~~~l~~~~~~~~~~~~~L~dp~~t~~vlVt~pe~~sl~ea~r  233 (374)
T 3igf_A          154 RFRQLFVNSDLGKTIAESPLIQPLISSFFNVNWTADNFAQPTNQVNNFLDKGKEALADPKRVAAFLVTTADPLEVVSVRY  233 (374)
T ss_dssp             HTTSCC-----------------------------------CHHHHHHHHHHHHHHHCTTTEEEEEEECSCHHHHHHHHH
T ss_pred             HHHHHHhhhccccccccchhhhhhhhhhccCCCchHHHHHHHHHHHHHHHHHHHHHhccCCeEEEEEECCCccHHHHHHH
Confidence                                                               01111111124689999999999999999


Q ss_pred             HHHHHHhCCCCeEEEEEcC
Q psy14655        151 GYTMFKKLNIPVAGLVMNM  169 (261)
Q Consensus       151 ~~~~l~~~~~~~~giv~N~  169 (261)
                      .++.+.+.+++..|+|+||
T Consensus       234 ~~~~L~~~gi~v~gvVvN~  252 (374)
T 3igf_A          234 LWGSAQQIGLTIGGVIQVS  252 (374)
T ss_dssp             HHHHHHHHTCCEEEEEECC
T ss_pred             HHHHHHHcCCCccEEEEcC
Confidence            9999999999999999999

>1ihu_A Arsenical pump-driving ATPase; aluminum fluoride, ADP, ARSA ATPase, ATP binding site, hydro; HET: ADP; 2.15A {Escherichia coli} SCOP: c.37.1.10 c.37.1.10 PDB: 1f48_A* 1ii0_A* 1ii9_A*

Probab=99.77  E-value=4.3e-19  Score=163.00  Aligned_cols=168  Identities=15%  Similarity=0.165  Sum_probs=98.0

Q ss_pred             CcccCCCCCcHHHHHHHHHHHHHhcCCCCeEEEEecCCCCCCcccccCCCCCCCCCc--CCccccccccCceeecCC-CC
Q psy14655          1 MIASSKGGVGKSTTTVNLATAMKICYPDKEIGILDADVFGPSIPILMNLPDTPLLNK--DNLMIPLVNYGVKCLSMG-NL   77 (261)
Q Consensus         1 ~v~s~KGGvGKTT~a~~lA~~la~~g~~~~VllvD~D~~~~~~~~~~~~~~~~~~~~--~~~~~~~~~~~l~~~~~~-~~   77 (261)
                      +|+++|||+||||+|+|||..|++.|  ++|++||+|++. ++..+|+.... .+..  .+...........+++.. ..
T Consensus       330 ~~~~~~~g~Gktt~a~~lA~~l~~~g--~~vllvD~Dp~~-~l~~~l~~~~~-~l~~~~~~~~~~~~~~~~~v~~~~~~~  405 (589)
T 1ihu_A          330 IMLMGKGGVGKTTMAAAIAVRLADMG--FDVHLTTSDPAA-HLSMTLNGSLN-NLQVSRIDPHEETERYRQHVLETKGKE  405 (589)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHHHHTT--CCEEEEESCCC------------C-CEEEEECCHHHHHHHHHHHHHHHHHTT
T ss_pred             EEEecCCCCChhhHHHHHHHHHHHCC--CcEEEEeCCCcc-cHhHHhcccCC-CceeeecchHHHHHHHHHHHHHhhhcc
Confidence            36899999999999999999999999  999999999995 57777766321 1110  000000000000111110 00


Q ss_pred             cc-c-chh--hhh--hchHHHHHHHHHHHHhccCCCCEEEEeCCCCCChh-------------------------HHHHh
Q psy14655         78 IT-E-KSA--AIW--RGLMVMQALNKLTVQVQWGPCDILFIDTPPGTGDT-------------------------HLSLI  126 (261)
Q Consensus        78 ~~-~-~~~--~~~--~~~~~~~~l~~~l~~l~~~~yd~IiiD~~~~~~~~-------------------------~~~~~  126 (261)
                      .. . ...  ...  +.......+..+.+.++..+||||||||||+....                         ....+
T Consensus       406 l~~~~~~~~~~~~~~p~~~e~~~~~~l~~~~~~~~~D~vviD~~p~~~tl~ll~~p~~~~~~~~~~~~~~~~~~~~~~~l  485 (589)
T 1ihu_A          406 LDEAGKRLLEEDLRSPCTEEIAVFQAFSRVIREAGKRFVVMDTAPTGHTLLLLDATGAYHREIAKKMGEKGHFTTPMMLL  485 (589)
T ss_dssp             CCHHHHHHHHHHTTSHHHHHHHHHHHHTTTGGGGGTSEEEESCCCCHHHHHHHHHC------------------CCHHHH
T ss_pred             CChhhHHHHHHHhcCCChHHHHHHHHHHHHHhccCCCEEEEcCCCCccHHHHHHhHHHHHHHHHHhcccchHHHHHHHHh
Confidence            00 0 000  000  11111223444444443357999999999983210                         01111


Q ss_pred             hhcCCCeEEEEeCCCcchHHHHHHHHHHHHhCCCCeEEEEEcCCCC
Q psy14655        127 QNLFIDTAIIITIPDTMSLQVAQRGYTMFKKLNIPVAGLVMNMNSV  172 (261)
Q Consensus       127 ~~~~ad~viiv~~~~~~s~~~~~~~~~~l~~~~~~~~giv~N~~~~  172 (261)
                      ....+|.+++|+.|+..++..+.++++.+...+++..++|+|++..
T Consensus       486 ~d~~~~~vvlV~~p~~~~~~~a~~~~~~l~~~g~~~~gvVvN~~~~  531 (589)
T 1ihu_A          486 QDPERTKVLLVTLPETTPVLEAANLQADLERAGIHPWGWIINNSLS  531 (589)
T ss_dssp             HCTTTEEEEEEECSSHHHHHHHHHHHHHHHHTTCCCCEEEEEEEST
T ss_pred             cCCCCCEEEEEeCCCccHHHHHHHHHHHHHHCCCCCCEEEEeCCcC
Confidence            1112689999999999999999999999999999999999999764

>2xxa_A Signal recognition particle protein; protein transport, RNA/RNA binding protein, hydrolase, gtpas; HET: GCP; 3.94A {Escherichia coli} PDB: 2j28_9

Probab=99.64  E-value=4.8e-16  Score=136.93  Aligned_cols=140  Identities=18%  Similarity=0.202  Sum_probs=92.2

Q ss_pred             cCCCCCcHHHHHHHHHHHHHhc-CCCCeEEEEecCCCCCCcccccCCCCCCCCCcCCccccccccCceeecCCCCcccch
Q psy14655          4 SSKGGVGKSTTTVNLATAMKIC-YPDKEIGILDADVFGPSIPILMNLPDTPLLNKDNLMIPLVNYGVKCLSMGNLITEKS   82 (261)
Q Consensus         4 s~KGGvGKTT~a~~lA~~la~~-g~~~~VllvD~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~   82 (261)
                      .++||+||||++.+||.+|+++ |  ++|++||+|++.+...+.+.             ......+++++|.+....   
T Consensus       106 vG~~GvGKTT~a~~LA~~l~~~~G--~kVllvd~D~~r~~a~~ql~-------------~~~~~~~l~v~~~~~~~d---  167 (433)
T 2xxa_A          106 AGLQGAGKTTSVGKLGKFLREKHK--KKVLVVSADVYRPAAIKQLE-------------TLAEQVGVDFFPSDVGQK---  167 (433)
T ss_dssp             ECSTTSSHHHHHHHHHHHHHHTSC--CCEEEEECCCSSTTHHHHHH-------------HHHHHHTCEECCCCSSSC---
T ss_pred             ECCCCCCHHHHHHHHHHHHHHhcC--CeEEEEecCCCCccHHHHHH-------------hhcccCCeeEEeCCCCCC---
Confidence            3699999999999999999998 9  99999999999876433211             011234677777654221   


Q ss_pred             hhhhhchHHHHHHHHHHHHhccCCCCEEEEeCCCCCCh--hHHHHh----hhcCCCeEEEEeCCCcchHHHHHHHHHHHH
Q psy14655         83 AAIWRGLMVMQALNKLTVQVQWGPCDILFIDTPPGTGD--THLSLI----QNLFIDTAIIITIPDTMSLQVAQRGYTMFK  156 (261)
Q Consensus        83 ~~~~~~~~~~~~l~~~l~~l~~~~yd~IiiD~~~~~~~--~~~~~~----~~~~ad~viiv~~~~~~s~~~~~~~~~~l~  156 (261)
                              ....+.+.++.++..+||+|||||||..+.  .....+    ....+|.+++|+.+...  .++...++.+.
T Consensus       168 --------p~~i~~~~l~~~~~~~~D~VIIDTpG~l~~~~~l~~~L~~~~~~~~p~~vllVvda~~g--~~~~~~~~~f~  237 (433)
T 2xxa_A          168 --------PVDIVNAALKEAKLKFYDVLLVDTAGRLHVDEAMMDEIKQVHASINPVETLFVVDAMTG--QDAANTAKAFN  237 (433)
T ss_dssp             --------HHHHHHHHHHHHHHTTCSEEEEECCCCCTTCHHHHHHHHHHHHHSCCSEEEEEEETTBC--TTHHHHHHHHH
T ss_pred             --------HHHHHHHHHHHHHhCCCCEEEEECCCcccccHHHHHHHHHHHHhhcCcceeEEeecchh--HHHHHHHHHHh
Confidence                    112235666666536899999999986642  222211    11227899998886543  33344444444


Q ss_pred             hCCCCeEEEEEcCCCC
Q psy14655        157 KLNIPVAGLVMNMNSV  172 (261)
Q Consensus       157 ~~~~~~~giv~N~~~~  172 (261)
                      . .+++.|+|+|+++.
T Consensus       238 ~-~l~i~gvVlnK~D~  252 (433)
T 2xxa_A          238 E-ALPLTGVVLTKVDG  252 (433)
T ss_dssp             H-HSCCCCEEEECTTS
T ss_pred             c-cCCCeEEEEecCCC
Confidence            3 45678999999764

>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=99.60  E-value=5.9e-16  Score=127.83  Aligned_cols=40  Identities=15%  Similarity=0.198  Sum_probs=36.9

Q ss_pred             CcccCCCCCcHHHHHHHHHHHHHhcCCCCeEEEEecCCCCCCc
Q psy14655          1 MIASSKGGVGKSTTTVNLATAMKICYPDKEIGILDADVFGPSI   43 (261)
Q Consensus         1 ~v~s~KGGvGKTT~a~~lA~~la~~g~~~~VllvD~D~~~~~~   43 (261)
                      +++++|||+||||++.+||..++ .|  ++|++||+|+|.+.+
T Consensus        17 ~~~~GkgGvGKTTl~~~La~~l~-~g--~~v~vvd~D~~~~~~   56 (262)
T 1yrb_A           17 VVFVGTAGSGKTTLTGEFGRYLE-DN--YKVAYVNLDTGVKEL   56 (262)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHHT-TT--SCEEEEECCSSCSCC
T ss_pred             EEEeCCCCCCHHHHHHHHHHHHH-CC--CeEEEEeCCCCcccc
Confidence            36899999999999999999999 99  999999999998654

>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=99.59  E-value=2.5e-15  Score=126.23  Aligned_cols=140  Identities=18%  Similarity=0.167  Sum_probs=91.0

Q ss_pred             ccCCCCCcHHHHHHHHHHHHHhcCCCCeEEEEecCCCCCCcccccCCCCCCCCCcCCccccccccCceeecCCCCcccch
Q psy14655          3 ASSKGGVGKSTTTVNLATAMKICYPDKEIGILDADVFGPSIPILMNLPDTPLLNKDNLMIPLVNYGVKCLSMGNLITEKS   82 (261)
Q Consensus         3 ~s~KGGvGKTT~a~~lA~~la~~g~~~~VllvD~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~   82 (261)
                      +.+++|+||||++.+||..++..|  .+|+++|+|++++...+.+..             .....++.+++.....    
T Consensus       103 i~G~~G~GKTT~~~~la~~~~~~g--~~v~l~~~D~~r~~a~~ql~~-------------~~~~~~v~v~~~~~~~----  163 (297)
T 1j8m_F          103 LVGVQGTGKTTTAGKLAYFYKKKG--FKVGLVGADVYRPAALEQLQQ-------------LGQQIGVPVYGEPGEK----  163 (297)
T ss_dssp             EECSSCSSTTHHHHHHHHHHHHTT--CCEEEEECCCSSSHHHHHHHH-------------HHHHHTCCEECCTTCC----
T ss_pred             EECCCCCCHHHHHHHHHHHHHHCC--CeEEEEecCCCCHHHHHHHHH-------------HhccCCeEEEecCCCC----
Confidence            357999999999999999999999  999999999998754332210             0112355666632111    


Q ss_pred             hhhhhchHHHHHHHHHHHHhccCCCCEEEEeCCCCCC--hh--HHH----HhhhcCCCeEEEEeCCCcchHHHHHHHHHH
Q psy14655         83 AAIWRGLMVMQALNKLTVQVQWGPCDILFIDTPPGTG--DT--HLS----LIQNLFIDTAIIITIPDTMSLQVAQRGYTM  154 (261)
Q Consensus        83 ~~~~~~~~~~~~l~~~l~~l~~~~yd~IiiD~~~~~~--~~--~~~----~~~~~~ad~viiv~~~~~~s~~~~~~~~~~  154 (261)
                             .....+.+.++.++.++||+|||||||...  ..  ...    ......+|.+++|+.+...  ..+...++.
T Consensus       164 -------~p~~~~~~~l~~~~~~~~D~ViIDTpg~~~~~~~~~l~~el~~i~~~~~~d~vllVvda~~g--~~~~~~~~~  234 (297)
T 1j8m_F          164 -------DVVGIAKRGVEKFLSEKMEIIIVDTAGRHGYGEEAALLEEMKNIYEAIKPDEVTLVIDASIG--QKAYDLASK  234 (297)
T ss_dssp             -------CHHHHHHHHHHHHHHTTCSEEEEECCCSCCTTCHHHHHHHHHHHHHHHCCSEEEEEEEGGGG--GGHHHHHHH
T ss_pred             -------CHHHHHHHHHHHHHhCCCCEEEEeCCCCcccccHHHHHHHHHHHHHHhcCCEEEEEeeCCch--HHHHHHHHH
Confidence                   111223456666644789999999998776  21  110    0112238999999987542  333444455


Q ss_pred             HHhCCCCeEEEEEcCCC
Q psy14655        155 FKKLNIPVAGLVMNMNS  171 (261)
Q Consensus       155 l~~~~~~~~giv~N~~~  171 (261)
                      +.. ..++.|+|+|+++
T Consensus       235 ~~~-~~~i~gvVlnk~D  250 (297)
T 1j8m_F          235 FNQ-ASKIGTIIITKMD  250 (297)
T ss_dssp             HHH-TCTTEEEEEECGG
T ss_pred             HHh-hCCCCEEEEeCCC
Confidence            544 4677999999955

>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=99.51  E-value=3e-14  Score=119.73  Aligned_cols=138  Identities=20%  Similarity=0.168  Sum_probs=88.2

Q ss_pred             CCCCCcHHHHHHHHHHHHHhcCCCCeEEEEecCCCCCCcccccCCCCCCCCCcCCccccccccCceeecCCCCcccchhh
Q psy14655          5 SKGGVGKSTTTVNLATAMKICYPDKEIGILDADVFGPSIPILMNLPDTPLLNKDNLMIPLVNYGVKCLSMGNLITEKSAA   84 (261)
Q Consensus         5 ~KGGvGKTT~a~~lA~~la~~g~~~~VllvD~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~   84 (261)
                      +++|+||||++.+||..++..|  .+|+++|+|++.+...+.+..             .....++.+++.+....+    
T Consensus       105 g~~G~GKTT~~~~la~~~~~~~--~~v~l~~~d~~~~~~~~ql~~-------------~~~~~~l~~~~~~~~~~p----  165 (295)
T 1ls1_A          105 GLQGSGKTTTAAKLALYYKGKG--RRPLLVAADTQRPAAREQLRL-------------LGEKVGVPVLEVMDGESP----  165 (295)
T ss_dssp             CCTTTTHHHHHHHHHHHHHHTT--CCEEEEECCSSCHHHHHHHHH-------------HHHHHTCCEEECCTTCCH----
T ss_pred             CCCCCCHHHHHHHHHHHHHHcC--CeEEEecCCcccHhHHHHHHH-------------hcccCCeEEEEcCCCCCH----
Confidence            7999999999999999999999  999999999998654322210             012346777775542111    


Q ss_pred             hhhchHHHHHHHHHHHHhccCCCCEEEEeCCCCCCh--hHHHHh----hhcCCCeEEEEeCCCcchHHHHHHHHHHHHhC
Q psy14655         85 IWRGLMVMQALNKLTVQVQWGPCDILFIDTPPGTGD--THLSLI----QNLFIDTAIIITIPDTMSLQVAQRGYTMFKKL  158 (261)
Q Consensus        85 ~~~~~~~~~~l~~~l~~l~~~~yd~IiiD~~~~~~~--~~~~~~----~~~~ad~viiv~~~~~~s~~~~~~~~~~l~~~  158 (261)
                             ...++..++.+...+||+|||||||..+.  .....+    ....+|.+++|+.+.. . ..+...++.+.. 
T Consensus       166 -------~~l~~~~l~~~~~~~~D~viiDtpp~~~~d~~~~~~l~~~~~~~~~~~~~lv~~~~~-~-~~~~~~~~~~~~-  235 (295)
T 1ls1_A          166 -------ESIRRRVEEKARLEARDLILVDTAGRLQIDEPLMGELARLKEVLGPDEVLLVLDAMT-G-QEALSVARAFDE-  235 (295)
T ss_dssp             -------HHHHHHHHHHHHHHTCCEEEEECCCCSSCCHHHHHHHHHHHHHHCCSEEEEEEEGGG-T-HHHHHHHHHHHH-
T ss_pred             -------HHHHHHHHHHHHhCCCCEEEEeCCCCccccHHHHHHHHHHhhhcCCCEEEEEEeCCC-c-HHHHHHHHHHhh-
Confidence                   01134555555326899999999987643  212211    1112788888888653 2 333333444433 


Q ss_pred             CCCeEEEEEcCCC
Q psy14655        159 NIPVAGLVMNMNS  171 (261)
Q Consensus       159 ~~~~~giv~N~~~  171 (261)
                      ..++.|+|+|+++
T Consensus       236 ~~~i~givlnk~d  248 (295)
T 1ls1_A          236 KVGVTGLVLTKLD  248 (295)
T ss_dssp             HTCCCEEEEECGG
T ss_pred             cCCCCEEEEECCC
Confidence            3567899999955

>1zu4_A FTSY; GTPase, signal recognition particle, SRP, receptor, protein transport; 1.95A {Mycoplasma mycoides} PDB: 1zu5_A

Probab=99.49  E-value=1.9e-13  Score=115.97  Aligned_cols=140  Identities=17%  Similarity=0.216  Sum_probs=86.3

Q ss_pred             cccCCCCCcHHHHHHHHHHHHHhcCCCCeEEEEecCCCCCCcc----cccCCCCCCCCCcCCccccccccCceeecCCCC
Q psy14655          2 IASSKGGVGKSTTTVNLATAMKICYPDKEIGILDADVFGPSIP----ILMNLPDTPLLNKDNLMIPLVNYGVKCLSMGNL   77 (261)
Q Consensus         2 v~s~KGGvGKTT~a~~lA~~la~~g~~~~VllvD~D~~~~~~~----~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~   77 (261)
                      |+|. +|+||||++.+||..++..|  .+|+++|+|++++...    .+..              .....++.++|.+..
T Consensus       110 ivG~-~G~GKTT~~~~LA~~l~~~g--~kVllid~D~~r~~a~~ql~~~~~--------------~~~~~~l~vip~~~~  172 (320)
T 1zu4_A          110 LVGV-NGTGKTTSLAKMANYYAELG--YKVLIAAADTFRAGATQQLEEWIK--------------TRLNNKVDLVKANKL  172 (320)
T ss_dssp             EESS-TTSSHHHHHHHHHHHHHHTT--CCEEEEECCCSCHHHHHHHHHHHT--------------TTSCTTEEEECCSST
T ss_pred             EECC-CCCCHHHHHHHHHHHHHHCC--CeEEEEeCCCcchhHHHHHHHHHh--------------ccccCCceEEeCCCC
Confidence            4554 99999999999999999999  9999999999875321    1111              001346778865542


Q ss_pred             cccchhhhhhchHHHHHHHHHHHHhccCCCCEEEEeCCCCCChh--HHHH-------hh---hcCCCeEEEEeCCCcchH
Q psy14655         78 ITEKSAAIWRGLMVMQALNKLTVQVQWGPCDILFIDTPPGTGDT--HLSL-------IQ---NLFIDTAIIITIPDTMSL  145 (261)
Q Consensus        78 ~~~~~~~~~~~~~~~~~l~~~l~~l~~~~yd~IiiD~~~~~~~~--~~~~-------~~---~~~ad~viiv~~~~~~s~  145 (261)
                      ......         .....+...++ ++||+|||||||.....  ....       +.   ...+|.+++|+.+.. ..
T Consensus       173 ~~~p~~---------~~~~~l~~~~~-~~yD~VIIDTpg~l~~~~~l~~eL~~~~~vi~~~~p~~~d~vllVl~a~~-~~  241 (320)
T 1zu4_A          173 NADPAS---------VVFDAIKKAKE-QNYDLLLIDTAGRLQNKTNLMAELEKMNKIIQQVEKSAPHEVLLVIDATT-GQ  241 (320)
T ss_dssp             TCCHHH---------HHHHHHHHHHH-TTCSEEEEECCCCGGGHHHHHHHHHHHHHHHHTTCTTCCSEEEEEEEGGG-TH
T ss_pred             CCCHHH---------HHHHHHHHHHh-cCCCEEEEcCCCcccccHHHHHHHHHHHHHHhcccCCCCceEEEEEECCC-cH
Confidence            211110         11223333345 89999999999977532  1111       10   112788899988663 33


Q ss_pred             HHHHHHHHHHHhCCCCeEEEEEcCCC
Q psy14655        146 QVAQRGYTMFKKLNIPVAGLVMNMNS  171 (261)
Q Consensus       146 ~~~~~~~~~l~~~~~~~~giv~N~~~  171 (261)
                      ..+.. ++.+.. ..++.|+|+|+++
T Consensus       242 ~~l~~-~~~~~~-~~~i~GvVltk~d  265 (320)
T 1zu4_A          242 NGVIQ-AEEFSK-VADVSGIILTKMD  265 (320)
T ss_dssp             HHHHH-HHHHTT-TSCCCEEEEECGG
T ss_pred             HHHHH-HHHHhh-cCCCcEEEEeCCC
Confidence            33333 232322 3567999999955

>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=99.47  E-value=5.5e-14  Score=123.11  Aligned_cols=140  Identities=21%  Similarity=0.148  Sum_probs=90.6

Q ss_pred             cCCCCCcHHHHHHHHHHHHHhcCCCCeEEEEecCCCCCCcccccCCCCCCCCCcCCccccccccCceeecCCCCcccchh
Q psy14655          4 SSKGGVGKSTTTVNLATAMKICYPDKEIGILDADVFGPSIPILMNLPDTPLLNKDNLMIPLVNYGVKCLSMGNLITEKSA   83 (261)
Q Consensus         4 s~KGGvGKTT~a~~lA~~la~~g~~~~VllvD~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~   83 (261)
                      .+++|+||||++.+||..++..|  .+|+++|+|++.+...+.+...             ....++++++.+....    
T Consensus       104 ~G~~GsGKTT~~~~LA~~l~~~g--~~Vllvd~D~~r~aa~~qL~~~-------------~~~~gv~v~~~~~~~~----  164 (425)
T 2ffh_A          104 VGLQGSGKTTTAAKLALYYKGKG--RRPLLVAADTQRPAAREQLRLL-------------GEKVGVPVLEVMDGES----  164 (425)
T ss_dssp             ECCTTSSHHHHHHHHHHHHHTTT--CCEEEEECCSSCHHHHHHHHHH-------------HHHHTCCEEECCTTCC----
T ss_pred             ECCCCCCHHHHHHHHHHHHHHcC--CeEEEeeccccCchhHHHHHHh-------------cccCCccEEecCCCCC----
Confidence            37899999999999999999999  9999999999986543322110             1223667777654211    


Q ss_pred             hhhhchHHHHHHHHHHHHhccCCCCEEEEeCCCCCChh--HHH----HhhhcCCCeEEEEeCCCcchHHHHHHHHHHHHh
Q psy14655         84 AIWRGLMVMQALNKLTVQVQWGPCDILFIDTPPGTGDT--HLS----LIQNLFIDTAIIITIPDTMSLQVAQRGYTMFKK  157 (261)
Q Consensus        84 ~~~~~~~~~~~l~~~l~~l~~~~yd~IiiD~~~~~~~~--~~~----~~~~~~ad~viiv~~~~~~s~~~~~~~~~~l~~  157 (261)
                             ....+.+.++.++..+||+|||||||.....  ...    ......+|.+++|+++...  .++...++.+..
T Consensus       165 -------p~~i~~~~l~~~~~~~~DvVIIDTaG~l~~d~~l~~el~~i~~~~~pd~vlLVvDa~tg--q~av~~a~~f~~  235 (425)
T 2ffh_A          165 -------PESIRRRVEEKARLEARDLILVDTAGRLQIDEPLMGELARLKEVLGPDEVLLVLDAMTG--QEALSVARAFDE  235 (425)
T ss_dssp             -------HHHHHHHHHHHHHHTTCSEEEEECCCCSSCCHHHHHHHHHHHHHHCCSEEEEEEEGGGT--THHHHHHHHHHH
T ss_pred             -------HHHHHHHHHHHHHHCCCCEEEEcCCCcccccHHHHHHHHHhhhccCCceEEEEEeccch--HHHHHHHHHHHh
Confidence                   0112345666653378999999999876421  111    1111227899999986532  344444444443


Q ss_pred             CCCCeEEEEEcCCCC
Q psy14655        158 LNIPVAGLVMNMNSV  172 (261)
Q Consensus       158 ~~~~~~giv~N~~~~  172 (261)
                       .+++.|+|+|+++.
T Consensus       236 -~l~i~GVIlTKlD~  249 (425)
T 2ffh_A          236 -KVGVTGLVLTKLDG  249 (425)
T ss_dssp             -HTCCCEEEEESGGG
T ss_pred             -cCCceEEEEeCcCC
Confidence             35678999999653

>3of5_A Dethiobiotin synthetase; structural genomics, center for structural genomics of infec diseases, csgid, ligase; 1.52A {Francisella tularensis subsp}

Probab=99.41  E-value=1.7e-13  Score=110.77  Aligned_cols=158  Identities=16%  Similarity=0.181  Sum_probs=96.0

Q ss_pred             cccCCCCCcHHHHHHHHHHHHHhcCCCCeEEEEecCCCCCCcccccCCCCCCCCCcCCccc-------cccccCceeecC
Q psy14655          2 IASSKGGVGKSTTTVNLATAMKICYPDKEIGILDADVFGPSIPILMNLPDTPLLNKDNLMI-------PLVNYGVKCLSM   74 (261)
Q Consensus         2 v~s~KGGvGKTT~a~~lA~~la~~g~~~~VllvD~D~~~~~~~~~~~~~~~~~~~~~~~~~-------~~~~~~l~~~~~   74 (261)
                      |++...|+||||++++|+..|+++|  ++|.+.-  |.......   ..  ..+.+.+...       +....+...+..
T Consensus         9 Itgt~t~vGKT~vt~~L~~~l~~~G--~~V~~~K--Pv~~g~~~---~~--~~~~~~D~~~~~~~~~~~~~~~~~~~~~~   79 (228)
T 3of5_A            9 IIGTDTEVGKTYISTKLIEVCEHQN--IKSLCLK--PVASGQSQ---FS--ELCEDVESILNAYKHKFTAAEINLISFNQ   79 (228)
T ss_dssp             EEESSSSSCHHHHHHHHHHHHHHTT--CCEEEEC--SEEESBCS---SS--SSBHHHHHHHHHTTTSSCHHHHCSEEESS
T ss_pred             EEeCCCCCCHHHHHHHHHHHHHHCC--CeeEEec--ceeecCcc---CC--CCCChHHHHHHhcCCCCChhhEEEEEECC
Confidence            6788999999999999999999999  9999953  22111100   00  0000000000       000011111111


Q ss_pred             CCCcccchhhhhhchHHHHHHHHHHHH-hccCCCCEEEEeCCCCCChh------HHHHhhhcCCCeEEEEeCCCcchHHH
Q psy14655         75 GNLITEKSAAIWRGLMVMQALNKLTVQ-VQWGPCDILFIDTPPGTGDT------HLSLIQNLFIDTAIIITIPDTMSLQV  147 (261)
Q Consensus        75 ~~~~~~~~~~~~~~~~~~~~l~~~l~~-l~~~~yd~IiiD~~~~~~~~------~~~~~~~~~ad~viiv~~~~~~s~~~  147 (261)
                       +..+.............+.+.+.++. +. ++||+||||+++|+...      ........ ..-+|+|+.+...++..
T Consensus        80 -p~sp~~aa~~~~~~i~~~~i~~~~~~~l~-~~~D~vlIEgaggl~~p~~~~~~~adla~~l-~~pviLV~~~~~~~i~~  156 (228)
T 3of5_A           80 -AVAPHIIAAKTKVDISIENLKQFIEDKYN-QDLDILFIEGAGGLLTPYSDHTTQLDLIKAL-QIPVLLVSAIKVGCINH  156 (228)
T ss_dssp             -SSCHHHHHHHTTCCCCHHHHHHHHHGGGG-SSCSEEEEEEEEETTCBSSSSCBHHHHHHHH-TCCEEEEEECSTTHHHH
T ss_pred             -CCCHHHHHHHcCCCCCHHHHHHHHHHHHH-ccCCEEEEECCCccccccccchhHHHHHHHc-CCCEEEEEcCCcchHHH
Confidence             11100000010111234557788887 77 89999999999876421      12222211 45589999999999999


Q ss_pred             HHHHHHHHHhCCCCeEEEEEcCCC
Q psy14655        148 AQRGYTMFKKLNIPVAGLVMNMNS  171 (261)
Q Consensus       148 ~~~~~~~l~~~~~~~~giv~N~~~  171 (261)
                      +...++.+.+.+.++.|+|+|+++
T Consensus       157 ~~~~~~~l~~~~~~i~GvIlN~~~  180 (228)
T 3of5_A          157 TLLTINELNRHNIKLAGWIANCND  180 (228)
T ss_dssp             HHHHHHHHHHTTCCEEEEEEEECC
T ss_pred             HHHHHHHHHhCCCcEEEEEEECcC
Confidence            999999999999999999999954

>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=99.40  E-value=1.1e-12  Score=115.02  Aligned_cols=141  Identities=16%  Similarity=0.161  Sum_probs=86.7

Q ss_pred             ccCCCCCcHHHHHHHHHHHHHhcCCCCeEEEEecCCCCCCcccccCCCCCCCCCcCCccccccccCceeecCCCCcccch
Q psy14655          3 ASSKGGVGKSTTTVNLATAMKICYPDKEIGILDADVFGPSIPILMNLPDTPLLNKDNLMIPLVNYGVKCLSMGNLITEKS   82 (261)
Q Consensus         3 ~s~KGGvGKTT~a~~lA~~la~~g~~~~VllvD~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~   82 (261)
                      +.+.+|+||||++.+||.+|+++|  ++|++||+|++.+.....+..             -....++.+.+.....    
T Consensus       105 ivG~~G~GKTTt~~kLA~~l~~~G--~kVllv~~D~~R~aa~eqL~~-------------~~~~~gvpv~~~~~~~----  165 (443)
T 3dm5_A          105 MVGIQGSGKTTTVAKLARYFQKRG--YKVGVVCSDTWRPGAYHQLRQ-------------LLDRYHIEVFGNPQEK----  165 (443)
T ss_dssp             EECCTTSSHHHHHHHHHHHHHTTT--CCEEEEECCCSSTHHHHHHHH-------------HHGGGTCEEECCTTCC----
T ss_pred             EECcCCCCHHHHHHHHHHHHHHCC--CeEEEEeCCCcchhHHHHHHH-------------HHHhcCCcEEecCCCC----
Confidence            445699999999999999999999  999999999987643211110             0011233333322111    


Q ss_pred             hhhhhchHHHHHHHHHHHHhccCCCCEEEEeCCCCCChh--H----HHHhhhcCCCeEEEEeCCCcchHHHHHHHHHHHH
Q psy14655         83 AAIWRGLMVMQALNKLTVQVQWGPCDILFIDTPPGTGDT--H----LSLIQNLFIDTAIIITIPDTMSLQVAQRGYTMFK  156 (261)
Q Consensus        83 ~~~~~~~~~~~~l~~~l~~l~~~~yd~IiiD~~~~~~~~--~----~~~~~~~~ad~viiv~~~~~~s~~~~~~~~~~l~  156 (261)
                             .....+.+.++.++.++||+|||||++.....  .    ........+|.+++|+++...  .++....+.+.
T Consensus       166 -------dp~~i~~~al~~a~~~~~DvVIIDTaGrl~~d~~lm~el~~i~~~~~pd~vlLVvDA~~g--q~a~~~a~~f~  236 (443)
T 3dm5_A          166 -------DAIKLAKEGVDYFKSKGVDIIIVDTAGRHKEDKALIEEMKQISNVIHPHEVILVIDGTIG--QQAYNQALAFK  236 (443)
T ss_dssp             -------CHHHHHHHHHHHHHHTTCSEEEEECCCCSSCCHHHHHHHHHHHHHHCCSEEEEEEEGGGG--GGHHHHHHHHH
T ss_pred             -------CHHHHHHHHHHHHHhCCCCEEEEECCCcccchHHHHHHHHHHHHhhcCceEEEEEeCCCc--hhHHHHHHHHH
Confidence                   11223445566665367999999999754311  1    111122227899999986542  23334445554


Q ss_pred             hCCCCeEEEEEcCCCC
Q psy14655        157 KLNIPVAGLVMNMNSV  172 (261)
Q Consensus       157 ~~~~~~~giv~N~~~~  172 (261)
                      + ..++.|+|+|+.+.
T Consensus       237 ~-~~~i~gVIlTKlD~  251 (443)
T 3dm5_A          237 E-ATPIGSIIVTKLDG  251 (443)
T ss_dssp             H-SCTTEEEEEECCSS
T ss_pred             h-hCCCeEEEEECCCC
Confidence            3 34668999999765

>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=99.37  E-value=1.9e-12  Score=114.03  Aligned_cols=138  Identities=16%  Similarity=0.119  Sum_probs=85.9

Q ss_pred             cCCCCCcHHHHHHHHHHHHHhcCCCCeEEEEecCCCCCCcccccCCCCCCCCCcCCccccccccCceeecCCC-Ccccch
Q psy14655          4 SSKGGVGKSTTTVNLATAMKICYPDKEIGILDADVFGPSIPILMNLPDTPLLNKDNLMIPLVNYGVKCLSMGN-LITEKS   82 (261)
Q Consensus         4 s~KGGvGKTT~a~~lA~~la~~g~~~~VllvD~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~-~~~~~~   82 (261)
                      .+.+|+||||++.+||..++++|  ++|++||+|++.+.....+..             .....++.+++.+. ...+ .
T Consensus       105 vG~~GvGKTTla~~La~~l~~~G--~kVllv~~D~~r~~a~~qL~~-------------~~~~~gv~v~~~~~~~~dp-~  168 (432)
T 2v3c_C          105 VGIQGSGKTTTAAKLARYIQKRG--LKPALIAADTYRPAAYEQLKQ-------------LAEKIHVPIYGDETRTKSP-V  168 (432)
T ss_dssp             ECCSSSSTTHHHHHHHHHHHHHH--CCEEEECCSCCCTTGGGSSHH-------------HHHHSSCCEECCSSSCCSS-S
T ss_pred             ECCCCCCHHHHHHHHHHHHHHcC--CeEEEEeccccCchHHHHHHH-------------hhhccCcceEecCCCCCCH-H
Confidence            34699999999999999999999  999999999998765322110             01223566666441 1110 0


Q ss_pred             hhhhhchHHHHHHHHHHHHhccCCCCEEEEeCCCCCChh--HHHH----hhhcCCCeEEEEeCCCcchHHHHHHHHHHHH
Q psy14655         83 AAIWRGLMVMQALNKLTVQVQWGPCDILFIDTPPGTGDT--HLSL----IQNLFIDTAIIITIPDTMSLQVAQRGYTMFK  156 (261)
Q Consensus        83 ~~~~~~~~~~~~l~~~l~~l~~~~yd~IiiD~~~~~~~~--~~~~----~~~~~ad~viiv~~~~~~s~~~~~~~~~~l~  156 (261)
                      .          .+.+.++.+  .+||+||||||+.....  ....    .....+|.+++|+.+....  ++....+.+.
T Consensus       169 ~----------i~~~~l~~~--~~~D~vIIDT~G~~~~~~~l~~~l~~i~~~~~~d~vllVvda~~g~--~~~~~~~~~~  234 (432)
T 2v3c_C          169 D----------IVKEGMEKF--KKADVLIIDTAGRHKEEKGLLEEMKQIKEITNPDEIILVIDGTIGQ--QAGIQAKAFK  234 (432)
T ss_dssp             T----------THHHHHHTT--SSCSEEEEECCCSCSSHHHHHHHHHHTTSSSCCSEEEEEEEGGGGG--GHHHHHHHHH
T ss_pred             H----------HHHHHHHHh--hCCCEEEEcCCCCccccHHHHHHHHHHHHHhcCcceeEEeeccccH--HHHHHHHHHh
Confidence            0          123344444  68999999999876421  1111    1111278999998754432  2333344444


Q ss_pred             hCCC-CeEEEEEcCCCC
Q psy14655        157 KLNI-PVAGLVMNMNSV  172 (261)
Q Consensus       157 ~~~~-~~~giv~N~~~~  172 (261)
                      . .. ++.++|+|+.+.
T Consensus       235 ~-~~~~i~gvVlnK~D~  250 (432)
T 2v3c_C          235 E-AVGEIGSIIVTKLDG  250 (432)
T ss_dssp             T-TSCSCEEEEEECSSS
T ss_pred             h-cccCCeEEEEeCCCC
Confidence            3 35 679999999764

>2j37_W Signal recognition particle 54 kDa protein (SRP54); ribosome, SRP, translation/RNA; 8.00A {Canis SP} PDB: 1wgw_A

Probab=99.31  E-value=2.6e-12  Score=114.86  Aligned_cols=139  Identities=13%  Similarity=0.082  Sum_probs=84.6

Q ss_pred             CCCCCcHHHHHHHHHHHHHhcCCCCeEEEEecCCCCCCcccccCCCCCCCCCcCCccccccccCceeecCCCCcccchhh
Q psy14655          5 SKGGVGKSTTTVNLATAMKICYPDKEIGILDADVFGPSIPILMNLPDTPLLNKDNLMIPLVNYGVKCLSMGNLITEKSAA   84 (261)
Q Consensus         5 ~KGGvGKTT~a~~lA~~la~~g~~~~VllvD~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~   84 (261)
                      +.+|+||||++.+||.++++.|  ++|++||+|++.+....++...             ....++.+++.+....     
T Consensus       108 G~~GvGKTTl~~kLA~~l~~~G--~kVllVd~D~~r~aa~~qL~~~-------------~~~~~i~v~~~~~~~d-----  167 (504)
T 2j37_W          108 GLQGSGKTTTCSKLAYYYQRKG--WKTCLICADTFRAGAFDQLKQN-------------ATKARIPFYGSYTEMD-----  167 (504)
T ss_dssp             CSTTSSHHHHHHHHHHHHHHTT--CCEEEEEECCSSSHHHHHHHHH-------------HHHHTCCEEECCCCSC-----
T ss_pred             CCCCCCHHHHHHHHHHHHHhCC--CeEEEEeccccchhHHHHHHHH-------------hhccCceEEccCCCCC-----
Confidence            5689999999999999999999  9999999999987543322110             0112344444321110     


Q ss_pred             hhhchHHHHHHHHHHHHhccCCCCEEEEeCCCCCCh--hHH-H---HhhhcCCCeEEEEeCCCcchHHHHHHHHHHHHhC
Q psy14655         85 IWRGLMVMQALNKLTVQVQWGPCDILFIDTPPGTGD--THL-S---LIQNLFIDTAIIITIPDTMSLQVAQRGYTMFKKL  158 (261)
Q Consensus        85 ~~~~~~~~~~l~~~l~~l~~~~yd~IiiD~~~~~~~--~~~-~---~~~~~~ad~viiv~~~~~~s~~~~~~~~~~l~~~  158 (261)
                            ....+.+.++.+...+||+||||||+....  ... .   ......+|.+++|+++.... . .....+.+.+.
T Consensus       168 ------p~~i~~~al~~~~~~~~DvvIIDTpG~~~~~~~l~~el~~~~~~i~pd~vllVvDa~~g~-~-~~~~a~~~~~~  239 (504)
T 2j37_W          168 ------PVIIASEGVEKFKNENFEIIIVDTSGRHKQEDSLFEEMLQVANAIQPDNIVYVMDASIGQ-A-CEAQAKAFKDK  239 (504)
T ss_dssp             ------HHHHHHHHHHHHHHTTCCEEEEEECCCCTTCHHHHHHHHHHHHHHCCSEEEEEEETTCCT-T-HHHHHHHHHHH
T ss_pred             ------HHHHHHHHHHHHHHCCCcEEEEeCCCCcccchhHHHHHHHHHhhhcCceEEEEEeccccc-c-HHHHHHHHHhh
Confidence                  111223445554447899999999987642  111 1   11111389999999865531 1 23334444432


Q ss_pred             CCCeEEEEEcCCCC
Q psy14655        159 NIPVAGLVMNMNSV  172 (261)
Q Consensus       159 ~~~~~giv~N~~~~  172 (261)
                       .++.++|+|+.+.
T Consensus       240 -~~i~gvVlNK~D~  252 (504)
T 2j37_W          240 -VDVASVIVTKLDG  252 (504)
T ss_dssp             -HCCCCEEEECTTS
T ss_pred             -cCceEEEEeCCcc
Confidence             4556899999764

>3fgn_A Dethiobiotin synthetase; biotin biosynthesis, BIOD, ATP-BIND ligase, magnesium, nucleotide-binding; 1.85A {Mycobacterium tuberculosis} PDB: 3fmf_A* 3fmi_A* 3fpa_A*

Probab=99.26  E-value=5.6e-11  Score=97.15  Aligned_cols=154  Identities=16%  Similarity=0.203  Sum_probs=96.4

Q ss_pred             cccCCCCCcHHHHHHHHHHHHHhcCCCCeEEEEecCCCCCCcccccCCCCCCCCCcCCccccc----cccCceeecCCCC
Q psy14655          2 IASSKGGVGKSTTTVNLATAMKICYPDKEIGILDADVFGPSIPILMNLPDTPLLNKDNLMIPL----VNYGVKCLSMGNL   77 (261)
Q Consensus         2 v~s~KGGvGKTT~a~~lA~~la~~g~~~~VllvD~D~~~~~~~~~~~~~~~~~~~~~~~~~~~----~~~~l~~~~~~~~   77 (261)
                      |++...|+|||++++.|+.+|+++|  ++|..+-.  .......    +.    .+...+...    ...+.  +.....
T Consensus        31 Itgt~t~vGKT~vt~gL~~~l~~~G--~~V~~fKP--v~~g~~~----~~----~D~~~~~~~~g~~~~~~~--~~~~~p   96 (251)
T 3fgn_A           31 VTGTGTGVGKTVVCAALASAARQAG--IDVAVCKP--VQTGTAR----GD----DDLAEVGRLAGVTQLAGL--ARYPQP   96 (251)
T ss_dssp             EEESSTTSCHHHHHHHHHHHHHHTT--CCEEEEEE--EECCGGG----TC----CHHHHHHHHHCCCEEEEE--EECSSS
T ss_pred             EEeCCCCCcHHHHHHHHHHHHHHCC--CeEEEEee--eecCCCC----CC----HHHHHHHHHcCCCCCCCC--eeECCC
Confidence            6788899999999999999999999  99999752  1110000    00    000000000    00111  111111


Q ss_pred             cccchhhhhhc--hHHHHHHHHHHHHhccCCCCEEEEeCCCCCCh-------hHHHHhhhcCCCeEEEEeCCCcchHHHH
Q psy14655         78 ITEKSAAIWRG--LMVMQALNKLTVQVQWGPCDILFIDTPPGTGD-------THLSLIQNLFIDTAIIITIPDTMSLQVA  148 (261)
Q Consensus        78 ~~~~~~~~~~~--~~~~~~l~~~l~~l~~~~yd~IiiD~~~~~~~-------~~~~~~~~~~ad~viiv~~~~~~s~~~~  148 (261)
                      ..+.......+  ....+.+.+.++.+. ++||+||||+++|+..       ........ ...-||+|+.++..++..+
T Consensus        97 ~sP~~aa~~~~~~~~~~~~i~~~~~~l~-~~~D~vlIEGagGl~~pl~~~~~~~adla~~-l~~pVILV~~~~~g~i~~~  174 (251)
T 3fgn_A           97 MAPAAAAEHAGMALPARDQIVRLIADLD-RPGRLTLVEGAGGLLVELAEPGVTLRDVAVD-VAAAALVVVTADLGTLNHT  174 (251)
T ss_dssp             SCHHHHHHHTTCCCCCHHHHHHHHHTTC-CTTCEEEEECSSSTTCEEETTTEEHHHHHHH-TTCEEEEEECSSTTHHHHH
T ss_pred             CChHHHHHHcCCCCCCHHHHHHHHHHHH-hcCCEEEEECCCCCcCCcCcccchHHHHHHH-cCCCEEEEEcCCCccHHHH
Confidence            11111110111  123456888888888 8999999999988731       11222222 1567999999999999999


Q ss_pred             HHHHHHHHhCCCCeEEEEEcCCC
Q psy14655        149 QRGYTMFKKLNIPVAGLVMNMNS  171 (261)
Q Consensus       149 ~~~~~~l~~~~~~~~giv~N~~~  171 (261)
                      ...++.+...+.++.|+|+|++.
T Consensus       175 ~lt~~~l~~~g~~i~GvIlN~v~  197 (251)
T 3fgn_A          175 KLTLEALAAQQVSCAGLVIGSWP  197 (251)
T ss_dssp             HHHHHHHHHTTCCEEEEEEEEEC
T ss_pred             HHHHHHHHhCCCCEEEEEEECCC
Confidence            99999998889999999999853

>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=99.25  E-value=1.3e-11  Score=108.33  Aligned_cols=142  Identities=20%  Similarity=0.165  Sum_probs=84.3

Q ss_pred             cccCCCCCcHHHHHHHHHHHHHhcCCCCeEEEEecCCCCCCcccccCCCCCCCCCcCCccccccccCceeecCCCCcccc
Q psy14655          2 IASSKGGVGKSTTTVNLATAMKICYPDKEIGILDADVFGPSIPILMNLPDTPLLNKDNLMIPLVNYGVKCLSMGNLITEK   81 (261)
Q Consensus         2 v~s~KGGvGKTT~a~~lA~~la~~g~~~~VllvD~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~   81 (261)
                      ++.+.+|+||||++.+||.+++..|  ++|+++|+|.+.+.....+...             ....++.+.+.....   
T Consensus       101 ~lvG~~GsGKTTt~~kLA~~l~~~G--~kVllv~~D~~r~~a~eqL~~~-------------~~~~gv~~~~~~~~~---  162 (433)
T 3kl4_A          101 MLVGVQGSGKTTTAGKLAYFYKKRG--YKVGLVAADVYRPAAYDQLLQL-------------GNQIGVQVYGEPNNQ---  162 (433)
T ss_dssp             EECCCTTSCHHHHHHHHHHHHHHTT--CCEEEEEECCSCHHHHHHHHHH-------------HHTTTCCEECCTTCS---
T ss_pred             EEECCCCCCHHHHHHHHHHHHHHcC--CeEEEEecCccchhHHHHHHHH-------------HHhcCCceeeccccC---
Confidence            3457899999999999999999999  9999999998765321111000             001122222221111   


Q ss_pred             hhhhhhchHHHHHHHHHHHHhccCCCCEEEEeCCCCCC----h----hHHHHhhhcCCCeEEEEeCCCcchHHHHHHHHH
Q psy14655         82 SAAIWRGLMVMQALNKLTVQVQWGPCDILFIDTPPGTG----D----THLSLIQNLFIDTAIIITIPDTMSLQVAQRGYT  153 (261)
Q Consensus        82 ~~~~~~~~~~~~~l~~~l~~l~~~~yd~IiiD~~~~~~----~----~~~~~~~~~~ad~viiv~~~~~~s~~~~~~~~~  153 (261)
                              .........++.+..++||+||||||+...    .    ...........|.+++|+++...  .++....+
T Consensus       163 --------dp~~i~~~al~~a~~~~~DvvIIDTaGr~~~~~d~~lm~el~~i~~~~~pd~vlLVlDa~~g--q~a~~~a~  232 (433)
T 3kl4_A          163 --------NPIEIAKKGVDIFVKNKMDIIIVDTAGRHGYGEETKLLEEMKEMYDVLKPDDVILVIDASIG--QKAYDLAS  232 (433)
T ss_dssp             --------CHHHHHHHHHHHTTTTTCSEEEEEECCCSSSCCTTHHHHHHHHHHHHHCCSEEEEEEEGGGG--GGGHHHHH
T ss_pred             --------CHHHHHHHHHHHHHhcCCCEEEEECCCCccccCCHHHHHHHHHHHHhhCCcceEEEEeCccc--hHHHHHHH
Confidence                    111223455666655789999999997533    1    11122222226889999886542  23334445


Q ss_pred             HHHhCCCCeEEEEEcCCCC
Q psy14655        154 MFKKLNIPVAGLVMNMNSV  172 (261)
Q Consensus       154 ~l~~~~~~~~giv~N~~~~  172 (261)
                      .+.+ ..+..++|+|+.+.
T Consensus       233 ~f~~-~~~~~gVIlTKlD~  250 (433)
T 3kl4_A          233 RFHQ-ASPIGSVIITKMDG  250 (433)
T ss_dssp             HHHH-HCSSEEEEEECGGG
T ss_pred             HHhc-ccCCcEEEEecccc
Confidence            5543 23458999999664

>3qxc_A Dethiobiotin synthetase; DTBS, structural genomics, ATP BIND biology, protein structure initiative, midwest center for S genomics, MCSG; HET: ATP; 1.34A {Helicobacter pylori} PDB: 3mle_A* 3qxh_A* 3qxj_A* 3qxs_A* 3qxx_A* 3qy0_A* 2qmo_A

Probab=99.24  E-value=1.2e-10  Score=94.77  Aligned_cols=158  Identities=13%  Similarity=0.123  Sum_probs=96.9

Q ss_pred             cccCCCCCcHHHHHHHHHHHHHhcCCCCeEEEEecCCCCCCcccccCCCCCCCCCcCCcc----cc----ccccCceeec
Q psy14655          2 IASSKGGVGKSTTTVNLATAMKICYPDKEIGILDADVFGPSIPILMNLPDTPLLNKDNLM----IP----LVNYGVKCLS   73 (261)
Q Consensus         2 v~s~KGGvGKTT~a~~lA~~la~~g~~~~VllvD~D~~~~~~~~~~~~~~~~~~~~~~~~----~~----~~~~~l~~~~   73 (261)
                      |++...|+|||++++.|+..|+++|  ++|.++-  |........-+.+.     +...+    ..    ....++..+-
T Consensus        26 ItgT~t~vGKT~vs~gL~~~L~~~G--~~V~~fK--Pv~~g~~~~~~~~~-----D~~~~~~~~~~~~~g~~~~~~~p~~   96 (242)
T 3qxc_A           26 ISATNTNAGKTTCARLLAQYCNACG--VKTILLK--PIETGVNDAINHSS-----DAHLFLQDNRLLDRSLTLKDISFYR   96 (242)
T ss_dssp             EEESSTTSSHHHHHHHHHHHHHHTT--CCEEEEC--CEECSCCTTTCCCS-----HHHHHHHHHHTTCTTCCHHHHCCEE
T ss_pred             EEeCCCCCcHHHHHHHHHHHHHhCC--CceEEEe--eeecCCcccCCCCc-----hHHHHHHHHHHHhCCCChHHeeeEE
Confidence            6789999999999999999999999  9999985  22111110000000     00000    00    0000111111


Q ss_pred             CCCCcccchhhhhhc---hHHHHHHHHHHHHhccCCCCEEEEeCCCCCChh------HHHHhhhcCCCeEEEEeCCCcch
Q psy14655         74 MGNLITEKSAAIWRG---LMVMQALNKLTVQVQWGPCDILFIDTPPGTGDT------HLSLIQNLFIDTAIIITIPDTMS  144 (261)
Q Consensus        74 ~~~~~~~~~~~~~~~---~~~~~~l~~~l~~l~~~~yd~IiiD~~~~~~~~------~~~~~~~~~ad~viiv~~~~~~s  144 (261)
                      ......+.......+   ....+.+.+.++.+. .+||+||||+++|+...      ...+.... ..-||+|+.+...+
T Consensus        97 ~~~p~sp~~aa~~~g~~~~i~~~~I~~~~~~l~-~~~D~vlIEGagGl~~pl~~~~~~adlA~~l-~~pVILV~~~~lg~  174 (242)
T 3qxc_A           97 YHKVSAPLIAQQEEDPNAPIDTDNLTQRLHNFT-KTYDLVIVEGAGGLCVPITLEENMLDFALKL-KAKMLLISHDNLGL  174 (242)
T ss_dssp             CSSSSCHHHHHHHHCTTCCCCHHHHHHHHHHGG-GTCSEEEEECCSCTTCBSSSSCBHHHHHHHH-TCEEEEEECCSTTH
T ss_pred             ECCCCChHHHHHHcCCCCcCCHHHHHHHHHHHH-hcCCEEEEECCCCccccccccchHHHHHHHc-CCCEEEEEcCCCcH
Confidence            110110111100011   123456788888888 89999999999887431      11222221 45699999999999


Q ss_pred             HHHHHHHHHHHHhCCCCeEEEEEcCCC
Q psy14655        145 LQVAQRGYTMFKKLNIPVAGLVMNMNS  171 (261)
Q Consensus       145 ~~~~~~~~~~l~~~~~~~~giv~N~~~  171 (261)
                      +..+...++.++..+++ .|+|+|+++
T Consensus       175 i~~~~lt~~~l~~~g~~-~GvIlN~v~  200 (242)
T 3qxc_A          175 INDCLLNDFLLKSHQLD-YKIAINLKG  200 (242)
T ss_dssp             HHHHHHHHHHHHTSSSC-EEEEECCCT
T ss_pred             HHHHHHHHHHHHhCCCC-EEEEEeCCC
Confidence            99999999999999999 999999965

>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=99.15  E-value=1.7e-10  Score=99.39  Aligned_cols=146  Identities=18%  Similarity=0.128  Sum_probs=80.6

Q ss_pred             cccCCCCCcHHHHHHHHHHHHHhcCCCCeEEEEecCCCCCCcccccCCCCCCCCCcCCcccc-ccccCceeecCCCCccc
Q psy14655          2 IASSKGGVGKSTTTVNLATAMKICYPDKEIGILDADVFGPSIPILMNLPDTPLLNKDNLMIP-LVNYGVKCLSMGNLITE   80 (261)
Q Consensus         2 v~s~KGGvGKTT~a~~lA~~la~~g~~~~VllvD~D~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~l~~~~~~~~~~~   80 (261)
                      ++.+++|+||||++.+|+..++..|  ++|+++|+|++.+.....+       +.+...... ...+++.+.+...... 
T Consensus        83 ~i~G~~G~GKSTl~~~L~~~l~~~g--~kV~vi~~Dp~~~~~~g~~-------l~d~~~~~~~~~~~~~~i~~~~~~~~-  152 (355)
T 3p32_A           83 GITGVPGVGKSTAIEALGMHLIERG--HRVAVLAVDPSSTRTGGSI-------LGDKTRMARLAVHPNAYIRPSPTSGT-  152 (355)
T ss_dssp             EEECCTTSSHHHHHHHHHHHHHTTT--CCEEEEEEC-----------------------CHHHHTCTTEEEECCC--CC-
T ss_pred             EEECCCCCCHHHHHHHHHHHHHhCC--CceEEEecCCCCCcccchh-------ccchhhHHhhccCCCeeEEECCCCcc-
Confidence            4578899999999999999999999  9999999999975321100       001111111 1234555554332211 


Q ss_pred             chhhhhhchHHHHHHHHHHHHhccCCCCEEEEeCCCCCChhHHHHhhhcCCCeEEEEeCCCcchHHHHHHHHHHHHhCCC
Q psy14655         81 KSAAIWRGLMVMQALNKLTVQVQWGPCDILFIDTPPGTGDTHLSLIQNLFIDTAIIITIPDTMSLQVAQRGYTMFKKLNI  160 (261)
Q Consensus        81 ~~~~~~~~~~~~~~l~~~l~~l~~~~yd~IiiD~~~~~~~~~~~~~~~~~ad~viiv~~~~~~s~~~~~~~~~~l~~~~~  160 (261)
                      ..       ......++.+..+...+||++|+|||+ +..........  +|.+++|+.++.....  ..+...+.  +.
T Consensus       153 ~~-------~~~~~t~d~i~~~~~~~~~~iiiDTpG-i~~~~~~~~~~--aD~vl~V~d~~~~~~~--~~l~~~~~--~~  218 (355)
T 3p32_A          153 LG-------GVTRATRETVVLLEAAGFDVILIETVG-VGQSEVAVANM--VDTFVLLTLARTGDQL--QGIKKGVL--EL  218 (355)
T ss_dssp             HH-------HHHHHHHHHHHHHHHTTCCEEEEEECS-CSSHHHHHHTT--CSEEEEEEESSTTCTT--TTCCTTSG--GG
T ss_pred             cc-------chhHHHHHHHHHHhhCCCCEEEEeCCC-CCcHHHHHHHh--CCEEEEEECCCCCccH--HHHHHhHh--hc
Confidence            00       111223333344444789999999985 66555555555  9999999987654321  11001111  12


Q ss_pred             CeEEEEEcCCCC
Q psy14655        161 PVAGLVMNMNSV  172 (261)
Q Consensus       161 ~~~giv~N~~~~  172 (261)
                      + ..+|+|+++.
T Consensus       219 p-~ivVlNK~Dl  229 (355)
T 3p32_A          219 A-DIVVVNKADG  229 (355)
T ss_dssp             C-SEEEEECCCG
T ss_pred             C-CEEEEECCCC
Confidence            3 4689999663

>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=99.10  E-value=3.1e-10  Score=95.51  Aligned_cols=140  Identities=16%  Similarity=0.196  Sum_probs=79.6

Q ss_pred             cccCCCCCcHHHHHHHHHHHHHhcCCCCeEEEEecCCCCCCcccccCCCCCCCCCcCCccccccccCceeecCCCCcccc
Q psy14655          2 IASSKGGVGKSTTTVNLATAMKICYPDKEIGILDADVFGPSIPILMNLPDTPLLNKDNLMIPLVNYGVKCLSMGNLITEK   81 (261)
Q Consensus         2 v~s~KGGvGKTT~a~~lA~~la~~g~~~~VllvD~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~   81 (261)
                      |++. +|+||||++.+||..++..|  .+|+++|+|.+.+.....+.          .+   ....++.+++..... ..
T Consensus       109 ivG~-~GsGKTTl~~~LA~~l~~~g--~kV~lv~~D~~r~~a~eqL~----------~~---~~~~gl~~~~~~s~~-~~  171 (306)
T 1vma_A          109 VVGV-NGTGKTTSCGKLAKMFVDEG--KSVVLAAADTFRAAAIEQLK----------IW---GERVGATVISHSEGA-DP  171 (306)
T ss_dssp             EECC-TTSSHHHHHHHHHHHHHHTT--CCEEEEEECTTCHHHHHHHH----------HH---HHHHTCEEECCSTTC-CH
T ss_pred             EEcC-CCChHHHHHHHHHHHHHhcC--CEEEEEccccccHHHHHHHH----------HH---HHHcCCcEEecCCcc-CH
Confidence            4555 89999999999999999998  99999999988643211000          00   011244455432211 00


Q ss_pred             hhhhhhchHHHHHHHHHHHHhccCCCCEEEEeCCCCCChhH--HH-------Hhh---hcCCCeEEEEeCCCcchHHHHH
Q psy14655         82 SAAIWRGLMVMQALNKLTVQVQWGPCDILFIDTPPGTGDTH--LS-------LIQ---NLFIDTAIIITIPDTMSLQVAQ  149 (261)
Q Consensus        82 ~~~~~~~~~~~~~l~~~l~~l~~~~yd~IiiD~~~~~~~~~--~~-------~~~---~~~ad~viiv~~~~~~s~~~~~  149 (261)
                      ..         -....+...+. .+||+||+|+|+......  ..       .+.   ...+|.+++|+... .....+.
T Consensus       172 ~~---------v~~~al~~a~~-~~~dvvIiDtpg~~~~~~~l~~eL~~l~~~i~~~i~~~p~~vllVlda~-t~~~~l~  240 (306)
T 1vma_A          172 AA---------VAFDAVAHALA-RNKDVVIIDTAGRLHTKKNLMEELRKVHRVVKKKIPDAPHETLLVIDAT-TGQNGLV  240 (306)
T ss_dssp             HH---------HHHHHHHHHHH-TTCSEEEEEECCCCSCHHHHHHHHHHHHHHGGGTCTTCCSEEEEEEEGG-GHHHHHH
T ss_pred             HH---------HHHHHHHHHHh-cCCCEEEEECCCchhhHHHHHHHHHHHHHHHhhccCCCCcEEEEEEECC-CCHHHHH
Confidence            00         00112222344 899999999997543211  00       110   01167888988765 2233333


Q ss_pred             HHHHHHHhCCCCeEEEEEcCCC
Q psy14655        150 RGYTMFKKLNIPVAGLVMNMNS  171 (261)
Q Consensus       150 ~~~~~l~~~~~~~~giv~N~~~  171 (261)
                      . .+.+.+ ..++.|+|+|+.+
T Consensus       241 ~-a~~~~~-~~~i~gvVlTk~D  260 (306)
T 1vma_A          241 Q-AKIFKE-AVNVTGIILTKLD  260 (306)
T ss_dssp             H-HHHHHH-HSCCCEEEEECGG
T ss_pred             H-HHHHHh-cCCCCEEEEeCCC
Confidence            3 333333 2567899999955

>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=99.05  E-value=2e-10  Score=96.35  Aligned_cols=133  Identities=14%  Similarity=0.090  Sum_probs=76.3

Q ss_pred             CCCCCcHHHHHHHHHHHHHh-cCCCCeEEEEecCCCCCCcccccCCCCCCCCCcCCccccccccCceeecCCCCcccchh
Q psy14655          5 SKGGVGKSTTTVNLATAMKI-CYPDKEIGILDADVFGPSIPILMNLPDTPLLNKDNLMIPLVNYGVKCLSMGNLITEKSA   83 (261)
Q Consensus         5 ~KGGvGKTT~a~~lA~~la~-~g~~~~VllvD~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~   83 (261)
                      +.+|+||||++.+||..++. .|  ++|+++|+|++.+.....+....             ...++.+.+..    .   
T Consensus       112 G~~GsGKTTl~~~LA~~l~~~~G--~~V~lv~~D~~r~~a~eqL~~~~-------------~~~gl~~~~~~----~---  169 (296)
T 2px0_A          112 GSTGAGKTTTLAKLAAISMLEKH--KKIAFITTDTYRIAAVEQLKTYA-------------ELLQAPLEVCY----T---  169 (296)
T ss_dssp             ESTTSSHHHHHHHHHHHHHHTTC--CCEEEEECCCSSTTHHHHHHHHH-------------TTTTCCCCBCS----S---
T ss_pred             CCCCCCHHHHHHHHHHHHHHhcC--CEEEEEecCcccchHHHHHHHHH-------------HhcCCCeEecC----C---
Confidence            45899999999999999995 78  99999999998654321111000             00111111110    0   


Q ss_pred             hhhhchHHHHHHHHHHHHhccCCCCEEEEeCCCCCChhH---HH---HhhhcCCCeEEEEeCCCcchHHHHHHHHHHHHh
Q psy14655         84 AIWRGLMVMQALNKLTVQVQWGPCDILFIDTPPGTGDTH---LS---LIQNLFIDTAIIITIPDTMSLQVAQRGYTMFKK  157 (261)
Q Consensus        84 ~~~~~~~~~~~l~~~l~~l~~~~yd~IiiD~~~~~~~~~---~~---~~~~~~ad~viiv~~~~~~s~~~~~~~~~~l~~  157 (261)
                              ...++..+..+  .+||+||+||++......   ..   .+.....+.+++|+..+ .....+..+.+.+. 
T Consensus       170 --------~~~l~~al~~~--~~~dlvIiDT~G~~~~~~~~~~el~~~l~~~~~~~~~lVl~at-~~~~~~~~~~~~~~-  237 (296)
T 2px0_A          170 --------KEEFQQAKELF--SEYDHVFVDTAGRNFKDPQYIDELKETIPFESSIQSFLVLSAT-AKYEDMKHIVKRFS-  237 (296)
T ss_dssp             --------HHHHHHHHHHG--GGSSEEEEECCCCCTTSHHHHHHHHHHSCCCTTEEEEEEEETT-BCHHHHHHHTTTTS-
T ss_pred             --------HHHHHHHHHHh--cCCCEEEEeCCCCChhhHHHHHHHHHHHhhcCCCeEEEEEECC-CCHHHHHHHHHHHh-
Confidence                    11244455543  689999999987553211   11   11111145667776433 23444555444443 


Q ss_pred             CCCCeEEEEEcCCCC
Q psy14655        158 LNIPVAGLVMNMNSV  172 (261)
Q Consensus       158 ~~~~~~giv~N~~~~  172 (261)
                       .++..++|+|+.+.
T Consensus       238 -~l~~~giVltk~D~  251 (296)
T 2px0_A          238 -SVPVNQYIFTKIDE  251 (296)
T ss_dssp             -SSCCCEEEEECTTT
T ss_pred             -cCCCCEEEEeCCCc
Confidence             34568899999653

>2r8r_A Sensor protein; KDPD, PFAM02702, MCSG, structural genomics, protein structure initiative, midwest center for structural genomics, kinase; 2.30A {Pseudomonas syringae PV}

Probab=98.91  E-value=8.3e-10  Score=88.12  Aligned_cols=41  Identities=17%  Similarity=0.093  Sum_probs=37.7

Q ss_pred             CcccCCCCCcHHHHHHHHHHHHHhcCCCCeEEEEecCCCCCCc
Q psy14655          1 MIASSKGGVGKSTTTVNLATAMKICYPDKEIGILDADVFGPSI   43 (261)
Q Consensus         1 ~v~s~KGGvGKTT~a~~lA~~la~~g~~~~VllvD~D~~~~~~   43 (261)
                      +|+++||||||||++.++|..++++|  ++|+++|+|+|++..
T Consensus         9 I~~~~kgGvGKTt~a~~la~~l~~~G--~~V~v~d~D~q~~~~   49 (228)
T 2r8r_A            9 VFLGAAPGVGKTYAMLQAAHAQLRQG--VRVMAGVVETHGRAE   49 (228)
T ss_dssp             EEEESSTTSSHHHHHHHHHHHHHHTT--CCEEEEECCCTTCHH
T ss_pred             EEEECCCCCcHHHHHHHHHHHHHHCC--CCEEEEEeCCCCChh
Confidence            37899999999999999999999999  999999999997543

>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=98.64  E-value=1.3e-07  Score=80.87  Aligned_cols=143  Identities=12%  Similarity=0.104  Sum_probs=71.4

Q ss_pred             ccCCCCCcHHHHHHHHHHHHHhcCCCCeEEEEecCCCCCCcc-cccCCCCCCCCCcCCccccccccCce--eecCCCCcc
Q psy14655          3 ASSKGGVGKSTTTVNLATAMKICYPDKEIGILDADVFGPSIP-ILMNLPDTPLLNKDNLMIPLVNYGVK--CLSMGNLIT   79 (261)
Q Consensus         3 ~s~KGGvGKTT~a~~lA~~la~~g~~~~VllvD~D~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~l~--~~~~~~~~~   79 (261)
                      +.+++|+||||+..+|+..++..|  .+|.++|.|++.+... .+++....  .  .. ..  ..++..  ..|.+....
T Consensus        61 i~G~~g~GKSTl~~~l~~~~~~~~--~~v~v~~~d~~~~~~~~~il~d~~~--~--~~-~~--~~~~~~i~~~~~~~~l~  131 (341)
T 2p67_A           61 VTGTPGAGKSTFLEAFGMLLIREG--LKVAVIAVDPSSPVTGGSILGDKTR--M--ND-LA--RAEAAFIRPVPSSGHLG  131 (341)
T ss_dssp             EEECTTSCHHHHHHHHHHHHHHTT--CCEEEEEECCC-------------------CT-TT--TCTTEEEEEECC-----
T ss_pred             EEcCCCCCHHHHHHHHHHHHHhcC--CeEEEEeecCCcCCCCcceecccch--H--Hh-hc--cCCCceeecCccccccc
Confidence            456999999999999999999999  9999999999875321 11111100  0  00 00  001111  111111110


Q ss_pred             cchhhhhhchHHHHHHHHHHHHhccCCCCEEEEeCCCCCChhHHHHhhhcCCCeEEEEeCCCcchHHHHHHHHHHHHhCC
Q psy14655         80 EKSAAIWRGLMVMQALNKLTVQVQWGPCDILFIDTPPGTGDTHLSLIQNLFIDTAIIITIPDTMSLQVAQRGYTMFKKLN  159 (261)
Q Consensus        80 ~~~~~~~~~~~~~~~l~~~l~~l~~~~yd~IiiD~~~~~~~~~~~~~~~~~ad~viiv~~~~~~s~~~~~~~~~~l~~~~  159 (261)
                      .          ....+.+.+..+...+|+++|+|||+... ........  +|.+++|+.++....  ...+....  .+
T Consensus       132 g----------~~~~~~~~~~~~~~~~~~i~liDTpG~~~-~~~~~~~~--aD~vl~Vvd~~~~~~--~~~l~~~~--~~  194 (341)
T 2p67_A          132 G----------ASQRARELMLLCEAAGYDVVIVETVGVGQ-SETEVARM--VDCFISLQIAGGGDD--LQGIKKGL--ME  194 (341)
T ss_dssp             C----------HHHHHHHHHHHHHHTTCSEEEEEEECCTT-HHHHHHTT--CSEEEEEECC--------CCCCHHH--HH
T ss_pred             h----------hHHHHHHHHHHhhccCCCEEEEeCCCccc-hHHHHHHh--CCEEEEEEeCCccHH--HHHHHHhh--hc
Confidence            0          01112222222223789999999986443 33334444  999999999764321  11000011  12


Q ss_pred             CCeEEEEEcCCCC
Q psy14655        160 IPVAGLVMNMNSV  172 (261)
Q Consensus       160 ~~~~giv~N~~~~  172 (261)
                      .+ ..+|+|+++.
T Consensus       195 ~p-~ivv~NK~Dl  206 (341)
T 2p67_A          195 VA-DLIVINKDDG  206 (341)
T ss_dssp             HC-SEEEECCCCT
T ss_pred             cc-CEEEEECCCC
Confidence            23 3489999764

>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=98.06  E-value=1.8e-05  Score=67.05  Aligned_cols=138  Identities=15%  Similarity=0.155  Sum_probs=76.5

Q ss_pred             CCCCCcHHHHHHHHHHHHHhcCCCCeEEEEecCCCCCCcccccCCCCCCCCCcCCccccccccCceeecCCCCcccchhh
Q psy14655          5 SKGGVGKSTTTVNLATAMKICYPDKEIGILDADVFGPSIPILMNLPDTPLLNKDNLMIPLVNYGVKCLSMGNLITEKSAA   84 (261)
Q Consensus         5 ~KGGvGKTT~a~~lA~~la~~g~~~~VllvD~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~   84 (261)
                      +..|+||||+...||..+...+  .+|++++.|.........+..             ....-++.+++......+..  
T Consensus       136 G~nGaGKTTll~~Lag~l~~~~--g~V~l~g~D~~r~~a~eql~~-------------~~~~~gv~~v~q~~~~~p~~--  198 (328)
T 3e70_C          136 GFNGSGKTTTIAKLANWLKNHG--FSVVIAASDTFRAGAIEQLEE-------------HAKRIGVKVIKHSYGADPAA--  198 (328)
T ss_dssp             CCTTSSHHHHHHHHHHHHHHTT--CCEEEEEECCSSTTHHHHHHH-------------HHHHTTCEEECCCTTCCHHH--
T ss_pred             CCCCCCHHHHHHHHHHHHHhcC--CEEEEEeecccccchHHHHHH-------------HHHHcCceEEeccccCCHHH--
Confidence            4579999999999999999998  999999999876432111000             00111233333222111100  


Q ss_pred             hhhchHHHHHHHHHHHHhccCCCCEEEEeCCCCCC--hhHH----HHhhhcCCCeEEEEeCCCcchHHHHHHHHHHHHhC
Q psy14655         85 IWRGLMVMQALNKLTVQVQWGPCDILFIDTPPGTG--DTHL----SLIQNLFIDTAIIITIPDTMSLQVAQRGYTMFKKL  158 (261)
Q Consensus        85 ~~~~~~~~~~l~~~l~~l~~~~yd~IiiD~~~~~~--~~~~----~~~~~~~ad~viiv~~~~~~s~~~~~~~~~~l~~~  158 (261)
                           ..   ...+..... .++|++++|+++...  ....    ........|..++++++...  .++...++.+.+ 
T Consensus       199 -----~v---~e~l~~~~~-~~~d~vliDtaG~~~~~~~l~~eL~~i~ral~~de~llvLDa~t~--~~~~~~~~~~~~-  266 (328)
T 3e70_C          199 -----VA---YDAIQHAKA-RGIDVVLIDTAGRSETNRNLMDEMKKIARVTKPNLVIFVGDALAG--NAIVEQARQFNE-  266 (328)
T ss_dssp             -----HH---HHHHHHHHH-HTCSEEEEEECCSCCTTTCHHHHHHHHHHHHCCSEEEEEEEGGGT--THHHHHHHHHHH-
T ss_pred             -----HH---HHHHHHHHh-ccchhhHHhhccchhHHHHHHHHHHHHHHHhcCCCCEEEEecHHH--HHHHHHHHHHHH-
Confidence                 01   111111222 689999999997643  1111    11122237888888885443  344444454442 


Q ss_pred             CCCeEEEEEcCCC
Q psy14655        159 NIPVAGLVMNMNS  171 (261)
Q Consensus       159 ~~~~~giv~N~~~  171 (261)
                      .....++++|+.+
T Consensus       267 ~~~it~iilTKlD  279 (328)
T 3e70_C          267 AVKIDGIILTKLD  279 (328)
T ss_dssp             HSCCCEEEEECGG
T ss_pred             hcCCCEEEEeCcC
Confidence            1244688999844

>2obn_A Hypothetical protein; structural genomics, joint center for structural genomics, J protein structure initiative, PSI-2, unknown function; HET: PG4; 2.30A {Anabaena variabilis}

Probab=98.00  E-value=8.6e-05  Score=62.98  Aligned_cols=134  Identities=16%  Similarity=0.183  Sum_probs=86.7

Q ss_pred             cccCCCCCcHHHHHHHHHHHHHhcCCCCeEEEEecCCCCCCcccccCCCCCCCCCcCCccccccccCceeecCCCCcccc
Q psy14655          2 IASSKGGVGKSTTTVNLATAMKICYPDKEIGILDADVFGPSIPILMNLPDTPLLNKDNLMIPLVNYGVKCLSMGNLITEK   81 (261)
Q Consensus         2 v~s~KGGvGKTT~a~~lA~~la~~g~~~~VllvD~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~   81 (261)
                      +++.--.+||||++..|..+|.++|  .++.++-.-..    ..+..   ......+            .+.        
T Consensus       157 v~GTD~~VGK~~ts~~L~~~l~~~G--~~a~~~~tgqt----g~~~~---~~gi~~D------------av~--------  207 (349)
T 2obn_A          157 TVGTDMAIGKMSTSLELHWAAKLRG--WRSKFLATGQT----GVMLE---GDGVALD------------AVR--------  207 (349)
T ss_dssp             EEESSSSSSHHHHHHHHHHHHHHTT--CCEEEECCSHH----HHHHH---SCSCCGG------------GSB--------
T ss_pred             EcCCCccccceeHHHHHHHHHHhcC--CcEEEEeccch----hhhhh---cCCcchh------------HHH--------
Confidence            3455568999999999999999999  98888431111    11110   0000000            000        


Q ss_pred             hhhhhhchHHHHHHHHHHHHhccCCCCEEEEeCCCCCChh----HHHHhhhcCCCeEEEEeCCCcchH-----------H
Q psy14655         82 SAAIWRGLMVMQALNKLTVQVQWGPCDILFIDTPPGTGDT----HLSLIQNLFIDTAIIITIPDTMSL-----------Q  146 (261)
Q Consensus        82 ~~~~~~~~~~~~~l~~~l~~l~~~~yd~IiiD~~~~~~~~----~~~~~~~~~ad~viiv~~~~~~s~-----------~  146 (261)
                            ..+....++.+...+. ++||+||+-..+++.+.    ...++.....|.+|++..|....+           .
T Consensus       208 ------~df~aG~ve~~~~~~~-~~~d~vlVEGqGgl~~P~~~~t~~ll~g~~p~~vILv~~~~~g~i~~~~~~~~p~l~  280 (349)
T 2obn_A          208 ------VDFAAGAVEQMVMRYG-KNYDILHIEGQGSLLHPGSTATLPLIRGSQPTQLVLVHRAGQTHNGNNPHVPIPPLP  280 (349)
T ss_dssp             ------HHHHHHHHHHHHHHHT-TTCSEEEECCCCCTTSTTCCTHHHHHHHHCCSEEEEEEETTCCBCSSCTTSBCCCHH
T ss_pred             ------HHHHhhhHHHHHHHhc-cCCCEEEEeCCCcccCcChHhHHHHHHHcCCCeEEEEECCCCceECCCCccCCCCHH
Confidence                  0111223455555565 78999999998776432    334455444688999999988777           7


Q ss_pred             HHHHHHHHHHh-----CCCCeEEEEEcCCC
Q psy14655        147 VAQRGYTMFKK-----LNIPVAGLVMNMNS  171 (261)
Q Consensus       147 ~~~~~~~~l~~-----~~~~~~giv~N~~~  171 (261)
                      ....+++.+..     .+.++.|+++|...
T Consensus       281 ~~i~t~e~l~~~~~~~~~~~V~Gi~lN~~~  310 (349)
T 2obn_A          281 EVIRLYETVASGGGAFGTVPVVGIALNTAH  310 (349)
T ss_dssp             HHHHHHHHHHHTTTTSCCCCEEEEEEECTT
T ss_pred             HHHHHHHHHHHhhccCCCCcEEEEEEECCC
Confidence            77888877765     67899999999844

>1g5t_A COB(I)alamin adenosyltransferase; P-loop protein, cobalamin biosynthesis, RECA fold; HET: ATP; 1.80A {Salmonella typhimurium} SCOP: c.37.1.11 PDB: 1g5r_A* 1g64_A*

Probab=97.95  E-value=4.9e-05  Score=59.21  Aligned_cols=34  Identities=21%  Similarity=0.243  Sum_probs=29.8

Q ss_pred             cccCCCCCcHHHHHHHHHHHHHhcCCCCeEEEEecCC
Q psy14655          2 IASSKGGVGKSTTTVNLATAMKICYPDKEIGILDADV   38 (261)
Q Consensus         2 v~s~KGGvGKTT~a~~lA~~la~~g~~~~VllvD~D~   38 (261)
                      |..++| .||||.|..+|..++.+|  +||+++=+..
T Consensus        33 v~tG~G-kGKTTaA~GlalRA~g~G--~rV~~vQF~K   66 (196)
T 1g5t_A           33 VFTGNG-KGKTTAAFGTAARAVGHG--KNVGVVQFIK   66 (196)
T ss_dssp             EEESSS-SCHHHHHHHHHHHHHHTT--CCEEEEESSC
T ss_pred             EECCCC-CCHHHHHHHHHHHHHHCC--CeEEEEEeeC
Confidence            445665 999999999999999999  9999997765

>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=97.90  E-value=0.00015  Score=64.36  Aligned_cols=34  Identities=32%  Similarity=0.377  Sum_probs=30.5

Q ss_pred             CCCCCcHHHHHHHHHHHHHhcCCCCeEEEEecCCCC
Q psy14655          5 SKGGVGKSTTTVNLATAMKICYPDKEIGILDADVFG   40 (261)
Q Consensus         5 ~KGGvGKTT~a~~lA~~la~~g~~~~VllvD~D~~~   40 (261)
                      +..|+||||+...||..+...+  .+|++.+.|...
T Consensus       300 GpNGSGKTTLl~~LAgll~~~~--G~V~l~g~D~~r  333 (503)
T 2yhs_A          300 GVNGVGKTTTIGKLARQFEQQG--KSVMLAAGDTFR  333 (503)
T ss_dssp             CCTTSSHHHHHHHHHHHHHHTT--CCEEEECCCTTC
T ss_pred             CCCcccHHHHHHHHHHHhhhcC--CeEEEecCcccc
Confidence            4579999999999999999888  899999999765

>2rdo_7 EF-G, elongation factor G; elongation factor G, EF-G, RRF, GDPNP, 50S subunit, cryo-EM, REAL-space refinement, ribonucleoprotein; 9.10A {Escherichia coli} PDB: 3j0e_H

Probab=97.89  E-value=4.2e-05  Score=71.37  Aligned_cols=65  Identities=17%  Similarity=0.149  Sum_probs=49.3

Q ss_pred             CCCCEEEEeCCCCCC--hhHHHHhhhcCCCeEEEEeCCCcchHHHHHHHHHHHHhCCCCeEEEEEcCCCC
Q psy14655        105 GPCDILFIDTPPGTG--DTHLSLIQNLFIDTAIIITIPDTMSLQVAQRGYTMFKKLNIPVAGLVMNMNSV  172 (261)
Q Consensus       105 ~~yd~IiiD~~~~~~--~~~~~~~~~~~ad~viiv~~~~~~s~~~~~~~~~~l~~~~~~~~giv~N~~~~  172 (261)
                      ..|++.|+|||+..+  ......+..  ||.+|+|+++.......+...++.+...+.+.+ +++|+++.
T Consensus        80 ~~~~i~liDTPG~~df~~~~~~~l~~--aD~aIlVvDa~~gv~~qt~~~~~~~~~~~ip~i-lviNKiD~  146 (704)
T 2rdo_7           80 EPHRINIIDTPGHVDFTIEVERSMRV--LDGAVMVYCAVGGVQPQSETVWRQANKYKVPRI-AFVNKMDR  146 (704)
T ss_pred             CceeEEEEeCCCccchHHHHHHHHHH--CCEEEEEEeCCCCCcHHHHHHHHHHHHcCCCEE-EEEeCCCc
Confidence            569999999998653  344555665  999999999887666666677777777788755 88999764

>2h5e_A Peptide chain release factor RF-3; beta barrel, translation; HET: GDP; 2.80A {Escherichia coli} PDB: 2o0f_A 3sfs_W* 3zvo_Y* 3uoq_W*

Probab=97.80  E-value=4.8e-05  Score=68.60  Aligned_cols=65  Identities=12%  Similarity=0.166  Sum_probs=48.3

Q ss_pred             CCCCEEEEeCCCCCC--hhHHHHhhhcCCCeEEEEeCCCcchHHHHHHHHHHHHhCCCCeEEEEEcCCCC
Q psy14655        105 GPCDILFIDTPPGTG--DTHLSLIQNLFIDTAIIITIPDTMSLQVAQRGYTMFKKLNIPVAGLVMNMNSV  172 (261)
Q Consensus       105 ~~yd~IiiD~~~~~~--~~~~~~~~~~~ad~viiv~~~~~~s~~~~~~~~~~l~~~~~~~~giv~N~~~~  172 (261)
                      .++.+.|+|||+...  ......+..  +|.+|+|+++..........+++.+...+.+ +-+++|+.+.
T Consensus        80 ~~~~i~liDTPG~~df~~~~~~~l~~--aD~~IlVvDa~~g~~~~t~~~~~~~~~~~ip-iivviNK~Dl  146 (529)
T 2h5e_A           80 HDCLVNLLDTPGHEDFSEDTYRTLTA--VDCCLMVIDAAKGVEDRTRKLMEVTRLRDTP-ILTFMNKLDR  146 (529)
T ss_dssp             TTEEEEEECCCCSTTCCHHHHHGGGG--CSEEEEEEETTTCSCHHHHHHHHHHTTTTCC-EEEEEECTTS
T ss_pred             CCeEEEEEECCCChhHHHHHHHHHHH--CCEEEEEEeCCccchHHHHHHHHHHHHcCCC-EEEEEcCcCC
Confidence            578999999997643  344555555  9999999997765555666677777767777 5689999764

>4a0g_A Adenosylmethionine-8-amino-7-oxononanoate aminotransferase; BIO3-BIO1, biotin synthesis; HET: PLP; 2.50A {Arabidopsis thaliana} PDB: 4a0h_A* 4a0r_A* 4a0f_A*

Probab=97.78  E-value=0.0003  Score=66.86  Aligned_cols=65  Identities=12%  Similarity=0.131  Sum_probs=47.5

Q ss_pred             CCCEEEEeCCCCCC------hhHHHHhhhcCCCeEEEEeCCCcchHHHHHHHHHHHHhCCCCeEEEEEcCCC
Q psy14655        106 PCDILFIDTPPGTG------DTHLSLIQNLFIDTAIIITIPDTMSLQVAQRGYTMFKKLNIPVAGLVMNMNS  171 (261)
Q Consensus       106 ~yd~IiiD~~~~~~------~~~~~~~~~~~ad~viiv~~~~~~s~~~~~~~~~~l~~~~~~~~giv~N~~~  171 (261)
                      ++|++||....|+.      .....+.... ---||+|......++..+...++.+...++++.|+|+|+..
T Consensus       201 ~~D~vvVEGaGGl~~p~~~~~~~adla~~l-~~PVILV~d~~lG~i~~~~lt~~~l~~~g~~v~GvI~N~~~  271 (831)
T 4a0g_A          201 SDLLCLVETAGGVASPGPSGTLQCDLYRPF-RLPGILVGDGRLGGISGTIAAYESLKLRGYDIAAVVFEDHG  271 (831)
T ss_dssp             -CEEEEEECCSSTTCBCTTSCBHHHHTGGG-CCCEEEECCCSTTHHHHHHHHHHHHHTTTCCEEEEEEECCS
T ss_pred             cCCEEEEECCCCccCCCCCCccHHHHHHHc-CCCEEEEECCCCcHHHHHHHHHHHHHHCCCcEEEEEEeCCc
Confidence            89999999876542      1222222221 22488888888899999888888888889999999999743

>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=97.64  E-value=6e-05  Score=64.54  Aligned_cols=37  Identities=22%  Similarity=0.122  Sum_probs=33.0

Q ss_pred             cccCCCCCcHHHHHHHHHHHHHhcCCCCeEEEEecCCCC
Q psy14655          2 IASSKGGVGKSTTTVNLATAMKICYPDKEIGILDADVFG   40 (261)
Q Consensus         2 v~s~KGGvGKTT~a~~lA~~la~~g~~~~VllvD~D~~~   40 (261)
                      ++.+++|+||||+|.++|..+++.|  .+|++||++...
T Consensus        67 ~I~G~pGsGKTtLal~la~~~~~~g--~~vlyid~E~s~  103 (356)
T 1u94_A           67 EIYGPESSGKTTLTLQVIAAAQREG--KTCAFIDAEHAL  103 (356)
T ss_dssp             EEECSTTSSHHHHHHHHHHHHHHTT--CCEEEEESSCCC
T ss_pred             EEECCCCCCHHHHHHHHHHHHHHCC--CeEEEEeCCCCc
Confidence            4568999999999999999999999  999999997643

>2www_A Methylmalonic aciduria type A protein, mitochondrial; transport protein, nucleotide-binding; HET: GDP 2PE; 2.64A {Homo sapiens}

Probab=97.61  E-value=0.00053  Score=58.50  Aligned_cols=37  Identities=22%  Similarity=0.178  Sum_probs=31.2

Q ss_pred             ccCCCCCcHHHHHHHHHHHHHhcCCCCeEEEEecCCCCC
Q psy14655          3 ASSKGGVGKSTTTVNLATAMKICYPDKEIGILDADVFGP   41 (261)
Q Consensus         3 ~s~KGGvGKTT~a~~lA~~la~~g~~~~VllvD~D~~~~   41 (261)
                      +-+..|+||||+.-.|+..+...+  .+|.++..|++..
T Consensus        79 lvG~pgaGKSTLln~L~~~~~~~~--~~v~V~~~dp~~~  115 (349)
T 2www_A           79 LSGPPGAGKSTFIEYFGKMLTERG--HKLSVLAVDPSSC  115 (349)
T ss_dssp             EECCTTSSHHHHHHHHHHHHHHTT--CCEEEEECCC---
T ss_pred             EEcCCCCCHHHHHHHHHHHhhhcC--CeEEEEeecCCCC
Confidence            457889999999999999998888  9999999999864

>3vqt_A RF-3, peptide chain release factor 3; translation, GTPase; HET: GDP; 1.80A {Desulfovibrio vulgaris} PDB: 3vr1_A*

Probab=97.54  E-value=0.00052  Score=62.10  Aligned_cols=65  Identities=12%  Similarity=0.201  Sum_probs=55.6

Q ss_pred             cCCCCEEEEeCCCCC--ChhHHHHhhhcCCCeEEEEeCCCcchHHHHHHHHHHHHhCCCCeEEEEEcCCC
Q psy14655        104 WGPCDILFIDTPPGT--GDTHLSLIQNLFIDTAIIITIPDTMSLQVAQRGYTMFKKLNIPVAGLVMNMNS  171 (261)
Q Consensus       104 ~~~yd~IiiD~~~~~--~~~~~~~~~~~~ad~viiv~~~~~~s~~~~~~~~~~l~~~~~~~~giv~N~~~  171 (261)
                      +.+|.+=|||||+..  ...+..++.+  +|.+|+|+++...-..++..+.+.+.+.+++.+ +++|+.+
T Consensus        97 ~~~~~iNlIDTPGHvDF~~Ev~raL~~--~DgAvlVvda~~GV~~qT~~v~~~a~~~~lp~i-~fINK~D  163 (548)
T 3vqt_A           97 YRDRVVNLLDTPGHQDFSEDTYRVLTA--VDSALVVIDAAKGVEAQTRKLMDVCRMRATPVM-TFVNKMD  163 (548)
T ss_dssp             ETTEEEEEECCCCGGGCSHHHHHHHHS--CSEEEEEEETTTBSCHHHHHHHHHHHHTTCCEE-EEEECTT
T ss_pred             ECCEEEEEEeCCCcHHHHHHHHHHHHh--cCceEEEeecCCCcccccHHHHHHHHHhCCceE-EEEeccc
Confidence            367889999999875  4556677777  999999999999999999999999999999965 8889865

>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=97.53  E-value=0.00048  Score=57.59  Aligned_cols=35  Identities=29%  Similarity=0.339  Sum_probs=31.5

Q ss_pred             CCCCCcHHHHHHHHHHHHHhcCCCCeEEEEecCCCCC
Q psy14655          5 SKGGVGKSTTTVNLATAMKICYPDKEIGILDADVFGP   41 (261)
Q Consensus         5 ~KGGvGKTT~a~~lA~~la~~g~~~~VllvD~D~~~~   41 (261)
                      +..|+||||+...||..+...+  .+|++.+.|....
T Consensus       109 G~nGsGKTTll~~Lagll~~~~--g~V~l~g~D~~r~  143 (304)
T 1rj9_A          109 GVNGVGKTTTIAKLGRYYQNLG--KKVMFCAGDTFRA  143 (304)
T ss_dssp             CSTTSSHHHHHHHHHHHHHTTT--CCEEEECCCCSST
T ss_pred             CCCCCcHHHHHHHHHHHHHhcC--CEEEEEeecCCCh
Confidence            5689999999999999999888  8999999998653

>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=97.39  E-value=0.00022  Score=61.23  Aligned_cols=36  Identities=14%  Similarity=0.091  Sum_probs=32.3

Q ss_pred             ccCCCCCcHHHHHHHHHHHHHhcCCCCeEEEEecCCCC
Q psy14655          3 ASSKGGVGKSTTTVNLATAMKICYPDKEIGILDADVFG   40 (261)
Q Consensus         3 ~s~KGGvGKTT~a~~lA~~la~~g~~~~VllvD~D~~~   40 (261)
                      +.+..|+||||+|.++|..+++.|  .+|++||++...
T Consensus        79 I~G~pGsGKTtlal~la~~~~~~g--~~vlyi~~E~s~  114 (366)
T 1xp8_A           79 IYGPESGGKTTLALAIVAQAQKAG--GTCAFIDAEHAL  114 (366)
T ss_dssp             EEESTTSSHHHHHHHHHHHHHHTT--CCEEEEESSCCC
T ss_pred             EEcCCCCChHHHHHHHHHHHHHCC--CeEEEEECCCCh
Confidence            457789999999999999999999  999999999653

>2qm8_A GTPase/ATPase; G protein, G3E, metallochaperone, chaperone; HET: MSE; 1.70A {Methylobacterium extorquens} SCOP: c.37.1.10 PDB: 2qm7_A*

Probab=97.37  E-value=0.00067  Score=57.59  Aligned_cols=120  Identities=13%  Similarity=0.167  Sum_probs=64.1

Q ss_pred             ccCCCCCcHHHHHHHHHHHHHhcCCCCeEEEEecCCCCCCc-ccccCCCCCCCCCcCCccccccccCceeecCCCCcccc
Q psy14655          3 ASSKGGVGKSTTTVNLATAMKICYPDKEIGILDADVFGPSI-PILMNLPDTPLLNKDNLMIPLVNYGVKCLSMGNLITEK   81 (261)
Q Consensus         3 ~s~KGGvGKTT~a~~lA~~la~~g~~~~VllvD~D~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~   81 (261)
                      +-+.-|+||||+.-.|+..+...+  .+|.++..|++.... ..+.+....     ...+  ...+++.+-+..... ..
T Consensus        60 i~G~~GaGKSTLl~~l~g~~~~~~--g~v~i~~~d~~~~~~~~~~~~~~~~-----i~~v--~q~~~~~~~~~~~~~-~l  129 (337)
T 2qm8_A           60 ITGVPGVGKSTTIDALGSLLTAAG--HKVAVLAVDPSSTRTGGSILGDKTR-----MARL--AIDRNAFIRPSPSSG-TL  129 (337)
T ss_dssp             EECCTTSCHHHHHHHHHHHHHHTT--CCEEEEEECGGGGSSCCCSSCCGGG-----STTG--GGCTTEEEECCCCCS-SH
T ss_pred             EECCCCCCHHHHHHHHHHhhhhCC--CEEEEEEEcCcccccccchHHHhhh-----heee--ccCcccccccCcccc-cc
Confidence            346779999999999999998888  899999999864321 011111100     0000  011222221111000 00


Q ss_pred             hhhhhhchHHHHHHHHHHHHhccCCCCEEEEeCCCCCChhHHHHhhhcCCCeEEEEeCCCc
Q psy14655         82 SAAIWRGLMVMQALNKLTVQVQWGPCDILFIDTPPGTGDTHLSLIQNLFIDTAIIITIPDT  142 (261)
Q Consensus        82 ~~~~~~~~~~~~~l~~~l~~l~~~~yd~IiiD~~~~~~~~~~~~~~~~~ad~viiv~~~~~  142 (261)
                      ..       ......+.+..+...++|+||+||++ +..........  +|.++++..++.
T Consensus       130 ~G-------~tr~~~e~~~~~~~~~~~~iliDT~G-i~~~~~~v~~~--~d~vl~v~d~~~  180 (337)
T 2qm8_A          130 GG-------VAAKTRETMLLCEAAGFDVILVETVG-VGQSETAVADL--TDFFLVLMLPGA  180 (337)
T ss_dssp             HH-------HHHHHHHHHHHHHHTTCCEEEEEECS-SSSCHHHHHTT--SSEEEEEECSCC
T ss_pred             cc-------hHHHHHHHHHHHhcCCCCEEEEECCC-CCcchhhHHhh--CCEEEEEEcCCC
Confidence            00       01111111112223789999999996 44333334444  899999887653

>1dar_A EF-G, elongation factor G; ribosomal translocase, translational GTPase; HET: GDP; 2.40A {Thermus thermophilus} SCOP: b.43.3.1 c.37.1.8 d.14.1.1 d.58.11.1 PDB: 1elo_A 1ktv_A 2om7_L* 2wri_Y* 2wrk_Y* 2xsy_Y* 2xuy_Y* 2j7k_A* 2efg_A* 1jqm_B 1efg_A* 1fnm_A* 1pn6_A 2bm1_A* 2bm0_A* 2bv3_A* 3izp_E 1zn0_B 1jqs_C 2bcw_C ...

Probab=97.24  E-value=0.0013  Score=61.15  Aligned_cols=65  Identities=17%  Similarity=0.107  Sum_probs=48.3

Q ss_pred             CCCCEEEEeCCCCCC--hhHHHHhhhcCCCeEEEEeCCCcchHHHHHHHHHHHHhCCCCeEEEEEcCCCC
Q psy14655        105 GPCDILFIDTPPGTG--DTHLSLIQNLFIDTAIIITIPDTMSLQVAQRGYTMFKKLNIPVAGLVMNMNSV  172 (261)
Q Consensus       105 ~~yd~IiiD~~~~~~--~~~~~~~~~~~ad~viiv~~~~~~s~~~~~~~~~~l~~~~~~~~giv~N~~~~  172 (261)
                      .++.+.|+|||+..+  ......+..  +|.+++|+++...........+..+...+.+.+ +++|+++.
T Consensus        75 ~~~~i~liDTPG~~df~~~~~~~l~~--aD~~ilVvDa~~g~~~~t~~~~~~~~~~~~p~i-vviNKiD~  141 (691)
T 1dar_A           75 KDHRINIIDTPGHVDFTIEVERSMRV--LDGAIVVFDSSQGVEPQSETVWRQAEKYKVPRI-AFANKMDK  141 (691)
T ss_dssp             TTEEEEEECCCSSTTCHHHHHHHHHH--CSEEEEEEETTTCSCHHHHHHHHHHHHTTCCEE-EEEECTTS
T ss_pred             CCeEEEEEECcCccchHHHHHHHHHH--CCEEEEEEECCCCcchhhHHHHHHHHHcCCCEE-EEEECCCc
Confidence            468999999997644  344555666  999999999877655566666677777788755 88999764

>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=97.18  E-value=0.00056  Score=57.30  Aligned_cols=64  Identities=19%  Similarity=0.214  Sum_probs=43.5

Q ss_pred             CCCEEEEeCCCCCC------------hhHHHHhhhcCCCeEEEEeCCCc-chHHHHHHHHHHHHhCCCCeEEEEEcCCCC
Q psy14655        106 PCDILFIDTPPGTG------------DTHLSLIQNLFIDTAIIITIPDT-MSLQVAQRGYTMFKKLNIPVAGLVMNMNSV  172 (261)
Q Consensus       106 ~yd~IiiD~~~~~~------------~~~~~~~~~~~ad~viiv~~~~~-~s~~~~~~~~~~l~~~~~~~~giv~N~~~~  172 (261)
                      ++.++|+|||+...            ......+..  +|.+++|++++. .+.......++.+...+.+ +-+|+|+++.
T Consensus        58 ~~~i~lvDTPG~~~~~~~~~l~~~~~~~~~~~l~~--aD~il~VvD~~~~~~~~~~~~~~~~l~~~~~p-vilV~NK~Dl  134 (308)
T 3iev_A           58 EAQIIFLDTPGIYEPKKSDVLGHSMVEIAKQSLEE--ADVILFMIDATEGWRPRDEEIYQNFIKPLNKP-VIVVINKIDK  134 (308)
T ss_dssp             TEEEEEEECCCCCCCCTTCHHHHHHHHHHHHHHHH--CSEEEEEEETTTBSCHHHHHHHHHHTGGGCCC-EEEEEECGGG
T ss_pred             CCeEEEEECcCCCccccchhHHHHHHHHHHHHhhc--CCEEEEEEeCCCCCCchhHHHHHHHHHhcCCC-EEEEEECccC
Confidence            67899999996532            122344555  999999999765 4444444337777776666 4589999764

>2xex_A Elongation factor G; GTPase, translation, biosynthetic protein; 1.90A {Staphylococcus aureus}

Probab=97.17  E-value=0.0016  Score=60.61  Aligned_cols=65  Identities=12%  Similarity=0.090  Sum_probs=47.8

Q ss_pred             CCCCEEEEeCCCCC--ChhHHHHhhhcCCCeEEEEeCCCcchHHHHHHHHHHHHhCCCCeEEEEEcCCCC
Q psy14655        105 GPCDILFIDTPPGT--GDTHLSLIQNLFIDTAIIITIPDTMSLQVAQRGYTMFKKLNIPVAGLVMNMNSV  172 (261)
Q Consensus       105 ~~yd~IiiD~~~~~--~~~~~~~~~~~~ad~viiv~~~~~~s~~~~~~~~~~l~~~~~~~~giv~N~~~~  172 (261)
                      .++.+.|+|||+..  .......+..  +|.+++|+++...........+..+...+.+.+ +|+|+++.
T Consensus        73 ~~~~i~liDTPG~~df~~~~~~~l~~--aD~~llVvDa~~g~~~~~~~~~~~~~~~~~p~i-lviNK~Dl  139 (693)
T 2xex_A           73 EGHRVNIIDTPGHVDFTVEVERSLRV--LDGAVTVLDAQSGVEPQTETVWRQATTYGVPRI-VFVNKMDK  139 (693)
T ss_dssp             TTEEEEEECCCCCSSCCHHHHHHHHH--CSEEEEEEETTTBSCHHHHHHHHHHHHTTCCEE-EEEECTTS
T ss_pred             CCeeEEEEECcCCcchHHHHHHHHHH--CCEEEEEECCCCCCcHHHHHHHHHHHHcCCCEE-EEEECCCc
Confidence            46889999999764  3445566666  999999999776544555566667777777754 88999764

>3tr5_A RF-3, peptide chain release factor 3; protein synthesis, translation; HET: GDP; 2.11A {Coxiella burnetii}

Probab=97.14  E-value=0.0008  Score=60.60  Aligned_cols=65  Identities=12%  Similarity=0.132  Sum_probs=49.3

Q ss_pred             CCCCEEEEeCCCCCC--hhHHHHhhhcCCCeEEEEeCCCcchHHHHHHHHHHHHhCCCCeEEEEEcCCCC
Q psy14655        105 GPCDILFIDTPPGTG--DTHLSLIQNLFIDTAIIITIPDTMSLQVAQRGYTMFKKLNIPVAGLVMNMNSV  172 (261)
Q Consensus       105 ~~yd~IiiD~~~~~~--~~~~~~~~~~~ad~viiv~~~~~~s~~~~~~~~~~l~~~~~~~~giv~N~~~~  172 (261)
                      .++.+.|+|||+...  ......+..  +|.+++|+++..........+...+...+.+. -+|+|+.+.
T Consensus        80 ~~~~i~liDTPG~~df~~~~~~~l~~--aD~allVvDa~~g~~~~t~~~~~~~~~~~iPi-ivviNK~Dl  146 (528)
T 3tr5_A           80 KDYLINLLDTPGHADFTEDTYRTLTA--VDSALMVIDAAKGVEPRTIKLMEVCRLRHTPI-MTFINKMDR  146 (528)
T ss_dssp             TTEEEEEECCCCSTTCCHHHHHGGGG--CSEEEEEEETTTCSCHHHHHHHHHHHTTTCCE-EEEEECTTS
T ss_pred             CCEEEEEEECCCchhHHHHHHHHHHh--CCEEEEEEeCCCCCCHHHHHHHHHHHHcCCCE-EEEEeCCCC
Confidence            568899999997543  444555665  99999999987766666677778888888874 488999664

>2c78_A Elongation factor TU-A; hydrolase, GTPase, translation elongation factor, protein synthesis, antibiotic, GTP-binding, nucleotide-binding; HET: GNP PUL; 1.4A {Thermus thermophilus} SCOP: b.43.3.1 b.44.1.1 c.37.1.8 PDB: 2y0u_Z* 2y0w_Z* 2y0y_Z* 2y10_Z* 2y12_Z* 2y14_Z* 2y16_Z* 2y18_Z* 2wrn_Z* 2wrq_Z* 2c77_A* 1aip_A 1exm_A* 1ha3_A* 2xqd_Z* 3fic_Z* 4abr_Z* 1b23_P* 1ob5_A* 1ttt_A* ...

Probab=97.11  E-value=0.00064  Score=59.18  Aligned_cols=66  Identities=12%  Similarity=0.190  Sum_probs=48.3

Q ss_pred             CCCCEEEEeCCCCCChh--HHHHhhhcCCCeEEEEeCCCcchHHHHHHHHHHHHhCCCCeEEEEEcCCCC
Q psy14655        105 GPCDILFIDTPPGTGDT--HLSLIQNLFIDTAIIITIPDTMSLQVAQRGYTMFKKLNIPVAGLVMNMNSV  172 (261)
Q Consensus       105 ~~yd~IiiD~~~~~~~~--~~~~~~~~~ad~viiv~~~~~~s~~~~~~~~~~l~~~~~~~~giv~N~~~~  172 (261)
                      ..+.+.|+|||+.....  ....+..  +|.+++|++++..........+..+...+.+.+-+++|+++.
T Consensus        73 ~~~~~~iiDtpG~~~f~~~~~~~~~~--aD~~ilVvda~~g~~~qt~~~l~~~~~~~ip~iivviNK~Dl  140 (405)
T 2c78_A           73 AKRHYSHVDCPGHADYIKNMITGAAQ--MDGAILVVSAADGPMPQTREHILLARQVGVPYIVVFMNKVDM  140 (405)
T ss_dssp             SSCEEEEEECCCSGGGHHHHHHHHTT--CSSEEEEEETTTCCCHHHHHHHHHHHHTTCCCEEEEEECGGG
T ss_pred             CCeEEEEEECCChHHHHHHHHHHHHH--CCEEEEEEECCCCCcHHHHHHHHHHHHcCCCEEEEEEECccc
Confidence            56889999998644322  2233333  899999999877666677777777887888866689999764

>1d2e_A Elongation factor TU (EF-TU); G-protein, beta-barrel, RNA binding protein; HET: GDP; 1.94A {Bos taurus} SCOP: b.43.3.1 b.44.1.1 c.37.1.8 PDB: 1xb2_A* 2hcj_A* 2hdn_A*

Probab=97.08  E-value=0.00064  Score=59.04  Aligned_cols=66  Identities=8%  Similarity=0.139  Sum_probs=47.2

Q ss_pred             CCCCEEEEeCCCCCCh--hHHHHhhhcCCCeEEEEeCCCcchHHHHHHHHHHHHhCCCCeEEEEEcCCCC
Q psy14655        105 GPCDILFIDTPPGTGD--THLSLIQNLFIDTAIIITIPDTMSLQVAQRGYTMFKKLNIPVAGLVMNMNSV  172 (261)
Q Consensus       105 ~~yd~IiiD~~~~~~~--~~~~~~~~~~ad~viiv~~~~~~s~~~~~~~~~~l~~~~~~~~giv~N~~~~  172 (261)
                      ..+.+.|+|||+....  .....+..  +|.+++|+.++.....+....+..+...+.+.+-+++|+++.
T Consensus        64 ~~~~~~iiDtpG~~~f~~~~~~~~~~--aD~~ilVvda~~g~~~qt~e~l~~~~~~~vp~iivviNK~Dl  131 (397)
T 1d2e_A           64 AARHYAHTDCPGHADYVKNMITGTAP--LDGCILVVAANDGPMPQTREHLLLARQIGVEHVVVYVNKADA  131 (397)
T ss_dssp             SSCEEEEEECSSHHHHHHHHHHTSSC--CSEEEEEEETTTCSCHHHHHHHHHHHHTTCCCEEEEEECGGG
T ss_pred             CCeEEEEEECCChHHHHHHHHhhHhh--CCEEEEEEECCCCCCHHHHHHHHHHHHcCCCeEEEEEECccc
Confidence            5689999999864321  12222333  899999999877666666677777777788866789999764

>1wf3_A GTP-binding protein; GTPase, riken structural genomics/prote initiative, RSGI, structural genomics, hydrolase; HET: GNP; 1.88A {Thermus thermophilus} SCOP: c.37.1.8 d.52.3.1

Probab=96.88  E-value=0.0016  Score=54.25  Aligned_cols=65  Identities=18%  Similarity=0.200  Sum_probs=40.9

Q ss_pred             CCCCEEEEeCCCCCCh----------hHHHHhhhcCCCeEEEEeCCCcchHHHHHHHHHHHHhC--CCCeEEEEEcCCCC
Q psy14655        105 GPCDILFIDTPPGTGD----------THLSLIQNLFIDTAIIITIPDTMSLQVAQRGYTMFKKL--NIPVAGLVMNMNSV  172 (261)
Q Consensus       105 ~~yd~IiiD~~~~~~~----------~~~~~~~~~~ad~viiv~~~~~~s~~~~~~~~~~l~~~--~~~~~giv~N~~~~  172 (261)
                      .++.++|+|||+....          .....+..  +|.+++|++.+..--.....+++.+.+.  +.+ +-+|+|+++.
T Consensus        53 ~~~~l~l~DTpG~~~~~~~l~~~~~~~~~~~l~~--ad~il~VvD~~~~~~~~~~~i~~~l~~~~~~~p-~ilV~NK~Dl  129 (301)
T 1wf3_A           53 GRRQIVFVDTPGLHKPMDALGEFMDQEVYEALAD--VNAVVWVVDLRHPPTPEDELVARALKPLVGKVP-ILLVGNKLDA  129 (301)
T ss_dssp             TTEEEEEEECCCCCCCCSHHHHHHHHHHHHHTSS--CSEEEEEEETTSCCCHHHHHHHHHHGGGTTTSC-EEEEEECGGG
T ss_pred             CCcEEEEecCccccchhhHHHHHHHHHHHHHHhc--CCEEEEEEECCCCCChHHHHHHHHHHhhcCCCC-EEEEEECccc
Confidence            4678999999964431          12233444  8999999986543222234455666665  555 5589999764

>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=96.86  E-value=0.00092  Score=50.84  Aligned_cols=35  Identities=17%  Similarity=0.062  Sum_probs=30.3

Q ss_pred             cCCCCCcHHHHHHHHHHHHHhcCCCCeEEEEecCCCC
Q psy14655          4 SSKGGVGKSTTTVNLATAMKICYPDKEIGILDADVFG   40 (261)
Q Consensus         4 s~KGGvGKTT~a~~lA~~la~~g~~~~VllvD~D~~~   40 (261)
                      .+..|+||||++..|+..|..+|  .+|.+|..|+..
T Consensus        10 ~G~sGsGKTTl~~~L~~~l~~~g--~~v~~ik~~~~~   44 (169)
T 1xjc_A           10 VGYKHSGKTTLMEKWVAAAVREG--WRVGTVKHHGHG   44 (169)
T ss_dssp             ECCTTSSHHHHHHHHHHHHHHTT--CCEEEEECCC--
T ss_pred             ECCCCCCHHHHHHHHHHhhHhcC--CeeeEEEeCCCC
Confidence            34669999999999999999999  999999999864

>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=96.68  E-value=0.0024  Score=53.48  Aligned_cols=37  Identities=16%  Similarity=0.094  Sum_probs=30.1

Q ss_pred             cCCCCCcHHHHHHHHHHHHHhcCCCCeEEEEecCCCC
Q psy14655          4 SSKGGVGKSTTTVNLATAMKICYPDKEIGILDADVFG   40 (261)
Q Consensus         4 s~KGGvGKTT~a~~lA~~la~~g~~~~VllvD~D~~~   40 (261)
                      .+--|+||||++.+++..+++.|++.+|++||.....
T Consensus        34 ~G~pGsGKTtL~Lq~~~~~~~~g~g~~vlyId~E~s~   70 (333)
T 3io5_A           34 AGPSKSFKSNFGLTMVSSYMRQYPDAVCLFYDSEFGI   70 (333)
T ss_dssp             EESSSSSHHHHHHHHHHHHHHHCTTCEEEEEESSCCC
T ss_pred             ECCCCCCHHHHHHHHHHHHHhcCCCceEEEEeccchh
Confidence            3457999999999999999987222899999987653

>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=96.66  E-value=0.028  Score=42.76  Aligned_cols=65  Identities=6%  Similarity=0.133  Sum_probs=40.9

Q ss_pred             CCCCEEEEeCCCCC--ChhHHHHhhhcCCCeEEEEeCCCcc----hHHHHHHHHHHHHhC-----CCCeEEEEEcCCCC
Q psy14655        105 GPCDILFIDTPPGT--GDTHLSLIQNLFIDTAIIITIPDTM----SLQVAQRGYTMFKKL-----NIPVAGLVMNMNSV  172 (261)
Q Consensus       105 ~~yd~IiiD~~~~~--~~~~~~~~~~~~ad~viiv~~~~~~----s~~~~~~~~~~l~~~-----~~~~~giv~N~~~~  172 (261)
                      ..+.+.|+|+|+..  .......+..  +|.+++|.+.+..    +......+.+.+...     +.+ +.+|.|+.+.
T Consensus        72 ~~~~~~i~Dt~G~~~~~~~~~~~~~~--~d~~i~v~D~~~~~~~~~~~s~~~l~~~l~~~~~~~~~~p-iilv~NK~Dl  147 (198)
T 3t1o_A           72 FKTRFHLYTVPGQVFYNASRKLILRG--VDGIVFVADSAPNRLRANAESMRNMRENLAEYGLTLDDVP-IVIQVNKRDL  147 (198)
T ss_dssp             CEEEEEEEECCSCCSCSHHHHHHTTT--CCEEEEEEECCGGGHHHHHHHHHHHHHHHHHTTCCTTSSC-EEEEEECTTS
T ss_pred             CceEEEEEeCCChHHHHHHHHHHHhc--CCEEEEEEECCcchhhHhHHHHHHHHHHHHhhccccCCCC-EEEEEEchhc
Confidence            45679999999743  3333444555  9999999997744    333333444444432     344 6689999764

>2g0t_A Conserved hypothetical protein; structural genomics, joint center for structural genomics, J protein structure initiative, PSI-2; 2.67A {Thermotoga maritima} SCOP: c.37.1.10

Probab=96.66  E-value=0.0091  Score=50.63  Aligned_cols=130  Identities=20%  Similarity=0.180  Sum_probs=75.8

Q ss_pred             ccCCCCCcHHHHHHHHHHHHHhcCCCCeEEEEecCCCCCCcccccCCCCCCCCCcCCccccccccCceeecCCCCcccch
Q psy14655          3 ASSKGGVGKSTTTVNLATAMKICYPDKEIGILDADVFGPSIPILMNLPDTPLLNKDNLMIPLVNYGVKCLSMGNLITEKS   82 (261)
Q Consensus         3 ~s~KGGvGKTT~a~~lA~~la~~g~~~~VllvD~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~   82 (261)
                      ++.--++||||++..|...+.++|  .++..+-.-..    ..+.+..  ..+..+                 ...    
T Consensus       175 ~GTDt~vGKt~t~~~L~~~l~~~G--~~v~~v~tgqt----g~li~~~--~gv~~D-----------------~~~----  225 (350)
T 2g0t_A          175 FGTDCVVGKRTTAVQLWERALEKG--IKAGFLATGQT----GILIGAD--AGYVID-----------------AVP----  225 (350)
T ss_dssp             EESSSSSSHHHHHHHHHHHHHHTT--CCEEEEECSHH----HHHTTCS--EECCGG-----------------GSB----
T ss_pred             ecCCCCccCccHHHHHHHHHHhcC--CeEEEEccCce----eeeeccC--CCCCCC-----------------cee----
Confidence            444557999999999999999999  99988553222    1111111  011000                 000    


Q ss_pred             hhhhhchHHHHHHHHHHHHh-ccCCCCEEEEeCCCCCChhH-----HHHhhhcCCCeEEEEeCCC-----------c-ch
Q psy14655         83 AAIWRGLMVMQALNKLTVQV-QWGPCDILFIDTPPGTGDTH-----LSLIQNLFIDTAIIITIPD-----------T-MS  144 (261)
Q Consensus        83 ~~~~~~~~~~~~l~~~l~~l-~~~~yd~IiiD~~~~~~~~~-----~~~~~~~~ad~viiv~~~~-----------~-~s  144 (261)
                           ..+....++.++... + ++||++|+-.++++.+..     ...+.....|.+|+.-.|.           . .+
T Consensus       226 -----~~~~ag~~e~~i~~~~~-~~~D~ivVEGqGgl~~P~~~~v~~~ll~g~~p~~vIl~h~~~r~~~~~~~~~~~~~~  299 (350)
T 2g0t_A          226 -----ADFVSGVVEKAVLKLEK-TGKEIVFVEGQGALRHPAYGQVTLGLLYGSNPDVVFLVHDPSRDHFESFPEIPKKPD  299 (350)
T ss_dssp             -----GGGHHHHHHHHHHHHHH-TTCSEEEEECCSCTTCTTTHHHHHHHHHHHCCSEEEEECCTTCSSCTTCTTSSCCCC
T ss_pred             -----cchhhHHHHhhHHHhhh-cCCCEEEEccCeeccccCchHHHHHHHcCCCCCEEEEEeCCCCccccCCCcccCCcC
Confidence                 000111122222222 4 899999999998875332     3344444478888877654           2 45


Q ss_pred             HHHHHHHHHHHHhCCCCeEEEE-EcC
Q psy14655        145 LQVAQRGYTMFKKLNIPVAGLV-MNM  169 (261)
Q Consensus       145 ~~~~~~~~~~l~~~~~~~~giv-~N~  169 (261)
                      ++....+++.+.  +.+++|++ +|.
T Consensus       300 i~~~i~~ie~l~--~~~V~gi~~lN~  323 (350)
T 2g0t_A          300 FEEERRLIETLS--NAKVIGGVSLNG  323 (350)
T ss_dssp             HHHHHHHHHHSS--SCEEEEEECSSC
T ss_pred             HHHHHHHHHHhc--CCcEEEEEEcCc
Confidence            555455554444  67899999 995

>4fn5_A EF-G 1, elongation factor G 1; translation, translation-antibiotic compl; HET: 0UO; 2.90A {Pseudomonas aeruginosa}

Probab=96.61  E-value=0.012  Score=54.93  Aligned_cols=64  Identities=14%  Similarity=0.140  Sum_probs=53.6

Q ss_pred             CCCCEEEEeCCCCCC--hhHHHHhhhcCCCeEEEEeCCCcchHHHHHHHHHHHHhCCCCeEEEEEcCCC
Q psy14655        105 GPCDILFIDTPPGTG--DTHLSLIQNLFIDTAIIITIPDTMSLQVAQRGYTMFKKLNIPVAGLVMNMNS  171 (261)
Q Consensus       105 ~~yd~IiiD~~~~~~--~~~~~~~~~~~ad~viiv~~~~~~s~~~~~~~~~~l~~~~~~~~giv~N~~~  171 (261)
                      ++|-+=|||||+..+  ..+..++..  ||.+|+|++....-..++..+++.+.+.+++.+ +++|+.+
T Consensus        83 ~~~~iNlIDTPGHvDF~~Ev~~aLr~--~DgavlvVDaveGV~~qT~~v~~~a~~~~lp~i-~~iNKiD  148 (709)
T 4fn5_A           83 DNYRVNVIDTPGHVDFTIEVERSLRV--LDGAVVVFCGTSGVEPQSETVWRQANKYGVPRI-VYVNKMD  148 (709)
T ss_dssp             CCEEEEEECCCSCTTCHHHHHHHHHH--CSEEEEEEETTTCSCHHHHHHHHHHHHHTCCEE-EEEECSS
T ss_pred             CCEEEEEEeCCCCcccHHHHHHHHHH--hCeEEEEEECCCCCchhHHHHHHHHHHcCCCeE-EEEcccc
Confidence            356778999998764  556677777  999999999988888899999999999999955 8899865

>2yvu_A Probable adenylyl-sulfate kinase; transferase, structural genomics, NPPSFA, national P protein structural and functional analyses; 2.10A {Aeropyrum pernix}

Probab=96.54  E-value=0.0015  Score=50.20  Aligned_cols=36  Identities=25%  Similarity=0.261  Sum_probs=31.5

Q ss_pred             cccCCCCCcHHHHHHHHHHHHHhcCCCCeEEEEecCCC
Q psy14655          2 IASSKGGVGKSTTTVNLATAMKICYPDKEIGILDADVF   39 (261)
Q Consensus         2 v~s~KGGvGKTT~a~~lA~~la~~g~~~~VllvD~D~~   39 (261)
                      ++.+..|+||||++..||..+...|  .+|.++|.|.-
T Consensus        17 ~l~G~~GsGKsT~~~~L~~~l~~~~--~~~~~~~~d~~   52 (186)
T 2yvu_A           17 WLTGLPGSGKTTIATRLADLLQKEG--YRVEVLDGDWA   52 (186)
T ss_dssp             EEECCTTSSHHHHHHHHHHHHHHTT--CCEEEEEHHHH
T ss_pred             EEEcCCCCCHHHHHHHHHHHHHhcC--CeEEEeeHHHH
Confidence            4567889999999999999999988  99999998743

>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=96.46  E-value=0.0096  Score=44.10  Aligned_cols=65  Identities=12%  Similarity=0.139  Sum_probs=42.0

Q ss_pred             CCCCEEEEeCCCCC--ChhHHHHhhhcCCCeEEEEeCCC-cchHHHHHHHHHHHHh--CCCCeEEEEEcCCCC
Q psy14655        105 GPCDILFIDTPPGT--GDTHLSLIQNLFIDTAIIITIPD-TMSLQVAQRGYTMFKK--LNIPVAGLVMNMNSV  172 (261)
Q Consensus       105 ~~yd~IiiD~~~~~--~~~~~~~~~~~~ad~viiv~~~~-~~s~~~~~~~~~~l~~--~~~~~~giv~N~~~~  172 (261)
                      ..+.+.|+|+|+..  .......+..  +|.+++|...+ ..+...+...+..+..  .+.+ +.+|.|+.+.
T Consensus        52 ~~~~~~l~Dt~G~~~~~~~~~~~~~~--~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~p-iilv~nK~Dl  121 (168)
T 1z2a_A           52 EDVRLMLWDTAGQEEFDAITKAYYRG--AQACVLVFSTTDRESFEAISSWREKVVAEVGDIP-TALVQNKIDL  121 (168)
T ss_dssp             EEEEEEEECCTTGGGTTCCCHHHHTT--CCEEEEEEETTCHHHHHTHHHHHHHHHHHHCSCC-EEEEEECGGG
T ss_pred             EEEEEEEEcCCCcHhHHHHHHHHhcC--CCEEEEEEECcCHHHHHHHHHHHHHHHHhCCCCC-EEEEEECccc
Confidence            35789999999632  2223344455  89999999854 4456666666655543  2445 5689999664

>3j25_A Tetracycline resistance protein TETM; antibiotic resistance, translation; HET: GCP; 7.20A {Enterococcus faecalis}

Probab=96.46  E-value=0.0025  Score=58.77  Aligned_cols=65  Identities=17%  Similarity=0.229  Sum_probs=53.7

Q ss_pred             CCCCEEEEeCCCCCC--hhHHHHhhhcCCCeEEEEeCCCcchHHHHHHHHHHHHhCCCCeEEEEEcCCCC
Q psy14655        105 GPCDILFIDTPPGTG--DTHLSLIQNLFIDTAIIITIPDTMSLQVAQRGYTMFKKLNIPVAGLVMNMNSV  172 (261)
Q Consensus       105 ~~yd~IiiD~~~~~~--~~~~~~~~~~~ad~viiv~~~~~~s~~~~~~~~~~l~~~~~~~~giv~N~~~~  172 (261)
                      ++|.+=|||||+..+  ..+..++..  +|.+|+|++....-..++..+.+.+.+.+++.+ +++|+.+-
T Consensus        65 ~~~~iNlIDTPGH~DF~~Ev~raL~~--~DgavlVVDa~~GV~~qT~~v~~~a~~~~lp~i-~~INKmDr  131 (638)
T 3j25_A           65 ENTKVNIIDTPGHMDFLAEVYRSLSV--LDGAILLISAKDGVQAQTRILFHALRKMGIPTI-FFINKIDQ  131 (638)
T ss_dssp             SSCBCCCEECCCSSSTHHHHHHHHTT--CSEEECCEESSCTTCSHHHHHHHHHHHHTCSCE-ECCEECCS
T ss_pred             CCEEEEEEECCCcHHHHHHHHHHHHH--hCEEEEEEeCCCCCcHHHHHHHHHHHHcCCCeE-EEEecccc
Confidence            678889999998765  445566666  999999999888877888899999999999966 77898764

>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=96.44  E-value=0.0063  Score=48.39  Aligned_cols=31  Identities=6%  Similarity=0.035  Sum_probs=27.7

Q ss_pred             cccCCCCCcHHHHHHHHHHHHHhcCCCCeEEEE
Q psy14655          2 IASSKGGVGKSTTTVNLATAMKICYPDKEIGIL   34 (261)
Q Consensus         2 v~s~KGGvGKTT~a~~lA~~la~~g~~~~Vllv   34 (261)
                      +..+--|+||||++..++..++.+|  ++|+++
T Consensus        16 litG~mGsGKTT~ll~~~~r~~~~g--~kVli~   46 (223)
T 2b8t_A           16 FITGPMFAGKTAELIRRLHRLEYAD--VKYLVF   46 (223)
T ss_dssp             EEECSTTSCHHHHHHHHHHHHHHTT--CCEEEE
T ss_pred             EEECCCCCcHHHHHHHHHHHHHhcC--CEEEEE
Confidence            3456669999999999999999999  999999

>2dyk_A GTP-binding protein; GTPase, ribosome-binding protein, structural genomics; HET: GDP; 1.96A {Thermus thermophilus}

Probab=96.43  E-value=0.0048  Score=45.49  Aligned_cols=64  Identities=11%  Similarity=0.007  Sum_probs=38.7

Q ss_pred             CCCEEEEeCCCCCCh---------hHHHHhhhcCCCeEEEEeCCCcchHHHHHHHHHHHHhCCCCeEEEEEcCCCC
Q psy14655        106 PCDILFIDTPPGTGD---------THLSLIQNLFIDTAIIITIPDTMSLQVAQRGYTMFKKLNIPVAGLVMNMNSV  172 (261)
Q Consensus       106 ~yd~IiiD~~~~~~~---------~~~~~~~~~~ad~viiv~~~~~~s~~~~~~~~~~l~~~~~~~~giv~N~~~~  172 (261)
                      +..+.|+|+|+....         .....+..  +|.++++.+.+.........+.+.+...+.+ +.+|.|+.+.
T Consensus        48 ~~~~~l~Dt~G~~~~~~~~~~~~~~~~~~~~~--~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~p-~ilv~nK~Dl  120 (161)
T 2dyk_A           48 RGRFLLVDTGGLWSGDKWEKKIQEKVDRALED--AEVVLFAVDGRAELTQADYEVAEYLRRKGKP-VILVATKVDD  120 (161)
T ss_dssp             TEEEEEEECGGGCSSSSCCHHHHHHHHHHTTT--CSEEEEEEESSSCCCHHHHHHHHHHHHHTCC-EEEEEECCCS
T ss_pred             CceEEEEECCCCCCccchHHHHHHHHHHHHHh--CCEEEEEEECCCcccHhHHHHHHHHHhcCCC-EEEEEECccc
Confidence            457889999865431         11223344  8999999986553222223445555555666 5699999664

>1xx6_A Thymidine kinase; NESG, northeast structural genomics consortium, protein STRU initiative, PSI, structural genomics, DNA synthesis; HET: ADP; 2.00A {Clostridium acetobutylicum} SCOP: c.37.1.24 g.39.1.14

Probab=96.28  E-value=0.011  Score=45.83  Aligned_cols=29  Identities=21%  Similarity=0.204  Sum_probs=26.1

Q ss_pred             CCCCCcHHHHHHHHHHHHHhcCCCCeEEEEe
Q psy14655          5 SKGGVGKSTTTVNLATAMKICYPDKEIGILD   35 (261)
Q Consensus         5 ~KGGvGKTT~a~~lA~~la~~g~~~~VllvD   35 (261)
                      +.=|+||||.+..+|..+..+|  ++|+++-
T Consensus        15 G~mgsGKTT~ll~~a~r~~~~g--~kV~v~k   43 (191)
T 1xx6_A           15 GPMYSGKSEELIRRIRRAKIAK--QKIQVFK   43 (191)
T ss_dssp             CSTTSSHHHHHHHHHHHHHHTT--CCEEEEE
T ss_pred             CCCCCcHHHHHHHHHHHHHHCC--CEEEEEE
Confidence            3449999999999999999999  9999995

>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=96.26  E-value=0.0038  Score=48.93  Aligned_cols=34  Identities=15%  Similarity=0.075  Sum_probs=29.4

Q ss_pred             cccCCCCCcHHHHHHHHHHHHHhcCCCCeEEEEecCCCC
Q psy14655          2 IASSKGGVGKSTTTVNLATAMKICYPDKEIGILDADVFG   40 (261)
Q Consensus         2 v~s~KGGvGKTT~a~~lA~~la~~g~~~~VllvD~D~~~   40 (261)
                      ++.+..|+||||++.++|.   ..|  .+|++++.+.+.
T Consensus        24 ~i~G~~GsGKTtl~~~l~~---~~~--~~v~~i~~~~~~   57 (220)
T 2cvh_A           24 QVYGPYASGKTTLALQTGL---LSG--KKVAYVDTEGGF   57 (220)
T ss_dssp             EEECSTTSSHHHHHHHHHH---HHC--SEEEEEESSCCC
T ss_pred             EEECCCCCCHHHHHHHHHH---HcC--CcEEEEECCCCC
Confidence            4568899999999999998   667  899999998743

>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=96.21  E-value=0.021  Score=42.57  Aligned_cols=64  Identities=19%  Similarity=0.155  Sum_probs=39.7

Q ss_pred             CCCEEEEeCCCCCC----hhHHHHhhhcCCCeEEEEeCC-CcchHHHHHHHHHHHHhC----CCCeEEEEEcCCCC
Q psy14655        106 PCDILFIDTPPGTG----DTHLSLIQNLFIDTAIIITIP-DTMSLQVAQRGYTMFKKL----NIPVAGLVMNMNSV  172 (261)
Q Consensus       106 ~yd~IiiD~~~~~~----~~~~~~~~~~~ad~viiv~~~-~~~s~~~~~~~~~~l~~~----~~~~~giv~N~~~~  172 (261)
                      .+.+.++|+|+...    ......+..  +|.+++|... +..++..+..+...+...    +.+ +-+|.|+.+.
T Consensus        51 ~~~~~~~D~~g~~~~~~~~~~~~~~~~--~~~~i~v~d~~~~~s~~~~~~~~~~l~~~~~~~~~p-iilv~NK~Dl  123 (175)
T 2nzj_A           51 DTTLVVVDTWEAEKLDKSWSQESCLQG--GSAYVIVYSIADRGSFESASELRIQLRRTHQADHVP-IILVGNKADL  123 (175)
T ss_dssp             EEEEEEECCC-------CHHHHHTTTS--CSEEEEEEETTCHHHHHHHHHHHHHHHHCC----CC-EEEEEECTTC
T ss_pred             EEEEEEEecCCCCccchhhhHHhhccc--CCEEEEEEECCCHHHHHHHHHHHHHHHHhhccCCCC-EEEEEEChhh
Confidence            46789999986433    111222333  7888888874 456777777777766654    455 5699999775

>3bh0_A DNAB-like replicative helicase; ATPase, replication; 2.35A {Bacillus phage SPP1}

Probab=96.20  E-value=0.0048  Score=51.73  Aligned_cols=36  Identities=11%  Similarity=0.171  Sum_probs=32.9

Q ss_pred             cccCCCCCcHHHHHHHHHHHHHhcCCCCeEEEEecCCC
Q psy14655          2 IASSKGGVGKSTTTVNLATAMKICYPDKEIGILDADVF   39 (261)
Q Consensus         2 v~s~KGGvGKTT~a~~lA~~la~~g~~~~VllvD~D~~   39 (261)
                      ++.+..|+||||++.++|..++.+|  .+|+++.+...
T Consensus        72 li~G~pG~GKTtl~l~ia~~~a~~g--~~vl~~slE~s  107 (315)
T 3bh0_A           72 LIAARPSMGKTAFALKQAKNMSDND--DVVNLHSLEMG  107 (315)
T ss_dssp             EEECCTTSSHHHHHHHHHHHHHTTT--CEEEEEESSSC
T ss_pred             EEEeCCCCCHHHHHHHHHHHHHHcC--CeEEEEECCCC
Confidence            5678899999999999999999998  99999999865

>2dr3_A UPF0273 protein PH0284; RECA superfamily ATPase, hexamer, structural genomics; HET: ADP; 2.00A {Pyrococcus horikoshii}

Probab=96.11  E-value=0.004  Score=49.71  Aligned_cols=35  Identities=11%  Similarity=-0.084  Sum_probs=31.4

Q ss_pred             ccCCCCCcHHHHHHHHHHHHHhcCCCCeEEEEecCCC
Q psy14655          3 ASSKGGVGKSTTTVNLATAMKICYPDKEIGILDADVF   39 (261)
Q Consensus         3 ~s~KGGvGKTT~a~~lA~~la~~g~~~~VllvD~D~~   39 (261)
                      +.+..|+||||++.++|..++..|  .+|++++.+..
T Consensus        28 i~G~~GsGKTtl~~~~~~~~~~~~--~~v~~~~~e~~   62 (247)
T 2dr3_A           28 LSGGPGTGKTIFSQQFLWNGLKMG--EPGIYVALEEH   62 (247)
T ss_dssp             EEECTTSSHHHHHHHHHHHHHHTT--CCEEEEESSSC
T ss_pred             EECCCCCCHHHHHHHHHHHHHhcC--CeEEEEEccCC
Confidence            456789999999999999999988  99999999865

>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=96.11  E-value=0.0032  Score=51.24  Aligned_cols=35  Identities=34%  Similarity=0.422  Sum_probs=30.7

Q ss_pred             cccCCCCCcHHHHHHHHHHHHHhcCCCCeEEEEecCC
Q psy14655          2 IASSKGGVGKSTTTVNLATAMKICYPDKEIGILDADV   38 (261)
Q Consensus         2 v~s~KGGvGKTT~a~~lA~~la~~g~~~~VllvD~D~   38 (261)
                      ++.|-.|+||||++..|+..|...|  ..++++|.|.
T Consensus         8 vl~G~pGSGKSTla~~La~~L~~~g--~~~i~~~~D~   42 (260)
T 3a4m_A            8 ILTGLPGVGKSTFSKNLAKILSKNN--IDVIVLGSDL   42 (260)
T ss_dssp             EEECCTTSSHHHHHHHHHHHHHHTT--CCEEEECTHH
T ss_pred             EEEcCCCCCHHHHHHHHHHHHHhCC--CEEEEECchH
Confidence            4667799999999999999999888  9998888774

>3sjy_A Translation initiation factor 2 subunit gamma; zinc finger, initiate translation, tRNA binding, mRNA bindin binding; HET: GCP GDP; 2.00A {Sulfolobus solfataricus P2} PDB: 3pen_A* 3sjz_A* 2qn6_A* 2aho_A 2qmu_A* 2plf_A* 3v11_A* 3i1f_A* 3cw2_A 2pmd_A* 3p3m_A* 3qsy_A*

Probab=96.09  E-value=0.016  Score=50.25  Aligned_cols=65  Identities=20%  Similarity=0.153  Sum_probs=46.3

Q ss_pred             CCCEEEEeCCCCCChh--HHHHhhhcCCCeEEEEeCCCcch-HHHHHHHHHHHHhCCCCeEEEEEcCCCC
Q psy14655        106 PCDILFIDTPPGTGDT--HLSLIQNLFIDTAIIITIPDTMS-LQVAQRGYTMFKKLNIPVAGLVMNMNSV  172 (261)
Q Consensus       106 ~yd~IiiD~~~~~~~~--~~~~~~~~~ad~viiv~~~~~~s-~~~~~~~~~~l~~~~~~~~giv~N~~~~  172 (261)
                      .+.+.|+|||+.....  ....+..  +|.+++++..+... ...+...+..+...+.+.+-+++|+++.
T Consensus        74 ~~~~~iiDtPGh~~~~~~~~~~~~~--~D~~ilVvda~~~~~~~qt~~~~~~~~~~~~~~iivviNK~Dl  141 (403)
T 3sjy_A           74 LRRISFIDAPGHEVLMATMLSGAAL--MDGAILVVAANEPFPQPQTREHFVALGIIGVKNLIIVQNKVDV  141 (403)
T ss_dssp             EEEEEEEECCCCGGGHHHHHHHHTT--CSEEEEEEETTSCSSCHHHHHHHHHHHHHTCCCEEEEEECGGG
T ss_pred             cceEEEEECCCcHHHHHHHHHHHhh--CCEEEEEEECCCCCCcHHHHHHHHHHHHcCCCCEEEEEECccc
Confidence            3689999999754322  2233333  99999999977654 7777777777777676557799999764

>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=96.07  E-value=0.023  Score=42.06  Aligned_cols=66  Identities=12%  Similarity=0.004  Sum_probs=42.8

Q ss_pred             CCCCEEEEeCCCCCC--hhHHHHhhhcCCCeEEEEeCCC-cchHHHHHHHHHHHHhCCC--CeEEEEEcCCCC
Q psy14655        105 GPCDILFIDTPPGTG--DTHLSLIQNLFIDTAIIITIPD-TMSLQVAQRGYTMFKKLNI--PVAGLVMNMNSV  172 (261)
Q Consensus       105 ~~yd~IiiD~~~~~~--~~~~~~~~~~~ad~viiv~~~~-~~s~~~~~~~~~~l~~~~~--~~~giv~N~~~~  172 (261)
                      ..+.+.|+|+|+...  ......+..  +|.++++...+ ..+...+..+++.+.....  ..+.+|.|+.+.
T Consensus        53 ~~~~~~~~Dt~G~~~~~~~~~~~~~~--~~~~i~v~d~~~~~s~~~~~~~~~~l~~~~~~~~~iilv~nK~Dl  123 (170)
T 1z0j_A           53 ELHKFLIWDTAGLERFRALAPMYYRG--SAAAIIVYDITKEETFSTLKNWVRELRQHGPPSIVVAIAGNKCDL  123 (170)
T ss_dssp             EEEEEEEEEECCSGGGGGGTHHHHTT--CSEEEEEEETTCHHHHHHHHHHHHHHHHHSCTTSEEEEEEECTTC
T ss_pred             eEEEEEEEcCCCchhhhcccHhhCcC--CCEEEEEEECcCHHHHHHHHHHHHHHHHhCCCCCcEEEEEECCcc
Confidence            346799999996432  222333444  89999999854 4566777777776665422  246678899764

>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=96.05  E-value=0.04  Score=41.30  Aligned_cols=66  Identities=15%  Similarity=0.075  Sum_probs=43.3

Q ss_pred             CCCCEEEEeCCCCCC--hhHHHHhhhcCCCeEEEEeCC-CcchHHHHHHHHHHHHhCC--CCeEEEEEcCCCC
Q psy14655        105 GPCDILFIDTPPGTG--DTHLSLIQNLFIDTAIIITIP-DTMSLQVAQRGYTMFKKLN--IPVAGLVMNMNSV  172 (261)
Q Consensus       105 ~~yd~IiiD~~~~~~--~~~~~~~~~~~ad~viiv~~~-~~~s~~~~~~~~~~l~~~~--~~~~giv~N~~~~  172 (261)
                      ..+.+.|+|+|+...  ......+..  +|.+++|.+. +..++..+..++..+....  -..+.+|.|+.+.
T Consensus        59 ~~~~~~i~Dt~G~~~~~~~~~~~~~~--~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~i~v~nK~Dl  129 (181)
T 2efe_B           59 ATVKFEIWDTAGQERYHSLAPMYYRG--AAAAIIVFDVTNQASFERAKKWVQELQAQGNPNMVMALAGNKSDL  129 (181)
T ss_dssp             EEEEEEEEECCCSGGGGGGTHHHHTT--CSEEEEEEETTCHHHHHHHHHHHHHHHHHSCTTCEEEEEEECTTC
T ss_pred             EEEEEEEEeCCCChhhhhhhHHHhcc--CCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCcEEEEEECCcc
Confidence            356899999997432  222334444  8999999985 4456677777776665532  2246689999775

>2w58_A DNAI, primosome component (helicase loader); ATP-binding, nucleotide-binding, hydrolase; HET: ADP; 2.50A {Geobacillus kaustophilus HTA426}

Probab=96.03  E-value=0.0046  Score=47.93  Aligned_cols=34  Identities=18%  Similarity=0.070  Sum_probs=30.0

Q ss_pred             cccCCCCCcHHHHHHHHHHHHHhcCCCCeEEEEecC
Q psy14655          2 IASSKGGVGKSTTTVNLATAMKICYPDKEIGILDAD   37 (261)
Q Consensus         2 v~s~KGGvGKTT~a~~lA~~la~~g~~~~VllvD~D   37 (261)
                      ++.+..|+||||++..++..+...+  .+++++++.
T Consensus        58 ~l~G~~GtGKT~la~~i~~~~~~~~--~~~~~~~~~   91 (202)
T 2w58_A           58 YLHGSFGVGKTYLLAAIANELAKRN--VSSLIVYVP   91 (202)
T ss_dssp             EEECSTTSSHHHHHHHHHHHHHTTT--CCEEEEEHH
T ss_pred             EEECCCCCCHHHHHHHHHHHHHHcC--CeEEEEEhH
Confidence            4567889999999999999999988  999998774

>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=96.01  E-value=0.0042  Score=52.88  Aligned_cols=35  Identities=14%  Similarity=0.135  Sum_probs=31.4

Q ss_pred             ccCCCCCcHHHHHHHHHHHHHhcCCCCeEEEEecCCC
Q psy14655          3 ASSKGGVGKSTTTVNLATAMKICYPDKEIGILDADVF   39 (261)
Q Consensus         3 ~s~KGGvGKTT~a~~lA~~la~~g~~~~VllvD~D~~   39 (261)
                      +.+..|+||||++.++|..+++.|  .+|+++|++..
T Consensus        66 I~G~pGsGKTtLal~la~~~~~~g--~~vlyi~~E~~  100 (349)
T 2zr9_A           66 IYGPESSGKTTVALHAVANAQAAG--GIAAFIDAEHA  100 (349)
T ss_dssp             EEESTTSSHHHHHHHHHHHHHHTT--CCEEEEESSCC
T ss_pred             EECCCCCCHHHHHHHHHHHHHhCC--CeEEEEECCCC
Confidence            456789999999999999999998  99999999864

>4dcu_A GTP-binding protein ENGA; GTPase, GDP, protein binding, hydrolase; HET: GDP; 2.00A {Bacillus subtilis} PDB: 4dct_A* 4dcs_A* 4dcv_A* 2hjg_A*

Probab=96.00  E-value=0.0092  Score=52.65  Aligned_cols=65  Identities=14%  Similarity=0.018  Sum_probs=39.5

Q ss_pred             CCCCEEEEeCCCCCC----------hhHHHHhhhcCCCeEEEEeCCCcchHHHHHHHHHHHHhCCCCeEEEEEcCCCC
Q psy14655        105 GPCDILFIDTPPGTG----------DTHLSLIQNLFIDTAIIITIPDTMSLQVAQRGYTMFKKLNIPVAGLVMNMNSV  172 (261)
Q Consensus       105 ~~yd~IiiD~~~~~~----------~~~~~~~~~~~ad~viiv~~~~~~s~~~~~~~~~~l~~~~~~~~giv~N~~~~  172 (261)
                      .+..+.|+|||+-..          ......+..  +|.+++|++....-...-..+.+.+++.+.+ +-+|.|+++.
T Consensus        69 ~~~~~~liDT~G~~~~~~~~~~~~~~~~~~~~~~--ad~il~VvD~~~~~~~~d~~l~~~l~~~~~p-vilV~NK~D~  143 (456)
T 4dcu_A           69 LNYDFNLIDTGGIDIGDEPFLAQIRQQAEIAMDE--ADVIIFMVNGREGVTAADEEVAKILYRTKKP-VVLAVNKLDN  143 (456)
T ss_dssp             CSSCCEEECCCC------CCHHHHHHHHHHHHHH--CSEEEEEEESSSCSCHHHHHHHHHHTTCCSC-EEEEEECC--
T ss_pred             CCceEEEEECCCCCCcchHHHHHHHHHHHhhHhh--CCEEEEEEeCCCCCChHHHHHHHHHHHcCCC-EEEEEECccc
Confidence            456788999986221          112233344  8999999986543333345566777777776 4488999775

>3p26_A Elongation factor 1 alpha-like protein; GTP/GDP binding domain, beta-barrel, translational GTPase, D structural genomics; 2.50A {Saccharomyces cerevisiae} PDB: 3p27_A*

Probab=95.92  E-value=0.031  Score=49.63  Aligned_cols=66  Identities=17%  Similarity=0.085  Sum_probs=44.7

Q ss_pred             CCCCEEEEeCCCCCCh--hHHHHhhhcCCCeEEEEeCCCcch-------HHHHHHHHHHHHhCCCCeEEEEEcCCCC
Q psy14655        105 GPCDILFIDTPPGTGD--THLSLIQNLFIDTAIIITIPDTMS-------LQVAQRGYTMFKKLNIPVAGLVMNMNSV  172 (261)
Q Consensus       105 ~~yd~IiiD~~~~~~~--~~~~~~~~~~ad~viiv~~~~~~s-------~~~~~~~~~~l~~~~~~~~giv~N~~~~  172 (261)
                      ..+.+.|+|||+....  .....+..  +|.+++|++.+...       .......+..+...+.+.+-+++|+++.
T Consensus       109 ~~~~~~iiDTPG~~~f~~~~~~~~~~--aD~~llVvDa~~g~~~~~~~~~~qt~e~~~~~~~~~~~~iIvviNK~Dl  183 (483)
T 3p26_A          109 HRANFTIVDAPGHRDFVPNAIMGISQ--ADMAILCVDCSTNAFESGFDLDGQTKEHMLLASSLGIHNLIIAMNKMDN  183 (483)
T ss_dssp             SSCEEEEECCCCCGGGHHHHHHHHTT--CSEEEEEEECCC------CCCCHHHHHHHHHHHHTTCCCEEEEEECGGG
T ss_pred             CCceEEEEECCCcHHHHHHHHHhhhh--CCEEEEEEECCCCccccccchhhhHHHHHHHHHHcCCCcEEEEEECcCc
Confidence            5689999999965332  22333444  99999999976642       2355566666777777667799999764

>4a1f_A DNAB helicase, replicative DNA helicase; hydrolase, DNA replication, ATPase; HET: FLC; 2.50A {Helicobacter pylori}

Probab=95.92  E-value=0.0059  Score=51.71  Aligned_cols=37  Identities=11%  Similarity=0.246  Sum_probs=33.1

Q ss_pred             cccCCCCCcHHHHHHHHHHHHHhcCCCCeEEEEecCCCC
Q psy14655          2 IASSKGGVGKSTTTVNLATAMKICYPDKEIGILDADVFG   40 (261)
Q Consensus         2 v~s~KGGvGKTT~a~~lA~~la~~g~~~~VllvD~D~~~   40 (261)
                      ++.+.-|+||||++.++|..++..|  .+|+++.+....
T Consensus        50 iIaG~pG~GKTt~al~ia~~~a~~g--~~Vl~fSlEms~   86 (338)
T 4a1f_A           50 IIGARPSMGKTSLMMNMVLSALNDD--RGVAVFSLEMSA   86 (338)
T ss_dssp             EEEECTTSCHHHHHHHHHHHHHHTT--CEEEEEESSSCH
T ss_pred             EEEeCCCCCHHHHHHHHHHHHHHcC--CeEEEEeCCCCH
Confidence            4667889999999999999999988  999999998754

>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=95.91  E-value=0.055  Score=40.42  Aligned_cols=65  Identities=11%  Similarity=0.043  Sum_probs=38.0

Q ss_pred             CCCCEEEEeCCCCCCh--hHHHHhhhcCCCeEEEEeCC-CcchHHHHHHHHHHHHh-------CCCCeEEEEEcCCCC
Q psy14655        105 GPCDILFIDTPPGTGD--THLSLIQNLFIDTAIIITIP-DTMSLQVAQRGYTMFKK-------LNIPVAGLVMNMNSV  172 (261)
Q Consensus       105 ~~yd~IiiD~~~~~~~--~~~~~~~~~~ad~viiv~~~-~~~s~~~~~~~~~~l~~-------~~~~~~giv~N~~~~  172 (261)
                      ..+.+.|+|+|+....  .....+..  +|.+++|.+. +..+...+..+++.+..       .+.+ +.+|.|+.+.
T Consensus        56 ~~~~~~l~Dt~G~~~~~~~~~~~~~~--~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~~p-~ilv~nK~Dl  130 (182)
T 1ky3_A           56 KVATMQVWDTAGQERFQSLGVAFYRG--ADCCVLVYDVTNASSFENIKSWRDEFLVHANVNSPETFP-FVILGNKIDA  130 (182)
T ss_dssp             CCEEEEEECCC----------CCSTT--CCEEEEEEETTCHHHHHTHHHHHHHHHHHHCCSCTTTCC-EEEEEECTTS
T ss_pred             cEEEEEEEECCCChHhhhhhHHHhhc--CCEEEEEEECCChHHHHHHHHHHHHHHHHhcccCcCCCc-EEEEEECCcc
Confidence            4568899999864321  12223333  8999999985 44566666666555443       2344 6689999764

>3bgw_A DNAB-like replicative helicase; ATPase, replication; 3.91A {Bacillus phage SPP1}

Probab=95.91  E-value=0.0059  Score=53.74  Aligned_cols=38  Identities=11%  Similarity=0.147  Sum_probs=34.0

Q ss_pred             cccCCCCCcHHHHHHHHHHHHHhcCCCCeEEEEecCCCCC
Q psy14655          2 IASSKGGVGKSTTTVNLATAMKICYPDKEIGILDADVFGP   41 (261)
Q Consensus         2 v~s~KGGvGKTT~a~~lA~~la~~g~~~~VllvD~D~~~~   41 (261)
                      ++.+..|+||||++.++|..++.+|  .+|+++.+.....
T Consensus       201 iIaG~pG~GKTtlal~ia~~~a~~g--~~vl~fSlEms~~  238 (444)
T 3bgw_A          201 LIAARPSMGKTAFALKQAKNMSDND--DVVNLHSLEMGKK  238 (444)
T ss_dssp             EEEECSSSSHHHHHHHHHHHHHHTT--CEEEEECSSSCTT
T ss_pred             EEEeCCCCChHHHHHHHHHHHHHcC--CEEEEEECCCCHH
Confidence            5677889999999999999999988  9999999997653

>2wsm_A Hydrogenase expression/formation protein (HYPB); metal binding protein; 2.30A {Archaeoglobus fulgidus}

Probab=95.77  E-value=0.006  Score=47.87  Aligned_cols=36  Identities=19%  Similarity=0.122  Sum_probs=29.7

Q ss_pred             cccCCCCCcHHHHHHHHHHHHHhcCCCCeEEEEecCCCC
Q psy14655          2 IASSKGGVGKSTTTVNLATAMKICYPDKEIGILDADVFG   40 (261)
Q Consensus         2 v~s~KGGvGKTT~a~~lA~~la~~g~~~~VllvD~D~~~   40 (261)
                      ++.+.+|+||||+..+|+..+.. .  .++.+|+.|++.
T Consensus        34 ~i~G~~g~GKTTl~~~l~~~~~~-~--~~~~~i~~d~~~   69 (221)
T 2wsm_A           34 NIMGAIGSGKTLLIERTIERIGN-E--VKIGAMLGDVVS   69 (221)
T ss_dssp             EEEECTTSCHHHHHHHHHHHHTT-T--SCEEEEECSCCC
T ss_pred             EEEcCCCCCHHHHHHHHHHHhcc-C--CeEEEEecCCCC
Confidence            35578999999999999988744 3  689999999864

>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=95.71  E-value=0.014  Score=48.55  Aligned_cols=64  Identities=17%  Similarity=0.233  Sum_probs=34.5

Q ss_pred             CCCCEEEEeCCCCCChh-----------HHHHhhhcCCCeEEEEeCCCcchHHHHHHHHHHHHhCCCCeEEEEEcCCCC
Q psy14655        105 GPCDILFIDTPPGTGDT-----------HLSLIQNLFIDTAIIITIPDTMSLQVAQRGYTMFKKLNIPVAGLVMNMNSV  172 (261)
Q Consensus       105 ~~yd~IiiD~~~~~~~~-----------~~~~~~~~~ad~viiv~~~~~~s~~~~~~~~~~l~~~~~~~~giv~N~~~~  172 (261)
                      ..+.++++|||+.....           ....+..  +|.+++|+..+..+ .....+.+.+...+.+.+ +++|+.+.
T Consensus        54 ~~~~i~~iDTpG~~~~~~~~l~~~~~~~~~~~l~~--~D~vl~Vvd~~~~~-~~~~~i~~~l~~~~~P~i-lvlNK~D~  128 (301)
T 1ega_A           54 GAYQAIYVDTPGLHMEEKRAINRLMNKAASSSIGD--VELVIFVVEGTRWT-PDDEMVLNKLREGKAPVI-LAVNKVDN  128 (301)
T ss_dssp             TTEEEEEESSSSCCHHHHHHHHHHHTCCTTSCCCC--EEEEEEEEETTCCC-HHHHHHHHHHHSSSSCEE-EEEESTTT
T ss_pred             CCeeEEEEECcCCCccchhhHHHHHHHHHHHHHhc--CCEEEEEEeCCCCC-HHHHHHHHHHHhcCCCEE-EEEECccc
Confidence            44578888887532011           0112222  67777777754432 222345556665566644 67788664

>2w0m_A SSO2452; RECA, SSPF, unknown FUN; 2.0A {Sulfolobus solfataricus P2}

Probab=95.70  E-value=0.0085  Score=47.20  Aligned_cols=35  Identities=9%  Similarity=0.004  Sum_probs=31.0

Q ss_pred             ccCCCCCcHHHHHHHHHHHHHhcCCCCeEEEEecCCC
Q psy14655          3 ASSKGGVGKSTTTVNLATAMKICYPDKEIGILDADVF   39 (261)
Q Consensus         3 ~s~KGGvGKTT~a~~lA~~la~~g~~~~VllvD~D~~   39 (261)
                      +.+..|+||||++..++..++..+  .+|++++.+..
T Consensus        28 i~G~~GsGKTtl~~~l~~~~~~~~--~~v~~~~~~~~   62 (235)
T 2w0m_A           28 LTGEPGTGKTIFSLHFIAKGLRDG--DPCIYVTTEES   62 (235)
T ss_dssp             EECSTTSSHHHHHHHHHHHHHHHT--CCEEEEESSSC
T ss_pred             EEcCCCCCHHHHHHHHHHHHHHCC--CeEEEEEcccC
Confidence            456789999999999999999888  89999998874

>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=95.68  E-value=0.053  Score=41.75  Aligned_cols=66  Identities=14%  Similarity=0.019  Sum_probs=43.5

Q ss_pred             CCCCEEEEeCCCCCC--hhHHHHhhhcCCCeEEEEeCCC-cchHHHHHHHHHHHHhCC--CCeEEEEEcCCCC
Q psy14655        105 GPCDILFIDTPPGTG--DTHLSLIQNLFIDTAIIITIPD-TMSLQVAQRGYTMFKKLN--IPVAGLVMNMNSV  172 (261)
Q Consensus       105 ~~yd~IiiD~~~~~~--~~~~~~~~~~~ad~viiv~~~~-~~s~~~~~~~~~~l~~~~--~~~~giv~N~~~~  172 (261)
                      ..+.+.|+|+|+...  ......+..  +|.+++|.+.+ ..+...+..++..+....  -..+.+|.|+.+.
T Consensus        55 ~~~~~~l~Dt~G~~~~~~~~~~~~~~--~d~vilv~d~~~~~s~~~~~~~~~~i~~~~~~~~piilv~nK~Dl  125 (206)
T 2bcg_Y           55 KTVKLQIWDTAGQERFRTITSSYYRG--SHGIIIVYDVTDQESFNGVKMWLQEIDRYATSTVLKLLVGNKCDL  125 (206)
T ss_dssp             EEEEEEEECCTTTTTTTCCCGGGGTT--CSEEEEEEETTCHHHHHHHHHHHHHHHHHSCTTCEEEEEEECTTC
T ss_pred             EEEEEEEEeCCChHHHHHHHHHhccC--CCEEEEEEECcCHHHHHHHHHHHHHHHHhcCCCCCEEEEEECCCC
Confidence            346899999997432  222334444  89999999854 456777777776665432  2246689999775

>2dy1_A Elongation factor G; translocation, GTP complex, structural genomics, NPPSFA; HET: GTP; 1.60A {Thermus thermophilus} SCOP: b.43.3.1 c.37.1.8 d.14.1.1 d.58.11.1 d.58.11.1 PDB: 1wdt_A*

Probab=95.68  E-value=0.017  Score=53.53  Aligned_cols=65  Identities=14%  Similarity=0.233  Sum_probs=47.6

Q ss_pred             CCCCEEEEeCCCCCC--hhHHHHhhhcCCCeEEEEeCCCcchHHHHHHHHHHHHhCCCCeEEEEEcCCCC
Q psy14655        105 GPCDILFIDTPPGTG--DTHLSLIQNLFIDTAIIITIPDTMSLQVAQRGYTMFKKLNIPVAGLVMNMNSV  172 (261)
Q Consensus       105 ~~yd~IiiD~~~~~~--~~~~~~~~~~~ad~viiv~~~~~~s~~~~~~~~~~l~~~~~~~~giv~N~~~~  172 (261)
                      ..+.+.|+|||+...  ......+..  +|.+++|+++...........++.+...+.+.+ +++|+.+.
T Consensus        72 ~~~~~nliDTpG~~~f~~~~~~~l~~--ad~~ilVvD~~~g~~~qt~~~~~~~~~~~ip~i-lv~NKiD~  138 (665)
T 2dy1_A           72 RGHRVFLLDAPGYGDFVGEIRGALEA--ADAALVAVSAEAGVQVGTERAWTVAERLGLPRM-VVVTKLDK  138 (665)
T ss_dssp             TTEEEEEEECCCSGGGHHHHHHHHHH--CSEEEEEEETTTCSCHHHHHHHHHHHHTTCCEE-EEEECGGG
T ss_pred             CCEEEEEEeCCCccchHHHHHHHHhh--cCcEEEEEcCCcccchhHHHHHHHHHHccCCEE-EEecCCch
Confidence            467889999996543  334455555  999999999776655666777788877788865 78999653

>2lkc_A Translation initiation factor IF-2; NMR {Geobacillus stearothermophilus} PDB: 2lkd_A*

Probab=95.67  E-value=0.028  Score=41.98  Aligned_cols=65  Identities=20%  Similarity=0.188  Sum_probs=39.9

Q ss_pred             CCCCEEEEeCCCCCCh--hHHHHhhhcCCCeEEEEeCCCcchHHHHHHHHHHHHhCCCCeEEEEEcCCCC
Q psy14655        105 GPCDILFIDTPPGTGD--THLSLIQNLFIDTAIIITIPDTMSLQVAQRGYTMFKKLNIPVAGLVMNMNSV  172 (261)
Q Consensus       105 ~~yd~IiiD~~~~~~~--~~~~~~~~~~ad~viiv~~~~~~s~~~~~~~~~~l~~~~~~~~giv~N~~~~  172 (261)
                      .+..+.|+|+|+....  .....+..  +|.+++|...+..........++.+...+.+ +.+|.|+.+.
T Consensus        53 ~~~~~~l~Dt~G~~~~~~~~~~~~~~--~d~~i~v~d~~~~~~~~~~~~l~~~~~~~~p-~ilv~nK~Dl  119 (178)
T 2lkc_A           53 NDKKITFLDTPGHEAFTTMRARGAQV--TDIVILVVAADDGVMPQTVEAINHAKAANVP-IIVAINKMDK  119 (178)
T ss_dssp             TTEEEEESCCCSSSSSSCSCCSSCCC--CCEEEEEEETTCCCCHHHHHHHHHHGGGSCC-EEEEEETTTS
T ss_pred             CCceEEEEECCCCHHHHHHHHHHHhh--CCEEEEEEECCCCCcHHHHHHHHHHHhCCCC-EEEEEECccC
Confidence            3456788899864321  11122233  7889999986654444444555666555666 5689999764

>1rz3_A Hypothetical protein rbstp0775; MCSG, structural genomics, PSI, protein structure initiative; 1.90A {Geobacillus stearothermophilus} SCOP: c.37.1.6

Probab=95.66  E-value=0.0074  Score=46.93  Aligned_cols=36  Identities=14%  Similarity=0.107  Sum_probs=31.3

Q ss_pred             ccCCCCCcHHHHHHHHHHHHHhcCCCCeEEEEecCCCC
Q psy14655          3 ASSKGGVGKSTTTVNLATAMKICYPDKEIGILDADVFG   40 (261)
Q Consensus         3 ~s~KGGvGKTT~a~~lA~~la~~g~~~~VllvD~D~~~   40 (261)
                      +.+..|+||||++..|+..+...|  .+|.+++.|...
T Consensus        27 i~G~~GsGKstl~~~l~~~~~~~~--~~v~~~~~d~~~   62 (201)
T 1rz3_A           27 IDGLSRSGKTTLANQLSQTLREQG--ISVCVFHMDDHI   62 (201)
T ss_dssp             EEECTTSSHHHHHHHHHHHHHHTT--CCEEEEEGGGGC
T ss_pred             EECCCCCCHHHHHHHHHHHHhhcC--CeEEEeccCccc
Confidence            457889999999999999998888  899999888654

>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=95.65  E-value=0.055  Score=40.31  Aligned_cols=64  Identities=14%  Similarity=0.053  Sum_probs=39.5

Q ss_pred             CCCEEEEeCCCCCChh--HHHHhhhcCCCeEEEEeCC-CcchHHHHHHHHHHHHh-------CCCCeEEEEEcCCCC
Q psy14655        106 PCDILFIDTPPGTGDT--HLSLIQNLFIDTAIIITIP-DTMSLQVAQRGYTMFKK-------LNIPVAGLVMNMNSV  172 (261)
Q Consensus       106 ~yd~IiiD~~~~~~~~--~~~~~~~~~ad~viiv~~~-~~~s~~~~~~~~~~l~~-------~~~~~~giv~N~~~~  172 (261)
                      .+.+.|+|+|+.....  ....+..  +|.++++... +..+...+...++.+..       .+.+ +-+|.|+.+.
T Consensus        55 ~~~~~i~Dt~G~~~~~~~~~~~~~~--~~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~~p-~i~v~nK~Dl  128 (177)
T 1wms_A           55 FVTMQIWDTAGQERFRSLRTPFYRG--SDCCLLTFSVDDSQSFQNLSNWKKEFIYYADVKEPESFP-FVILGNKIDI  128 (177)
T ss_dssp             EEEEEEEECCCCGGGHHHHGGGGTT--CSEEEEEEETTCHHHHHTHHHHHHHHHHHHTCSCTTTSC-EEEEEECTTC
T ss_pred             EEEEEEEeCCCchhhhhhHHHHHhc--CCEEEEEEECcCHHHHHHHHHHHHHHHHHccccccCCCc-EEEEEECCcc
Confidence            4679999999643222  2223333  8999998874 44566666655555443       2344 5689999764

>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=95.64  E-value=0.013  Score=44.60  Aligned_cols=36  Identities=19%  Similarity=0.169  Sum_probs=31.4

Q ss_pred             ccCCCCCcHHHHHHHHHHHHHhcCCCCeEEEEecCCCC
Q psy14655          3 ASSKGGVGKSTTTVNLATAMKICYPDKEIGILDADVFG   40 (261)
Q Consensus         3 ~s~KGGvGKTT~a~~lA~~la~~g~~~~VllvD~D~~~   40 (261)
                      +++..|+||||+...|...+...|  .+|..+..++..
T Consensus        11 i~G~sGsGKTTl~~~l~~~l~~~g--~~v~~i~~~~~~   46 (174)
T 1np6_A           11 FAAWSGTGKTTLLKKLIPALCARG--IRPGLIKHTHHD   46 (174)
T ss_dssp             EECCTTSCHHHHHHHHHHHHHHTT--CCEEEEEECCC-
T ss_pred             EEeCCCCCHHHHHHHHHHhccccC--CceeEEeeCCCc
Confidence            456789999999999999999988  999999988764

>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=95.58  E-value=0.069  Score=39.74  Aligned_cols=65  Identities=15%  Similarity=0.055  Sum_probs=42.9

Q ss_pred             CCCCEEEEeCCCCC--ChhHHHHhhhcCCCeEEEEeCCC-cchHHHHHHHHHHHHhC---CCCeEEEEEcCCCC
Q psy14655        105 GPCDILFIDTPPGT--GDTHLSLIQNLFIDTAIIITIPD-TMSLQVAQRGYTMFKKL---NIPVAGLVMNMNSV  172 (261)
Q Consensus       105 ~~yd~IiiD~~~~~--~~~~~~~~~~~~ad~viiv~~~~-~~s~~~~~~~~~~l~~~---~~~~~giv~N~~~~  172 (261)
                      ..+.+.|+|+|+..  .......+..  +|.+++|.+.+ ..+...+..++..+...   +. .+.+|.|+.+.
T Consensus        62 ~~~~~~l~Dt~G~~~~~~~~~~~~~~--~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~-piilv~nK~Dl  132 (179)
T 1z0f_A           62 QKIKLQIWDTAGQERFRAVTRSYYRG--AAGALMVYDITRRSTYNHLSSWLTDARNLTNPNT-VIILIGNKADL  132 (179)
T ss_dssp             EEEEEEEEECTTGGGTCHHHHHHHHT--CSEEEEEEETTCHHHHHTHHHHHHHHHHHSCTTC-EEEEEEECTTC
T ss_pred             eEEEEEEEECCCChHhhhhHHHHhcc--CCEEEEEEeCcCHHHHHHHHHHHHHHHHhcCCCC-cEEEEEECccc
Confidence            35689999999643  2333444555  89999999854 45666666666655542   33 46689999764

>2j9r_A Thymidine kinase; TK1, DNK, lasso, transferase, ATP-binding, deoxyribonucleoside kinase, DNA synthesis, phosphate accept nucleotide-binding; HET: THM; 2.7A {Bacillus anthracis} PDB: 2ja1_A*

Probab=95.51  E-value=0.011  Score=46.47  Aligned_cols=30  Identities=10%  Similarity=0.051  Sum_probs=26.6

Q ss_pred             cCCCCCcHHHHHHHHHHHHHhcCCCCeEEEEe
Q psy14655          4 SSKGGVGKSTTTVNLATAMKICYPDKEIGILD   35 (261)
Q Consensus         4 s~KGGvGKTT~a~~lA~~la~~g~~~~VllvD   35 (261)
                      .+.=|.||||.+..++..+..+|  ++|+++-
T Consensus        34 tG~MgsGKTT~lL~~a~r~~~~g--~kVli~k   63 (214)
T 2j9r_A           34 CGSMFSGKSEELIRRVRRTQFAK--QHAIVFK   63 (214)
T ss_dssp             ECSTTSCHHHHHHHHHHHHHHTT--CCEEEEE
T ss_pred             ECCCCCcHHHHHHHHHHHHHHCC--CEEEEEE
Confidence            34448999999999999999999  9999985

>3b9q_A Chloroplast SRP receptor homolog, alpha subunit CPFTSY; protein translocation, GTP-binding, nucleotide-binding, protein transport; 1.75A {Arabidopsis thaliana}

Probab=95.48  E-value=0.014  Score=48.64  Aligned_cols=34  Identities=26%  Similarity=0.274  Sum_probs=30.4

Q ss_pred             CCCCCcHHHHHHHHHHHHHhcCCCCeEEEEecCCCC
Q psy14655          5 SKGGVGKSTTTVNLATAMKICYPDKEIGILDADVFG   40 (261)
Q Consensus         5 ~KGGvGKTT~a~~lA~~la~~g~~~~VllvD~D~~~   40 (261)
                      +..|+||||+...||..+...+  .+|++.+.|...
T Consensus       107 G~nGsGKTTll~~Lag~l~~~~--g~V~l~g~d~~r  140 (302)
T 3b9q_A          107 GVNGGGKTTSLGKLAHRLKNEG--TKVLMAAGDTFR  140 (302)
T ss_dssp             CCTTSCHHHHHHHHHHHHHHTT--CCEEEECCCCSC
T ss_pred             cCCCCCHHHHHHHHHHHHHHcC--CeEEEEeecccc
Confidence            4579999999999999999888  899999998764

>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=95.43  E-value=0.049  Score=40.23  Aligned_cols=65  Identities=17%  Similarity=0.073  Sum_probs=39.3

Q ss_pred             CCCCEEEEeCCCCCChh--HHHHhhhcCCCeEEEEeCC-CcchHHHHHHHHHHHHh---CCCCeEEEEEcCCCC
Q psy14655        105 GPCDILFIDTPPGTGDT--HLSLIQNLFIDTAIIITIP-DTMSLQVAQRGYTMFKK---LNIPVAGLVMNMNSV  172 (261)
Q Consensus       105 ~~yd~IiiD~~~~~~~~--~~~~~~~~~ad~viiv~~~-~~~s~~~~~~~~~~l~~---~~~~~~giv~N~~~~  172 (261)
                      ..+.+.|+|+|+.....  ....+..  +|.+++|... +..+...+...++.+..   .+. .+.+|.|+.+.
T Consensus        53 ~~~~l~i~Dt~G~~~~~~~~~~~~~~--~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~-piilv~nK~Dl  123 (170)
T 1z08_A           53 KRVNLAIWDTAGQERFHALGPIYYRD--SNGAILVYDITDEDSFQKVKNWVKELRKMLGNEI-CLCIVGNKIDL  123 (170)
T ss_dssp             CEEEEEEEECCCC-------CCSSTT--CSEEEEEEETTCHHHHHHHHHHHHHHHHHHGGGS-EEEEEEECGGG
T ss_pred             EEEEEEEEECCCcHhhhhhHHHHhcc--CCEEEEEEECcCHHHHHHHHHHHHHHHHhcCCCC-eEEEEEECccc
Confidence            34678999998643211  1122333  8999999985 44566666666665544   233 36689999664

>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=95.43  E-value=0.063  Score=40.70  Aligned_cols=66  Identities=14%  Similarity=0.003  Sum_probs=43.8

Q ss_pred             CCCCEEEEeCCCCCC--hhHHHHhhhcCCCeEEEEeCC-CcchHHHHHHHHHHHHhCC--CCeEEEEEcCCCC
Q psy14655        105 GPCDILFIDTPPGTG--DTHLSLIQNLFIDTAIIITIP-DTMSLQVAQRGYTMFKKLN--IPVAGLVMNMNSV  172 (261)
Q Consensus       105 ~~yd~IiiD~~~~~~--~~~~~~~~~~~ad~viiv~~~-~~~s~~~~~~~~~~l~~~~--~~~~giv~N~~~~  172 (261)
                      ..+.+.|+|+|+...  ......+..  +|.+++|.+. +..+...+..++..+....  -..+.+|.|+.+.
T Consensus        69 ~~~~~~l~Dt~G~~~~~~~~~~~~~~--~d~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piilv~nK~Dl  139 (189)
T 2gf9_A           69 KRIKLQIWDTAGQERYRTITTAYYRG--AMGFLLMYDIANQESFAAVQDWATQIKTYSWDNAQVILVGNKCDL  139 (189)
T ss_dssp             EEEEEEEEECCSCCSSCCSGGGGGTT--CSEEEEEEETTCHHHHHTHHHHHHHHHHHSCTTCEEEEEEECTTC
T ss_pred             eEEEEEEEeCCCcHHHhhhHHHhccC--CCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCEEEEEECccc
Confidence            356889999997432  223334444  8999999985 4456677777776666532  2346699999764

>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=95.41  E-value=0.056  Score=39.82  Aligned_cols=66  Identities=14%  Similarity=0.039  Sum_probs=42.2

Q ss_pred             CCCCEEEEeCCCCCC--hhHHHHhhhcCCCeEEEEeCCC-cchHHHHHHHHHHHHhC-C-CCeEEEEEcCCCC
Q psy14655        105 GPCDILFIDTPPGTG--DTHLSLIQNLFIDTAIIITIPD-TMSLQVAQRGYTMFKKL-N-IPVAGLVMNMNSV  172 (261)
Q Consensus       105 ~~yd~IiiD~~~~~~--~~~~~~~~~~~ad~viiv~~~~-~~s~~~~~~~~~~l~~~-~-~~~~giv~N~~~~  172 (261)
                      ..+.+.|+|+|+...  ......+..  +|.+++|.+.+ ..+...+...+..+... . -..+.+|.|+.+.
T Consensus        50 ~~~~~~~~D~~G~~~~~~~~~~~~~~--~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl  120 (170)
T 1ek0_A           50 HTVKFEIWDTAGQERFASLAPXYYRN--AQAALVVYDVTKPQSFIKARHWVKELHEQASKDIIIALVGNKIDX  120 (170)
T ss_dssp             EEEEEEEEEECCSGGGGGGHHHHHTT--CSEEEEEEETTCHHHHHHHHHHHHHHHHHSCTTCEEEEEEECGGG
T ss_pred             EEEEEEEEECCCChhhhhhhhhhhcc--CcEEEEEEecCChHHHHHHHHHHHHHHHhcCCCCcEEEEEECCCc
Confidence            346789999996432  223334444  89999999854 45666776666655542 1 2246689999664

>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=95.38  E-value=0.012  Score=46.42  Aligned_cols=36  Identities=3%  Similarity=-0.114  Sum_probs=31.5

Q ss_pred             cccCCCCCcHHHHHHHHHHHHHhcCCCCeEEEEecCCC
Q psy14655          2 IASSKGGVGKSTTTVNLATAMKICYPDKEIGILDADVF   39 (261)
Q Consensus         2 v~s~KGGvGKTT~a~~lA~~la~~g~~~~VllvD~D~~   39 (261)
                      ++.+..|+||||++..++..+...+  .++..++++..
T Consensus        56 ll~G~~G~GKT~la~~l~~~~~~~~--~~~~~~~~~~~   91 (242)
T 3bos_A           56 YLWGPVKSGRTHLIHAACARANELE--RRSFYIPLGIH   91 (242)
T ss_dssp             EEECSTTSSHHHHHHHHHHHHHHTT--CCEEEEEGGGG
T ss_pred             EEECCCCCCHHHHHHHHHHHHHHcC--CeEEEEEHHHH
Confidence            4567789999999999999999988  99999998653

>3avx_A Elongation factor TS, elongation factor TU, linke replicase; RNA polymerase, translation, transferase-RNA complex; HET: GH3; 2.41A {Escherichia coli O157} PDB: 3agq_A 3agp_A* 3avu_A 3avv_A 3avt_A* 3avw_A* 3avy_A* 3mmp_A* 3mmp_G* 1efu_B

Probab=95.36  E-value=0.03  Score=54.71  Aligned_cols=66  Identities=11%  Similarity=0.171  Sum_probs=45.1

Q ss_pred             CCCCEEEEeCCCCCChh--HHHHhhhcCCCeEEEEeCCCcchHHHHHHHHHHHHhCCCCeEEEEEcCCCC
Q psy14655        105 GPCDILFIDTPPGTGDT--HLSLIQNLFIDTAIIITIPDTMSLQVAQRGYTMFKKLNIPVAGLVMNMNSV  172 (261)
Q Consensus       105 ~~yd~IiiD~~~~~~~~--~~~~~~~~~ad~viiv~~~~~~s~~~~~~~~~~l~~~~~~~~giv~N~~~~  172 (261)
                      ..+.+.|+|||+.....  ....+..  +|.+|+|+..+.....++...+..+...+.+.+-+++|+++.
T Consensus       357 ~~~kI~IIDTPGHedF~~~mi~gas~--AD~aILVVDAtdGv~~QTrEhL~ll~~lgIP~IIVVINKiDL  424 (1289)
T 3avx_A          357 PTRHYAHVDCPGHADYVKNMITGAAQ--MDGAILVVAATDGPMPQTREHILLGRQVGVPYIIVFLNKCDM  424 (1289)
T ss_dssp             SSCEEEEEECCCHHHHHHHHHHTSCC--CSEEEEEEETTTCSCTTHHHHHHHHHHHTCSCEEEEEECCTT
T ss_pred             CCEEEEEEECCChHHHHHHHHHHHhh--CCEEEEEEcCCccCcHHHHHHHHHHHHcCCCeEEEEEeeccc
Confidence            56889999999643221  1222233  899999998766555555566666666788866789999775

>1nks_A Adenylate kinase; thermophilic, transferase; HET: AMP ADP; 2.57A {Sulfolobus acidocaldarius} SCOP: c.37.1.1

Probab=95.36  E-value=0.0084  Score=45.79  Aligned_cols=34  Identities=24%  Similarity=0.225  Sum_probs=29.1

Q ss_pred             cccCCCCCcHHHHHHHHHHHHHhcCCCCeEEEEecC
Q psy14655          2 IASSKGGVGKSTTTVNLATAMKICYPDKEIGILDAD   37 (261)
Q Consensus         2 v~s~KGGvGKTT~a~~lA~~la~~g~~~~VllvD~D   37 (261)
                      ++.+--|+||||++..|+..+...|  .++..++.|
T Consensus         5 ~i~G~~GsGKsT~~~~L~~~l~~~g--~~~~~~~~~   38 (194)
T 1nks_A            5 IVTGIPGVGKSTVLAKVKEILDNQG--INNKIINYG   38 (194)
T ss_dssp             EEEECTTSCHHHHHHHHHHHHHTTT--CCEEEEEHH
T ss_pred             EEECCCCCCHHHHHHHHHHHHHhcC--ceEEEEECC
Confidence            4566779999999999999999888  889888754

>2hjg_A GTP-binding protein ENGA; GTPase ENGA KH-domain, hydrolase; HET: GDP; 2.50A {Bacillus subtilis}

Probab=95.36  E-value=0.024  Score=49.65  Aligned_cols=66  Identities=14%  Similarity=0.012  Sum_probs=36.7

Q ss_pred             CCCCEEEEeCCCCCC----------hhHHHHhhhcCCCeEEEEeCCCcchHHHHHHHHHHHHhCCCCeEEEEEcCCCCC
Q psy14655        105 GPCDILFIDTPPGTG----------DTHLSLIQNLFIDTAIIITIPDTMSLQVAQRGYTMFKKLNIPVAGLVMNMNSVL  173 (261)
Q Consensus       105 ~~yd~IiiD~~~~~~----------~~~~~~~~~~~ad~viiv~~~~~~s~~~~~~~~~~l~~~~~~~~giv~N~~~~~  173 (261)
                      .+..+.|+|||+...          ......+..  ||.+++|++....-...-..+.+.+++.+.+ +-+|+|+++..
T Consensus        49 ~~~~~~l~DT~G~~~~~~~~~~~~~~~~~~~~~~--ad~il~vvD~~~~~~~~d~~~~~~l~~~~~p-vilv~NK~D~~  124 (436)
T 2hjg_A           49 LNYDFNLIDTGGIDIGDEPFLAQIRQQAEIAMDE--ADVIIFMVNGREGVTAADEEVAKILYRTKKP-VVLAVNKLDNT  124 (436)
T ss_dssp             CSSCCEEEC---------CHHHHHHHHHHHHHHH--CSEEEEEEETTTCSCHHHHHHHHHHTTCCSC-EEEEEECCCC-
T ss_pred             CCceEEEEECCCCCCcchhHHHHHHHHHHHHHHh--CCEEEEEEeCCCCCCHHHHHHHHHHHHcCCC-EEEEEECccCc
Confidence            456788899986421          111233444  8999999886442222223455666666666 55899998763

>3tkl_A RAS-related protein RAB-1A; vesicle trafficking, protein transport-protein binding compl; HET: GTP; 2.18A {Homo sapiens}

Probab=95.29  E-value=0.054  Score=41.18  Aligned_cols=64  Identities=16%  Similarity=0.095  Sum_probs=42.7

Q ss_pred             CCCEEEEeCCCCC--ChhHHHHhhhcCCCeEEEEeCC-CcchHHHHHHHHHHHHhC---CCCeEEEEEcCCCC
Q psy14655        106 PCDILFIDTPPGT--GDTHLSLIQNLFIDTAIIITIP-DTMSLQVAQRGYTMFKKL---NIPVAGLVMNMNSV  172 (261)
Q Consensus       106 ~yd~IiiD~~~~~--~~~~~~~~~~~~ad~viiv~~~-~~~s~~~~~~~~~~l~~~---~~~~~giv~N~~~~  172 (261)
                      .+.+.|+|+|+..  .......+..  +|.+++|... +..+...+...+..+...   +. .+-+|.|+.+.
T Consensus        64 ~~~~~i~Dt~G~~~~~~~~~~~~~~--~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~-p~ilv~nK~Dl  133 (196)
T 3tkl_A           64 TIKLQIWDTAGQERFRTITSSYYRG--AHGIIVVYDVTDQESFNNVKQWLQEIDRYASENV-NKLLVGNKCDL  133 (196)
T ss_dssp             EEEEEEEEECCSGGGCTTHHHHHTT--CSEEEEEEETTCHHHHHTHHHHHHHHHHHSCTTC-EEEEEEECTTC
T ss_pred             EEEEEEEECCCcHhhhhhHHHHHhh--CCEEEEEEECcCHHHHHHHHHHHHHHHHhcCCCC-CEEEEEECccc
Confidence            4689999999643  2233344555  8999999984 445666666666666543   33 45689999774

>2il1_A RAB12; G-protein, GDP, GTPase, predicted, structural genomics, structural genomics consortium, SGC, protein transport; HET: GDP; 2.10A {Homo sapiens}

Probab=95.19  E-value=0.039  Score=42.15  Aligned_cols=65  Identities=12%  Similarity=0.004  Sum_probs=42.6

Q ss_pred             CCCEEEEeCCCCCC--hhHHHHhhhcCCCeEEEEeCCC-cchHHHHHHHHHHHHhCC--CCeEEEEEcCCCC
Q psy14655        106 PCDILFIDTPPGTG--DTHLSLIQNLFIDTAIIITIPD-TMSLQVAQRGYTMFKKLN--IPVAGLVMNMNSV  172 (261)
Q Consensus       106 ~yd~IiiD~~~~~~--~~~~~~~~~~~ad~viiv~~~~-~~s~~~~~~~~~~l~~~~--~~~~giv~N~~~~  172 (261)
                      .+.+.|+|+|+...  ......+..  +|.+++|.+.+ ..+...+...++.+....  -..+-+|.|+.+.
T Consensus        74 ~~~l~l~Dt~G~~~~~~~~~~~~~~--~d~iilV~D~~~~~s~~~~~~~~~~i~~~~~~~~piilV~NK~Dl  143 (192)
T 2il1_A           74 KIRLQIWDTAGQERFNSITSAYYRS--AKGIILVYDITKKETFDDLPKWMKMIDKYASEDAELLLVGNKLDC  143 (192)
T ss_dssp             EEEEEEEEECCSGGGHHHHHHHHHH--CSEEEEEEETTCHHHHHTHHHHHHHHHHHSCTTCEEEEEEECGGG
T ss_pred             EEEEEEEeCCCcHHHHHHHHHHhcC--CCEEEEEEECcCHHHHHHHHHHHHHHHHhcCCCCcEEEEEECccc
Confidence            46899999996432  223334455  89999999854 456666666666665532  2246689999664

>2zts_A Putative uncharacterized protein PH0186; KAIC like protein, ATP-binding, nucleotide-binding, ATP- binding protein; HET: ADP; 2.07A {Pyrococcus horikoshii}

Probab=95.19  E-value=0.017  Score=45.98  Aligned_cols=37  Identities=11%  Similarity=0.014  Sum_probs=30.6

Q ss_pred             cccCCCCCcHHHHHHHHHHHHH-hcCCCCeEEEEecCCCC
Q psy14655          2 IASSKGGVGKSTTTVNLATAMK-ICYPDKEIGILDADVFG   40 (261)
Q Consensus         2 v~s~KGGvGKTT~a~~lA~~la-~~g~~~~VllvD~D~~~   40 (261)
                      ++.+.-|+|||+++.++|...+ +.|  .+|+++.++...
T Consensus        34 ~i~G~pG~GKT~l~l~~~~~~~~~~~--~~v~~~s~E~~~   71 (251)
T 2zts_A           34 LLTGGTGTGKTTFAAQFIYKGAEEYG--EPGVFVTLEERA   71 (251)
T ss_dssp             EEECCTTSSHHHHHHHHHHHHHHHHC--CCEEEEESSSCH
T ss_pred             EEEeCCCCCHHHHHHHHHHHHHHhcC--CCceeecccCCH
Confidence            4567889999999999998755 557  899999998654

>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=95.17  E-value=0.052  Score=40.04  Aligned_cols=64  Identities=9%  Similarity=0.028  Sum_probs=41.7

Q ss_pred             CCCEEEEeCCCCC--ChhHHHHhhhcCCCeEEEEeCCC-cchHHHHHHHHHHHHhC---CCCeEEEEEcCCCC
Q psy14655        106 PCDILFIDTPPGT--GDTHLSLIQNLFIDTAIIITIPD-TMSLQVAQRGYTMFKKL---NIPVAGLVMNMNSV  172 (261)
Q Consensus       106 ~yd~IiiD~~~~~--~~~~~~~~~~~~ad~viiv~~~~-~~s~~~~~~~~~~l~~~---~~~~~giv~N~~~~  172 (261)
                      .+.+.|+|+|+..  .......+..  +|.+++|...+ ..+...+...+..+...   +. .+-+|.|+.+.
T Consensus        51 ~~~~~l~D~~G~~~~~~~~~~~~~~--~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~-piilv~nK~Dl  120 (170)
T 1g16_A           51 KVKLQIWDTAGQERFRTITTAYYRG--AMGIILVYDITDERTFTNIKQWFKTVNEHANDEA-QLLLVGNKSDM  120 (170)
T ss_dssp             EEEEEEECCTTGGGTSCCCHHHHTT--EEEEEEEEETTCHHHHHTHHHHHHHHHHHSCTTC-EEEEEEECTTC
T ss_pred             EEEEEEEeCCCChhhhhhHHHHhcc--CCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCC-cEEEEEECccC
Confidence            4678999999642  2223344444  89999999854 45666666666655543   33 46689999764

>2og2_A Putative signal recognition particle receptor; nucleotide-binding, protein transport; 2.00A {Arabidopsis thaliana}

Probab=95.16  E-value=0.02  Score=48.89  Aligned_cols=34  Identities=26%  Similarity=0.274  Sum_probs=30.4

Q ss_pred             CCCCCcHHHHHHHHHHHHHhcCCCCeEEEEecCCCC
Q psy14655          5 SKGGVGKSTTTVNLATAMKICYPDKEIGILDADVFG   40 (261)
Q Consensus         5 ~KGGvGKTT~a~~lA~~la~~g~~~~VllvD~D~~~   40 (261)
                      +..|+||||+...||..+...+  .+|++.+.|...
T Consensus       164 G~nGsGKTTll~~Lag~l~~~~--G~V~l~g~D~~r  197 (359)
T 2og2_A          164 GVNGGGKTTSLGKLAHRLKNEG--TKVLMAAGDTFR  197 (359)
T ss_dssp             CCTTSCHHHHHHHHHHHHHHTT--CCEEEECCCCSC
T ss_pred             cCCCChHHHHHHHHHhhccccC--CEEEEecccccc
Confidence            4579999999999999999888  899999999764

>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=95.16  E-value=0.094  Score=40.16  Aligned_cols=65  Identities=17%  Similarity=-0.006  Sum_probs=42.7

Q ss_pred             CCCCEEEEeCCCCCCh--hHHHHhhhcCCCeEEEEeCCC-cchHHHHHHHHHHHHhC---CCCeEEEEEcCCCC
Q psy14655        105 GPCDILFIDTPPGTGD--THLSLIQNLFIDTAIIITIPD-TMSLQVAQRGYTMFKKL---NIPVAGLVMNMNSV  172 (261)
Q Consensus       105 ~~yd~IiiD~~~~~~~--~~~~~~~~~~ad~viiv~~~~-~~s~~~~~~~~~~l~~~---~~~~~giv~N~~~~  172 (261)
                      ..+.+.|+|+|+....  .....+..  +|.+++|...+ ..++..+..++..+...   +. .+.+|.|+.+.
T Consensus        55 ~~~~~~l~Dt~G~~~~~~~~~~~~~~--~d~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~-piilv~nK~Dl  125 (203)
T 1zbd_A           55 KRIKLQIWDTAGLERYRTITTAYYRG--AMGFILMYDITNEESFNAVQDWSTQIKTYSWDNA-QVLLVGNKCDM  125 (203)
T ss_dssp             EEEEEEEEEECCSGGGHHHHHTTGGG--CSEEEEEEETTCHHHHHHHHHHHHHHHHHSCSSC-EEEEEEECTTC
T ss_pred             eEEEEEEEECCCchhhcchHHHhhcC--CCEEEEEEECcCHHHHHHHHHHHHHHHHhcCCCC-CEEEEEECccc
Confidence            3568899999864322  22233344  89999999854 45666677776666553   33 46699999775

>3i8s_A Ferrous iron transport protein B; GTPase, GPCR, iron uptake, FEO, cell inner membrane, cell ME GTP-binding, ION transport, membrane; 1.80A {Escherichia coli} PDB: 3i8x_A* 3i92_A* 3hyr_A 3hyt_A* 2wic_A* 2wib_A* 2wia_A*

Probab=95.15  E-value=0.11  Score=42.26  Aligned_cols=65  Identities=18%  Similarity=0.120  Sum_probs=40.4

Q ss_pred             CCCCEEEEeCCCCCChh------------HHHHhhhcCCCeEEEEeCCCcchHHHHHHHHHHHHhCCCCeEEEEEcCCCC
Q psy14655        105 GPCDILFIDTPPGTGDT------------HLSLIQNLFIDTAIIITIPDTMSLQVAQRGYTMFKKLNIPVAGLVMNMNSV  172 (261)
Q Consensus       105 ~~yd~IiiD~~~~~~~~------------~~~~~~~~~ad~viiv~~~~~~s~~~~~~~~~~l~~~~~~~~giv~N~~~~  172 (261)
                      .++.+.|+|+|+..+..            ....+....+|.+++|++.+.  ......+...+.+.+.+ +-+|+|+++.
T Consensus        48 ~~~~~~liDtpG~~~~~~~~~~~~~~e~i~~~~~~~~~~d~ii~VvD~~~--~~~~~~~~~~l~~~~~p-~ivv~NK~Dl  124 (274)
T 3i8s_A           48 TDHQVTLVDLPGTYSLTTISSQTSLDEQIACHYILSGDADLLINVVDASN--LERNLYLTLQLLELGIP-CIVALNMLDI  124 (274)
T ss_dssp             SSCEEEEEECCCCSCSCC----CCHHHHHHHHHHHHTCCSEEEEEEEGGG--HHHHHHHHHHHHHHTCC-EEEEEECHHH
T ss_pred             CCCceEEEECcCCCccccccccCCHHHHHHHHHHhhcCCCEEEEEecCCC--hHHHHHHHHHHHhcCCC-EEEEEECccc
Confidence            45688999999754321            111111112899999998655  34444555666666777 4589999653

>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=95.14  E-value=0.046  Score=40.41  Aligned_cols=65  Identities=15%  Similarity=0.115  Sum_probs=40.2

Q ss_pred             CCCCEEEEeCCCCCCh---hHHHHhhhcCCCeEEEEeCC-CcchHHHHHHHHHHHHhC----CCCeEEEEEcCCCC
Q psy14655        105 GPCDILFIDTPPGTGD---THLSLIQNLFIDTAIIITIP-DTMSLQVAQRGYTMFKKL----NIPVAGLVMNMNSV  172 (261)
Q Consensus       105 ~~yd~IiiD~~~~~~~---~~~~~~~~~~ad~viiv~~~-~~~s~~~~~~~~~~l~~~----~~~~~giv~N~~~~  172 (261)
                      ..+.+.++|+|+....   .....+..  +|.+++|... +..++..+...+..+...    +.+ +-+|.|+.+.
T Consensus        49 ~~~~~~i~D~~g~~~~~~~~~~~~~~~--~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~p-~ilv~nK~Dl  121 (169)
T 3q85_A           49 EEVTLIVYDIWEQGDAGGWLQDHCLQT--GDAFLIVFSVTDRRSFSKVPETLLRLRAGRPHHDLP-VILVGNKSDL  121 (169)
T ss_dssp             EEEEEEEECCCCC--------CHHHHH--CSEEEEEEETTCHHHHHTHHHHHHHHHHHSTTSCCC-EEEEEECTTC
T ss_pred             eEEEEEEEECCCccccchhhhhhhhcc--CCEEEEEEECCChHHHHHHHHHHHHHHhcccCCCCC-EEEEeeCcch
Confidence            3577889999864322   12223444  8999999984 445666666666655442    445 5589999764

>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=95.13  E-value=0.011  Score=44.89  Aligned_cols=33  Identities=21%  Similarity=0.083  Sum_probs=26.8

Q ss_pred             cccCCCCCcHHHHHHHHHHHHH-hcCCCCeEEEEec
Q psy14655          2 IASSKGGVGKSTTTVNLATAMK-ICYPDKEIGILDA   36 (261)
Q Consensus         2 v~s~KGGvGKTT~a~~lA~~la-~~g~~~~VllvD~   36 (261)
                      +..+..|+||||++..++..+. ..|  .+++++++
T Consensus        42 ~l~G~~G~GKTtL~~~i~~~~~~~~g--~~~~~~~~   75 (180)
T 3ec2_A           42 TFVGSPGVGKTHLAVATLKAIYEKKG--IRGYFFDT   75 (180)
T ss_dssp             EECCSSSSSHHHHHHHHHHHHHHHSC--CCCCEEEH
T ss_pred             EEECCCCCCHHHHHHHHHHHHHHHcC--CeEEEEEH
Confidence            3457789999999999999998 667  77777654

>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=95.12  E-value=0.048  Score=41.35  Aligned_cols=66  Identities=12%  Similarity=-0.023  Sum_probs=43.6

Q ss_pred             CCCCEEEEeCCCCC--ChhHHHHhhhcCCCeEEEEeCCC-cchHHHHHHHHHHHHhCC---CCeEEEEEcCCCC
Q psy14655        105 GPCDILFIDTPPGT--GDTHLSLIQNLFIDTAIIITIPD-TMSLQVAQRGYTMFKKLN---IPVAGLVMNMNSV  172 (261)
Q Consensus       105 ~~yd~IiiD~~~~~--~~~~~~~~~~~~ad~viiv~~~~-~~s~~~~~~~~~~l~~~~---~~~~giv~N~~~~  172 (261)
                      ..+.+.|+|+|+..  .......+..  +|.+++|...+ ..+...+...+..+....   -..+-+|.|+.+.
T Consensus        62 ~~~~~~i~Dt~G~~~~~~~~~~~~~~--~d~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~p~ilv~nK~Dl  133 (195)
T 1x3s_A           62 NKAKLAIWDTAGQERFRTLTPSYYRG--AQGVILVYDVTRRDTFVKLDNWLNELETYCTRNDIVNMLVGNKIDK  133 (195)
T ss_dssp             EEEEEEEEEECSSGGGCCSHHHHHTT--CCEEEEEEETTCHHHHHTHHHHHHHHTTCCSCSCCEEEEEEECTTS
T ss_pred             eEEEEEEEeCCCchhhhhhhHHHhcc--CCEEEEEEECcCHHHHHHHHHHHHHHHHhcCcCCCcEEEEEECCcC
Confidence            35789999999643  2233344555  89999999854 456666666666665531   2246689999774

>2q6t_A DNAB replication FORK helicase; hydrolase; 2.90A {Thermus aquaticus}

Probab=95.11  E-value=0.016  Score=50.86  Aligned_cols=36  Identities=17%  Similarity=0.296  Sum_probs=31.7

Q ss_pred             cccCCCCCcHHHHHHHHHHHHHh-cCCCCeEEEEecCCC
Q psy14655          2 IASSKGGVGKSTTTVNLATAMKI-CYPDKEIGILDADVF   39 (261)
Q Consensus         2 v~s~KGGvGKTT~a~~lA~~la~-~g~~~~VllvD~D~~   39 (261)
                      ++.+..|+||||++.++|..++. .|  .+|+++++...
T Consensus       204 ii~G~pg~GKT~lal~ia~~~a~~~g--~~vl~~slE~~  240 (444)
T 2q6t_A          204 IIAARPAMGKTAFALTIAQNAALKEG--VGVGIYSLEMP  240 (444)
T ss_dssp             EEEECTTSCHHHHHHHHHHHHHHTTC--CCEEEEESSSC
T ss_pred             EEEeCCCCCHHHHHHHHHHHHHHhCC--CeEEEEECCCC
Confidence            45678899999999999999997 47  99999999865

>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=95.09  E-value=0.012  Score=47.61  Aligned_cols=65  Identities=17%  Similarity=0.111  Sum_probs=35.0

Q ss_pred             CCCCEEEEeCCCCCChh-------------HHHHhhhcCCCeEEEEeCCCcchHHHHHHHHHHHHhC-----CCCeEEEE
Q psy14655        105 GPCDILFIDTPPGTGDT-------------HLSLIQNLFIDTAIIITIPDTMSLQVAQRGYTMFKKL-----NIPVAGLV  166 (261)
Q Consensus       105 ~~yd~IiiD~~~~~~~~-------------~~~~~~~~~ad~viiv~~~~~~s~~~~~~~~~~l~~~-----~~~~~giv  166 (261)
                      .+++++|+|||+.....             ....+..  +|.+++|+..+...- ....+++.+.+.     ..+.+.++
T Consensus        69 ~~~~i~iiDTpG~~~~~~~~~~~~~~i~~~~~~~~~~--~d~il~V~d~~~~~~-~~~~~~~~l~~~~~~~~~~~~i~vv  145 (260)
T 2xtp_A           69 GNREIVIIDTPDMFSWKDHCEALYKEVQRCYLLSAPG--PHVLLLVTQLGRYTS-QDQQAAQRVKEIFGEDAMGHTIVLF  145 (260)
T ss_dssp             TTEEEEEEECCGGGGSSCCCHHHHHHHHHHHHHHTTC--CSEEEEEEETTCCCH-HHHHHHHHHHHHHCGGGGGGEEEEE
T ss_pred             CCCEEEEEECcCCCCCCCCHHHHHHHHHHHHHhcCCC--CcEEEEEEeCCCCCH-HHHHHHHHHHHHhCchhhccEEEEE
Confidence            45689999999643210             0112233  899999998764221 222233444332     34555455


Q ss_pred             EcCCCC
Q psy14655        167 MNMNSV  172 (261)
Q Consensus       167 ~N~~~~  172 (261)
                      .|+.+.
T Consensus       146 ~nK~Dl  151 (260)
T 2xtp_A          146 THKEDL  151 (260)
T ss_dssp             ECGGGG
T ss_pred             Eccccc
Confidence            558664

>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=95.06  E-value=0.072  Score=41.17  Aligned_cols=65  Identities=12%  Similarity=-0.003  Sum_probs=41.0

Q ss_pred             CCCEEEEeCCCCCChh--HHHHhhhcCCCeEEEEeCC-CcchHHHHHHHHHHHHhCC--CCeEEEEEcCCCC
Q psy14655        106 PCDILFIDTPPGTGDT--HLSLIQNLFIDTAIIITIP-DTMSLQVAQRGYTMFKKLN--IPVAGLVMNMNSV  172 (261)
Q Consensus       106 ~yd~IiiD~~~~~~~~--~~~~~~~~~ad~viiv~~~-~~~s~~~~~~~~~~l~~~~--~~~~giv~N~~~~  172 (261)
                      .+.+.|+|+|+.....  ....+..  +|.+++|.+. +..+...+...++.+....  ...+.+|.|+.+.
T Consensus        74 ~~~l~l~Dt~G~~~~~~~~~~~~~~--~d~~i~v~D~~~~~s~~~~~~~~~~i~~~~~~~~piilv~NK~Dl  143 (201)
T 2ew1_A           74 KVKLQIWDTAGQERFRSITQSYYRS--ANALILTYDITCEESFRCLPEWLREIEQYASNKVITVLVGNKIDL  143 (201)
T ss_dssp             EEEEEEEEECCSGGGHHHHGGGSTT--CSEEEEEEETTCHHHHHTHHHHHHHHHHHSCTTCEEEEEEECGGG
T ss_pred             EEEEEEEECCCcHHHHHHHHHHHhc--CCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCEEEEEECCCC
Confidence            4678999998643221  2223333  8999999984 4556666666666665432  2245688999664

>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=95.05  E-value=0.015  Score=49.53  Aligned_cols=35  Identities=14%  Similarity=0.077  Sum_probs=30.7

Q ss_pred             cCCCCCcHHHHHHHHHHHHHhcCCCCeEEEEecCCCC
Q psy14655          4 SSKGGVGKSTTTVNLATAMKICYPDKEIGILDADVFG   40 (261)
Q Consensus         4 s~KGGvGKTT~a~~lA~~la~~g~~~~VllvD~D~~~   40 (261)
                      .+--|+||||++.++|..++..|  .+|++||.....
T Consensus        67 ~GppGsGKSTLal~la~~~~~~g--g~VlyId~E~s~  101 (356)
T 3hr8_A           67 FGQESSGKTTLALHAIAEAQKMG--GVAAFIDAEHAL  101 (356)
T ss_dssp             EESTTSSHHHHHHHHHHHHHHTT--CCEEEEESSCCC
T ss_pred             ECCCCCCHHHHHHHHHHHHHhcC--CeEEEEeccccc
Confidence            34579999999999999999998  999999987654

>2r6a_A DNAB helicase, replicative helicase; replication, DNAB; 2.90A {Geobacillus stearothermophilus} PDB: 2r6c_A 2r6d_A 2r6e_A 2vyf_A 2vye_A

Probab=95.02  E-value=0.018  Score=50.69  Aligned_cols=37  Identities=19%  Similarity=0.395  Sum_probs=32.0

Q ss_pred             cccCCCCCcHHHHHHHHHHHHHh-cCCCCeEEEEecCCCC
Q psy14655          2 IASSKGGVGKSTTTVNLATAMKI-CYPDKEIGILDADVFG   40 (261)
Q Consensus         2 v~s~KGGvGKTT~a~~lA~~la~-~g~~~~VllvD~D~~~   40 (261)
                      ++.+..|+||||++.++|..++. .|  .+|+++++....
T Consensus       207 iI~G~pG~GKTtl~l~ia~~~~~~~g--~~Vl~~s~E~s~  244 (454)
T 2r6a_A          207 IVAARPSVGKTAFALNIAQNVATKTN--ENVAIFSLEMSA  244 (454)
T ss_dssp             EEECCTTSCHHHHHHHHHHHHHHHSS--CCEEEEESSSCH
T ss_pred             EEECCCCCCHHHHHHHHHHHHHHhCC--CcEEEEECCCCH
Confidence            45678899999999999999997 47  899999998753

>3izy_P Translation initiation factor IF-2, mitochondrial; E coli, RNA, ribosomal; 10.80A {Bos taurus}

Probab=94.97  E-value=0.041  Score=49.53  Aligned_cols=64  Identities=20%  Similarity=0.226  Sum_probs=46.2

Q ss_pred             CCCEEEEeCCCCCC--hhHHHHhhhcCCCeEEEEeCCCcchHHHHHHHHHHHHhCCCCeEEEEEcCCCC
Q psy14655        106 PCDILFIDTPPGTG--DTHLSLIQNLFIDTAIIITIPDTMSLQVAQRGYTMFKKLNIPVAGLVMNMNSV  172 (261)
Q Consensus       106 ~yd~IiiD~~~~~~--~~~~~~~~~~~ad~viiv~~~~~~s~~~~~~~~~~l~~~~~~~~giv~N~~~~  172 (261)
                      +..+.|+|||+...  ......+..  +|.+++|+..+..........+..+...+.+ +-+++|+++.
T Consensus        51 g~~i~~iDTPGhe~f~~~~~~~~~~--aD~vILVVDa~dg~~~qt~e~l~~~~~~~vP-iIVViNKiDl  116 (537)
T 3izy_P           51 GEKITFLDTPGHAAFSAMRARGTQV--TDIVILVVAADDGVMKQTVESIQHAKDAHVP-IVLAINKCDK  116 (537)
T ss_dssp             SSCCBCEECSSSCCTTTSBBSSSBS--BSSCEEECBSSSCCCHHHHHHHHHHHTTTCC-EEECCBSGGG
T ss_pred             CCEEEEEECCChHHHHHHHHHHHcc--CCEEEEEEECCCCccHHHHHHHHHHHHcCCc-EEEEEecccc
Confidence            44678899997432  222222333  8999999998877777777888888888888 5589999775

>2ywe_A GTP-binding protein LEPA; G domain, beta-barrel, ferredoxin-like domain, structural GE NPPSFA; 2.05A {Aquifex aeolicus} PDB: 2ywf_A* 2ywg_A* 2ywh_A*

Probab=94.96  E-value=0.11  Score=47.44  Aligned_cols=65  Identities=11%  Similarity=0.041  Sum_probs=43.9

Q ss_pred             CCCCEEEEeCCCCCCh--hHHHHhhhcCCCeEEEEeCCCcchHHHHHHHHHHHHhCCCCeEEEEEcCCCC
Q psy14655        105 GPCDILFIDTPPGTGD--THLSLIQNLFIDTAIIITIPDTMSLQVAQRGYTMFKKLNIPVAGLVMNMNSV  172 (261)
Q Consensus       105 ~~yd~IiiD~~~~~~~--~~~~~~~~~~ad~viiv~~~~~~s~~~~~~~~~~l~~~~~~~~giv~N~~~~  172 (261)
                      ..|.+.|+|||+..+.  .....+..  ||.+++|++.+.....+.......+...+.+ +-+++|+.+.
T Consensus        71 ~~~~inliDTPGh~dF~~ev~r~l~~--aD~aILVVDa~~gv~~qt~~~~~~a~~~~ip-iIvviNKiDl  137 (600)
T 2ywe_A           71 NTYKLHLIDTPGHVDFSYEVSRALAA--CEGALLLIDASQGIEAQTVANFWKAVEQDLV-IIPVINKIDL  137 (600)
T ss_dssp             CEEEEEEECCCCSGGGHHHHHHHHHT--CSEEEEEEETTTBCCHHHHHHHHHHHHTTCE-EEEEEECTTS
T ss_pred             CeEEEEEEECCCcHhHHHHHHHHHHh--CCEEEEEEECCCCccHHHHHHHHHHHHCCCC-EEEEEeccCc
Confidence            3578889999976542  23344455  9999999997665444444445555566777 5589999775

>3tw8_B RAS-related protein RAB-35; longin domain, RAB GTPase, guanine exchange factor; 2.10A {Homo sapiens}

Probab=94.95  E-value=0.042  Score=41.02  Aligned_cols=65  Identities=14%  Similarity=0.005  Sum_probs=41.6

Q ss_pred             CCCEEEEeCCCCC--ChhHHHHhhhcCCCeEEEEeCC-CcchHHHHHHHHHHHHhCC-CCeEEEEEcCCCC
Q psy14655        106 PCDILFIDTPPGT--GDTHLSLIQNLFIDTAIIITIP-DTMSLQVAQRGYTMFKKLN-IPVAGLVMNMNSV  172 (261)
Q Consensus       106 ~yd~IiiD~~~~~--~~~~~~~~~~~~ad~viiv~~~-~~~s~~~~~~~~~~l~~~~-~~~~giv~N~~~~  172 (261)
                      .+.+.|+|+|+..  .......+..  +|.+++|... +..+...+...+..+.... -..+-+|.|+.+.
T Consensus        57 ~~~~~i~Dt~G~~~~~~~~~~~~~~--~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~p~ilv~nK~Dl  125 (181)
T 3tw8_B           57 KVKLQIWDTAGQERFRTITSTYYRG--THGVIVVYDVTSAESFVNVKRWLHEINQNCDDVCRILVGNKNDD  125 (181)
T ss_dssp             EEEEEEEEETTGGGCSSCCGGGGTT--CSEEEEEEETTCHHHHHHHHHHHHHHHHHCTTSEEEEEEECTTC
T ss_pred             EEEEEEEcCCCchhhhhhHHHHhcc--CCEEEEEEECCCHHHHHHHHHHHHHHHHhCCCCCEEEEEECCCC
Confidence            3679999998632  2222334444  8999999984 4566666666666665432 2345689999764

>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=94.94  E-value=0.057  Score=41.48  Aligned_cols=65  Identities=11%  Similarity=0.069  Sum_probs=40.7

Q ss_pred             CCCCEEEEeCCCCCC--hhHHHHhhhcCCCeEEEEeCCC-cchHHHHHHHHHHHHh-------CCCCeEEEEEcCCCC
Q psy14655        105 GPCDILFIDTPPGTG--DTHLSLIQNLFIDTAIIITIPD-TMSLQVAQRGYTMFKK-------LNIPVAGLVMNMNSV  172 (261)
Q Consensus       105 ~~yd~IiiD~~~~~~--~~~~~~~~~~~ad~viiv~~~~-~~s~~~~~~~~~~l~~-------~~~~~~giv~N~~~~  172 (261)
                      ..+.+.|+|+|+...  ......+..  +|.+++|.+.+ ..+...+..++..+..       .+.+ +.+|.|+.+.
T Consensus        55 ~~~~~~l~Dt~G~~~~~~~~~~~~~~--~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~~p-iilv~nK~Dl  129 (207)
T 1vg8_A           55 RLVTMQIWDTAGQERFQSLGVAFYRG--ADCCVLVFDVTAPNTFKTLDSWRDEFLIQASPRDPENFP-FVVLGNKIDL  129 (207)
T ss_dssp             CEEEEEEEEECSSGGGSCSCCGGGTT--CSEEEEEEETTCHHHHHTHHHHHHHHHHHHCCSSGGGSC-EEEEEECTTS
T ss_pred             EEEEEEEEeCCCcHHHHHhHHHHHhC--CcEEEEEEECCCHHHHHHHHHHHHHHHHhcccccCCCCc-EEEEEECCCC
Confidence            346799999986422  112233444  89999999854 4556666655554432       2344 5689999775

>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=94.93  E-value=0.052  Score=40.89  Aligned_cols=64  Identities=17%  Similarity=0.044  Sum_probs=40.2

Q ss_pred             CCCEEEEeCCCCCChh--HHHHhhhcCCCeEEEEeCCC-cchHHHHHHHHHHHHhC---CCCeEEEEEcCCCC
Q psy14655        106 PCDILFIDTPPGTGDT--HLSLIQNLFIDTAIIITIPD-TMSLQVAQRGYTMFKKL---NIPVAGLVMNMNSV  172 (261)
Q Consensus       106 ~yd~IiiD~~~~~~~~--~~~~~~~~~ad~viiv~~~~-~~s~~~~~~~~~~l~~~---~~~~~giv~N~~~~  172 (261)
                      .+.+.|+|+|+.....  ....+..  +|.+++|.+.+ ..+...+...+..+...   +. .+.+|.|+.+.
T Consensus        58 ~~~~~l~Dt~G~~~~~~~~~~~~~~--~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~-piilv~nK~Dl  127 (186)
T 2bme_A           58 YVKLQIWDTAGQERFRSVTRSYYRG--AAGALLVYDITSRETYNALTNWLTDARMLASQNI-VIILCGNKKDL  127 (186)
T ss_dssp             EEEEEEEEECCSGGGHHHHHTTSTT--CSEEEEEEETTCHHHHHTHHHHHHHHHHHSCTTC-EEEEEEECGGG
T ss_pred             EEEEEEEeCCCcHHHHHHHHHHHhc--CCEEEEEEECcCHHHHHHHHHHHHHHHHhcCCCC-cEEEEEECccc
Confidence            3678999998643222  2222333  89999999854 45666666666555432   33 46689999664

>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=94.93  E-value=0.013  Score=44.64  Aligned_cols=34  Identities=12%  Similarity=0.151  Sum_probs=28.1

Q ss_pred             cccCCCCCcHHHHHHHHHHHHHhcCCCCeEEEEecC
Q psy14655          2 IASSKGGVGKSTTTVNLATAMKICYPDKEIGILDAD   37 (261)
Q Consensus         2 v~s~KGGvGKTT~a~~lA~~la~~g~~~~VllvD~D   37 (261)
                      ++.+--|+||||++..||..+...|  .+.-++|.|
T Consensus         7 ~i~G~~GsGKsT~~~~L~~~l~~~g--~~~~~i~~~   40 (192)
T 1kht_A            7 VVTGVPGVGSTTSSQLAMDNLRKEG--VNYKMVSFG   40 (192)
T ss_dssp             EEECCTTSCHHHHHHHHHHHHHTTT--CCCEEEEHH
T ss_pred             EEECCCCCCHHHHHHHHHHHHHhcC--cceEEEehH
Confidence            4567789999999999999998887  666677754

>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=94.92  E-value=0.012  Score=52.51  Aligned_cols=37  Identities=19%  Similarity=0.089  Sum_probs=32.6

Q ss_pred             cccCCCCCcHHHHHHHHHHHHHhc-CCCCeEEEEecCCCC
Q psy14655          2 IASSKGGVGKSTTTVNLATAMKIC-YPDKEIGILDADVFG   40 (261)
Q Consensus         2 v~s~KGGvGKTT~a~~lA~~la~~-g~~~~VllvD~D~~~   40 (261)
                      ++.+..|+||||++.++|..++.. |  .+|+++++....
T Consensus       246 li~G~pG~GKT~lal~~a~~~a~~~g--~~vl~~s~E~s~  283 (503)
T 1q57_A          246 MVTSGSGMVMSTFVRQQALQWGTAMG--KKVGLAMLEESV  283 (503)
T ss_dssp             EEEESSCHHHHHHHHHHHHHHTTTSC--CCEEEEESSSCH
T ss_pred             EEeecCCCCchHHHHHHHHHHHHhcC--CcEEEEeccCCH
Confidence            456778999999999999999987 8  999999998753

>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=94.90  E-value=0.082  Score=40.77  Aligned_cols=65  Identities=9%  Similarity=0.022  Sum_probs=41.8

Q ss_pred             CCCEEEEeCCCCCC--hhHHHHhhhcCCCeEEEEeCCC-cchHHHHHHHHHHHHhCC--CCeEEEEEcCCCC
Q psy14655        106 PCDILFIDTPPGTG--DTHLSLIQNLFIDTAIIITIPD-TMSLQVAQRGYTMFKKLN--IPVAGLVMNMNSV  172 (261)
Q Consensus       106 ~yd~IiiD~~~~~~--~~~~~~~~~~~ad~viiv~~~~-~~s~~~~~~~~~~l~~~~--~~~~giv~N~~~~  172 (261)
                      .+.+.|+|+|+...  ......+..  +|.+++|...+ ..+...+...+..+....  -..+.+|.|+.+.
T Consensus        68 ~~~~~l~Dt~G~~~~~~~~~~~~~~--~d~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piilv~nK~Dl  137 (213)
T 3cph_A           68 KVKLQLWDTAGQERFRTITTAYYRG--AMGIILVYDVTDERTFTNIKQWFKTVNEHANDEAQLLLVGNKSDM  137 (213)
T ss_dssp             EEEEEEECCTTGGGGTCCCHHHHTT--CSEEEEEEETTCHHHHHTHHHHHHHHHHHTTTCSEEEEEEECTTC
T ss_pred             EEEEEEEeCCCcHHHHHHHHHHhcc--CCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCEEEEEECCCC
Confidence            46899999996422  222334444  89999999854 456666666666555431  1246689999774

>1jbk_A CLPB protein; beta barrel, chaperone; 1.80A {Escherichia coli} SCOP: c.37.1.20

Probab=94.89  E-value=0.021  Score=43.05  Aligned_cols=33  Identities=24%  Similarity=0.259  Sum_probs=26.7

Q ss_pred             cccCCCCCcHHHHHHHHHHHHHh-------cCCCCeEEEEec
Q psy14655          2 IASSKGGVGKSTTTVNLATAMKI-------CYPDKEIGILDA   36 (261)
Q Consensus         2 v~s~KGGvGKTT~a~~lA~~la~-------~g~~~~VllvD~   36 (261)
                      ++.+..|+||||++..++..+..       .+  .+++.+++
T Consensus        47 ll~G~~G~GKT~l~~~~~~~~~~~~~~~~~~~--~~~~~~~~   86 (195)
T 1jbk_A           47 VLIGEPGVGKTAIVEGLAQRIINGEVPEGLKG--RRVLALDM   86 (195)
T ss_dssp             EEECCTTSCHHHHHHHHHHHHHHTCSCGGGTT--CEEEEECH
T ss_pred             EEECCCCCCHHHHHHHHHHHHHhCCCchhhcC--CcEEEeeH
Confidence            45678899999999999999876       35  67777766

>2hf9_A Probable hydrogenase nickel incorporation protein HYPB; alpha and beta protein; HET: GSP; 1.90A {Methanocaldococcus jannaschii} PDB: 2hf8_A*

Probab=94.86  E-value=0.014  Score=45.84  Aligned_cols=35  Identities=23%  Similarity=0.210  Sum_probs=28.5

Q ss_pred             ccCCCCCcHHHHHHHHHHHHHhcCCCCeEEEEecCCCC
Q psy14655          3 ASSKGGVGKSTTTVNLATAMKICYPDKEIGILDADVFG   40 (261)
Q Consensus         3 ~s~KGGvGKTT~a~~lA~~la~~g~~~~VllvD~D~~~   40 (261)
                      +-+.+|+||||+..+|+..+...   .++..|+.|++.
T Consensus        43 ivG~~gvGKTtl~~~l~~~~~~~---~~~~~i~~d~~~   77 (226)
T 2hf9_A           43 FMGAIGSGKTLLIEKLIDNLKDK---YKIACIAGDVIA   77 (226)
T ss_dssp             EEESTTSSHHHHHHHHHHHHTTT---CCEEEEEEETTT
T ss_pred             EEcCCCCCHHHHHHHHHHHhccC---CeEEEEECCCCC
Confidence            34679999999999999887543   688899999863

>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=94.80  E-value=0.18  Score=37.71  Aligned_cols=64  Identities=17%  Similarity=0.121  Sum_probs=41.1

Q ss_pred             CCCEEEEeCCCCC--ChhHHHHhhhcCCCeEEEEeCC-CcchHHHHHHHHHHHHh----CCCCeEEEEEcCCCC
Q psy14655        106 PCDILFIDTPPGT--GDTHLSLIQNLFIDTAIIITIP-DTMSLQVAQRGYTMFKK----LNIPVAGLVMNMNSV  172 (261)
Q Consensus       106 ~yd~IiiD~~~~~--~~~~~~~~~~~~ad~viiv~~~-~~~s~~~~~~~~~~l~~----~~~~~~giv~N~~~~  172 (261)
                      .+.+.|+|+|+..  .......+..  +|.+++|... +..++..+...+..+..    .+.+ +-+|.|+.+.
T Consensus        65 ~~~l~i~Dt~G~~~~~~~~~~~~~~--~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~p-~ilv~nK~Dl  135 (183)
T 3kkq_A           65 WAILDVLDTAGQEEFSAMREQYMRT--GDGFLIVYSVTDKASFEHVDRFHQLILRVKDRESFP-MILVANKVDL  135 (183)
T ss_dssp             EEEEEEEECCSCGGGCSSHHHHHHH--CSEEEEEEETTCHHHHHTHHHHHHHHHHHHTSSCCC-EEEEEECTTC
T ss_pred             EEEEEEEECCCchhhHHHHHHHHhc--CCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCc-EEEEEECCCc
Confidence            4556779998643  2333444555  8999999984 44566666666655533    3445 5589999774

>1a7j_A Phosphoribulokinase; transferase, calvin cycle; 2.50A {Rhodobacter sphaeroides} SCOP: c.37.1.6

Probab=94.79  E-value=0.01  Score=49.11  Aligned_cols=36  Identities=17%  Similarity=0.233  Sum_probs=28.8

Q ss_pred             ccCCCCCcHHHHHHHHHHHHHhcCCCCeEEEEecCCCC
Q psy14655          3 ASSKGGVGKSTTTVNLATAMKICYPDKEIGILDADVFG   40 (261)
Q Consensus         3 ~s~KGGvGKTT~a~~lA~~la~~g~~~~VllvD~D~~~   40 (261)
                      +++-.|+||||+|..|+..+...|  .++.+||+|--.
T Consensus        10 ItG~sGSGKSTva~~L~~~lg~~~--~~~~vI~~D~~~   45 (290)
T 1a7j_A           10 VTGSSGAGTSTVKHTFDQIFRREG--VKAVSIEGDAFH   45 (290)
T ss_dssp             EESCC---CCTHHHHHHHHHHHHT--CCEEEEEGGGGB
T ss_pred             EECCCCCCHHHHHHHHHHHHhhcC--CCeeEeecchhh
Confidence            457789999999999999998888  899999999754

>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=94.76  E-value=0.038  Score=41.99  Aligned_cols=62  Identities=15%  Similarity=0.182  Sum_probs=42.7

Q ss_pred             CCCCEEEEeCCCCCChhHHHHhhhcCCCeEEEEeC-CCcchHHHHHHHHHHHHhC----CCCeEEEEEcCCCC
Q psy14655        105 GPCDILFIDTPPGTGDTHLSLIQNLFIDTAIIITI-PDTMSLQVAQRGYTMFKKL----NIPVAGLVMNMNSV  172 (261)
Q Consensus       105 ~~yd~IiiD~~~~~~~~~~~~~~~~~ad~viiv~~-~~~~s~~~~~~~~~~l~~~----~~~~~giv~N~~~~  172 (261)
                      ..+.+.|+|+++.....   .+..  +|.+++|.+ .+..++..+..++..+...    +.+ +.+|.|+.+.
T Consensus        65 ~~~~l~i~Dt~G~~~~~---~~~~--~~~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~p-iilv~nK~Dl  131 (184)
T 3ihw_A           65 QSYLLLIRDEGGPPELQ---FAAW--VDAVVFVFSLEDEISFQTVYNYFLRLCSFRNASEVP-MVLVGTQDAI  131 (184)
T ss_dssp             EEEEEEEEECSSSCCHH---HHHH--CSEEEEEEETTCHHHHHHHHHHHHHHHTTSCGGGSC-EEEEEECTTC
T ss_pred             EEEEEEEEECCCChhhh---eecC--CCEEEEEEECcCHHHHHHHHHHHHHHHHhcCCCCCC-EEEEEECccc
Confidence            34678889998643322   4455  899999988 4556677777777777654    344 5589999664

>2j69_A Bacterial dynamin-like protein; FZO, FZL, GTPase, hydrolase; 3.0A {Nostoc punctiforme} PDB: 2j68_A 2w6d_A*

Probab=94.75  E-value=0.063  Score=49.96  Aligned_cols=63  Identities=13%  Similarity=0.134  Sum_probs=39.9

Q ss_pred             CCEEEEeCCCCCC-----hhHHHHhhhcCCCeEEEEeCCCc-chHHHHHHHHHHHHhCCCCeEEEEEcCCCC
Q psy14655        107 CDILFIDTPPGTG-----DTHLSLIQNLFIDTAIIITIPDT-MSLQVAQRGYTMFKKLNIPVAGLVMNMNSV  172 (261)
Q Consensus       107 yd~IiiD~~~~~~-----~~~~~~~~~~~ad~viiv~~~~~-~s~~~~~~~~~~l~~~~~~~~giv~N~~~~  172 (261)
                      +++.|+|||+-..     ......+..  ||.+++|+.++. .+......+.+.+...+.+ +.+|+|+++.
T Consensus       174 ~~l~LiDTPGl~~~~~~~~~~~~~i~~--aD~vL~Vvda~~~~s~~e~~~l~~~l~~~~~~-iiiVlNK~Dl  242 (695)
T 2j69_A          174 KGIEIVDSPGLNDTEARNELSLGYVNN--CHAILFVMRASQPCTLGERRYLENYIKGRGLT-VFFLVNAWDQ  242 (695)
T ss_dssp             TTEEEEECCCHHHHHTCHHHHTHHHHS--SSEEEEEEETTSTTCHHHHHHHHHHTTTSCCC-EEEEEECGGG
T ss_pred             CCeEEEECCCCCchhhHHHHHHHHHHh--CCEEEEEEeCCCccchhHHHHHHHHHHhhCCC-EEEEEECccc
Confidence            6899999996221     222344444  999999998654 3444443333455555666 6689999664

>2gks_A Bifunctional SAT/APS kinase; transferase, sulfurylase; HET: ADP; 2.31A {Aquifex aeolicus}

Probab=94.73  E-value=0.016  Score=52.39  Aligned_cols=35  Identities=31%  Similarity=0.331  Sum_probs=31.5

Q ss_pred             cccCCCCCcHHHHHHHHHHHHHhcCCCCeEEEEecCC
Q psy14655          2 IASSKGGVGKSTTTVNLATAMKICYPDKEIGILDADV   38 (261)
Q Consensus         2 v~s~KGGvGKTT~a~~lA~~la~~g~~~~VllvD~D~   38 (261)
                      ++.+..|+||||++..|+..|..+|  .++.++|.|.
T Consensus       376 ~l~G~~GsGKSTia~~La~~L~~~G--~~~~~ld~D~  410 (546)
T 2gks_A          376 WLTGLPCAGKSTIAEILATMLQARG--RKVTLLDGDV  410 (546)
T ss_dssp             EEECSTTSSHHHHHHHHHHHHHHTT--CCEEEECHHH
T ss_pred             EccCCCCCCHHHHHHHHHHHhhhcC--CeEEEECchH
Confidence            4567889999999999999999999  9999999884

>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=94.73  E-value=0.17  Score=38.18  Aligned_cols=64  Identities=17%  Similarity=0.116  Sum_probs=41.2

Q ss_pred             CCCEEEEeCCCCCC---hhHHHHhhhcCCCeEEEEeCC-CcchHHHHHHHHHHHHh----CCCCeEEEEEcCCCC
Q psy14655        106 PCDILFIDTPPGTG---DTHLSLIQNLFIDTAIIITIP-DTMSLQVAQRGYTMFKK----LNIPVAGLVMNMNSV  172 (261)
Q Consensus       106 ~yd~IiiD~~~~~~---~~~~~~~~~~~ad~viiv~~~-~~~s~~~~~~~~~~l~~----~~~~~~giv~N~~~~  172 (261)
                      .+.+.|+|+|+...   ......+..  +|.+++|.+. +..+...+...++.+..    .+.+ +-+|.|+++.
T Consensus        68 ~~~~~l~Dt~G~~~~~~~~~~~~~~~--~d~iilv~D~~~~~s~~~~~~~~~~i~~~~~~~~~p-iilv~nK~Dl  139 (189)
T 1z06_A           68 RIKIQLWDTAGQERFRKSMVQHYYRN--VHAVVFVYDMTNMASFHSLPAWIEECKQHLLANDIP-RILVGNKCDL  139 (189)
T ss_dssp             EEEEEEEECCCSHHHHTTTHHHHHTT--CCEEEEEEETTCHHHHHTHHHHHHHHHHHCCCSCCC-EEEEEECTTC
T ss_pred             EEEEEEEECCCchhhhhhhhHHHhcC--CCEEEEEEECcCHHHHHHHHHHHHHHHHhcCCCCCC-EEEEEECccc
Confidence            46899999986322   122333444  8999999984 45566666666655543    2344 5689999764

>3hjn_A DTMP kinase, thymidylate kinase; ATP-binding, nucleotide biosynth nucleotide-binding, transferase, structural genomics; HET: ADP TYD; 2.10A {Thermotoga maritima}

Probab=94.69  E-value=0.025  Score=43.92  Aligned_cols=29  Identities=28%  Similarity=0.194  Sum_probs=26.0

Q ss_pred             CCCCCcHHHHHHHHHHHHHhcCCCCeEEEEe
Q psy14655          5 SKGGVGKSTTTVNLATAMKICYPDKEIGILD   35 (261)
Q Consensus         5 ~KGGvGKTT~a~~lA~~la~~g~~~~VllvD   35 (261)
                      +--|+||||.+..|+..|.++|  .+|++.-
T Consensus         7 G~DGsGKsTq~~~L~~~L~~~g--~~v~~tr   35 (197)
T 3hjn_A            7 GIDGSGKSTQIQLLAQYLEKRG--KKVILKR   35 (197)
T ss_dssp             CSTTSSHHHHHHHHHHHHHHTT--CCEEEEE
T ss_pred             CCCCCCHHHHHHHHHHHHHHCC--CcEEEEE
Confidence            5569999999999999999999  9998764

>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=94.68  E-value=0.1  Score=45.70  Aligned_cols=64  Identities=14%  Similarity=0.096  Sum_probs=35.6

Q ss_pred             CCCEEEEeCCCCCCh-----------hHHHHhhhcCCCeEEEEeCCCcchHHHHHHHHHHHHhCCCCeEEEEEcCCCC
Q psy14655        106 PCDILFIDTPPGTGD-----------THLSLIQNLFIDTAIIITIPDTMSLQVAQRGYTMFKKLNIPVAGLVMNMNSV  172 (261)
Q Consensus       106 ~yd~IiiD~~~~~~~-----------~~~~~~~~~~ad~viiv~~~~~~s~~~~~~~~~~l~~~~~~~~giv~N~~~~  172 (261)
                      +..+.|+|||+....           .....+..  ||.+++|++....--..-..+.+.+++.+.+ +-+|.|+++.
T Consensus        48 ~~~~~l~DT~G~~~~~~~~~~~~~~~~~~~~~~~--ad~il~V~D~~~~~~~~d~~i~~~l~~~~~p-~ilv~NK~D~  122 (439)
T 1mky_A           48 GKTFKLVDTCGVFDNPQDIISQKMKEVTLNMIRE--ADLVLFVVDGKRGITKEDESLADFLRKSTVD-TILVANKAEN  122 (439)
T ss_dssp             TEEEEEEECTTTTSSGGGCCCHHHHHHHHHHHTT--CSEEEEEEETTTCCCHHHHHHHHHHHHHTCC-EEEEEESCCS
T ss_pred             CeEEEEEECCCccccccchHHHHHHHHHHHHHHh--CCEEEEEEECCCCCCHHHHHHHHHHHHcCCC-EEEEEeCCCC
Confidence            446788888863321           11223344  8888888875432111113344555555666 4488898663

>1zo1_I IF2, translation initiation factor 2; E. coli, ribosome, initiation of protein synthesis, cryo-eletron microscopy, translation/RNA complex; 13.80A {Escherichia coli}

Probab=94.62  E-value=0.065  Score=47.78  Aligned_cols=66  Identities=18%  Similarity=0.160  Sum_probs=43.9

Q ss_pred             CCCCEEEEeCCCCCChh--HHHHhhhcCCCeEEEEeCCCcchHHHHHHHHHHHHhCCCCeEEEEEcCCCCC
Q psy14655        105 GPCDILFIDTPPGTGDT--HLSLIQNLFIDTAIIITIPDTMSLQVAQRGYTMFKKLNIPVAGLVMNMNSVL  173 (261)
Q Consensus       105 ~~yd~IiiD~~~~~~~~--~~~~~~~~~ad~viiv~~~~~~s~~~~~~~~~~l~~~~~~~~giv~N~~~~~  173 (261)
                      .++.+.|+|||+.....  ....+..  +|.+++|+..+.....++...+..+...+.+ +-+++|+++..
T Consensus        49 ~~~~i~~iDTPGhe~f~~~~~~~~~~--aD~aILVVda~~g~~~qT~e~l~~~~~~~vP-iIVviNKiDl~  116 (501)
T 1zo1_I           49 ENGMITFLDTPGHAAFTSMRARGAQA--TDIVVLVVAADDGVMPQTIEAIQHAKAAQVP-VVVAVNKIDKP  116 (501)
T ss_dssp             TSSCCCEECCCTTTCCTTSBCSSSBS--CSSEEEEEETTTBSCTTTHHHHHHHHHTTCC-EEEEEECSSSS
T ss_pred             CCEEEEEEECCCcHHHHHHHHHHHhh--CCEEEEEeecccCccHHHHHHHHHHHhcCce-EEEEEEecccc
Confidence            34578899999754322  1122233  8999999987665455555666667777888 66999998763

>4dkx_A RAS-related protein RAB-6A; GTP binding fold, membrane trafficking, GTP, cytosol, protei transport; HET: GDP; 1.90A {Homo sapiens} PDB: 3bbp_A*

Probab=94.57  E-value=0.24  Score=38.80  Aligned_cols=65  Identities=15%  Similarity=0.120  Sum_probs=44.7

Q ss_pred             CCCCEEEEeCCCCCC--hhHHHHhhhcCCCeEEEEeC-CCcchHHHHHHHHHHHHhC---CCCeEEEEEcCCCC
Q psy14655        105 GPCDILFIDTPPGTG--DTHLSLIQNLFIDTAIIITI-PDTMSLQVAQRGYTMFKKL---NIPVAGLVMNMNSV  172 (261)
Q Consensus       105 ~~yd~IiiD~~~~~~--~~~~~~~~~~~ad~viiv~~-~~~~s~~~~~~~~~~l~~~---~~~~~giv~N~~~~  172 (261)
                      ..+.+-|.||++.-.  .........  ++.+++|.. .+..++..+...++.+...   +. .+.+|.|+.+.
T Consensus        60 ~~v~l~iwDtaGqe~~~~l~~~~~~~--a~~~ilv~di~~~~Sf~~i~~~~~~i~~~~~~~~-piilVgNK~Dl  130 (216)
T 4dkx_A           60 RTIRLQLWDTAGLERFRSLIPSYIRD--SAAAVVVYDITNVNSFQQTTKWIDDVRTERGSDV-IIMLVGNKTDL  130 (216)
T ss_dssp             CEEEEEEECCSCTTTCGGGHHHHHTT--CSEEEEEEETTCHHHHHTHHHHHHHHHHHHTTSS-EEEEEEECTTC
T ss_pred             eEEEEEEEECCCchhhhhHHHHHhcc--ccEEEEEeecchhHHHHHHHHHHHHHHHhcCCCC-eEEEEeeccch
Confidence            456788999986432  223334444  899999988 6677888888887766543   33 46689999764

>1n0u_A EF-2, elongation factor 2; G-protein, CIS-proline, translation; HET: SO1; 2.12A {Saccharomyces cerevisiae} SCOP: b.43.3.1 c.37.1.8 d.14.1.1 d.58.11.1 d.58.11.1 PDB: 1n0v_C 1s1h_T 2e1r_A* 2npf_A* 2p8w_T* 3dny_T 3b82_A* 1zm2_A* 1zm3_A* 1zm4_A* 1zm9_A* 2p8x_T* 2p8y_T* 2p8z_T* 2zit_A* 1u2r_A* 3b78_A* 3b8h_A*

Probab=94.56  E-value=0.084  Score=50.23  Aligned_cols=64  Identities=14%  Similarity=0.039  Sum_probs=44.8

Q ss_pred             CCCCEEEEeCCCCCC--hhHHHHhhhcCCCeEEEEeCCCcchHHHHHHHHHHHHhCCCCeEEEEEcCCC
Q psy14655        105 GPCDILFIDTPPGTG--DTHLSLIQNLFIDTAIIITIPDTMSLQVAQRGYTMFKKLNIPVAGLVMNMNS  171 (261)
Q Consensus       105 ~~yd~IiiD~~~~~~--~~~~~~~~~~~ad~viiv~~~~~~s~~~~~~~~~~l~~~~~~~~giv~N~~~  171 (261)
                      ..+.+.|+|||+..+  ......+..  +|.+|+|++...............+...+.+. -+++|+.+
T Consensus        96 ~~~~i~liDTPG~~df~~~~~~~l~~--aD~ailVvDa~~g~~~qt~~~~~~~~~~~~p~-ilviNK~D  161 (842)
T 1n0u_A           96 NSFLINLIDSPGHVDFSSEVTAALRV--TDGALVVVDTIEGVCVQTETVLRQALGERIKP-VVVINKVD  161 (842)
T ss_dssp             SEEEEEEECCCCCCSSCHHHHHHHHT--CSEEEEEEETTTBSCHHHHHHHHHHHHTTCEE-EEEEECHH
T ss_pred             CCceEEEEECcCchhhHHHHHHHHHh--CCEEEEEEeCCCCCCHHHHHHHHHHHHcCCCe-EEEEECCC
Confidence            467899999997643  445555665  99999999976654444455555555667765 48999855

>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=94.50  E-value=0.026  Score=42.77  Aligned_cols=35  Identities=23%  Similarity=0.222  Sum_probs=29.5

Q ss_pred             ccCCCCCcHHHHHHHHHHHHHhcCCCCeEEEEecCCC
Q psy14655          3 ASSKGGVGKSTTTVNLATAMKICYPDKEIGILDADVF   39 (261)
Q Consensus         3 ~s~KGGvGKTT~a~~lA~~la~~g~~~~VllvD~D~~   39 (261)
                      +.+--|+||||++..|+..+...|  .+++.+|.|.-
T Consensus        10 l~G~~GsGKST~~~~L~~~l~~~g--~~~i~~d~~~~   44 (179)
T 2pez_A           10 LTGLSGAGKTTVSMALEEYLVCHG--IPCYTLDGDNI   44 (179)
T ss_dssp             EECCTTSSHHHHHHHHHHHHHHTT--CCEEEEEHHHH
T ss_pred             EECCCCCCHHHHHHHHHHHHhhCC--CcEEEECChHH
Confidence            456779999999999999988778  99988886654

>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=94.45  E-value=0.022  Score=44.49  Aligned_cols=35  Identities=26%  Similarity=0.143  Sum_probs=29.9

Q ss_pred             cccCCCCCcHHHHHHHHHHHHH-hcCCCCeEEEEecCC
Q psy14655          2 IASSKGGVGKSTTTVNLATAMK-ICYPDKEIGILDADV   38 (261)
Q Consensus         2 v~s~KGGvGKTT~a~~lA~~la-~~g~~~~VllvD~D~   38 (261)
                      ++.+--|+||||++..|+..+. ..|  .++..+|.|.
T Consensus        29 ~~~G~~GsGKsT~~~~l~~~l~~~~g--~~~~~~~~d~   64 (211)
T 1m7g_A           29 WLTGLSASGKSTLAVELEHQLVRDRR--VHAYRLDGDN   64 (211)
T ss_dssp             EEECSTTSSHHHHHHHHHHHHHHHHC--CCEEEECHHH
T ss_pred             EEECCCCCCHHHHHHHHHHHhccccC--CcEEEECChH
Confidence            3456789999999999999998 788  8999998664

>2qgz_A Helicase loader, putative primosome component; structural genomics, PSI-2, protein structure initiative; 2.40A {Streptococcus pyogenes serotype M3}

Probab=94.43  E-value=0.029  Score=46.81  Aligned_cols=34  Identities=18%  Similarity=0.105  Sum_probs=30.0

Q ss_pred             cccCCCCCcHHHHHHHHHHHHH-hcCCCCeEEEEecC
Q psy14655          2 IASSKGGVGKSTTTVNLATAMK-ICYPDKEIGILDAD   37 (261)
Q Consensus         2 v~s~KGGvGKTT~a~~lA~~la-~~g~~~~VllvD~D   37 (261)
                      +..+.-|+|||+++..+|..+. +.|  .+|+++.+.
T Consensus       156 ll~G~~GtGKT~La~aia~~~~~~~g--~~v~~~~~~  190 (308)
T 2qgz_A          156 YLYGDMGIGKSYLLAAMAHELSEKKG--VSTTLLHFP  190 (308)
T ss_dssp             EEECSTTSSHHHHHHHHHHHHHHHSC--CCEEEEEHH
T ss_pred             EEECCCCCCHHHHHHHHHHHHHHhcC--CcEEEEEHH
Confidence            4567789999999999999999 998  999998874

>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=94.39  E-value=0.028  Score=46.36  Aligned_cols=34  Identities=26%  Similarity=0.273  Sum_probs=29.6

Q ss_pred             ccCCCCCcHHHHHHHHHHHHHhc-CCCCeEEEEecCC
Q psy14655          3 ASSKGGVGKSTTTVNLATAMKIC-YPDKEIGILDADV   38 (261)
Q Consensus         3 ~s~KGGvGKTT~a~~lA~~la~~-g~~~~VllvD~D~   38 (261)
                      +.+.-|+||||++.++|..++.. |  .+|++++.+.
T Consensus        40 i~G~~G~GKTTl~~~ia~~~~~~~G--~~v~~~~~e~   74 (296)
T 1cr0_A           40 VTSGSGMGKSTFVRQQALQWGTAMG--KKVGLAMLEE   74 (296)
T ss_dssp             EEESTTSSHHHHHHHHHHHHHHTSC--CCEEEEESSS
T ss_pred             EEeCCCCCHHHHHHHHHHHHHHHcC--CeEEEEeCcC
Confidence            45677999999999999999976 7  8999999875

>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=94.39  E-value=0.021  Score=45.97  Aligned_cols=35  Identities=26%  Similarity=0.341  Sum_probs=28.6

Q ss_pred             ccCCCCCcHHHHHHHHHHHHHhc-----CCCCeEEEEecCCC
Q psy14655          3 ASSKGGVGKSTTTVNLATAMKIC-----YPDKEIGILDADVF   39 (261)
Q Consensus         3 ~s~KGGvGKTT~a~~lA~~la~~-----g~~~~VllvD~D~~   39 (261)
                      +.+--|+||||+|..|+..|...     +  .+|+++|+|--
T Consensus        27 I~G~~GSGKST~a~~L~~~lg~~~~d~~~--~~~~~i~~D~~   66 (252)
T 1uj2_A           27 VSGGTASGKSSVCAKIVQLLGQNEVDYRQ--KQVVILSQDSF   66 (252)
T ss_dssp             EECSTTSSHHHHHHHHHHHTTGGGSCGGG--CSEEEEEGGGG
T ss_pred             EECCCCCCHHHHHHHHHHHhhhhcccccC--CceEEEecCcc
Confidence            56778999999999999887643     5  78999999854

>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=94.36  E-value=0.02  Score=48.10  Aligned_cols=35  Identities=14%  Similarity=0.111  Sum_probs=29.8

Q ss_pred             ccCCCCCcHHHHHHHHHHHHHhc------CCCCeEEEEecCCC
Q psy14655          3 ASSKGGVGKSTTTVNLATAMKIC------YPDKEIGILDADVF   39 (261)
Q Consensus         3 ~s~KGGvGKTT~a~~lA~~la~~------g~~~~VllvD~D~~   39 (261)
                      +.+..|+||||++.++|..++..      +  .+|++||++..
T Consensus       112 i~G~~GsGKT~la~~la~~~~~~~~~gg~~--~~vlyi~~e~~  152 (324)
T 2z43_A          112 FFGEFGSGKTQLCHQLSVNVQLPPEKGGLS--GKAVYIDTEGT  152 (324)
T ss_dssp             EEESTTSSHHHHHHHHHHHTTSCGGGTCCS--CEEEEEESSSC
T ss_pred             EECCCCCCHhHHHHHHHHHHhcccccCCCC--CeEEEEECCCC
Confidence            45667999999999999987765      6  89999999875

>2p65_A Hypothetical protein PF08_0063; CLPB, malaria, structural genomics, structural genomics consortium, SGC, unknown function; 1.70A {Plasmodium falciparum}

Probab=94.31  E-value=0.024  Score=42.70  Aligned_cols=33  Identities=27%  Similarity=0.276  Sum_probs=25.1

Q ss_pred             cccCCCCCcHHHHHHHHHHHHHhc-------CCCCeEEEEec
Q psy14655          2 IASSKGGVGKSTTTVNLATAMKIC-------YPDKEIGILDA   36 (261)
Q Consensus         2 v~s~KGGvGKTT~a~~lA~~la~~-------g~~~~VllvD~   36 (261)
                      ++.+..|+||||++..++..+...       +  .+++.+++
T Consensus        47 ll~G~~G~GKT~la~~~~~~~~~~~~~~~~~~--~~~~~~~~   86 (187)
T 2p65_A           47 ILLGDPGVGKTAIVEGLAIKIVQGDVPDSLKG--RKLVSLDL   86 (187)
T ss_dssp             EEESCGGGCHHHHHHHHHHHHHTTCSCTTTTT--CEEEEECH
T ss_pred             EEECCCCCCHHHHHHHHHHHHHhcCCcchhcC--CeEEEEeH
Confidence            456778999999999999998773       4  55655544

>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=94.23  E-value=0.03  Score=43.28  Aligned_cols=35  Identities=31%  Similarity=0.245  Sum_probs=29.1

Q ss_pred             ccCCCCCcHHHHHHHHHHHHHhcCCCCeEEEEecCCC
Q psy14655          3 ASSKGGVGKSTTTVNLATAMKICYPDKEIGILDADVF   39 (261)
Q Consensus         3 ~s~KGGvGKTT~a~~lA~~la~~g~~~~VllvD~D~~   39 (261)
                      +.+--|+||||++..||..+...|  ..+.++|.|.-
T Consensus        30 l~G~sGsGKSTl~~~La~~l~~~G--~~~~~~d~d~~   64 (200)
T 3uie_A           30 VTGLSGSGKSTLACALNQMLYQKG--KLCYILDGDNV   64 (200)
T ss_dssp             EECSTTSSHHHHHHHHHHHHHHTT--CCEEEEEHHHH
T ss_pred             EECCCCCCHHHHHHHHHHHHHhcC--ceEEEecCchh
Confidence            456779999999999999998777  77788887743

>2pbr_A DTMP kinase, thymidylate kinase; transferase, nucleotide biosynthesis, TMP-binding, A binding, structural genomics, NPPSFA; 1.96A {Aquifex aeolicus}

Probab=94.11  E-value=0.042  Score=41.88  Aligned_cols=32  Identities=19%  Similarity=0.121  Sum_probs=26.4

Q ss_pred             cccCCCCCcHHHHHHHHHHHHHhcCCCCeEEEEe
Q psy14655          2 IASSKGGVGKSTTTVNLATAMKICYPDKEIGILD   35 (261)
Q Consensus         2 v~s~KGGvGKTT~a~~lA~~la~~g~~~~VllvD   35 (261)
                      ++.+--|+||||++..|+..+...|  .+++-.|
T Consensus         4 ~l~G~~GsGKsT~~~~L~~~l~~~g--~~~i~~d   35 (195)
T 2pbr_A            4 AFEGIDGSGKTTQAKKLYEYLKQKG--YFVSLYR   35 (195)
T ss_dssp             EEECSTTSCHHHHHHHHHHHHHHTT--CCEEEEE
T ss_pred             EEECCCCCCHHHHHHHHHHHHHHCC--CeEEEEe
Confidence            3556789999999999999998888  8876554

>2kjq_A DNAA-related protein; solution structure, NESG, structural genomics, PSI-2, protei structure initiative; NMR {Neisseria meningitidis serogroup B}

Probab=94.08  E-value=0.027  Score=41.61  Aligned_cols=33  Identities=21%  Similarity=0.155  Sum_probs=28.4

Q ss_pred             ccCCCCCcHHHHHHHHHHHHHhcCCCCeEEEEecC
Q psy14655          3 ASSKGGVGKSTTTVNLATAMKICYPDKEIGILDAD   37 (261)
Q Consensus         3 ~s~KGGvGKTT~a~~lA~~la~~g~~~~VllvD~D   37 (261)
                      ..+.-|+||||++..++..+...|  .+++.++..
T Consensus        41 l~G~~G~GKTtL~~~i~~~~~~~g--~~~~~~~~~   73 (149)
T 2kjq_A           41 VWGEEGAGKSHLLQAWVAQALEAG--KNAAYIDAA   73 (149)
T ss_dssp             EESSSTTTTCHHHHHHHHHHHTTT--CCEEEEETT
T ss_pred             EECCCCCCHHHHHHHHHHHHHhcC--CcEEEEcHH
Confidence            456789999999999999998878  889888764

>3mca_A HBS1, elongation factor 1 alpha-like protein; protein protein complex, translation regulation; 2.74A {Schizosaccharomyces pombe}

Probab=94.06  E-value=0.0061  Score=55.68  Aligned_cols=66  Identities=11%  Similarity=0.018  Sum_probs=34.9

Q ss_pred             CCCCEEEEeCCCCCCh--hHHHHhhhcCCCeEEEEeCCCcch-------HHHHHHHHHHHHhCCCCeEEEEEcCCCC
Q psy14655        105 GPCDILFIDTPPGTGD--THLSLIQNLFIDTAIIITIPDTMS-------LQVAQRGYTMFKKLNIPVAGLVMNMNSV  172 (261)
Q Consensus       105 ~~yd~IiiD~~~~~~~--~~~~~~~~~~ad~viiv~~~~~~s-------~~~~~~~~~~l~~~~~~~~giv~N~~~~  172 (261)
                      .++.+.|+|||+....  .....+..  ||.+|+|+..+...       ...+...+..+...+.+.+-+|+|+++.
T Consensus       253 ~~~~i~iiDTPGh~~f~~~~~~~~~~--aD~alLVVDa~~g~~e~gi~~~~qt~e~l~~~~~lgip~iIvviNKiDl  327 (592)
T 3mca_A          253 DKKIYEIGDAPGHRDFISGMIAGASS--ADFAVLVVDSSQNNFERGFLENGQTREHAYLLRALGISEIVVSVNKLDL  327 (592)
T ss_dssp             ------CCEEESSSEEEEECCC---------CCSEEEEEECCSSTTSCSCSSHHHHHHHHHHSSCCCEEEEEECGGG
T ss_pred             CCeEEEEEECCChHHHHHHHHHHHhh--CCEEEEEEECCCCccccccccchHHHHHHHHHHHcCCCeEEEEEecccc
Confidence            5678999999974321  12223333  89999998865421       3455566677777888767789999664

>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=93.93  E-value=0.035  Score=47.03  Aligned_cols=35  Identities=17%  Similarity=0.132  Sum_probs=29.5

Q ss_pred             ccCCCCCcHHHHHHHHHHHHHh------cCCCCeEEEEecCCC
Q psy14655          3 ASSKGGVGKSTTTVNLATAMKI------CYPDKEIGILDADVF   39 (261)
Q Consensus         3 ~s~KGGvGKTT~a~~lA~~la~------~g~~~~VllvD~D~~   39 (261)
                      +.+..|+||||++.++|...+.      .+  .+|++||++..
T Consensus       127 I~G~~GsGKTtla~~la~~~~~~~~~gg~~--~~vlyi~~E~~  167 (343)
T 1v5w_A          127 AFGEFRTGKTQLSHTLCVTAQLPGAGGYPG--GKIIFIDTENT  167 (343)
T ss_dssp             EECCTTCTHHHHHHHHHHHTTSCBTTTBCC--CEEEEEESSSC
T ss_pred             EECCCCCCHHHHHHHHHHHHhcccccCCCC--CeEEEEECCCC
Confidence            4567799999999999998665      46  89999999875

>4i1u_A Dephospho-COA kinase; structural genomics, niaid, national institute of allergy AN infectious diseases; 2.05A {Burkholderia vietnamiensis} PDB: 4i1v_A*

Probab=93.87  E-value=0.22  Score=38.97  Aligned_cols=37  Identities=8%  Similarity=0.130  Sum_probs=23.8

Q ss_pred             CCCEEEEeCCCCCChhHHHHhhhcCCCeEEEEeCCCcchHH
Q psy14655        106 PCDILFIDTPPGTGDTHLSLIQNLFIDTAIIITIPDTMSLQ  146 (261)
Q Consensus       106 ~yd~IiiD~~~~~~~~~~~~~~~~~ad~viiv~~~~~~s~~  146 (261)
                      ...+||+|.|=-+...  .....  +|.+|+|..|....+.
T Consensus       111 ~~~~vv~d~pLL~E~~--~~~~~--~D~vi~V~ap~e~r~~  147 (210)
T 4i1u_A          111 QGPYVIFVVPLLVESR--NWKAR--CDRVLVVDCPVDTQIA  147 (210)
T ss_dssp             CSSSEEEECTTCTTCH--HHHHH--CSEEEEEECCHHHHHH
T ss_pred             CCCEEEEEEecccccC--Ccccc--CCeEEEEECCHHHHHH
Confidence            4578999998544412  22233  8999998877655443

>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=93.76  E-value=0.11  Score=40.21  Aligned_cols=66  Identities=11%  Similarity=0.085  Sum_probs=37.1

Q ss_pred             CCCEEEEeCCCCCCh--hHHHHhhh--cCCCeEEEEeCCC--cchHHHHHHHHHHH-Hh------CCCCeEEEEEcCCCC
Q psy14655        106 PCDILFIDTPPGTGD--THLSLIQN--LFIDTAIIITIPD--TMSLQVAQRGYTMF-KK------LNIPVAGLVMNMNSV  172 (261)
Q Consensus       106 ~yd~IiiD~~~~~~~--~~~~~~~~--~~ad~viiv~~~~--~~s~~~~~~~~~~l-~~------~~~~~~giv~N~~~~  172 (261)
                      .+.+.|+|+|+....  .....+..  ..+|.+++|++.+  ..++......+..+ ..      .+.+ +.+|.|+.+.
T Consensus        54 ~~~~~l~Dt~G~~~~~~~~~~~~~~~~~~~~~~i~v~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p-~ilv~nK~Dl  132 (218)
T 1nrj_B           54 GSGVTLVDFPGHVKLRYKLSDYLKTRAKFVKGLIFMVDSTVDPKKLTTTAEFLVDILSITESSCENGID-ILIACNKSEL  132 (218)
T ss_dssp             GSSCEEEECCCCGGGTHHHHHHHHHHGGGEEEEEEEEETTSCTTCCHHHHHHHHHHHHHHHHHSTTCCC-EEEEEECTTS
T ss_pred             CceEEEEECCCcHHHHHHHHHHHHhccccCCEEEEEEECCCChHHHHHHHHHHHHHHhcccccccCCCC-EEEEEEchHh
Confidence            568999999864321  11112211  0167888888754  34555555544433 21      2444 6699999775

>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=93.73  E-value=0.07  Score=41.02  Aligned_cols=64  Identities=17%  Similarity=0.091  Sum_probs=40.8

Q ss_pred             CCCEEEEeCCCCC--ChhHHHHhhhcCCCeEEEEeCC-CcchHHHHHHHHHHHHhC---CCCeEEEEEcCCCC
Q psy14655        106 PCDILFIDTPPGT--GDTHLSLIQNLFIDTAIIITIP-DTMSLQVAQRGYTMFKKL---NIPVAGLVMNMNSV  172 (261)
Q Consensus       106 ~yd~IiiD~~~~~--~~~~~~~~~~~~ad~viiv~~~-~~~s~~~~~~~~~~l~~~---~~~~~giv~N~~~~  172 (261)
                      .+.+.|+|+|+..  .......+..  +|.+++|... +..+...+...+..+...   +. .+.+|.|+.+.
T Consensus        73 ~~~l~l~Dt~G~~~~~~~~~~~~~~--~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~-piilv~nK~Dl  142 (200)
T 2o52_A           73 TVKLQIWDTAGQERFRSVTRSYYRG--AAGALLVYDITSRETYNSLAAWLTDARTLASPNI-VVILCGNKKDL  142 (200)
T ss_dssp             EEEEEEECCTTHHHHSCCCHHHHTT--CSEEEEEEETTCHHHHHTHHHHHHHHHHHTCTTC-EEEEEEECGGG
T ss_pred             eeEEEEEcCCCcHhHHHHHHHHhcc--CCEEEEEEECcCHHHHHHHHHHHHHHHHhcCCCC-cEEEEEECCCc
Confidence            3688999998632  1122334444  8999999984 445666666666655442   33 46689999664

>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=93.70  E-value=0.031  Score=42.09  Aligned_cols=31  Identities=19%  Similarity=0.175  Sum_probs=24.1

Q ss_pred             cccCCCCCcHHHHHHHHHHHHHhcCCCCeEEEEecC
Q psy14655          2 IASSKGGVGKSTTTVNLATAMKICYPDKEIGILDAD   37 (261)
Q Consensus         2 v~s~KGGvGKTT~a~~lA~~la~~g~~~~VllvD~D   37 (261)
                      ++++-.|+||||++..||..|   +  ...+.++.|
T Consensus         7 ~l~G~~GsGKST~a~~La~~l---~--~~~~~~~~D   37 (178)
T 1qhx_A            7 ILNGGSSAGKSGIVRCLQSVL---P--EPWLAFGVD   37 (178)
T ss_dssp             EEECCTTSSHHHHHHHHHHHS---S--SCEEEEEHH
T ss_pred             EEECCCCCCHHHHHHHHHHhc---C--CCeEEeccc
Confidence            567889999999999988765   3  455666676

>2orw_A Thymidine kinase; TMTK, TP4A, transferase; HET: 4TA; 1.50A {Thermotoga maritima} PDB: 2qpo_A 2qq0_A* 2qqe_A*

Probab=93.63  E-value=0.056  Score=41.38  Aligned_cols=30  Identities=17%  Similarity=0.273  Sum_probs=26.0

Q ss_pred             cCCCCCcHHHHHHHHHHHHHhcCCCCeEEEEe
Q psy14655          4 SSKGGVGKSTTTVNLATAMKICYPDKEIGILD   35 (261)
Q Consensus         4 s~KGGvGKTT~a~~lA~~la~~g~~~~VllvD   35 (261)
                      .+--|+||||++..++..+...|  ++|+++-
T Consensus         9 ~G~~gsGKTT~ll~~~~~~~~~g--~~v~~~~   38 (184)
T 2orw_A            9 TGPMYSGKTTELLSFVEIYKLGK--KKVAVFK   38 (184)
T ss_dssp             EESTTSSHHHHHHHHHHHHHHTT--CEEEEEE
T ss_pred             ECCCCCCHHHHHHHHHHHHHHCC--CeEEEEe
Confidence            44459999999999999999999  9999874

>2elf_A Protein translation elongation factor 1A; tRNA, pyrrolysine, structural genomics, NPPSFA; HET: CIT; 1.70A {Methanosarcina mazei}

Probab=93.54  E-value=0.23  Score=42.49  Aligned_cols=64  Identities=9%  Similarity=0.071  Sum_probs=48.0

Q ss_pred             CCCCEEEEeCCCCCCh--hHHHHhhhcCCCeEEEEeCCCcchHHHHHHHHHHHHhCCCCeEEEEEc-CCC
Q psy14655        105 GPCDILFIDTPPGTGD--THLSLIQNLFIDTAIIITIPDTMSLQVAQRGYTMFKKLNIPVAGLVMN-MNS  171 (261)
Q Consensus       105 ~~yd~IiiD~~~~~~~--~~~~~~~~~~ad~viiv~~~~~~s~~~~~~~~~~l~~~~~~~~giv~N-~~~  171 (261)
                      .++.+.|+|||+....  .....+..  +|.+++|++ +.....++...+..+...+.+.+-+++| +++
T Consensus        58 ~~~~i~iiDtPGh~~f~~~~~~~~~~--aD~ailVvd-~~g~~~qt~e~~~~~~~~~i~~~ivvvNNK~D  124 (370)
T 2elf_A           58 EGRNMVFVDAHSYPKTLKSLITALNI--SDIAVLCIP-PQGLDAHTGECIIALDLLGFKHGIIALTRSDS  124 (370)
T ss_dssp             SSSEEEEEECTTTTTCHHHHHHHHHT--CSEEEEEEC-TTCCCHHHHHHHHHHHHTTCCEEEEEECCGGG
T ss_pred             CCeEEEEEECCChHHHHHHHHHHHHH--CCEEEEEEc-CCCCcHHHHHHHHHHHHcCCCeEEEEEEeccC
Confidence            5678999999976443  22333444  999999999 7777777888888888888887567888 855

>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=93.50  E-value=0.049  Score=43.12  Aligned_cols=35  Identities=14%  Similarity=0.066  Sum_probs=28.2

Q ss_pred             ccCCCCCcHHHHHHHHHHHHHh------cCCCCeEEEEecCCC
Q psy14655          3 ASSKGGVGKSTTTVNLATAMKI------CYPDKEIGILDADVF   39 (261)
Q Consensus         3 ~s~KGGvGKTT~a~~lA~~la~------~g~~~~VllvD~D~~   39 (261)
                      +.+..|+||||++..+|...+.      .+  .+|+++|....
T Consensus        29 i~G~~GsGKTtl~~~l~~~~~~~~~~g~~~--~~~~~i~~~~~   69 (243)
T 1n0w_A           29 MFGEFRTGKTQICHTLAVTCQLPIDRGGGE--GKAMYIDTEGT   69 (243)
T ss_dssp             EECCTTSSHHHHHHHHHHHTTSCGGGTCCS--SEEEEEESSSC
T ss_pred             EECCCCCcHHHHHHHHHHHHhCchhcCCCC--CeEEEEECCCC
Confidence            4567899999999999986543      35  89999998864

>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=93.48  E-value=0.055  Score=44.21  Aligned_cols=35  Identities=29%  Similarity=0.234  Sum_probs=27.2

Q ss_pred             ccCCCCCcHHHHHHHHHHHHHhc----------CCCCeEEEEecCCC
Q psy14655          3 ASSKGGVGKSTTTVNLATAMKIC----------YPDKEIGILDADVF   39 (261)
Q Consensus         3 ~s~KGGvGKTT~a~~lA~~la~~----------g~~~~VllvD~D~~   39 (261)
                      +.+..|+||||++.+++..++..          +  .+|++++....
T Consensus        35 i~G~~GsGKTtl~~~l~~~~~~g~~~~g~~~~~~--~~v~~~~~e~~   79 (279)
T 1nlf_A           35 LVSPGGAGKSMLALQLAAQIAGGPDLLEVGELPT--GPVIYLPAEDP   79 (279)
T ss_dssp             EEESTTSSHHHHHHHHHHHHHTCCCTTCCCCCCC--CCEEEEESSSC
T ss_pred             EEcCCCCCHHHHHHHHHHHHhcCCCcCCCccCCC--ccEEEEECCCC
Confidence            45678999999999999987753          3  57888877643

>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=93.47  E-value=0.054  Score=45.18  Aligned_cols=35  Identities=17%  Similarity=0.017  Sum_probs=30.2

Q ss_pred             cccCCCCCcHHHHHHHHHHHHHhcCCCCeEEEEecCC
Q psy14655          2 IASSKGGVGKSTTTVNLATAMKICYPDKEIGILDADV   38 (261)
Q Consensus         2 v~s~KGGvGKTT~a~~lA~~la~~g~~~~VllvD~D~   38 (261)
                      ++.+.-|+||||++..++..+...+  .+++.+++..
T Consensus        41 ll~G~~GtGKT~la~~i~~~~~~~~--~~~~~i~~~~   75 (324)
T 1l8q_A           41 FIYGSVGTGKTHLLQAAGNEAKKRG--YRVIYSSADD   75 (324)
T ss_dssp             EEECSSSSSHHHHHHHHHHHHHHTT--CCEEEEEHHH
T ss_pred             EEECCCCCcHHHHHHHHHHHHHHCC--CEEEEEEHHH
Confidence            3456779999999999999998888  9999998753

>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=93.43  E-value=0.049  Score=46.32  Aligned_cols=35  Identities=9%  Similarity=0.084  Sum_probs=29.9

Q ss_pred             cccCCCCCcHHHHHHHHHHHHHhc--------CCCCeEEEEecCC
Q psy14655          2 IASSKGGVGKSTTTVNLATAMKIC--------YPDKEIGILDADV   38 (261)
Q Consensus         2 v~s~KGGvGKTT~a~~lA~~la~~--------g~~~~VllvD~D~   38 (261)
                      ++.+..|+||||++..++..+...        +  ..++.+++..
T Consensus        49 ll~G~~G~GKT~la~~l~~~~~~~~~~~~~~~~--~~~~~i~~~~   91 (384)
T 2qby_B           49 LFLGLTGTGKTFVSKYIFNEIEEVKKEDEEYKD--VKQAYVNCRE   91 (384)
T ss_dssp             EEEECTTSSHHHHHHHHHHHHHHHHHHSSSSTT--CEEEEEEHHH
T ss_pred             EEECCCCCCHHHHHHHHHHHHHHHhhhhcCCCC--ceEEEEECcc
Confidence            456788999999999999999776        7  8999999754

>3e2i_A Thymidine kinase; Zn-binding, ATP-binding, DNA synthesis, nucleotide-B transferase; HET: MSE; 2.01A {Staphylococcus aureus}

Probab=93.16  E-value=0.057  Score=42.50  Aligned_cols=27  Identities=11%  Similarity=0.005  Sum_probs=24.1

Q ss_pred             CCCcHHHHHHHHHHHHHhcCCCCeEEEEe
Q psy14655          7 GGVGKSTTTVNLATAMKICYPDKEIGILD   35 (261)
Q Consensus         7 GGvGKTT~a~~lA~~la~~g~~~~VllvD   35 (261)
                      =|+||||.....+..+...|  ++|+++-
T Consensus        37 M~sGKTT~Llr~~~r~~~~g--~kvli~k   63 (219)
T 3e2i_A           37 MFSGKSEELIRRLRRGIYAK--QKVVVFK   63 (219)
T ss_dssp             TTSCHHHHHHHHHHHHHHTT--CCEEEEE
T ss_pred             CCCCHHHHHHHHHHHHHHcC--CceEEEE
Confidence            48999999999999999888  9999983

>1f60_A Elongation factor EEF1A; protein-protein complex, translation; 1.67A {Saccharomyces cerevisiae} SCOP: b.43.3.1 b.44.1.1 c.37.1.8 PDB: 1g7c_A* 1ije_A* 1ijf_A* 2b7b_A* 2b7c_A

Probab=93.10  E-value=0.3  Score=42.94  Aligned_cols=68  Identities=13%  Similarity=0.062  Sum_probs=45.3

Q ss_pred             CCCCEEEEeCCCCCChhHHHHhhhcCCCeEEEEeCCCcchHH-------HHHHHHHHHHhCCCCeEEEEEcCCCC
Q psy14655        105 GPCDILFIDTPPGTGDTHLSLIQNLFIDTAIIITIPDTMSLQ-------VAQRGYTMFKKLNIPVAGLVMNMNSV  172 (261)
Q Consensus       105 ~~yd~IiiD~~~~~~~~~~~~~~~~~ad~viiv~~~~~~s~~-------~~~~~~~~l~~~~~~~~giv~N~~~~  172 (261)
                      .++.++|+|||+..............+|.+++|++.+.....       .....+..+...+.+.+-+++|+++.
T Consensus        83 ~~~~~~iiDtPGh~~f~~~~~~~~~~aD~~ilVvda~~g~~~~sf~~~~qt~~~~~~~~~~~v~~iivviNK~Dl  157 (458)
T 1f60_A           83 PKYQVTVIDAPGHRDFIKNMITGTSQADCAILIIAGGVGEFEAGISKDGQTREHALLAFTLGVRQLIVAVNKMDS  157 (458)
T ss_dssp             SSEEEEEEECCCCTTHHHHHHHSSSCCSEEEEEEECSHHHHHHHTCTTSHHHHHHHHHHHTTCCEEEEEEECGGG
T ss_pred             CCceEEEEECCCcHHHHHHHHhhhhhCCEEEEEEeCCcCccccccCcchhHHHHHHHHHHcCCCeEEEEEEcccc
Confidence            567899999997544322222222228999999998765443       45555666666777767789999664

>3j2k_7 ERF3, eukaryotic polypeptide chain release factor 3; rabbit 80S ribosome, ribosome-translation complex; 17.00A {Oryctolagus cuniculus}

Probab=93.00  E-value=0.21  Score=43.72  Aligned_cols=66  Identities=9%  Similarity=0.058  Sum_probs=46.5

Q ss_pred             CCCCEEEEeCCCCCChh--HHHHhhhcCCCeEEEEeCCCcchH-------HHHHHHHHHHHhCCCCeEEEEEcCCCC
Q psy14655        105 GPCDILFIDTPPGTGDT--HLSLIQNLFIDTAIIITIPDTMSL-------QVAQRGYTMFKKLNIPVAGLVMNMNSV  172 (261)
Q Consensus       105 ~~yd~IiiD~~~~~~~~--~~~~~~~~~ad~viiv~~~~~~s~-------~~~~~~~~~l~~~~~~~~giv~N~~~~  172 (261)
                      .++.++|+|||+.....  ....+..  ||.+++|+..+....       .+....+..+...+.+.+-+++|+++.
T Consensus        93 ~~~~~~iiDTPGh~~f~~~~~~~~~~--aD~~ilVVDa~~g~~e~~~~~~~qt~e~l~~~~~~~v~~iIvviNK~Dl  167 (439)
T 3j2k_7           93 EKKHFTILDAPGHKSFVPNMIGGASQ--ADLAVLVISARKGEFETGFEKGGQTREHAMLAKTAGVKHLIVLINKMDD  167 (439)
T ss_pred             CCeEEEEEECCChHHHHHHHHhhHhh--CCEEEEEEECCCCccccccCCCchHHHHHHHHHHcCCCeEEEEeecCCC
Confidence            56799999999754322  2233333  999999999776543       356666777777788866689999774

>2v1u_A Cell division control protein 6 homolog; DNA replication, nucleotide-binding, replication, archaea; HET: ADP; 3.10A {Aeropyrum pernix}

Probab=92.95  E-value=0.087  Score=44.64  Aligned_cols=37  Identities=11%  Similarity=0.035  Sum_probs=30.7

Q ss_pred             cccCCCCCcHHHHHHHHHHHHHhc------CCCCeEEEEecCCCC
Q psy14655          2 IASSKGGVGKSTTTVNLATAMKIC------YPDKEIGILDADVFG   40 (261)
Q Consensus         2 v~s~KGGvGKTT~a~~lA~~la~~------g~~~~VllvD~D~~~   40 (261)
                      ++.+..|+||||++..++..+...      +  ..++.+++....
T Consensus        48 ll~G~~G~GKT~l~~~~~~~~~~~~~~~~~~--~~~~~i~~~~~~   90 (387)
T 2v1u_A           48 LLYGLTGTGKTAVARLVLRRLEARASSLGVL--VKPIYVNARHRE   90 (387)
T ss_dssp             EECBCTTSSHHHHHHHHHHHHHHHHHHHTCC--EEEEEEETTTSC
T ss_pred             EEECCCCCCHHHHHHHHHHHHHHHHhccCCC--eEEEEEECCcCC
Confidence            467889999999999999999775      6  888888876543

>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=92.84  E-value=0.068  Score=45.26  Aligned_cols=36  Identities=8%  Similarity=0.038  Sum_probs=30.3

Q ss_pred             cccCCCCCcHHHHHHHHHHHHHhc---CCCCeEEEEecCCC
Q psy14655          2 IASSKGGVGKSTTTVNLATAMKIC---YPDKEIGILDADVF   39 (261)
Q Consensus         2 v~s~KGGvGKTT~a~~lA~~la~~---g~~~~VllvD~D~~   39 (261)
                      ++.+..|+||||++..++..+...   +  ..++.+++...
T Consensus        49 li~G~~G~GKTtl~~~l~~~~~~~~~~~--~~~~~i~~~~~   87 (386)
T 2qby_A           49 FIYGLTGTGKTAVVKFVLSKLHKKFLGK--FKHVYINTRQI   87 (386)
T ss_dssp             EEEECTTSSHHHHHHHHHHHHHHHTCSS--CEEEEEEHHHH
T ss_pred             EEECCCCCCHHHHHHHHHHHHHHHhcCC--ceEEEEECCCC
Confidence            456788999999999999998876   6  89999997643

>1zun_B Sulfate adenylate transferase, subunit 1/adenylylsulfate kinase; beta barrel, switch domain, heterodimer, pyrophosphate, G protein; HET: GDP AGS; 2.70A {Pseudomonas syringae PV} SCOP: b.43.3.1 b.44.1.1 c.37.1.8

Probab=92.78  E-value=0.31  Score=42.49  Aligned_cols=66  Identities=17%  Similarity=0.082  Sum_probs=46.8

Q ss_pred             CCCCEEEEeCCCCCCh--hHHHHhhhcCCCeEEEEeCCCcchHHHHHHHHHHHHhCCCCeEEEEEcCCCC
Q psy14655        105 GPCDILFIDTPPGTGD--THLSLIQNLFIDTAIIITIPDTMSLQVAQRGYTMFKKLNIPVAGLVMNMNSV  172 (261)
Q Consensus       105 ~~yd~IiiD~~~~~~~--~~~~~~~~~~ad~viiv~~~~~~s~~~~~~~~~~l~~~~~~~~giv~N~~~~  172 (261)
                      ..+.+.|+|||+....  .....+..  +|.+++|+..+..........+..+...+.+.+-+++|+++.
T Consensus       102 ~~~~~~iiDtpGh~~f~~~~~~~~~~--aD~~ilVvDa~~g~~~qt~~~l~~~~~~~~~~iIvviNK~Dl  169 (434)
T 1zun_B          102 AKRKFIIADTPGHEQYTRNMATGAST--CDLAIILVDARYGVQTQTRRHSYIASLLGIKHIVVAINKMDL  169 (434)
T ss_dssp             SSEEEEEEECCCSGGGHHHHHHHHTT--CSEEEEEEETTTCSCHHHHHHHHHHHHTTCCEEEEEEECTTT
T ss_pred             CCceEEEEECCChHHHHHHHHHHHhh--CCEEEEEEECCCCCcHHHHHHHHHHHHcCCCeEEEEEEcCcC
Confidence            4567999999974432  22233344  999999999776655666666677777777767789999774

>1h65_A Chloroplast outer envelope protein OEP34; GTPase, translocon; HET: GDP; 2.0A {Pisum sativum} SCOP: c.37.1.8 PDB: 3bb1_A*

Probab=92.76  E-value=0.065  Score=43.54  Aligned_cols=68  Identities=16%  Similarity=0.135  Sum_probs=36.6

Q ss_pred             CCCCEEEEeCCCCCC-----hhHHHHhh----hcCCCeEEEEeCCCcchHHHH-HHHHHHHHhC-CC---CeEEEEEcCC
Q psy14655        105 GPCDILFIDTPPGTG-----DTHLSLIQ----NLFIDTAIIITIPDTMSLQVA-QRGYTMFKKL-NI---PVAGLVMNMN  170 (261)
Q Consensus       105 ~~yd~IiiD~~~~~~-----~~~~~~~~----~~~ad~viiv~~~~~~s~~~~-~~~~~~l~~~-~~---~~~giv~N~~  170 (261)
                      .++.+.|+|||+...     ......+.    ...+|.+++|...+..++... ..+++.+.+. +.   ..+.+|+|+.
T Consensus        85 ~~~~l~iiDTpG~~~~~~~~~~~~~~i~~~~~~~~~d~il~v~~~d~~~~~~~~~~~~~~l~~~~~~~~~~~iivV~nK~  164 (270)
T 1h65_A           85 AGFTLNIIDTPGLIEGGYINDMALNIIKSFLLDKTIDVLLYVDRLDAYRVDNLDKLVAKAITDSFGKGIWNKAIVALTHA  164 (270)
T ss_dssp             TTEEEEEEECCCSEETTEECHHHHHHHHHHTTTCEECEEEEEEESSCCCCCHHHHHHHHHHHHHHCGGGGGGEEEEEECC
T ss_pred             CCeEEEEEECCCCCCCccchHHHHHHHHHHhhcCCCCEEEEEEeCCCCcCCHHHHHHHHHHHHHhCcccccCEEEEEECc
Confidence            456899999996422     11111111    012788999965544333222 2445555432 32   2466999997


Q ss_pred             CC
Q psy14655        171 SV  172 (261)
Q Consensus       171 ~~  172 (261)
                      +.
T Consensus       165 Dl  166 (270)
T 1h65_A          165 QF  166 (270)
T ss_dssp             SC
T ss_pred             cc
Confidence            64

>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=92.69  E-value=0.065  Score=47.88  Aligned_cols=36  Identities=8%  Similarity=0.097  Sum_probs=29.8

Q ss_pred             cccCCCCCcHHHHHHHHHHHHHh-cCCCCeEEEEecCC
Q psy14655          2 IASSKGGVGKSTTTVNLATAMKI-CYPDKEIGILDADV   38 (261)
Q Consensus         2 v~s~KGGvGKTT~a~~lA~~la~-~g~~~~VllvD~D~   38 (261)
                      ++.+--|+||||++..||..|.. .| ++.+-++|.|.
T Consensus       399 ~l~GlsGsGKSTIa~~La~~L~~~~g-~r~~~~lDgD~  435 (511)
T 1g8f_A          399 VLGNSLTVSREQLSIALLSTFLQFGG-GRYYKIFEHNN  435 (511)
T ss_dssp             EECTTCCSCHHHHHHHHHHHHTTSCS-CCCEEECCCTT
T ss_pred             EecccCCCCHHHHHHHHHHHHHHhhc-CcceEEecCCC
Confidence            45566799999999999999997 64 37788899886

>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=92.68  E-value=0.54  Score=37.98  Aligned_cols=64  Identities=14%  Similarity=-0.022  Sum_probs=38.2

Q ss_pred             CCCCEEEEeCCCCCCh--------hHHHHhhhcCCCeEEEEeCCCcchHHHHHHHHHHHHhCC-CCeEEEEEcCCC
Q psy14655        105 GPCDILFIDTPPGTGD--------THLSLIQNLFIDTAIIITIPDTMSLQVAQRGYTMFKKLN-IPVAGLVMNMNS  171 (261)
Q Consensus       105 ~~yd~IiiD~~~~~~~--------~~~~~~~~~~ad~viiv~~~~~~s~~~~~~~~~~l~~~~-~~~~giv~N~~~  171 (261)
                      .++.+.|+|+|+..+.        .....+....+|.+++|++.+..  .........+...+ .+ +.+++|+++
T Consensus        48 ~~~~~~l~DtpG~~~~~~~~~~~~~~~~~~~~~~~d~vi~v~D~~~~--~~~~~~~~~~~~~~~~p-~ilv~NK~D  120 (271)
T 3k53_A           48 REKEFLVVDLPGIYSLTAHSIDELIARNFILDGNADVIVDIVDSTCL--MRNLFLTLELFEMEVKN-IILVLNKFD  120 (271)
T ss_dssp             TTEEEEEEECCCCSCCCSSCHHHHHHHHHHHTTCCSEEEEEEEGGGH--HHHHHHHHHHHHTTCCS-EEEEEECHH
T ss_pred             CCceEEEEeCCCccccccCCHHHHHHHHhhhccCCcEEEEEecCCcc--hhhHHHHHHHHhcCCCC-EEEEEEChh
Confidence            4567999999974431        12222211228999999986653  33334444455555 66 558999965

>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=92.59  E-value=0.093  Score=45.00  Aligned_cols=34  Identities=15%  Similarity=0.068  Sum_probs=29.1

Q ss_pred             cCCCCCcHHHHHHHHHHHHHhc------CCCCeEEEEecCCC
Q psy14655          4 SSKGGVGKSTTTVNLATAMKIC------YPDKEIGILDADVF   39 (261)
Q Consensus         4 s~KGGvGKTT~a~~lA~~la~~------g~~~~VllvD~D~~   39 (261)
                      .+.+|+||||++..++..+...      +  ..++.+++...
T Consensus        58 ~G~~G~GKT~L~~~~~~~~~~~~~~~~~~--~~~~~~~~~~~   97 (412)
T 1w5s_A           58 IGRVGIGKTTLAKFTVKRVSEAAAKEGLT--VKQAYVNAFNA   97 (412)
T ss_dssp             TTCCSSSHHHHHHHHHHHHHHHHHHTTCC--EEEEEEEGGGC
T ss_pred             cCcCCCCHHHHHHHHHHHHHHHHhccCCc--eeEEEEECCCC
Confidence            7889999999999999988764      5  78999998644

>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=92.54  E-value=0.043  Score=42.42  Aligned_cols=35  Identities=23%  Similarity=0.184  Sum_probs=24.9

Q ss_pred             cccCCCCCcHHHHHHHHHHHHHhcCCCCeEEEEec
Q psy14655          2 IASSKGGVGKSTTTVNLATAMKICYPDKEIGILDA   36 (261)
Q Consensus         2 v~s~KGGvGKTT~a~~lA~~la~~g~~~~VllvD~   36 (261)
                      ++.+..|+||||++..++..+...+....++.+++
T Consensus        42 ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~   76 (226)
T 2chg_A           42 LFSGPPGTGKTATAIALARDLFGENWRDNFIEMNA   76 (226)
T ss_dssp             EEECSTTSSHHHHHHHHHHHHHGGGGGGGEEEEET
T ss_pred             EEECCCCCCHHHHHHHHHHHHhccccccceEEecc
Confidence            45678899999999999999876651123444444

>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=92.46  E-value=0.067  Score=48.99  Aligned_cols=36  Identities=22%  Similarity=0.199  Sum_probs=30.6

Q ss_pred             cccCCCCCcHHHHHHHHHHHHHhcCCCCeEEEEecCCC
Q psy14655          2 IASSKGGVGKSTTTVNLATAMKICYPDKEIGILDADVF   39 (261)
Q Consensus         2 v~s~KGGvGKTT~a~~lA~~la~~g~~~~VllvD~D~~   39 (261)
                      ++.+--|+||||++..|+..|...|  .+++.+|.|.-
T Consensus        56 vLtGlsGSGKSTlAr~La~~L~~~G--~~~v~lDgD~i   91 (630)
T 1x6v_B           56 WLTGLSGAGKTTVSMALEEYLVCHG--IPCYTLDGDNI   91 (630)
T ss_dssp             EEECSTTSSHHHHHHHHHHHHHHTT--CCEEEESHHHH
T ss_pred             EEEeCCCCCHHHHHHHHHHHHHhcC--CeEEEechHHh
Confidence            3456679999999999999999888  99999986643

>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=92.45  E-value=0.089  Score=41.04  Aligned_cols=27  Identities=15%  Similarity=0.139  Sum_probs=22.7

Q ss_pred             CCCCCcHHHHHHHHHHHHHhcCCCCeEEEE
Q psy14655          5 SKGGVGKSTTTVNLATAMKICYPDKEIGIL   34 (261)
Q Consensus         5 ~KGGvGKTT~a~~lA~~la~~g~~~~Vllv   34 (261)
                      +--|+||||.+..|+..|. .|  .+|+..
T Consensus         9 G~dGsGKsTq~~~L~~~L~-~~--~~v~~~   35 (205)
T 4hlc_A            9 GPEGSGKTTVINEVYHRLV-KD--YDVIMT   35 (205)
T ss_dssp             CCTTSCHHHHHHHHHHHHT-TT--SCEEEE
T ss_pred             CCCCCcHHHHHHHHHHHHH-CC--CCEEEe
Confidence            4569999999999999996 47  888765

>3n70_A Transport activator; sigma-54, ntpase, PSI, MCSG, structural genomics, center for structural genomics; 2.80A {Escherichia coli}

Probab=92.35  E-value=0.041  Score=40.21  Aligned_cols=35  Identities=14%  Similarity=-0.047  Sum_probs=27.4

Q ss_pred             cccCCCCCcHHHHHHHHHHHHHhcCCCCeEEEEecCCC
Q psy14655          2 IASSKGGVGKSTTTVNLATAMKICYPDKEIGILDADVF   39 (261)
Q Consensus         2 v~s~KGGvGKTT~a~~lA~~la~~g~~~~VllvD~D~~   39 (261)
                      +..+.-|+|||++|..++....+.+  .+.+ ++|...
T Consensus        28 ll~G~~GtGKt~lA~~i~~~~~~~~--~~~v-~~~~~~   62 (145)
T 3n70_A           28 WLYGAPGTGRMTGARYLHQFGRNAQ--GEFV-YRELTP   62 (145)
T ss_dssp             EEESSTTSSHHHHHHHHHHSSTTTT--SCCE-EEECCT
T ss_pred             EEECCCCCCHHHHHHHHHHhCCccC--CCEE-EECCCC
Confidence            3456789999999999988777767  7777 887643

>1jny_A EF-1-alpha, elongation factor 1-alpha, EF-TU, TUF-1; GTPase, alpha/beta structure, protein biosynthesis, translation; HET: GDP; 1.80A {Sulfolobus solfataricus} SCOP: b.43.3.1 b.44.1.1 c.37.1.8 PDB: 1skq_A* 3agj_A*

Probab=92.33  E-value=0.33  Score=42.33  Aligned_cols=66  Identities=12%  Similarity=0.125  Sum_probs=46.0

Q ss_pred             CCCCEEEEeCCCCCChhH--HHHhhhcCCCeEEEEeCCCcchHH-------HHHHHHHHHHhCCCCeEEEEEcCCCC
Q psy14655        105 GPCDILFIDTPPGTGDTH--LSLIQNLFIDTAIIITIPDTMSLQ-------VAQRGYTMFKKLNIPVAGLVMNMNSV  172 (261)
Q Consensus       105 ~~yd~IiiD~~~~~~~~~--~~~~~~~~ad~viiv~~~~~~s~~-------~~~~~~~~l~~~~~~~~giv~N~~~~  172 (261)
                      ..+.+.|+|||+......  ...+..  +|.+++|++.+..++.       .+...+..+...+.+.+-+++|+++.
T Consensus        82 ~~~~~~iiDtpG~~~f~~~~~~~~~~--aD~~ilVvDa~~gsfe~~~~~~~qt~~~~~~~~~~~~~~iivviNK~Dl  156 (435)
T 1jny_A           82 KKYFFTIIDAPGHRDFVKNMITGASQ--ADAAILVVSAKKGEYEAGMSVEGQTREHIILAKTMGLDQLIVAVNKMDL  156 (435)
T ss_dssp             SSCEEEECCCSSSTTHHHHHHHTSSC--CSEEEEEEECSTTHHHHHHSTTCHHHHHHHHHHHTTCTTCEEEEECGGG
T ss_pred             CCeEEEEEECCCcHHHHHHHHhhhhh--cCEEEEEEECCCCccccccccchHHHHHHHHHHHcCCCeEEEEEEcccC
Confidence            578899999997554332  223333  8999999998776555       45555566666777656689999764

>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=92.23  E-value=0.096  Score=40.55  Aligned_cols=31  Identities=23%  Similarity=0.250  Sum_probs=25.6

Q ss_pred             cccCCCCCcHHHHHHHHHHHHHhcCCCCeEEEE
Q psy14655          2 IASSKGGVGKSTTTVNLATAMKICYPDKEIGIL   34 (261)
Q Consensus         2 v~s~KGGvGKTT~a~~lA~~la~~g~~~~Vllv   34 (261)
                      ++.+--|+||||++..|+..+...+  .+|..+
T Consensus        13 ~l~G~~GsGKsT~~~~L~~~l~~~~--~~v~~~   43 (215)
T 1nn5_A           13 VLEGVDRAGKSTQSRKLVEALCAAG--HRAELL   43 (215)
T ss_dssp             EEEESTTSSHHHHHHHHHHHHHHTT--CCEEEE
T ss_pred             EEECCCCCCHHHHHHHHHHHHHHcC--CcEEEe
Confidence            3455679999999999999998888  888544

>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=92.20  E-value=0.096  Score=45.89  Aligned_cols=37  Identities=14%  Similarity=0.182  Sum_probs=30.5

Q ss_pred             cccCCCCCcHHHHHHHHHHHHHhcCCCCeEEEEecCC
Q psy14655          2 IASSKGGVGKSTTTVNLATAMKICYPDKEIGILDADV   38 (261)
Q Consensus         2 v~s~KGGvGKTT~a~~lA~~la~~g~~~~VllvD~D~   38 (261)
                      ++.+..|+||||++..+|..+....++.+++.+++..
T Consensus       134 ll~Gp~G~GKTtLa~aia~~l~~~~~~~~v~~v~~~~  170 (440)
T 2z4s_A          134 FIYGGVGLGKTHLLQSIGNYVVQNEPDLRVMYITSEK  170 (440)
T ss_dssp             EEECSSSSSHHHHHHHHHHHHHHHCCSSCEEEEEHHH
T ss_pred             EEECCCCCCHHHHHHHHHHHHHHhCCCCeEEEeeHHH
Confidence            4567889999999999999998873339999998764

>4dcu_A GTP-binding protein ENGA; GTPase, GDP, protein binding, hydrolase; HET: GDP; 2.00A {Bacillus subtilis} PDB: 4dct_A* 4dcs_A* 4dcv_A* 2hjg_A*

Probab=91.99  E-value=0.16  Score=44.74  Aligned_cols=65  Identities=12%  Similarity=0.085  Sum_probs=42.7

Q ss_pred             CCCCEEEEeCCCC---------CChh----HHHHhhhcCCCeEEEEeCCCcchHHHHHHHHHHHHhCCCCeEEEEEcCCC
Q psy14655        105 GPCDILFIDTPPG---------TGDT----HLSLIQNLFIDTAIIITIPDTMSLQVAQRGYTMFKKLNIPVAGLVMNMNS  171 (261)
Q Consensus       105 ~~yd~IiiD~~~~---------~~~~----~~~~~~~~~ad~viiv~~~~~~s~~~~~~~~~~l~~~~~~~~giv~N~~~  171 (261)
                      .+..+.|+|||+.         .+..    ....+..  ||.+++|++.+.........+.+.+.+.+.+ +.+|.|+.+
T Consensus       241 ~~~~~~l~DT~G~~~~~~~~~~~e~~~~~~~~~~~~~--ad~~llviD~~~~~~~~~~~~~~~~~~~~~~-~ilv~NK~D  317 (456)
T 4dcu_A          241 NQQEFVIVDTAGMRKKGKVYETTEKYSVLRALKAIDR--SEVVAVVLDGEEGIIEQDKRIAGYAHEAGKA-VVIVVNKWD  317 (456)
T ss_dssp             TTEEEEETTGGGTTTBTTBCCCCSHHHHHHHHHHHHH--CSEEEEEEETTTCCCHHHHHHHHHHHHTTCE-EEEEEECGG
T ss_pred             CCceEEEEECCCCCcCcccchHHHHHHHHHHHHHHhh--CCEEEEEEeCCCCcCHHHHHHHHHHHHcCCC-EEEEEEChh
Confidence            3457889999862         1211    1123344  8999999987665555666777777776765 558999976


Q ss_pred             C
Q psy14655        172 V  172 (261)
Q Consensus       172 ~  172 (261)
                      .
T Consensus       318 l  318 (456)
T 4dcu_A          318 A  318 (456)
T ss_dssp             G
T ss_pred             c
Confidence            5

>3cmw_A Protein RECA, recombinase A; homologous recombination, recombination/DNA complex; HET: DNA ADP; 2.80A {Escherichia coli} PDB: 3cmt_A* 3cmx_A* 3cmv_A*

Probab=91.98  E-value=0.11  Score=52.89  Aligned_cols=38  Identities=21%  Similarity=0.113  Sum_probs=33.6

Q ss_pred             cccCCCCCcHHHHHHHHHHHHHhcCCCCeEEEEecCCCCC
Q psy14655          2 IASSKGGVGKSTTTVNLATAMKICYPDKEIGILDADVFGP   41 (261)
Q Consensus         2 v~s~KGGvGKTT~a~~lA~~la~~g~~~~VllvD~D~~~~   41 (261)
                      ++.+..|+||||+|.++|...++.|  .+|++||++....
T Consensus       387 lI~G~pGsGKTtLaLq~a~~~~~~G--~~vlyis~E~s~~  424 (1706)
T 3cmw_A          387 EIYGPESSGKTTLTLQVIAAAQREG--KTCAFIDAEHALD  424 (1706)
T ss_dssp             EEECSTTSSHHHHHHHHHHHHHHTT--CCEEEECTTSCCC
T ss_pred             EEEeCCCCCHHHHHHHHHHHHHHhC--CCeEEEEccCchH
Confidence            3567789999999999999999999  9999999998753

>2f1r_A Molybdopterin-guanine dinucleotide biosynthesis protein B (MOBB); structural genomics, PSI, protein structure initiative; 2.10A {Archaeoglobus fulgidus}

Probab=91.97  E-value=0.07  Score=40.38  Aligned_cols=33  Identities=9%  Similarity=0.177  Sum_probs=26.3

Q ss_pred             CCCCCcHHHHHHHHHHHHHhcCCCCeEEEEecCCC
Q psy14655          5 SKGGVGKSTTTVNLATAMKICYPDKEIGILDADVF   39 (261)
Q Consensus         5 ~KGGvGKTT~a~~lA~~la~~g~~~~VllvD~D~~   39 (261)
                      +..|+||||++..|+..+...|  .++-.|-.|..
T Consensus         9 G~SGsGKSTL~~~L~~~~~~~g--~~~G~I~~dg~   41 (171)
T 2f1r_A            9 GTSDSGKTTLITRMMPILRERG--LRVAVVKRHAH   41 (171)
T ss_dssp             ESCHHHHHHHHHHHHHHHHHTT--CCEEEEEC---
T ss_pred             CCCCCCHHHHHHHHHHHhhhcC--CceEEEEEcCc
Confidence            3679999999999999999888  88877777654

>3def_A T7I23.11 protein; chloroplast, TOC33, GTPase, hydrolase; HET: GDP; 1.96A {Arabidopsis thaliana} PDB: 3bb3_A* 3bb4_A* 2j3e_A*

Probab=91.95  E-value=0.11  Score=41.99  Aligned_cols=68  Identities=22%  Similarity=0.205  Sum_probs=35.6

Q ss_pred             CCCCEEEEeCCCCCCh-----hHHHHhh----hcCCCeEEEEeCCCcchHHHH-HHHHHHHHhC-C---CCeEEEEEcCC
Q psy14655        105 GPCDILFIDTPPGTGD-----THLSLIQ----NLFIDTAIIITIPDTMSLQVA-QRGYTMFKKL-N---IPVAGLVMNMN  170 (261)
Q Consensus       105 ~~yd~IiiD~~~~~~~-----~~~~~~~----~~~ad~viiv~~~~~~s~~~~-~~~~~~l~~~-~---~~~~giv~N~~  170 (261)
                      .+..+.|+|||+..+.     .....+.    ...+|.+++|...+....... ..+++.+... +   ...+.+|.|+.
T Consensus        82 ~~~~l~liDTpG~~~~~~~~~~~~~~i~~~l~~~~~~~il~V~~~d~~~~~~~~~~~~~~l~~~~~~~~~~~~ivv~nK~  161 (262)
T 3def_A           82 GGFTINIIDTPGLVEAGYVNHQALELIKGFLVNRTIDVLLYVDRLDVYAVDELDKQVVIAITQTFGKEIWCKTLLVLTHA  161 (262)
T ss_dssp             TTEEEEEEECCCSEETTEECHHHHHHHHHHTTTCEECEEEEEEESSCSCCCHHHHHHHHHHHHHHCGGGGGGEEEEEECT
T ss_pred             CCeeEEEEECCCCCCcccchHHHHHHHHHHHhcCCCCEEEEEEcCCCCCCCHHHHHHHHHHHHHhchhhhcCEEEEEeCc
Confidence            4568999999964221     1111111    011688999865544333222 2344444432 2   12466899997


Q ss_pred             CC
Q psy14655        171 SV  172 (261)
Q Consensus       171 ~~  172 (261)
                      +.
T Consensus       162 Dl  163 (262)
T 3def_A          162 QF  163 (262)
T ss_dssp             TC
T ss_pred             cc
Confidence            64

>3tqc_A Pantothenate kinase; biosynthesis of cofactors, prosthetic groups, carriers, TRAN; HET: ADP; 2.30A {Coxiella burnetii}

Probab=91.88  E-value=0.13  Score=43.02  Aligned_cols=35  Identities=26%  Similarity=0.300  Sum_probs=28.5

Q ss_pred             ccCCCCCcHHHHHHHHHHHHHh--cCCCCeEEEEecCCC
Q psy14655          3 ASSKGGVGKSTTTVNLATAMKI--CYPDKEIGILDADVF   39 (261)
Q Consensus         3 ~s~KGGvGKTT~a~~lA~~la~--~g~~~~VllvD~D~~   39 (261)
                      +.+..|+||||++..|+..+..  .+  .+|.+|..|..
T Consensus        97 I~GpsGSGKSTl~~~L~~ll~~~~~~--~~v~~i~~D~f  133 (321)
T 3tqc_A           97 IAGSVAVGKSTTSRVLKALLSRWPDH--PNVEVITTDGF  133 (321)
T ss_dssp             EECCTTSSHHHHHHHHHHHHTTSTTC--CCEEEEEGGGG
T ss_pred             EECCCCCCHHHHHHHHHHHhcccCCC--CeEEEEeeccc
Confidence            3567799999999999998875  34  68999999864

>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=91.86  E-value=0.68  Score=33.42  Aligned_cols=65  Identities=15%  Similarity=0.194  Sum_probs=43.6

Q ss_pred             CCCCEEEEeCCCCC--ChhHHHHhhhcCCCeEEEEeCCC-cchHHHHHHHHHHHHhC----CCCeEEEEEcCCCC
Q psy14655        105 GPCDILFIDTPPGT--GDTHLSLIQNLFIDTAIIITIPD-TMSLQVAQRGYTMFKKL----NIPVAGLVMNMNSV  172 (261)
Q Consensus       105 ~~yd~IiiD~~~~~--~~~~~~~~~~~~ad~viiv~~~~-~~s~~~~~~~~~~l~~~----~~~~~giv~N~~~~  172 (261)
                      ..+++.|+|+|+..  .......+..  +|.+++|...+ ..+...+..+++.+...    +.+ +.+|.|+++.
T Consensus        49 ~~~~~~~~D~~G~~~~~~~~~~~~~~--~~~~i~v~d~~~~~~~~~~~~~~~~i~~~~~~~~~p-~iiv~nK~Dl  120 (166)
T 2ce2_X           49 ETCLLDILDTAGQEEYSAMRDQYMRT--GEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVP-MVLVGNKSDL  120 (166)
T ss_dssp             EEEEEEEEECCCCSSCCHHHHHHHHH--CSEEEEEEETTCHHHHHHHHHHHHHHHHHHTCSCCC-EEEEEECTTC
T ss_pred             EEEEEEEEECCCchhhhHHHHHhhcc--CCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCc-EEEEEEchhh
Confidence            45789999999754  3333444555  89999999854 45666666666655442    445 5699999774

>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=91.83  E-value=0.15  Score=43.19  Aligned_cols=37  Identities=16%  Similarity=0.131  Sum_probs=30.9

Q ss_pred             cccCCCCCcHHHHHHHHHHHHHhc-CCCCeEEEEecCCCC
Q psy14655          2 IASSKGGVGKSTTTVNLATAMKIC-YPDKEIGILDADVFG   40 (261)
Q Consensus         2 v~s~KGGvGKTT~a~~lA~~la~~-g~~~~VllvD~D~~~   40 (261)
                      ++.+..|+||||++..++..+... +  ..++.+++....
T Consensus        48 li~G~~G~GKTtl~~~l~~~~~~~~~--~~~~~i~~~~~~   85 (389)
T 1fnn_A           48 TLLGRPGTGKTVTLRKLWELYKDKTT--ARFVYINGFIYR   85 (389)
T ss_dssp             EEECCTTSSHHHHHHHHHHHHTTSCC--CEEEEEETTTCC
T ss_pred             EEECCCCCCHHHHHHHHHHHHhhhcC--eeEEEEeCccCC
Confidence            456788999999999999998776 6  899999986553

>3c8u_A Fructokinase; YP_612366.1, putative fructose transport system kinase, STRU genomics, joint center for structural genomics, JCSG; 1.95A {Silicibacter SP}

Probab=91.78  E-value=0.13  Score=39.82  Aligned_cols=35  Identities=31%  Similarity=0.282  Sum_probs=28.5

Q ss_pred             ccCCCCCcHHHHHHHHHHHHHhcCCCCeEEEEecCCC
Q psy14655          3 ASSKGGVGKSTTTVNLATAMKICYPDKEIGILDADVF   39 (261)
Q Consensus         3 ~s~KGGvGKTT~a~~lA~~la~~g~~~~VllvD~D~~   39 (261)
                      +.+.-|+||||++..|+..+...|  .++..|..|..
T Consensus        27 I~G~sGsGKSTl~~~l~~~~~~~g--~~~g~v~~d~~   61 (208)
T 3c8u_A           27 LSGAPGSGKSTLSNPLAAALSAQG--LPAEVVPMDGF   61 (208)
T ss_dssp             EECCTTSCTHHHHHHHHHHHHHTT--CCEEEEESGGG
T ss_pred             EECCCCCCHHHHHHHHHHHHhhcC--CceEEEecCCC
Confidence            456789999999999999998667  67778877743

>3cmw_A Protein RECA, recombinase A; homologous recombination, recombination/DNA complex; HET: DNA ADP; 2.80A {Escherichia coli} PDB: 3cmt_A* 3cmx_A* 3cmv_A*

Probab=91.74  E-value=0.12  Score=52.59  Aligned_cols=37  Identities=22%  Similarity=0.122  Sum_probs=33.1

Q ss_pred             cccCCCCCcHHHHHHHHHHHHHhcCCCCeEEEEecCCCC
Q psy14655          2 IASSKGGVGKSTTTVNLATAMKICYPDKEIGILDADVFG   40 (261)
Q Consensus         2 v~s~KGGvGKTT~a~~lA~~la~~g~~~~VllvD~D~~~   40 (261)
                      ++.+.-|+||||++.++|..+++.|  .+|+++++....
T Consensus       736 lI~G~PG~GKTtLal~lA~~aa~~g--~~VlyiS~Ees~  772 (1706)
T 3cmw_A          736 EIYGPESSGKTTLTLQVIAAAQREG--KTCAFIDAEHAL  772 (1706)
T ss_dssp             EEECSTTSSHHHHHHHHHHHHHHTT--CCEEEECTTSCC
T ss_pred             EEECCCCCCcHHHHHHHHHHHHHcC--CCeEEEeccchH
Confidence            4567789999999999999999998  999999998765

>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=91.72  E-value=0.039  Score=42.88  Aligned_cols=31  Identities=23%  Similarity=0.331  Sum_probs=26.5

Q ss_pred             ccCCCCCcHHHHHHHHHHHHHhcCCCCeEEEEe
Q psy14655          3 ASSKGGVGKSTTTVNLATAMKICYPDKEIGILD   35 (261)
Q Consensus         3 ~s~KGGvGKTT~a~~lA~~la~~g~~~~VllvD   35 (261)
                      +.+--|+||||++..|+..+...|  .+|.++.
T Consensus         5 i~G~~GsGKsTl~~~L~~~l~~~g--~~v~~~~   35 (214)
T 1gtv_A            5 IEGVDGAGKRTLVEKLSGAFRAAG--RSVATLA   35 (214)
T ss_dssp             EEEEEEEEHHHHHHHHHHHHHEEE--EEEEEEE
T ss_pred             EEcCCCCCHHHHHHHHHHHHHhcC--CeEEEEe
Confidence            445669999999999999999888  8888775

>2wwf_A Thymidilate kinase, putative; transferase, malaria; HET: TMP ADP; 1.89A {Plasmodium falciparum} PDB: 2wwg_A* 2wwh_A* 2wwi_A*

Probab=91.27  E-value=0.14  Score=39.50  Aligned_cols=32  Identities=25%  Similarity=0.142  Sum_probs=25.7

Q ss_pred             cccCCCCCcHHHHHHHHHHHHHhcCCCCeEEEEe
Q psy14655          2 IASSKGGVGKSTTTVNLATAMKICYPDKEIGILD   35 (261)
Q Consensus         2 v~s~KGGvGKTT~a~~lA~~la~~g~~~~VllvD   35 (261)
                      ++.+--|+||||++..|+..+...+  .++.++.
T Consensus        14 ~l~G~~GsGKST~~~~L~~~l~~~~--~~~~~~~   45 (212)
T 2wwf_A           14 VFEGLDRSGKSTQSKLLVEYLKNNN--VEVKHLY   45 (212)
T ss_dssp             EEEESTTSSHHHHHHHHHHHHHHTT--CCEEEEE
T ss_pred             EEEcCCCCCHHHHHHHHHHHHHHcC--CcEEEEe
Confidence            3455679999999999999998888  8885443

>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=91.23  E-value=0.053  Score=45.47  Aligned_cols=31  Identities=23%  Similarity=0.189  Sum_probs=26.5

Q ss_pred             cccCCCCCcHHHHHHHHHHHHHhcCCCCeEEEEecC
Q psy14655          2 IASSKGGVGKSTTTVNLATAMKICYPDKEIGILDAD   37 (261)
Q Consensus         2 v~s~KGGvGKTT~a~~lA~~la~~g~~~~VllvD~D   37 (261)
                      ++.+..|+||||+|.++|..   .|  .+|++++++
T Consensus       127 LI~GpPGsGKTtLAlqlA~~---~G--~~VlyIs~~  157 (331)
T 2vhj_A          127 IVTGKGNSGKTPLVHALGEA---LG--GKDKYATVR  157 (331)
T ss_dssp             EEECSCSSSHHHHHHHHHHH---HH--TTSCCEEEE
T ss_pred             EEEcCCCCCHHHHHHHHHHh---CC--CCEEEEEec
Confidence            45678899999999999987   67  899999983

>4fcw_A Chaperone protein CLPB; AAA domain; HET: ADP; 2.35A {Thermus thermophilus} PDB: 4fcv_A* 4fd2_A* 4fct_A*

Probab=91.22  E-value=0.12  Score=42.57  Aligned_cols=36  Identities=19%  Similarity=0.159  Sum_probs=30.6

Q ss_pred             ccCCCCCcHHHHHHHHHHHHHhcCCCCeEEEEecCCCC
Q psy14655          3 ASSKGGVGKSTTTVNLATAMKICYPDKEIGILDADVFG   40 (261)
Q Consensus         3 ~s~KGGvGKTT~a~~lA~~la~~g~~~~VllvD~D~~~   40 (261)
                      +.+.-|+||||+|..+|..+...+  .++..+|+....
T Consensus        52 l~G~~GtGKt~la~~la~~~~~~~--~~~~~~~~~~~~   87 (311)
T 4fcw_A           52 FLGPTGVGKTELAKTLAATLFDTE--EAMIRIDMTEYM   87 (311)
T ss_dssp             EESCSSSSHHHHHHHHHHHHHSCG--GGEEEEEGGGCC
T ss_pred             EECCCCcCHHHHHHHHHHHHcCCC--cceEEeeccccc
Confidence            456779999999999999998877  889999987543

>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=91.19  E-value=0.13  Score=46.13  Aligned_cols=35  Identities=9%  Similarity=0.065  Sum_probs=31.0

Q ss_pred             cccCCCCCcHHHHHHHHHHHHHhcCCCCeEEEEecCC
Q psy14655          2 IASSKGGVGKSTTTVNLATAMKICYPDKEIGILDADV   38 (261)
Q Consensus         2 v~s~KGGvGKTT~a~~lA~~la~~g~~~~VllvD~D~   38 (261)
                      ++.+--|+||||++..||..|...+  .++.+++.|.
T Consensus        39 vlvGlpGSGKSTia~~La~~L~~~~--~d~~v~s~D~   73 (520)
T 2axn_A           39 VMVGLPARGKTYISKKLTRYLNWIG--VPTKVFNVGE   73 (520)
T ss_dssp             EEECCTTSSHHHHHHHHHHHHHHTT--CCEEEEEHHH
T ss_pred             EEECCCCCCHHHHHHHHHHHHhhcC--CCeEEecccH
Confidence            4567789999999999999999888  9999999885

>3syl_A Protein CBBX; photosynthesis, rubisco activase, AAA+ protein, calvin cycle chaperone; 3.00A {Rhodobacter sphaeroides} PDB: 3syk_A 3zuh_A*

Probab=91.17  E-value=0.13  Score=42.30  Aligned_cols=36  Identities=17%  Similarity=0.181  Sum_probs=27.3

Q ss_pred             cccCCCCCcHHHHHHHHHHHHHhcCC--CCeEEEEecC
Q psy14655          2 IASSKGGVGKSTTTVNLATAMKICYP--DKEIGILDAD   37 (261)
Q Consensus         2 v~s~KGGvGKTT~a~~lA~~la~~g~--~~~VllvD~D   37 (261)
                      ++.+.-|+|||++|..+|..+...+.  ..+++.+++.
T Consensus        71 ll~G~~GtGKT~la~~la~~l~~~~~~~~~~~~~~~~~  108 (309)
T 3syl_A           71 SFTGNPGTGKTTVALKMAGLLHRLGYVRKGHLVSVTRD  108 (309)
T ss_dssp             EEEECTTSSHHHHHHHHHHHHHHTTSSSSCCEEEECGG
T ss_pred             EEECCCCCCHHHHHHHHHHHHHhcCCcCCCcEEEEcHH
Confidence            34567899999999999999988661  1267777654

>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=91.12  E-value=0.1  Score=42.07  Aligned_cols=36  Identities=14%  Similarity=0.101  Sum_probs=30.3

Q ss_pred             cccCCCCCcHHHHHHHHHHHHHhcCCCCeEEEEecCCC
Q psy14655          2 IASSKGGVGKSTTTVNLATAMKICYPDKEIGILDADVF   39 (261)
Q Consensus         2 v~s~KGGvGKTT~a~~lA~~la~~g~~~~VllvD~D~~   39 (261)
                      ++.+.-|+|||++|..++..+.+.+  .+++.|+|...
T Consensus        33 ll~G~~GtGKt~la~~i~~~~~~~~--~~~~~v~~~~~   68 (265)
T 2bjv_A           33 LIIGERGTGKELIASRLHYLSSRWQ--GPFISLNCAAL   68 (265)
T ss_dssp             EEECCTTSCHHHHHHHHHHTSTTTT--SCEEEEEGGGS
T ss_pred             EEECCCCCcHHHHHHHHHHhcCccC--CCeEEEecCCC
Confidence            4567789999999999998887777  89999998754

>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=91.06  E-value=0.15  Score=44.78  Aligned_cols=31  Identities=19%  Similarity=0.144  Sum_probs=26.8

Q ss_pred             cccCCCCCcHHHHHHHHHHHHHhcCCCC-eEEEE
Q psy14655          2 IASSKGGVGKSTTTVNLATAMKICYPDK-EIGIL   34 (261)
Q Consensus         2 v~s~KGGvGKTT~a~~lA~~la~~g~~~-~Vllv   34 (261)
                      ++.+..|+||||++..++..|...|  . +|+++
T Consensus        49 li~G~aGTGKT~ll~~~~~~l~~~~--~~~il~~   80 (459)
T 3upu_A           49 TINGPAGTGATTLTKFIIEALISTG--ETGIILA   80 (459)
T ss_dssp             EEECCTTSCHHHHHHHHHHHHHHTT--CCCEEEE
T ss_pred             EEEeCCCCCHHHHHHHHHHHHHhcC--CceEEEe
Confidence            4567789999999999999999988  6 77776

>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=91.02  E-value=0.17  Score=39.64  Aligned_cols=31  Identities=26%  Similarity=0.242  Sum_probs=26.7

Q ss_pred             ccCCCCCcHHHHHHHHHHHHHhcCCCCeEEEEe
Q psy14655          3 ASSKGGVGKSTTTVNLATAMKICYPDKEIGILD   35 (261)
Q Consensus         3 ~s~KGGvGKTT~a~~lA~~la~~g~~~~VllvD   35 (261)
                      +.+--|+||||++..|+..|...|  .+|....
T Consensus        11 ~eG~~gsGKsT~~~~l~~~l~~~~--~~v~~~~   41 (213)
T 4edh_A           11 LEGPEGAGKSTNRDYLAERLRERG--IEVQLTR   41 (213)
T ss_dssp             EECSTTSSHHHHHHHHHHHHHTTT--CCEEEEE
T ss_pred             EEcCCCCCHHHHHHHHHHHHHHcC--CCccccc
Confidence            456679999999999999999999  9987653

>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=90.97  E-value=0.15  Score=42.27  Aligned_cols=35  Identities=26%  Similarity=0.283  Sum_probs=27.7

Q ss_pred             cCCCCCcHHHHHHHHHHHHH--hcCCCCeEEEEecCCCC
Q psy14655          4 SSKGGVGKSTTTVNLATAMK--ICYPDKEIGILDADVFG   40 (261)
Q Consensus         4 s~KGGvGKTT~a~~lA~~la--~~g~~~~VllvD~D~~~   40 (261)
                      .+.-|+||||++..|+..+.  -.+  -+|.+|++|-..
T Consensus        86 ~G~~GsGKSTl~~~L~~~l~~~~~~--G~i~vi~~d~~~  122 (308)
T 1sq5_A           86 AGSVAVGKSTTARVLQALLSRWPEH--RRVELITTDGFL  122 (308)
T ss_dssp             EECTTSSHHHHHHHHHHHHTTSTTC--CCEEEEEGGGGB
T ss_pred             ECCCCCCHHHHHHHHHHHHhhCCCC--CeEEEEecCCcc
Confidence            45679999999999999886  334  578999988653

>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=90.96  E-value=0.16  Score=46.18  Aligned_cols=31  Identities=32%  Similarity=0.366  Sum_probs=28.1

Q ss_pred             cccCCCCCcHHHHHHHHHHHHHhcCCCCeEEEE
Q psy14655          2 IASSKGGVGKSTTTVNLATAMKICYPDKEIGIL   34 (261)
Q Consensus         2 v~s~KGGvGKTT~a~~lA~~la~~g~~~~Vllv   34 (261)
                      ++.+-.|+||||++..++..+...|  .+|+++
T Consensus       208 ~I~G~pGTGKTt~i~~l~~~l~~~g--~~Vl~~  238 (574)
T 3e1s_A          208 VLTGGPGTGKSTTTKAVADLAESLG--LEVGLC  238 (574)
T ss_dssp             EEECCTTSCHHHHHHHHHHHHHHTT--CCEEEE
T ss_pred             EEEcCCCCCHHHHHHHHHHHHHhcC--CeEEEe
Confidence            4567889999999999999999999  999987

>3cmu_A Protein RECA, recombinase A; homologous recombination, recombination/DNA complex; HET: DNA ADP; 4.20A {Escherichia coli}

Probab=90.90  E-value=0.17  Score=52.14  Aligned_cols=38  Identities=21%  Similarity=0.113  Sum_probs=33.6

Q ss_pred             cccCCCCCcHHHHHHHHHHHHHhcCCCCeEEEEecCCCCC
Q psy14655          2 IASSKGGVGKSTTTVNLATAMKICYPDKEIGILDADVFGP   41 (261)
Q Consensus         2 v~s~KGGvGKTT~a~~lA~~la~~g~~~~VllvD~D~~~~   41 (261)
                      ++.+..|+||||++.++|..+++.|  .+|++||+.....
T Consensus       387 lI~G~pGsGKTtLaLqia~~~a~~G--~~vlyis~E~s~~  424 (2050)
T 3cmu_A          387 EIYGPESSGKTTLTLQVIAAAQREG--KTCAFIDAEHALD  424 (2050)
T ss_dssp             EEECCTTSSHHHHHHHHHHHHHTTT--CCEEEECTTSCCC
T ss_pred             EEEeCCCCCHHHHHHHHHHHHHhcC--CeEEEEEcCCCHH
Confidence            3567789999999999999999998  9999999998653

>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=90.82  E-value=1.8  Score=36.86  Aligned_cols=32  Identities=22%  Similarity=0.257  Sum_probs=26.2

Q ss_pred             ccCCCCCcHHHHHHHHHHHHHhc-CCCCeEEEEec
Q psy14655          3 ASSKGGVGKSTTTVNLATAMKIC-YPDKEIGILDA   36 (261)
Q Consensus         3 ~s~KGGvGKTT~a~~lA~~la~~-g~~~~VllvD~   36 (261)
                      +.+.-|+||||+...|+..+... .  .+|+.++-
T Consensus       141 ivG~~GsGKTTll~~l~~~~~~~~~--g~I~~~e~  173 (372)
T 2ewv_A          141 VTGPTGSGKSTTIASMIDYINQTKS--YHIITIED  173 (372)
T ss_dssp             EECSSSSSHHHHHHHHHHHHHHHSC--CEEEEEES
T ss_pred             EECCCCCCHHHHHHHHHhhcCcCCC--cEEEEecc
Confidence            45667999999999999999876 5  68888773

>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=90.64  E-value=0.1  Score=38.65  Aligned_cols=26  Identities=23%  Similarity=0.167  Sum_probs=19.8

Q ss_pred             cccCCCCCcHHHHHHHHHHHHHhcCCCCeEEE
Q psy14655          2 IASSKGGVGKSTTTVNLATAMKICYPDKEIGI   33 (261)
Q Consensus         2 v~s~KGGvGKTT~a~~lA~~la~~g~~~~Vll   33 (261)
                      ++.+-.|+||||++..|    .+.|  ..++-
T Consensus         5 ~l~G~~GsGKsT~a~~L----~~~g--~~~i~   30 (179)
T 3lw7_A            5 LITGMPGSGKSEFAKLL----KERG--AKVIV   30 (179)
T ss_dssp             EEECCTTSCHHHHHHHH----HHTT--CEEEE
T ss_pred             EEECCCCCCHHHHHHHH----HHCC--CcEEE
Confidence            46788899999999888    5566  66543

>1ly1_A Polynucleotide kinase; PNK, phosphatase, transferase; 2.00A {Enterobacteria phage T4} SCOP: c.37.1.1

Probab=90.63  E-value=0.13  Score=38.56  Aligned_cols=31  Identities=19%  Similarity=0.139  Sum_probs=22.7

Q ss_pred             cccCCCCCcHHHHHHHHHHHHHhcCCCCeEEEEecCC
Q psy14655          2 IASSKGGVGKSTTTVNLATAMKICYPDKEIGILDADV   38 (261)
Q Consensus         2 v~s~KGGvGKTT~a~~lA~~la~~g~~~~VllvD~D~   38 (261)
                      ++.+--|+||||++..|+..    .  .....|+.|.
T Consensus         6 ~i~G~~GsGKST~a~~L~~~----~--~~~~~i~~d~   36 (181)
T 1ly1_A            6 LTIGCPGSGKSTWAREFIAK----N--PGFYNINRDD   36 (181)
T ss_dssp             EEECCTTSSHHHHHHHHHHH----S--TTEEEECHHH
T ss_pred             EEecCCCCCHHHHHHHHHhh----c--CCcEEecHHH
Confidence            46778899999999988862    2  3456677653

>1gvn_B Zeta; postsegregational killing system, plasmid; 1.95A {Streptococcus pyogenes} SCOP: c.37.1.21 PDB: 3q8x_B*

Probab=90.51  E-value=0.082  Score=43.52  Aligned_cols=32  Identities=16%  Similarity=0.308  Sum_probs=24.3

Q ss_pred             cccCCCCCcHHHHHHHHHHHHHhcCCCCeEEEEecCC
Q psy14655          2 IASSKGGVGKSTTTVNLATAMKICYPDKEIGILDADV   38 (261)
Q Consensus         2 v~s~KGGvGKTT~a~~lA~~la~~g~~~~VllvD~D~   38 (261)
                      ++++-.|+||||++..|+..+   +  .....||.|.
T Consensus        37 vl~G~sGsGKSTla~~L~~~~---~--~~~~~Is~D~   68 (287)
T 1gvn_B           37 LLGGQPGSGKTSLRSAIFEET---Q--GNVIVIDNDT   68 (287)
T ss_dssp             EEECCTTSCTHHHHHHHHHHT---T--TCCEEECTHH
T ss_pred             EEECCCCCCHHHHHHHHHHHh---C--CCeEEEechH
Confidence            678889999999999988654   2  2456777754

>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=90.46  E-value=0.12  Score=42.61  Aligned_cols=37  Identities=30%  Similarity=0.398  Sum_probs=26.7

Q ss_pred             ccCCCCCcHHHHHHHHHHHHHhcCCCCe-EEEEecCCC
Q psy14655          3 ASSKGGVGKSTTTVNLATAMKICYPDKE-IGILDADVF   39 (261)
Q Consensus         3 ~s~KGGvGKTT~a~~lA~~la~~g~~~~-VllvD~D~~   39 (261)
                      +.+..|+||||++..|+..+...|++.+ +.+|..|..
T Consensus        36 I~G~sGsGKSTla~~L~~~l~~~g~~~~~~~iv~~D~f   73 (290)
T 1odf_A           36 FSGPQGSGKSFTSIQIYNHLMEKYGGEKSIGYASIDDF   73 (290)
T ss_dssp             EECCTTSSHHHHHHHHHHHHHHHHGGGSCEEEEEGGGG
T ss_pred             EECCCCCCHHHHHHHHHHHhhhcCCCCceEEEeccccc
Confidence            4677899999999999999986431133 444488753

>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=90.46  E-value=0.16  Score=46.02  Aligned_cols=36  Identities=14%  Similarity=0.171  Sum_probs=29.4

Q ss_pred             cccCCCCCcHHHHHHHHHHHHHhcCCCCeEEEEecCC
Q psy14655          2 IASSKGGVGKSTTTVNLATAMKICYPDKEIGILDADV   38 (261)
Q Consensus         2 v~s~KGGvGKTT~a~~lA~~la~~g~~~~VllvD~D~   38 (261)
                      ++.+--|+||||+|..|+..|..+| +.++.++|.|-
T Consensus       400 ~l~GlsGSGKSTiA~~La~~L~~~G-~~~~~~lD~D~  435 (573)
T 1m8p_A          400 FLTGYMNSGKDAIARALQVTLNQQG-GRSVSLLLGDT  435 (573)
T ss_dssp             EEECSTTSSHHHHHHHHHHHHHHHC-SSCEEEEEHHH
T ss_pred             EeecCCCCCHHHHHHHHHHHhcccC-CceEEEECcHH
Confidence            3456779999999999999998765 37788998774

>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=90.40  E-value=0.12  Score=38.28  Aligned_cols=30  Identities=20%  Similarity=0.176  Sum_probs=22.1

Q ss_pred             cccCCCCCcHHHHHHHHHHHHHhcCCCCeEEEEecCC
Q psy14655          2 IASSKGGVGKSTTTVNLATAMKICYPDKEIGILDADV   38 (261)
Q Consensus         2 v~s~KGGvGKTT~a~~lA~~la~~g~~~~VllvD~D~   38 (261)
                      ++.+--|+||||++..||..+   |  ..  ++|.|.
T Consensus         5 ~l~G~~GsGKsT~~~~L~~~l---~--~~--~i~~d~   34 (173)
T 3kb2_A            5 ILEGPDCCFKSTVAAKLSKEL---K--YP--IIKGSS   34 (173)
T ss_dssp             EEECSSSSSHHHHHHHHHHHH---C--CC--EEECCC
T ss_pred             EEECCCCCCHHHHHHHHHHHh---C--Ce--eecCcc
Confidence            456778999999999888665   4  44  466664

>3geh_A MNME, tRNA modification GTPase MNME; G protein, U34, GTP-binding, HYDR magnesium, metal-binding, nucleotide-binding, potassium, TR processing; HET: GDP FON; 3.20A {Nostoc SP}

Probab=89.98  E-value=0.39  Score=42.31  Aligned_cols=64  Identities=19%  Similarity=0.090  Sum_probs=34.7

Q ss_pred             CCCCEEEEeCCCCCChh----------HHHHhhhcCCCeEEEEeCCCcchHHHHHHHHHHHHhCCCCeEEEEEcCCCCC
Q psy14655        105 GPCDILFIDTPPGTGDT----------HLSLIQNLFIDTAIIITIPDTMSLQVAQRGYTMFKKLNIPVAGLVMNMNSVL  173 (261)
Q Consensus       105 ~~yd~IiiD~~~~~~~~----------~~~~~~~~~ad~viiv~~~~~~s~~~~~~~~~~l~~~~~~~~giv~N~~~~~  173 (261)
                      +++.+.|+|||+.....          ....+..  +|.+++|++.+.........+++.+..   ..+-+|.|+.+..
T Consensus       270 ~g~~v~liDT~G~~~~~~~ve~~gi~~~~~~~~~--aD~vl~VvD~s~~~~~~~~~i~~~l~~---~piivV~NK~Dl~  343 (462)
T 3geh_A          270 GGIPVQVLDTAGIRETSDQVEKIGVERSRQAANT--ADLVLLTIDAATGWTTGDQEIYEQVKH---RPLILVMNKIDLV  343 (462)
T ss_dssp             TTEEEEECC--------------------CCCCS--CSEEEEEEETTTCSCHHHHHHHHHHTT---SCEEEEEECTTSS
T ss_pred             CCEEEEEEECCccccchhHHHHHHHHHHhhhhhc--CCEEEEEeccCCCCCHHHHHHHHhccC---CcEEEEEECCCCC
Confidence            56788999998632210          0112233  899999998665433333445555543   2466899998864

>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=89.90  E-value=0.12  Score=39.63  Aligned_cols=31  Identities=19%  Similarity=0.250  Sum_probs=23.7

Q ss_pred             cccCCCCCcHHHHHHHHHHHHHhcCCCCeEEEEec
Q psy14655          2 IASSKGGVGKSTTTVNLATAMKICYPDKEIGILDA   36 (261)
Q Consensus         2 v~s~KGGvGKTT~a~~lA~~la~~g~~~~VllvD~   36 (261)
                      ++.+--|+||||++..|+..+  .|  .+++.++.
T Consensus         8 ~l~G~~GsGKsT~~~~L~~~l--~g--~~~~~~~~   38 (204)
T 2v54_A            8 VFEGLDKSGKTTQCMNIMESI--PA--NTIKYLNF   38 (204)
T ss_dssp             EEECCTTSSHHHHHHHHHHTS--CG--GGEEEEES
T ss_pred             EEEcCCCCCHHHHHHHHHHHH--CC--CceEEEec
Confidence            345667999999999998877  46  77776653

>2p5t_B PEZT; postsegregational killing system, phosphoryltransferase, HEL helix motif, transcription regulator; 3.20A {Streptococcus pneumoniae}

Probab=89.88  E-value=0.083  Score=42.49  Aligned_cols=33  Identities=27%  Similarity=0.405  Sum_probs=25.4

Q ss_pred             cccCCCCCcHHHHHHHHHHHHHhcCCCCeEEEEecCCC
Q psy14655          2 IASSKGGVGKSTTTVNLATAMKICYPDKEIGILDADVF   39 (261)
Q Consensus         2 v~s~KGGvGKTT~a~~lA~~la~~g~~~~VllvD~D~~   39 (261)
                      ++.+--|+||||++..|+..+   +  ..+.++|.|.-
T Consensus        36 ~l~G~~GsGKSTla~~L~~~l---~--~~~~~~~~D~~   68 (253)
T 2p5t_B           36 LLGGQSGAGKTTIHRIKQKEF---Q--GNIVIIDGDSF   68 (253)
T ss_dssp             EEESCGGGTTHHHHHHHHHHT---T--TCCEEECGGGG
T ss_pred             EEECCCCCCHHHHHHHHHHhc---C--CCcEEEecHHH
Confidence            456778999999999998765   3  45677888854

>3t15_A Ribulose bisphosphate carboxylase/oxygenase activ chloroplastic; photosynthesis, rubisco activase, AAA+ protein; 2.95A {Nicotiana tabacum} PDB: 3zw6_A

Probab=89.85  E-value=0.15  Score=41.94  Aligned_cols=30  Identities=20%  Similarity=0.034  Sum_probs=24.9

Q ss_pred             ccCCCCCcHHHHHHHHHHHHHhcCCCCeEEEEecC
Q psy14655          3 ASSKGGVGKSTTTVNLATAMKICYPDKEIGILDAD   37 (261)
Q Consensus         3 ~s~KGGvGKTT~a~~lA~~la~~g~~~~VllvD~D   37 (261)
                      ..+.-|+|||++|..+|..+   |  .+++.+++.
T Consensus        41 l~GppGtGKT~la~aiA~~l---~--~~~i~v~~~   70 (293)
T 3t15_A           41 IWGGKGQGKSFQCELVFRKM---G--INPIMMSAG   70 (293)
T ss_dssp             EEECTTSCHHHHHHHHHHHH---T--CCCEEEEHH
T ss_pred             EECCCCCCHHHHHHHHHHHh---C--CCEEEEeHH
Confidence            34667999999999999888   6  888888863

>4bas_A ADP-ribosylation factor, putative (small GTPase, putative); hydrolase; HET: GNP; 2.00A {Trypanosoma brucei TREU927}

Probab=89.79  E-value=1.1  Score=33.70  Aligned_cols=65  Identities=17%  Similarity=0.185  Sum_probs=43.5

Q ss_pred             CCCCEEEEeCCCCCC--hhHHHHhhhcCCCeEEEEeCCC-cchHHHHHHHHHHHHhC-----------CCCeEEEEEcCC
Q psy14655        105 GPCDILFIDTPPGTG--DTHLSLIQNLFIDTAIIITIPD-TMSLQVAQRGYTMFKKL-----------NIPVAGLVMNMN  170 (261)
Q Consensus       105 ~~yd~IiiD~~~~~~--~~~~~~~~~~~ad~viiv~~~~-~~s~~~~~~~~~~l~~~-----------~~~~~giv~N~~  170 (261)
                      ..+.+.|+|+|+...  ......+..  +|.+++|.+.+ ..++..+...+..+...           +.+ +.+|.|+.
T Consensus        61 ~~~~~~i~Dt~G~~~~~~~~~~~~~~--~d~ii~v~D~~~~~s~~~~~~~~~~~~~~~~~~~~~~~~~~~p-iilv~NK~  137 (199)
T 4bas_A           61 GRVAFTVFDMGGAKKFRGLWETYYDN--IDAVIFVVDSSDHLRLCVVKSEIQAMLKHEDIRRELPGGGRVP-FLFFANKM  137 (199)
T ss_dssp             TTEEEEEEEECCSGGGGGGGGGGCTT--CSEEEEEEETTCGGGHHHHHHHHHHHHTSHHHHSBCTTSCBCC-EEEEEECT
T ss_pred             CCEEEEEEECCCCHhHHHHHHHHHhc--CCEEEEEEECCcHHHHHHHHHHHHHHHhChhhhhcccccCCCC-EEEEEECc
Confidence            578899999996432  122223334  89999999854 45677777666655443           455 55899997


Q ss_pred             CC
Q psy14655        171 SV  172 (261)
Q Consensus       171 ~~  172 (261)
                      +.
T Consensus       138 Dl  139 (199)
T 4bas_A          138 DA  139 (199)
T ss_dssp             TS
T ss_pred             CC
Confidence            75

>3clv_A RAB5 protein, putative; malaria, GTPase, structural genomics, GTP-binding, nucleotide-binding, signaling protein; HET: GDP; 1.89A {Plasmodium falciparum}

Probab=89.72  E-value=1.1  Score=33.54  Aligned_cols=62  Identities=18%  Similarity=0.034  Sum_probs=42.4

Q ss_pred             CCEEEEeCCCCC--ChhHHHHhhhcCCCeEEEEeCCCc-chHHHHHHHHHHHHh-CCCCeEEEEEcCCC
Q psy14655        107 CDILFIDTPPGT--GDTHLSLIQNLFIDTAIIITIPDT-MSLQVAQRGYTMFKK-LNIPVAGLVMNMNS  171 (261)
Q Consensus       107 yd~IiiD~~~~~--~~~~~~~~~~~~ad~viiv~~~~~-~s~~~~~~~~~~l~~-~~~~~~giv~N~~~  171 (261)
                      +.+.|+|+|+..  .......+..  +|.+++|...+. .+...+..++..+.. .+ ..+-+|.|+.+
T Consensus        93 ~~~~i~Dt~G~~~~~~~~~~~~~~--~d~~i~v~D~~~~~s~~~~~~~~~~i~~~~~-~piilv~NK~D  158 (208)
T 3clv_A           93 IKFDIWDTAGQERYASIVPLYYRG--ATCAIVVFDISNSNTLDRAKTWVNQLKISSN-YIIILVANKID  158 (208)
T ss_dssp             EEEEEEECTTGGGCTTTHHHHHTT--CSEEEEEEETTCHHHHHHHHHHHHHHHHHSC-CEEEEEEECTT
T ss_pred             eEEEEEECCCcHHHHHHHHHHhcC--CCEEEEEEECCCHHHHHHHHHHHHHHHhhCC-CcEEEEEECCC
Confidence            789999999642  2333444455  999999998654 456666666665554 34 45779999966

>4dhe_A Probable GTP-binding protein ENGB; melioidosis, RAS-like GTPase, cell division, cell cycle, SEP GTP-binding; 2.20A {Burkholderia thailandensis}

Probab=89.69  E-value=0.76  Score=35.48  Aligned_cols=67  Identities=12%  Similarity=0.014  Sum_probs=40.0

Q ss_pred             CCCCEEEEeCCCCCCh------------hHHHHhhhc-CCCeEEEEeCCCcchHHHHHHHHHHHHhCCCCeEEEEEcCCC
Q psy14655        105 GPCDILFIDTPPGTGD------------THLSLIQNL-FIDTAIIITIPDTMSLQVAQRGYTMFKKLNIPVAGLVMNMNS  171 (261)
Q Consensus       105 ~~yd~IiiD~~~~~~~------------~~~~~~~~~-~ad~viiv~~~~~~s~~~~~~~~~~l~~~~~~~~giv~N~~~  171 (261)
                      .++.+.|+|||+....            .....+... .+|.+++|+..+...-.....+++.+...+.+ +.+|+|+.+
T Consensus        77 ~~~~~~l~DtpG~~~~~~~~~~~~~~~~~~~~~~~~~~~~d~vi~v~d~~~~~~~~~~~~~~~l~~~~~p-~i~v~nK~D  155 (223)
T 4dhe_A           77 AEPVAHLVDLPGYGYAEVPGAAKAHWEQLLSSYLQTRPQLCGMILMMDARRPLTELDRRMIEWFAPTGKP-IHSLLTKCD  155 (223)
T ss_dssp             TSCSEEEEECCCCCSSCCCSTHHHHHHHHHHHHHHHCTTEEEEEEEEETTSCCCHHHHHHHHHHGGGCCC-EEEEEECGG
T ss_pred             CCCcEEEEcCCCCCcccCChhhHHHHHHHHHHHHhcCcCcCEEEEEEeCCCCCCHHHHHHHHHHHhcCCC-EEEEEeccc
Confidence            5689999999963221            111122221 15678888886543234445566777776666 558999965


Q ss_pred             C
Q psy14655        172 V  172 (261)
Q Consensus       172 ~  172 (261)
                      .
T Consensus       156 l  156 (223)
T 4dhe_A          156 K  156 (223)
T ss_dssp             G
T ss_pred             c
Confidence            3

>3trf_A Shikimate kinase, SK; amino acid biosynthesis, transferase; 2.60A {Coxiella burnetii}

Probab=89.68  E-value=0.16  Score=38.40  Aligned_cols=21  Identities=24%  Similarity=0.222  Sum_probs=17.4

Q ss_pred             cccCCCCCcHHHHHHHHHHHH
Q psy14655          2 IASSKGGVGKSTTTVNLATAM   22 (261)
Q Consensus         2 v~s~KGGvGKTT~a~~lA~~l   22 (261)
                      ++.+--|+||||++..||..+
T Consensus         9 ~l~G~~GsGKst~a~~La~~l   29 (185)
T 3trf_A            9 YLIGLMGAGKTSVGSQLAKLT   29 (185)
T ss_dssp             EEECSTTSSHHHHHHHHHHHH
T ss_pred             EEECCCCCCHHHHHHHHHHHh
Confidence            455678999999999998766

>4ag6_A VIRB4 ATPase, type IV secretory pathway VIRB4 components-like P; hydrolase, type IV secretion, conjugation; 2.35A {Thermoanaerobacter pseudethanolicus} PDB: 4ag5_A

Probab=89.65  E-value=0.27  Score=42.13  Aligned_cols=35  Identities=26%  Similarity=0.187  Sum_probs=29.7

Q ss_pred             cccCCCCCcHHHHHHHHHHHHHhcCCCCeEEEEecCC
Q psy14655          2 IASSKGGVGKSTTTVNLATAMKICYPDKEIGILDADV   38 (261)
Q Consensus         2 v~s~KGGvGKTT~a~~lA~~la~~g~~~~VllvD~D~   38 (261)
                      ++-+.-|+||||+...++..+...|  .+|+++|.+.
T Consensus        39 ~i~G~~G~GKs~~~~~~~~~~~~~~--~~~~~~D~~~   73 (392)
T 4ag6_A           39 TILAKPGAGKSFTAKMLLLREYMQG--SRVIIIDPER   73 (392)
T ss_dssp             EEECCTTSSHHHHHHHHHHHHHTTT--CCEEEEESSC
T ss_pred             EEEcCCCCCHHHHHHHHHHHHHHCC--CEEEEEeCCc
Confidence            3456779999999999999998888  9999998653

>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=89.63  E-value=1.7  Score=36.85  Aligned_cols=32  Identities=25%  Similarity=0.389  Sum_probs=25.5

Q ss_pred             cccCCCCCcHHHHHHHHHHHHHhc-CCCCeEEEEe
Q psy14655          2 IASSKGGVGKSTTTVNLATAMKIC-YPDKEIGILD   35 (261)
Q Consensus         2 v~s~KGGvGKTT~a~~lA~~la~~-g~~~~VllvD   35 (261)
                      .+.+.-|+||||+...++..+... +  .+++.++
T Consensus       127 ~I~GptGSGKTTlL~~l~g~~~~~~~--~~i~t~e  159 (356)
T 3jvv_A          127 LVTGPTGSGKSTTLAAMLDYLNNTKY--HHILTIE  159 (356)
T ss_dssp             EEECSTTSCHHHHHHHHHHHHHHHCC--CEEEEEE
T ss_pred             EEECCCCCCHHHHHHHHHhcccCCCC--cEEEEcc
Confidence            356778999999999999999876 5  6666554

>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=89.60  E-value=0.12  Score=39.23  Aligned_cols=21  Identities=33%  Similarity=0.476  Sum_probs=17.6

Q ss_pred             cccCCCCCcHHHHHHHHHHHH
Q psy14655          2 IASSKGGVGKSTTTVNLATAM   22 (261)
Q Consensus         2 v~s~KGGvGKTT~a~~lA~~l   22 (261)
                      ++.+--|+||||++..|+..+
T Consensus         9 ~l~G~~GsGKST~~~~L~~~l   29 (193)
T 2rhm_A            9 IVTGHPATGKTTLSQALATGL   29 (193)
T ss_dssp             EEEESTTSSHHHHHHHHHHHH
T ss_pred             EEECCCCCCHHHHHHHHHHHc
Confidence            456678999999999998876

>3do6_A Formate--tetrahydrofolate ligase; TM1766, putative formyltetrahydrofolate synthetase, structural genomics; HET: MSE; 1.85A {Thermotoga maritima} SCOP: c.37.1.0

Probab=89.46  E-value=0.28  Score=42.94  Aligned_cols=45  Identities=22%  Similarity=0.333  Sum_probs=34.1

Q ss_pred             cccCCCCCcHHHHHHHHHHHHHhcCCCCeEEEEecCCCCCCcccccCCCC
Q psy14655          2 IASSKGGVGKSTTTVNLATAMKICYPDKEIGILDADVFGPSIPILMNLPD   51 (261)
Q Consensus         2 v~s~KGGvGKTT~a~~lA~~la~~g~~~~VllvD~D~~~~~~~~~~~~~~   51 (261)
                      +.-..=|.||||++..|+..|.+.|  +++.+.   ...||+.--||+..
T Consensus        51 ItPTPaGEGKtTttiGL~~aL~~lg--k~~~~~---lRePSlGP~FGiKG   95 (543)
T 3do6_A           51 VTPTPAGEGKTTTSIGLSMSLNRIG--KKSIVT---LREPSLGPTLGLKG   95 (543)
T ss_dssp             SSCCTTCCCHHHHHHHHHHHHHHTT--CCEEEE---ECCCCHHHHHHSCC
T ss_pred             cCCCCCCCCccchHHHHHHHHHhcC--CeeEEE---EecCCCCCcCCccc
Confidence            3456679999999999999999999  888664   34456555566653

>3izq_1 HBS1P, elongation factor 1 alpha-like protein; NO-GO mRNA decay, ribosomal protein,hydrolase; 9.50A {Saccharomyces cerevisiae}

Probab=89.28  E-value=0.97  Score=41.30  Aligned_cols=68  Identities=15%  Similarity=0.045  Sum_probs=45.7

Q ss_pred             CCCCEEEEeCCCCCChhHHHHhhhcCCCeEEEEeCCCcch-------HHHHHHHHHHHHhCCCCeEEEEEcCCCC
Q psy14655        105 GPCDILFIDTPPGTGDTHLSLIQNLFIDTAIIITIPDTMS-------LQVAQRGYTMFKKLNIPVAGLVMNMNSV  172 (261)
Q Consensus       105 ~~yd~IiiD~~~~~~~~~~~~~~~~~ad~viiv~~~~~~s-------~~~~~~~~~~l~~~~~~~~giv~N~~~~  172 (261)
                      ..+.++|+|||+..............+|.+|+|+..+...       .......+..+...+.+.+.+|+|+++.
T Consensus       243 ~~~~~~iiDTPG~e~f~~~~~~~~~~aD~~llVVDa~~g~~e~~~~~~~qt~e~l~~~~~lgi~~iIVVvNKiDl  317 (611)
T 3izq_1          243 HRANFTIVDAPGHRDFVPNAIMGISQADMAILCVDCSTNAFESGFDLDGQTKEHMLLASSLGIHNLIIAMNKMDN  317 (611)
T ss_dssp             SSCEEEEEECCSSSCHHHHHTTTSSCCSEEEEEEECSHHHHHTTCCTTSHHHHHHHHHHTTTCCEEEEEEECTTT
T ss_pred             CCceEEEEECCCCcccHHHHHHHHhhcCceEEEEECCCCcccccchhhhHHHHHHHHHHHcCCCeEEEEEecccc
Confidence            4678999999975443222222222289999999987642       2355566667777787767799999774

>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=89.22  E-value=0.17  Score=42.10  Aligned_cols=37  Identities=11%  Similarity=-0.011  Sum_probs=27.8

Q ss_pred             ccCCCCCcHHHHHHHHHHHHHh------------cC-CC-CeEEEEecCCC
Q psy14655          3 ASSKGGVGKSTTTVNLATAMKI------------CY-PD-KEIGILDADVF   39 (261)
Q Consensus         3 ~s~KGGvGKTT~a~~lA~~la~------------~g-~~-~~VllvD~D~~   39 (261)
                      +.+..|+||||++.++|...+.            .| .+ .+|++||++..
T Consensus       103 i~G~~gsGKT~la~~la~~~~l~~~~~~~~~~~~~gg~~~~~v~yi~~e~~  153 (322)
T 2i1q_A          103 FAGVFGSGKTQIMHQSCVNLQNPEFLFYDEEAVSKGEVAQPKAVYIDTEGT  153 (322)
T ss_dssp             EEESTTSSHHHHHHHHHHHTTCGGGEECCTTTSCTTTTSSEEEEEEESSSC
T ss_pred             EECCCCCCHHHHHHHHHHHHhccccccccccccccCCCCCceEEEEECCCC
Confidence            4566799999999999987532            11 01 69999999875

>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=89.20  E-value=2.2  Score=31.72  Aligned_cols=66  Identities=11%  Similarity=0.054  Sum_probs=43.9

Q ss_pred             CCCCEEEEeCCCCC--ChhHHHHhhhcCCCeEEEEeCCC-cchHHHHHHHHHHHHhC---CCCeEEEEEcCCCC
Q psy14655        105 GPCDILFIDTPPGT--GDTHLSLIQNLFIDTAIIITIPD-TMSLQVAQRGYTMFKKL---NIPVAGLVMNMNSV  172 (261)
Q Consensus       105 ~~yd~IiiD~~~~~--~~~~~~~~~~~~ad~viiv~~~~-~~s~~~~~~~~~~l~~~---~~~~~giv~N~~~~  172 (261)
                      .++.+.|+|+|+..  .......+..  +|.+++|.+.+ ..++..+...+..+...   .-..+-+|.|+.+.
T Consensus        58 ~~~~~~i~Dt~G~~~~~~~~~~~~~~--~d~ii~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~piilv~NK~Dl  129 (187)
T 1zj6_A           58 NNTRFLMWDIGGQESLRSSWNTYYTN--TEFVIVVVDSTDRERISVTREELYKMLAHEDLRKAGLLIFANKQDV  129 (187)
T ss_dssp             TTEEEEEEECCC----CGGGHHHHTT--CCEEEEEEETTCTTTHHHHHHHHHHHHTSGGGTTCEEEEEEECTTS
T ss_pred             CCEEEEEEECCCCHhHHHHHHHHhcC--CCEEEEEEeCCCHHHHHHHHHHHHHHHhchhhCCCeEEEEEECCCC
Confidence            45789999999753  2333344555  99999999854 45777777777666542   22346699999764

>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=89.15  E-value=0.92  Score=33.94  Aligned_cols=65  Identities=14%  Similarity=0.137  Sum_probs=39.5

Q ss_pred             CCCCEEEEeCCCCCC--hhHHHHhhhcCCCeEEEEeCC-CcchHHHHHHHHHHHHhC----CCCeEEEEEcCCCC
Q psy14655        105 GPCDILFIDTPPGTG--DTHLSLIQNLFIDTAIIITIP-DTMSLQVAQRGYTMFKKL----NIPVAGLVMNMNSV  172 (261)
Q Consensus       105 ~~yd~IiiD~~~~~~--~~~~~~~~~~~ad~viiv~~~-~~~s~~~~~~~~~~l~~~----~~~~~giv~N~~~~  172 (261)
                      ..+++.|+|+|+...  ......+..  +|.++++... +..+...+..+++.+...    +.+ +.+|.|+++.
T Consensus        67 ~~~~~~l~Dt~G~~~~~~~~~~~~~~--~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~p-~ilv~nK~Dl  138 (190)
T 3con_A           67 ETCLLDILDTAGQEEYSAMRDQYMRT--GEGFLCVFAINNSKSFADINLYREQIKRVKDSDDVP-MVLVGNKCDL  138 (190)
T ss_dssp             EEEEEEEEECCC-----------CTT--CSEEEEEEETTCHHHHHHHHHHHHHHHHHHTCSCCC-EEEEEECTTC
T ss_pred             EEEEEEEEECCChHHHHHHHHHhhCc--CCEEEEEEECcCHHHHHHHHHHHHHHHHHhCCCCCe-EEEEEECCcC
Confidence            457899999997432  222233444  8999988884 455666666666655442    445 5699999774

>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=89.14  E-value=0.2  Score=43.34  Aligned_cols=35  Identities=20%  Similarity=0.061  Sum_probs=27.7

Q ss_pred             ccCCCCCcHHHHHHHHHHHHHh------cCCCCeEEEEecCCC
Q psy14655          3 ASSKGGVGKSTTTVNLATAMKI------CYPDKEIGILDADVF   39 (261)
Q Consensus         3 ~s~KGGvGKTT~a~~lA~~la~------~g~~~~VllvD~D~~   39 (261)
                      +.+.-|+||||++.+++.....      .+  .+|++||....
T Consensus       183 I~G~sGsGKTTLl~~la~~~~~p~~~Gg~~--~~viyid~E~~  223 (400)
T 3lda_A          183 LFGEFRTGKSQLCHTLAVTCQIPLDIGGGE--GKCLYIDTEGT  223 (400)
T ss_dssp             EEESTTSSHHHHHHHHHHHTTSCGGGTCCS--SEEEEEESSSC
T ss_pred             EEcCCCCChHHHHHHHHHHhccCcccCCCC--CcEEEEeCCCc
Confidence            3466799999999999877654      34  78999998754

>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=89.05  E-value=0.16  Score=45.72  Aligned_cols=33  Identities=24%  Similarity=0.336  Sum_probs=23.0

Q ss_pred             ccCCCCCcHHHHHHHHHH----HHHhcCCCCeEEEEecC
Q psy14655          3 ASSKGGVGKSTTTVNLAT----AMKICYPDKEIGILDAD   37 (261)
Q Consensus         3 ~s~KGGvGKTT~a~~lA~----~la~~g~~~~VllvD~D   37 (261)
                      +.+-||+||||+|..++.    .....-  .-++.|+..
T Consensus       157 I~G~gGvGKTtLA~~v~~~~~~~~~~~F--~~~~wv~vs  193 (549)
T 2a5y_B          157 LHGRAGSGKSVIASQALSKSDQLIGINY--DSIVWLKDS  193 (549)
T ss_dssp             EECSTTSSHHHHHHHHHHHCSSTBTTTB--SEEEEEECC
T ss_pred             EEcCCCCCHHHHHHHHHHhhhHHHhccC--CcEEEEEEC
Confidence            457899999999998885    333333  456666554

>3cmu_A Protein RECA, recombinase A; homologous recombination, recombination/DNA complex; HET: DNA ADP; 4.20A {Escherichia coli}

Probab=89.00  E-value=0.26  Score=50.95  Aligned_cols=37  Identities=22%  Similarity=0.122  Sum_probs=32.6

Q ss_pred             cccCCCCCcHHHHHHHHHHHHHhcCCCCeEEEEecCCCC
Q psy14655          2 IASSKGGVGKSTTTVNLATAMKICYPDKEIGILDADVFG   40 (261)
Q Consensus         2 v~s~KGGvGKTT~a~~lA~~la~~g~~~~VllvD~D~~~   40 (261)
                      ++.+--|+|||++|.++|....++|  .+|+++|++...
T Consensus      1431 ll~GppGtGKT~LA~ala~ea~~~G--~~v~Fi~~e~~~ 1467 (2050)
T 3cmu_A         1431 EIYGPESSGKTTLTLQVIAAAQREG--KTCAFIDAEHAL 1467 (2050)
T ss_dssp             EEECCTTSSHHHHHHHHHHHHHTTT--CCEEEECTTSCC
T ss_pred             EEECCCCCCHHHHHHHHHHHHHHcC--CcEEEEEccccc
Confidence            3567789999999999999999999  999999998653

>3ld9_A DTMP kinase, thymidylate kinase; ssgcid, NIH, niaid, SBRI, UW, emerald biostructures, ehrlich chaffeensis; 2.15A {Ehrlichia chaffeensis}

Probab=88.96  E-value=0.3  Score=38.54  Aligned_cols=37  Identities=22%  Similarity=0.122  Sum_probs=30.0

Q ss_pred             cccCCCCCcHHHHHHHHHHHHHh-cCCCCeEEEEecCCCC
Q psy14655          2 IASSKGGVGKSTTTVNLATAMKI-CYPDKEIGILDADVFG   40 (261)
Q Consensus         2 v~s~KGGvGKTT~a~~lA~~la~-~g~~~~VllvD~D~~~   40 (261)
                      ++.+--|+||||++..|+..|.. .|  .+|.++--.|.+
T Consensus        25 ~~~G~~g~GKst~~~~l~~~l~~~~g--~~v~~~treP~~   62 (223)
T 3ld9_A           25 TFEGIDGSGKTTQSHLLAEYLSEIYG--VNNVVLTREPGG   62 (223)
T ss_dssp             EEECSTTSSHHHHHHHHHHHHHHHHC--GGGEEEEESSCS
T ss_pred             EEECCCCCCHHHHHHHHHHHHhhccC--ceeeEeeeCCCC
Confidence            34567799999999999999999 99  888875555553

>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=88.94  E-value=0.32  Score=39.83  Aligned_cols=33  Identities=24%  Similarity=0.278  Sum_probs=26.8

Q ss_pred             cccCCCCCcHHHHHHHHHHHHHhcCCCCeEEEEecCCC
Q psy14655          2 IASSKGGVGKSTTTVNLATAMKICYPDKEIGILDADVF   39 (261)
Q Consensus         2 v~s~KGGvGKTT~a~~lA~~la~~g~~~~VllvD~D~~   39 (261)
                      +..+.-|+|||+++..+|..+   +  .+++.+++...
T Consensus        54 ll~G~~GtGKT~la~~la~~l---~--~~~~~i~~~~~   86 (310)
T 1ofh_A           54 LMIGPTGVGKTEIARRLAKLA---N--APFIKVEATKF   86 (310)
T ss_dssp             EEECCTTSSHHHHHHHHHHHH---T--CCEEEEEGGGG
T ss_pred             EEECCCCCCHHHHHHHHHHHh---C--CCEEEEcchhc
Confidence            345778999999999999887   5  78888888654

>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=88.77  E-value=0.28  Score=39.13  Aligned_cols=30  Identities=20%  Similarity=0.149  Sum_probs=25.1

Q ss_pred             ccCCCCCcHHHHHHHHHHHHHhcCCCCe-EEEE
Q psy14655          3 ASSKGGVGKSTTTVNLATAMKICYPDKE-IGIL   34 (261)
Q Consensus         3 ~s~KGGvGKTT~a~~lA~~la~~g~~~~-Vllv   34 (261)
                      +.+--|+||||++..|+..|...|  .+ |.+.
T Consensus        32 ~eG~~GsGKsT~~~~l~~~l~~~~--~~~~~~~   62 (236)
T 3lv8_A           32 IEGLEGAGKSTAIQVVVETLQQNG--IDHITRT   62 (236)
T ss_dssp             EEESTTSCHHHHHHHHHHHHHHTT--CCCEEEE
T ss_pred             EECCCCCCHHHHHHHHHHHHHhcC--CCeeeee
Confidence            445679999999999999999999  88 5544

>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=88.68  E-value=2.2  Score=31.82  Aligned_cols=65  Identities=11%  Similarity=0.102  Sum_probs=43.0

Q ss_pred             CCCCEEEEeCCCCCC--hhHHHHhhhcCCCeEEEEeCCC-cchHHHHHHHHHHHHhC------CCCeEEEEEcCCCC
Q psy14655        105 GPCDILFIDTPPGTG--DTHLSLIQNLFIDTAIIITIPD-TMSLQVAQRGYTMFKKL------NIPVAGLVMNMNSV  172 (261)
Q Consensus       105 ~~yd~IiiD~~~~~~--~~~~~~~~~~~ad~viiv~~~~-~~s~~~~~~~~~~l~~~------~~~~~giv~N~~~~  172 (261)
                      .++.+.|+|+|+...  ......+..  +|.+++|.+.+ ..++..+...+..+...      +.+ +-+|.|+.+.
T Consensus        65 ~~~~~~l~Dt~G~~~~~~~~~~~~~~--~d~ii~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~p-iilv~nK~Dl  138 (190)
T 2h57_A           65 SSLSFTVFDMSGQGRYRNLWEHYYKE--GQAIIFVIDSSDRLRMVVAKEELDTLLNHPDIKHRRIP-ILFFANKMDL  138 (190)
T ss_dssp             SSCEEEEEEECCSTTTGGGGGGGGGG--CSEEEEEEETTCHHHHHHHHHHHHHHHHSTTTTTSCCC-EEEEEECTTS
T ss_pred             CCEEEEEEECCCCHHHHHHHHHHHhc--CCEEEEEEECCCHHHHHHHHHHHHHHHhChhhccCCCe-EEEEEeCcCc
Confidence            457899999997432  222334444  89999999854 45677776666555432      344 5689999764

>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=88.59  E-value=0.19  Score=38.13  Aligned_cols=30  Identities=17%  Similarity=0.218  Sum_probs=21.3

Q ss_pred             cccCCCCCcHHHHHHHHHHHHHhcCCCCeEEEEecC
Q psy14655          2 IASSKGGVGKSTTTVNLATAMKICYPDKEIGILDAD   37 (261)
Q Consensus         2 v~s~KGGvGKTT~a~~lA~~la~~g~~~~VllvD~D   37 (261)
                      ++.+--|+||||++..||..+  .|  .  -++|+|
T Consensus        14 ~l~G~~GsGKSTv~~~La~~l--~g--~--~~id~d   43 (184)
T 1y63_A           14 LITGTPGTGKTSMAEMIAAEL--DG--F--QHLEVG   43 (184)
T ss_dssp             EEECSTTSSHHHHHHHHHHHS--TT--E--EEEEHH
T ss_pred             EEECCCCCCHHHHHHHHHHhc--CC--C--EEeeHH
Confidence            456677999999998887652  24  3  456776

>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=88.58  E-value=0.35  Score=38.53  Aligned_cols=32  Identities=16%  Similarity=0.109  Sum_probs=25.3

Q ss_pred             cccCCCCCcHHHHHHHHHHHHHhcCCCCeEEEEecCC
Q psy14655          2 IASSKGGVGKSTTTVNLATAMKICYPDKEIGILDADV   38 (261)
Q Consensus         2 v~s~KGGvGKTT~a~~lA~~la~~g~~~~VllvD~D~   38 (261)
                      +..+..|+||||+|..+|..+   +  .+++.+++..
T Consensus        43 ll~G~~GtGKT~la~~la~~~---~--~~~~~~~~~~   74 (262)
T 2qz4_A           43 LLLGPPGCGKTLLAKAVATEA---Q--VPFLAMAGAE   74 (262)
T ss_dssp             EEESCTTSSHHHHHHHHHHHH---T--CCEEEEETTT
T ss_pred             EEECCCCCCHHHHHHHHHHHh---C--CCEEEechHH
Confidence            355778999999999998865   5  7778887754

>3v9p_A DTMP kinase, thymidylate kinase; ssgcid, STRU genomics, seattle structural genomics center for infectious transferase; 1.90A {Burkholderia thailandensis}

Probab=88.49  E-value=0.24  Score=39.26  Aligned_cols=31  Identities=13%  Similarity=0.126  Sum_probs=23.5

Q ss_pred             cccCCCCCcHHHHHHHHHHHHHhc----CCCCeEEEE
Q psy14655          2 IASSKGGVGKSTTTVNLATAMKIC----YPDKEIGIL   34 (261)
Q Consensus         2 v~s~KGGvGKTT~a~~lA~~la~~----g~~~~Vllv   34 (261)
                      ++.+--|+||||++..|+..|...    |  .+|.+.
T Consensus        29 ~~eG~~GsGKsT~~~~l~~~l~~~~~~~g--~~v~~~   63 (227)
T 3v9p_A           29 TFEGIDGAGKTTHLQWFCDRLQERLGPAG--RHVVVT   63 (227)
T ss_dssp             EEECCC---CHHHHHHHHHHHHHHHGGGT--CCEEEE
T ss_pred             EEECCCCCCHHHHHHHHHHHHHhhccccc--eeeeee
Confidence            345677999999999999999988    9  888654

>2plr_A DTMP kinase, probable thymidylate kinase; TMP-binding, ATP-binding, structural GEN NPPSFA; HET: 1PE PGE EPE PG4; 1.60A {Sulfolobus tokodaii}

Probab=88.46  E-value=0.21  Score=38.36  Aligned_cols=25  Identities=20%  Similarity=0.190  Sum_probs=20.5

Q ss_pred             cccCCCCCcHHHHHHHHHHHHHhcC
Q psy14655          2 IASSKGGVGKSTTTVNLATAMKICY   26 (261)
Q Consensus         2 v~s~KGGvGKTT~a~~lA~~la~~g   26 (261)
                      ++.+--|+||||++..|+..+...|
T Consensus         8 ~i~G~~GsGKsT~~~~L~~~l~~~g   32 (213)
T 2plr_A            8 AFEGIDGSGKSSQATLLKDWIELKR   32 (213)
T ss_dssp             EEECCTTSSHHHHHHHHHHHHTTTS
T ss_pred             EEEcCCCCCHHHHHHHHHHHHhhcC
Confidence            4567789999999999999886544

>1via_A Shikimate kinase; structural genomics, transferase; HET: MSE; 1.57A {Campylobacter jejuni} SCOP: c.37.1.2

Probab=88.44  E-value=0.22  Score=37.26  Aligned_cols=30  Identities=33%  Similarity=0.292  Sum_probs=22.1

Q ss_pred             cccCCCCCcHHHHHHHHHHHHHhcCCCCeEEEEecCC
Q psy14655          2 IASSKGGVGKSTTTVNLATAMKICYPDKEIGILDADV   38 (261)
Q Consensus         2 v~s~KGGvGKTT~a~~lA~~la~~g~~~~VllvD~D~   38 (261)
                      ++.+--|+||||++..||..+   |  .  .++|.|.
T Consensus         8 ~i~G~~GsGKsTla~~La~~l---~--~--~~~d~d~   37 (175)
T 1via_A            8 VFIGFMGSGKSTLARALAKDL---D--L--VFLDSDF   37 (175)
T ss_dssp             EEECCTTSCHHHHHHHHHHHH---T--C--EEEEHHH
T ss_pred             EEEcCCCCCHHHHHHHHHHHc---C--C--CEEcccH
Confidence            456778999999999998765   3  3  3567663

>3t61_A Gluconokinase; PSI-biology, structural genomics, protein structure initiati YORK structural genomics research consortium, nysgrc; 2.20A {Sinorhizobium meliloti}

Probab=88.38  E-value=0.22  Score=38.30  Aligned_cols=30  Identities=23%  Similarity=0.306  Sum_probs=22.6

Q ss_pred             cccCCCCCcHHHHHHHHHHHHHhcCCCCeEEEEecCC
Q psy14655          2 IASSKGGVGKSTTTVNLATAMKICYPDKEIGILDADV   38 (261)
Q Consensus         2 v~s~KGGvGKTT~a~~lA~~la~~g~~~~VllvD~D~   38 (261)
                      ++.+--|+||||++..|+..+   |  .  .++|.|.
T Consensus        22 ~l~G~~GsGKSTla~~L~~~l---g--~--~~i~~d~   51 (202)
T 3t61_A           22 VVMGVSGSGKSSVGEAIAEAC---G--Y--PFIEGDA   51 (202)
T ss_dssp             EEECSTTSCHHHHHHHHHHHH---T--C--CEEEGGG
T ss_pred             EEECCCCCCHHHHHHHHHHHh---C--C--EEEeCCc
Confidence            456778999999999998876   4  3  3566664

>2hxs_A RAB-26, RAS-related protein RAB-28; GTPase, signaling protein; HET: G3D; 1.10A {Homo sapiens} PDB: 2hy4_A* 3e5h_A*

Probab=88.38  E-value=1  Score=33.09  Aligned_cols=65  Identities=18%  Similarity=0.132  Sum_probs=43.8

Q ss_pred             CCCEEEEeCCCCCC--hhHHHHhhhcCCCeEEEEeCCC-cchHHHHHHHHHHHHhC-----CCCeEEEEEcCCCC
Q psy14655        106 PCDILFIDTPPGTG--DTHLSLIQNLFIDTAIIITIPD-TMSLQVAQRGYTMFKKL-----NIPVAGLVMNMNSV  172 (261)
Q Consensus       106 ~yd~IiiD~~~~~~--~~~~~~~~~~~ad~viiv~~~~-~~s~~~~~~~~~~l~~~-----~~~~~giv~N~~~~  172 (261)
                      .+.+.|+|+|+...  ......+..  +|.+++|.+.+ ..+...+..+++.+...     +.+.+.+|.|+.+.
T Consensus        55 ~~~~~~~Dt~G~~~~~~~~~~~~~~--~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~~~~iilv~nK~Dl  127 (178)
T 2hxs_A           55 NVTLQIWDIGGQTIGGKMLDKYIYG--AQGVLLVYDITNYQSFENLEDWYTVVKKVSEESETQPLVALVGNKIDL  127 (178)
T ss_dssp             EEEEEEEECTTCCTTCTTHHHHHTT--CSEEEEEEETTCHHHHHTHHHHHHHHHHHHHHHTCCCEEEEEEECGGG
T ss_pred             EEEEEEEECCCCccccchhhHHHhh--CCEEEEEEECCCHHHHHHHHHHHHHHHHHhcccCCCCeEEEEEEcccc
Confidence            47899999997542  233444555  99999999854 45666666666655542     45557789999664

>1r5b_A Eukaryotic peptide chain release factor GTP-bindi subunit; translation termination, peptide release, GTPase, translatio; 2.35A {Schizosaccharomyces pombe} SCOP: b.43.3.1 b.44.1.1 c.37.1.8 PDB: 1r5n_A* 1r5o_A* 3e20_A

Probab=88.34  E-value=0.58  Score=41.23  Aligned_cols=66  Identities=11%  Similarity=0.112  Sum_probs=41.4

Q ss_pred             CCCCEEEEeCCCCCChh--HHHHhhhcCCCeEEEEeCCCcchH-------HHHHHHHHHHHhCCCCeEEEEEcCCCC
Q psy14655        105 GPCDILFIDTPPGTGDT--HLSLIQNLFIDTAIIITIPDTMSL-------QVAQRGYTMFKKLNIPVAGLVMNMNSV  172 (261)
Q Consensus       105 ~~yd~IiiD~~~~~~~~--~~~~~~~~~ad~viiv~~~~~~s~-------~~~~~~~~~l~~~~~~~~giv~N~~~~  172 (261)
                      .++.+.|+|||+.....  ....+..  +|.+|+|+..+...+       ......+..+...+.+.+-+++|+++.
T Consensus       119 ~~~~~~iiDtPGh~~f~~~~~~~~~~--aD~~ilVvDa~~g~~e~sf~~~~qt~e~l~~~~~~~vp~iivviNK~Dl  193 (467)
T 1r5b_A          119 EHRRFSLLDAPGHKGYVTNMINGASQ--ADIGVLVISARRGEFEAGFERGGQTREHAVLARTQGINHLVVVINKMDE  193 (467)
T ss_dssp             SSEEEEECCCCC-----------TTS--CSEEEEEEECSTTHHHHTTSTTCCHHHHHHHHHHTTCSSEEEEEECTTS
T ss_pred             CCeEEEEEECCCcHHHHHHHHhhccc--CCEEEEEEeCCcCccccccCCCCcHHHHHHHHHHcCCCEEEEEEECccC
Confidence            45689999999754322  2223333  999999999766533       244555566666787756799999775

>4tmk_A Protein (thymidylate kinase); ATP:DTMP phosphotransferase, transferase; HET: T5A; 1.98A {Escherichia coli} SCOP: c.37.1.1 PDB: 5tmp_A*

Probab=88.29  E-value=0.32  Score=38.07  Aligned_cols=30  Identities=13%  Similarity=0.134  Sum_probs=24.6

Q ss_pred             ccCCCCCcHHHHHHHHHHHHHhcCCCC-eEEEE
Q psy14655          3 ASSKGGVGKSTTTVNLATAMKICYPDK-EIGIL   34 (261)
Q Consensus         3 ~s~KGGvGKTT~a~~lA~~la~~g~~~-~Vllv   34 (261)
                      +-+--|+||||.+..|+..|...|  . .|.+.
T Consensus         8 ~eG~~gsGKsT~~~~l~~~l~~~~--~~~v~~~   38 (213)
T 4tmk_A            8 IEGLEGAGKTTARNVVVETLEQLG--IRDMVFT   38 (213)
T ss_dssp             EEECTTSCHHHHHHHHHHHHHHTT--CCCEEEE
T ss_pred             EECCCCCCHHHHHHHHHHHHHHcC--CCcceee
Confidence            345679999999999999999998  7 55443

>3vaa_A Shikimate kinase, SK; structural genomics, center for structural genomics of infec diseases, csgid, metal binding, transferase; 1.70A {Bacteroides thetaiotaomicron}

Probab=88.29  E-value=0.23  Score=38.18  Aligned_cols=30  Identities=23%  Similarity=0.275  Sum_probs=22.4

Q ss_pred             cccCCCCCcHHHHHHHHHHHHHhcCCCCeEEEEecCC
Q psy14655          2 IASSKGGVGKSTTTVNLATAMKICYPDKEIGILDADV   38 (261)
Q Consensus         2 v~s~KGGvGKTT~a~~lA~~la~~g~~~~VllvD~D~   38 (261)
                      ++.+--|+||||++..||..+   |  ..  ++|.|.
T Consensus        29 ~l~G~~GsGKsTl~~~La~~l---~--~~--~i~~d~   58 (199)
T 3vaa_A           29 FLTGYMGAGKTTLGKAFARKL---N--VP--FIDLDW   58 (199)
T ss_dssp             EEECCTTSCHHHHHHHHHHHH---T--CC--EEEHHH
T ss_pred             EEEcCCCCCHHHHHHHHHHHc---C--CC--EEcchH
Confidence            455778999999999999877   4  44  356653

>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=88.22  E-value=0.98  Score=42.25  Aligned_cols=43  Identities=26%  Similarity=0.358  Sum_probs=31.1

Q ss_pred             cccCCCCCcHHHHHHHHHHHHHhcCCCCeEEEEecCCCCC--CcccccCC
Q psy14655          2 IASSKGGVGKSTTTVNLATAMKICYPDKEIGILDADVFGP--SIPILMNL   49 (261)
Q Consensus         2 v~s~KGGvGKTT~a~~lA~~la~~g~~~~VllvD~D~~~~--~~~~~~~~   49 (261)
                      ++.+.-|+|||++|..+|..+   +  .+.+.+|+.....  +.+.++|.
T Consensus       492 ll~G~~GtGKT~la~~la~~l---~--~~~~~i~~s~~~~~~~~~~l~g~  536 (758)
T 1r6b_X          492 LFAGPTGVGKTEVTVQLSKAL---G--IELLRFDMSEYMERHTVSRLIGA  536 (758)
T ss_dssp             EEECSTTSSHHHHHHHHHHHH---T--CEEEEEEGGGCSSSSCCSSSCCC
T ss_pred             EEECCCCCcHHHHHHHHHHHh---c--CCEEEEechhhcchhhHhhhcCC
Confidence            345677999999999999988   6  8889999865432  23444444

>3a8t_A Adenylate isopentenyltransferase; rossmann fold protein; HET: ATP; 2.37A {Humulus lupulus}

Probab=88.16  E-value=2.2  Score=35.87  Aligned_cols=32  Identities=22%  Similarity=0.423  Sum_probs=24.4

Q ss_pred             cccCCCCCcHHHHHHHHHHHHHhcCCCCeEEEEecCCCC
Q psy14655          2 IASSKGGVGKSTTTVNLATAMKICYPDKEIGILDADVFG   40 (261)
Q Consensus         2 v~s~KGGvGKTT~a~~lA~~la~~g~~~~VllvD~D~~~   40 (261)
                      |+.+--|+||||++..||..       ...-+||+|..+
T Consensus        44 vI~GPTgsGKTtLa~~LA~~-------l~~eiIs~Ds~q   75 (339)
T 3a8t_A           44 VLMGATGTGKSRLSIDLAAH-------FPLEVINSDKMQ   75 (339)
T ss_dssp             EEECSTTSSHHHHHHHHHTT-------SCEEEEECCSST
T ss_pred             EEECCCCCCHHHHHHHHHHH-------CCCcEEcccccc
Confidence            45566799999999988853       345789999664

>2pt5_A Shikimate kinase, SK; aromatic amino acid biosynthesis, P-loop kinase, SHI kinase, shikimate pathway; 2.10A {Aquifex aeolicus}

Probab=88.13  E-value=0.24  Score=36.68  Aligned_cols=30  Identities=23%  Similarity=0.110  Sum_probs=22.1

Q ss_pred             cccCCCCCcHHHHHHHHHHHHHhcCCCCeEEEEecCC
Q psy14655          2 IASSKGGVGKSTTTVNLATAMKICYPDKEIGILDADV   38 (261)
Q Consensus         2 v~s~KGGvGKTT~a~~lA~~la~~g~~~~VllvD~D~   38 (261)
                      ++.+--|+||||++..|+..+   |  .+  ++|.|.
T Consensus         4 ~l~G~~GsGKsT~a~~L~~~l---~--~~--~i~~d~   33 (168)
T 2pt5_A            4 YLIGFMCSGKSTVGSLLSRSL---N--IP--FYDVDE   33 (168)
T ss_dssp             EEESCTTSCHHHHHHHHHHHH---T--CC--EEEHHH
T ss_pred             EEECCCCCCHHHHHHHHHHHh---C--CC--EEECcH
Confidence            456778999999999988766   4  44  456663

>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=88.13  E-value=0.23  Score=36.85  Aligned_cols=29  Identities=31%  Similarity=0.387  Sum_probs=21.9

Q ss_pred             cccCCCCCcHHHHHHHHHHHHHhcCCCCeEEEEecC
Q psy14655          2 IASSKGGVGKSTTTVNLATAMKICYPDKEIGILDAD   37 (261)
Q Consensus         2 v~s~KGGvGKTT~a~~lA~~la~~g~~~~VllvD~D   37 (261)
                      ++.+--|+||||++..||..|   |  ..  ++|.|
T Consensus         6 ~l~G~~GsGKsT~a~~La~~l---g--~~--~id~d   34 (173)
T 1e6c_A            6 FMVGARGCGMTTVGRELARAL---G--YE--FVDTD   34 (173)
T ss_dssp             EEESCTTSSHHHHHHHHHHHH---T--CE--EEEHH
T ss_pred             EEECCCCCCHHHHHHHHHHHh---C--Cc--EEccc
Confidence            355678999999999998766   4  44  56766

>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=88.12  E-value=0.23  Score=37.29  Aligned_cols=21  Identities=33%  Similarity=0.457  Sum_probs=17.5

Q ss_pred             cccCCCCCcHHHHHHHHHHHH
Q psy14655          2 IASSKGGVGKSTTTVNLATAM   22 (261)
Q Consensus         2 v~s~KGGvGKTT~a~~lA~~l   22 (261)
                      ++.+-.|+||||++..||..+
T Consensus        15 ~i~G~~GsGKst~~~~l~~~~   35 (180)
T 3iij_A           15 LLTGTPGVGKTTLGKELASKS   35 (180)
T ss_dssp             EEECSTTSSHHHHHHHHHHHH
T ss_pred             EEEeCCCCCHHHHHHHHHHHh
Confidence            456778999999999988766

>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=88.11  E-value=0.22  Score=38.24  Aligned_cols=29  Identities=24%  Similarity=0.302  Sum_probs=21.8

Q ss_pred             cccCCCCCcHHHHHHHHHHHHHhcCCCCeEEEEecC
Q psy14655          2 IASSKGGVGKSTTTVNLATAMKICYPDKEIGILDAD   37 (261)
Q Consensus         2 v~s~KGGvGKTT~a~~lA~~la~~g~~~~VllvD~D   37 (261)
                      ++.+--|+||||++..||..+   |  ..  ++|.|
T Consensus        24 ~l~G~~GsGKST~a~~La~~l---~--~~--~i~~d   52 (201)
T 2cdn_A           24 LLLGPPGAGKGTQAVKLAEKL---G--IP--QISTG   52 (201)
T ss_dssp             EEECCTTSSHHHHHHHHHHHH---T--CC--EEEHH
T ss_pred             EEECCCCCCHHHHHHHHHHHh---C--Cc--EEehh
Confidence            456778999999999998876   4  55  45554

>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=88.02  E-value=0.24  Score=37.36  Aligned_cols=30  Identities=40%  Similarity=0.442  Sum_probs=22.6

Q ss_pred             cccCCCCCcHHHHHHHHHHHHHhcCCCCeEEEEecCC
Q psy14655          2 IASSKGGVGKSTTTVNLATAMKICYPDKEIGILDADV   38 (261)
Q Consensus         2 v~s~KGGvGKTT~a~~lA~~la~~g~~~~VllvD~D~   38 (261)
                      ++.+--|+||||+|..||..+   |  ..  ++|.|.
T Consensus         6 ~l~G~~GsGKsT~a~~La~~l---g--~~--~id~D~   35 (184)
T 2iyv_A            6 VLVGLPGSGKSTIGRRLAKAL---G--VG--LLDTDV   35 (184)
T ss_dssp             EEECSTTSSHHHHHHHHHHHH---T--CC--EEEHHH
T ss_pred             EEECCCCCCHHHHHHHHHHHc---C--CC--EEeCch
Confidence            456778999999999998765   4  44  567774

>3d3q_A TRNA delta(2)-isopentenylpyrophosphate transferase; alpha-beta protein, structural genomics, PSI-2; 2.70A {Staphylococcus epidermidis atcc 12228}

Probab=87.99  E-value=0.28  Score=41.32  Aligned_cols=31  Identities=16%  Similarity=0.314  Sum_probs=24.7

Q ss_pred             cccCCCCCcHHHHHHHHHHHHHhcCCCCeEEEEecCCC
Q psy14655          2 IASSKGGVGKSTTTVNLATAMKICYPDKEIGILDADVF   39 (261)
Q Consensus         2 v~s~KGGvGKTT~a~~lA~~la~~g~~~~VllvD~D~~   39 (261)
                      ++++-.|+||||+|..||..+       .+.+|++|..
T Consensus        11 ~I~GptgSGKTtla~~La~~l-------~~~iis~Ds~   41 (340)
T 3d3q_A           11 VIVGPTASGKTELSIEVAKKF-------NGEIISGDSM   41 (340)
T ss_dssp             EEECSTTSSHHHHHHHHHHHT-------TEEEEECCSS
T ss_pred             EEECCCcCcHHHHHHHHHHHc-------CCceeccccc
Confidence            467788999999999888755       3578999864

>2jaq_A Deoxyguanosine kinase; transferase, deoxyribonucleoside kinase; HET: DCP; 2.3A {Mycoplasma mycoides subsp} PDB: 2jat_A* 2jas_A*

Probab=87.99  E-value=0.24  Score=37.80  Aligned_cols=21  Identities=24%  Similarity=0.355  Sum_probs=17.6

Q ss_pred             cccCCCCCcHHHHHHHHHHHH
Q psy14655          2 IASSKGGVGKSTTTVNLATAM   22 (261)
Q Consensus         2 v~s~KGGvGKTT~a~~lA~~l   22 (261)
                      ++.+--|+||||++..||..|
T Consensus         4 ~i~G~~GsGKsT~~~~L~~~l   24 (205)
T 2jaq_A            4 AIFGTVGAGKSTISAEISKKL   24 (205)
T ss_dssp             EEECCTTSCHHHHHHHHHHHH
T ss_pred             EEECCCccCHHHHHHHHHHhc
Confidence            345678999999999999876

>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=87.93  E-value=3.8  Score=29.43  Aligned_cols=65  Identities=12%  Similarity=0.023  Sum_probs=42.9

Q ss_pred             CCCCEEEEeCCCCCChh--HHHHhhhcCCCeEEEEeCC-CcchHHHHHHHHHHHHhC----CCCeEEEEEcCCCC
Q psy14655        105 GPCDILFIDTPPGTGDT--HLSLIQNLFIDTAIIITIP-DTMSLQVAQRGYTMFKKL----NIPVAGLVMNMNSV  172 (261)
Q Consensus       105 ~~yd~IiiD~~~~~~~~--~~~~~~~~~ad~viiv~~~-~~~s~~~~~~~~~~l~~~----~~~~~giv~N~~~~  172 (261)
                      .++.+.|+|+|+.....  ....+..  +|.+++|.+. +..++......+..+...    +. .+-+|.|+.+.
T Consensus        42 ~~~~~~i~Dt~G~~~~~~~~~~~~~~--~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~-piilv~nK~Dl  113 (164)
T 1r8s_A           42 KNISFTVWDVGGQDKIRPLWRHYFQN--TQGLIFVVDSNDRERVNEAREELMRMLAEDELRDA-VLLVFANKQDL  113 (164)
T ss_dssp             SSCEEEEEECCCCGGGHHHHHHHTTT--CSEEEEEEETTCGGGHHHHHHHHHHHHTCGGGTTC-EEEEEEECTTS
T ss_pred             CCEEEEEEEcCCChhhHHHHHHHhcc--CCEEEEEEECCCHHHHHHHHHHHHHHHhchhhcCC-eEEEEEECcCC
Confidence            46789999999653322  2223444  8999999984 455677777666655432    33 46689999774

>1wb1_A Translation elongation factor SELB; selenocysteine, protein synthesis, selenium, ribosome; HET: GDP DXC; 3.0A {Methanococcus maripaludis} SCOP: b.43.3.1 b.43.3.1 b.44.1.1 c.37.1.8 PDB: 1wb2_A* 1wb3_A*

Probab=87.88  E-value=0.48  Score=41.99  Aligned_cols=65  Identities=18%  Similarity=0.233  Sum_probs=45.2

Q ss_pred             CCCCEEEEeCCCCCCh--hHHHHhhhcCCCeEEEEeCCCcchHHHHHHHHHHHHhCCCCeEEEEEcCCCC
Q psy14655        105 GPCDILFIDTPPGTGD--THLSLIQNLFIDTAIIITIPDTMSLQVAQRGYTMFKKLNIPVAGLVMNMNSV  172 (261)
Q Consensus       105 ~~yd~IiiD~~~~~~~--~~~~~~~~~~ad~viiv~~~~~~s~~~~~~~~~~l~~~~~~~~giv~N~~~~  172 (261)
                      +++.+.|+|||+....  .....+..  +|.+++|++.+..........+..+...+.+. -+++|+++.
T Consensus        71 ~~~~i~iiDtPGh~~~~~~~~~~~~~--aD~~ilVvda~~g~~~qt~e~l~~~~~~~ip~-IvviNK~Dl  137 (482)
T 1wb1_A           71 ENYRITLVDAPGHADLIRAVVSAADI--IDLALIVVDAKEGPKTQTGEHMLILDHFNIPI-IVVITKSDN  137 (482)
T ss_dssp             TTEEEEECCCSSHHHHHHHHHHHTTS--CCEEEEEEETTTCSCHHHHHHHHHHHHTTCCB-CEEEECTTS
T ss_pred             CCEEEEEEECCChHHHHHHHHHHHhh--CCEEEEEEecCCCccHHHHHHHHHHHHcCCCE-EEEEECCCc
Confidence            4578999999964321  12223333  89999999977654555666666777788887 689999775

>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=87.87  E-value=1.4  Score=32.73  Aligned_cols=64  Identities=9%  Similarity=-0.026  Sum_probs=42.4

Q ss_pred             CCCEEEEeCCCCCCh--hHHHHhhhcCCCeEEEEeCC-CcchHHHHHHHHHHHHh----CCCCeEEEEEcCCCC
Q psy14655        106 PCDILFIDTPPGTGD--THLSLIQNLFIDTAIIITIP-DTMSLQVAQRGYTMFKK----LNIPVAGLVMNMNSV  172 (261)
Q Consensus       106 ~yd~IiiD~~~~~~~--~~~~~~~~~~ad~viiv~~~-~~~s~~~~~~~~~~l~~----~~~~~~giv~N~~~~  172 (261)
                      .+.+.|+|+|+....  .....+..  +|.+++|.+. +..+...+...+..+..    .+.+ +.+|.|+.+.
T Consensus        69 ~~~~~l~Dt~G~~~~~~~~~~~~~~--~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~p-iilv~nK~Dl  139 (195)
T 3bc1_A           69 RIHLQLWDTAGLERFRSLTTAFFRD--AMGFLLLFDLTNEQSFLNVRNWISQLQMHAYSENPD-IVLCGNKSDL  139 (195)
T ss_dssp             EEEEEEEEECCSGGGHHHHHHTTTT--CSEEEEEEETTCHHHHHTHHHHHHHHHHHSSSSSCC-EEEEEECTTC
T ss_pred             EEEEEEEeCCCcHHHHHHHHHHHcC--CCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCC-EEEEEECccc
Confidence            578999999864322  22233344  8999999985 45666666666666654    2444 6689999764

>1s0u_A EIF-2-gamma, translation initiation factor 2 gamma subunit; GTPase, EF-1A, tRNA; 2.40A {Methanocaldococcus jannaschii} SCOP: b.43.3.1 b.44.1.1 c.37.1.8

Probab=87.86  E-value=0.67  Score=40.00  Aligned_cols=66  Identities=15%  Similarity=0.232  Sum_probs=42.4

Q ss_pred             CCEEEEeCCCCCChhHHHHhh-hcCCCeEEEEeCCCcch-HHHHHHHHHHHHhCCCCeEEEEEcCCCCC
Q psy14655        107 CDILFIDTPPGTGDTHLSLIQ-NLFIDTAIIITIPDTMS-LQVAQRGYTMFKKLNIPVAGLVMNMNSVL  173 (261)
Q Consensus       107 yd~IiiD~~~~~~~~~~~~~~-~~~ad~viiv~~~~~~s-~~~~~~~~~~l~~~~~~~~giv~N~~~~~  173 (261)
                      +.+.|+|||+... ....... ...+|.+++|+..+... ..++...+..+...+.+.+-+++|+++..
T Consensus        81 ~~i~iiDtPGh~~-f~~~~~~~~~~~D~~ilVvda~~g~~~~qt~e~l~~~~~l~~~~iivv~NK~Dl~  148 (408)
T 1s0u_A           81 RRVSFVDSPGHET-LMATMLSGASLMDGAILVIAANEPCPQPQTKEHLMALEILGIDKIIIVQNKIDLV  148 (408)
T ss_dssp             EEEEEEECSSHHH-HHHHHHTTCSCCSEEEEEEETTSCSSCHHHHHHHHHHHHTTCCCEEEEEECTTSS
T ss_pred             cEEEEEECCCHHH-HHHHHHHhHhhCCEEEEEEECCCCCCCchhHHHHHHHHHcCCCeEEEEEEccCCC
Confidence            6799999996332 1112211 11279999999976543 44555555666666766577999998763

>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=87.78  E-value=0.32  Score=40.49  Aligned_cols=32  Identities=16%  Similarity=-0.012  Sum_probs=25.6

Q ss_pred             cccCCCCCcHHHHHHHHHHHHHhcCCCCeEEEEecCC
Q psy14655          2 IASSKGGVGKSTTTVNLATAMKICYPDKEIGILDADV   38 (261)
Q Consensus         2 v~s~KGGvGKTT~a~~lA~~la~~g~~~~VllvD~D~   38 (261)
                      ++.+-.|+||||++..++..+   +  .+++++++..
T Consensus        34 ~i~G~~G~GKT~L~~~~~~~~---~--~~~~~~~~~~   65 (357)
T 2fna_A           34 LVLGLRRTGKSSIIKIGINEL---N--LPYIYLDLRK   65 (357)
T ss_dssp             EEEESTTSSHHHHHHHHHHHH---T--CCEEEEEGGG
T ss_pred             EEECCCCCCHHHHHHHHHHhc---C--CCEEEEEchh
Confidence            567788999999999988765   3  4578999864

>1tev_A UMP-CMP kinase; ploop, NMP binding region, LID region, conformational changes, transferase; 2.10A {Homo sapiens} SCOP: c.37.1.1

Probab=87.71  E-value=0.26  Score=37.28  Aligned_cols=29  Identities=21%  Similarity=0.195  Sum_probs=21.7

Q ss_pred             cccCCCCCcHHHHHHHHHHHHHhcCCCCeEEEEecC
Q psy14655          2 IASSKGGVGKSTTTVNLATAMKICYPDKEIGILDAD   37 (261)
Q Consensus         2 v~s~KGGvGKTT~a~~lA~~la~~g~~~~VllvD~D   37 (261)
                      ++.+--|+||||++..|+..+   |  ..  .||.|
T Consensus         7 ~l~G~~GsGKsT~a~~L~~~~---~--~~--~i~~d   35 (196)
T 1tev_A            7 FVLGGPGAGKGTQCARIVEKY---G--YT--HLSAG   35 (196)
T ss_dssp             EEECCTTSSHHHHHHHHHHHH---C--CE--EEEHH
T ss_pred             EEECCCCCCHHHHHHHHHHHh---C--Ce--EEeHH
Confidence            456778999999999988765   4  44  46665

>2ze6_A Isopentenyl transferase; crown GALL tumor, cytokinin biosynthesis; HET: DST AMP; 2.10A {Agrobacterium tumefaciens} PDB: 2ze5_A* 2ze7_A* 2ze8_A

Probab=87.69  E-value=0.29  Score=39.34  Aligned_cols=30  Identities=13%  Similarity=0.141  Sum_probs=22.6

Q ss_pred             cccCCCCCcHHHHHHHHHHHHHhcCCCCeEEEEecCC
Q psy14655          2 IASSKGGVGKSTTTVNLATAMKICYPDKEIGILDADV   38 (261)
Q Consensus         2 v~s~KGGvGKTT~a~~lA~~la~~g~~~~VllvD~D~   38 (261)
                      ++.+--|+||||+|..||..+   +  .  .+|+.|-
T Consensus         5 ~I~G~~GSGKSTla~~La~~~---~--~--~~i~~D~   34 (253)
T 2ze6_A            5 LIYGPTCSGKTDMAIQIAQET---G--W--PVVALDR   34 (253)
T ss_dssp             EEECCTTSSHHHHHHHHHHHH---C--C--CEEECCS
T ss_pred             EEECCCCcCHHHHHHHHHhcC---C--C--eEEeccH
Confidence            467788999999999998765   3  3  3567664

>1kk1_A EIF2gamma; initiation of translation; HET: GNP; 1.80A {Pyrococcus abyssi} SCOP: b.43.3.1 b.44.1.1 c.37.1.8 PDB: 1kjz_A* 1kk2_A* 1kk3_A* 1kk0_A* 2d74_A 2dcu_A*

Probab=87.65  E-value=0.48  Score=40.89  Aligned_cols=64  Identities=14%  Similarity=0.117  Sum_probs=41.3

Q ss_pred             CCEEEEeCCCCCChh--HHHHhhhcCCCeEEEEeCCCcch-HHHHHHHHHHHHhCCCCeEEEEEcCCCC
Q psy14655        107 CDILFIDTPPGTGDT--HLSLIQNLFIDTAIIITIPDTMS-LQVAQRGYTMFKKLNIPVAGLVMNMNSV  172 (261)
Q Consensus       107 yd~IiiD~~~~~~~~--~~~~~~~~~ad~viiv~~~~~~s-~~~~~~~~~~l~~~~~~~~giv~N~~~~  172 (261)
                      +.+.|+|||+.....  ....+..  +|.+++|+..+... ..++...+..+...+.+.+-+++|+++.
T Consensus        83 ~~i~iiDtPGh~~f~~~~~~~~~~--~D~~ilVvda~~g~~~~qt~e~l~~~~~~~~~~iivviNK~Dl  149 (410)
T 1kk1_A           83 RRVSFIDAPGHEALMTTMLAGASL--MDGAILVIAANEPCPRPQTREHLMALQIIGQKNIIIAQNKIEL  149 (410)
T ss_dssp             EEEEEEECSSHHHHHHHHHHCGGG--CSEEEEEEETTSCSSCHHHHHHHHHHHHHTCCCEEEEEECGGG
T ss_pred             cEEEEEECCChHHHHHHHHhhhhh--CCEEEEEEECCCCCCChhHHHHHHHHHHcCCCcEEEEEECccC
Confidence            679999999643211  1222233  89999999977543 4455555555665666557788999764

>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=87.64  E-value=0.36  Score=37.58  Aligned_cols=33  Identities=18%  Similarity=0.219  Sum_probs=26.0

Q ss_pred             cCCCCCcHHHHHHHHHHHHHh------cCCCCeEEEEecCC
Q psy14655          4 SSKGGVGKSTTTVNLATAMKI------CYPDKEIGILDADV   38 (261)
Q Consensus         4 s~KGGvGKTT~a~~lA~~la~------~g~~~~VllvD~D~   38 (261)
                      -+.-|+||||++..++..+..      .+  .++++++...
T Consensus        31 ~G~nGsGKSTll~~l~g~~~~~~~~g~~~--~~~i~~~~~~   69 (231)
T 4a74_A           31 FGEFGSGKTQLAHTLAVMVQLPPEEGGLN--GSVIWIDTEN   69 (231)
T ss_dssp             EESTTSSHHHHHHHHHHHTTSCGGGTCCS--CEEEEEESSS
T ss_pred             ECCCCCCHHHHHHHHHHHHhcccccCCCC--CEEEEEECCC
Confidence            456799999999999987664      24  6788888764

>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=87.61  E-value=0.36  Score=40.86  Aligned_cols=34  Identities=18%  Similarity=0.175  Sum_probs=26.5

Q ss_pred             cCCCCCcHHHHHHHHHHHHHhc------CCCCeEEEEecCCC
Q psy14655          4 SSKGGVGKSTTTVNLATAMKIC------YPDKEIGILDADVF   39 (261)
Q Consensus         4 s~KGGvGKTT~a~~lA~~la~~------g~~~~VllvD~D~~   39 (261)
                      .+.-|+||||++..++..++..      |  -+|++||....
T Consensus       137 ~G~~GsGKTTL~~~l~~~~~~~~~~Gg~~--G~vi~i~~e~~  176 (349)
T 1pzn_A          137 FGEFGSGKTQLAHTLAVMVQLPPEEGGLN--GSVIWIDTENT  176 (349)
T ss_dssp             EESTTSSHHHHHHHHHHHTTSCGGGTSCS--CEEEEEESSSC
T ss_pred             ECCCCCCHHHHHHHHHHHhccchhcCCCC--CeEEEEeCCCC
Confidence            3556999999999999987532      3  58999998653

>1s1m_A CTP synthase; CTP synthetase, UTP:ammonia ligase (ADP-forming), cytidine 5 triphosphate synthase, ammonia lyase; 2.30A {Escherichia coli} SCOP: c.23.16.1 c.37.1.10 PDB: 2ad5_A*

Probab=87.45  E-value=0.44  Score=42.79  Aligned_cols=35  Identities=17%  Similarity=0.247  Sum_probs=31.7

Q ss_pred             cCCCCCcHHHHHHHHHHHHHhcCCCCeEEEEecCCCC
Q psy14655          4 SSKGGVGKSTTTVNLATAMKICYPDKEIGILDADVFG   40 (261)
Q Consensus         4 s~KGGvGKTT~a~~lA~~la~~g~~~~VllvD~D~~~   40 (261)
                      +.-.|+|||.+++.|++.|+++|  .+|..+-+||.-
T Consensus        11 g~~s~~gk~~~~~~l~~~l~~~g--~~v~~~k~~py~   45 (545)
T 1s1m_A           11 GVVSSLGKGIAAASLAAILEARG--LNVTIMKLDPYI   45 (545)
T ss_dssp             CSSSCSCHHHHHHHHHHHHHTTT--CCEEEEEEECCS
T ss_pred             CcccCcchHHHHHHHHHHHHhCC--ceeeeeeccccc
Confidence            67789999999999999999999  999999998543

>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=87.43  E-value=2  Score=31.78  Aligned_cols=66  Identities=11%  Similarity=0.061  Sum_probs=43.4

Q ss_pred             CCCCEEEEeCCCCCC--hhHHHHhhhcCCCeEEEEeCCC-cchHHHHHHHHHHHHhC---CCCeEEEEEcCCCC
Q psy14655        105 GPCDILFIDTPPGTG--DTHLSLIQNLFIDTAIIITIPD-TMSLQVAQRGYTMFKKL---NIPVAGLVMNMNSV  172 (261)
Q Consensus       105 ~~yd~IiiD~~~~~~--~~~~~~~~~~~ad~viiv~~~~-~~s~~~~~~~~~~l~~~---~~~~~giv~N~~~~  172 (261)
                      .++.+.|+|+|+...  ......+..  +|.+++|.+.+ ..++..+...+..+...   .-..+-+|.|+.+.
T Consensus        63 ~~~~~~i~Dt~G~~~~~~~~~~~~~~--~d~ii~v~D~~~~~s~~~~~~~~~~~~~~~~~~~~piilv~NK~Dl  134 (181)
T 2h17_A           63 NNTRFLMWDIGGQESLRSSWNTYYTN--TEFVIVVVDSTDRERISVTREELYKMLAHEDLRKAGLLIFANKQDV  134 (181)
T ss_dssp             TTEEEEEEEESSSGGGTCGGGGGGTT--CCEEEEEEETTCTTTHHHHHHHHHHHHTCGGGTTCEEEEEEECTTS
T ss_pred             CCEEEEEEECCCCHhHHHHHHHHhcc--CCEEEEEEECCCHHHHHHHHHHHHHHHhChhhCCCeEEEEEECCCc
Confidence            457899999996432  222334444  89999999854 45777777766655432   22346689999764

>3cm0_A Adenylate kinase; ATP-binding, cytoplasm, nucleotide biosynthesis, nucleotide-binding, transferase, structural genomics; 1.80A {Thermus thermophilus}

Probab=87.36  E-value=0.28  Score=36.93  Aligned_cols=21  Identities=33%  Similarity=0.419  Sum_probs=17.4

Q ss_pred             cccCCCCCcHHHHHHHHHHHH
Q psy14655          2 IASSKGGVGKSTTTVNLATAM   22 (261)
Q Consensus         2 v~s~KGGvGKTT~a~~lA~~l   22 (261)
                      ++.+--|+||||++..||..+
T Consensus         8 ~l~G~~GsGKST~~~~La~~l   28 (186)
T 3cm0_A            8 IFLGPPGAGKGTQASRLAQEL   28 (186)
T ss_dssp             EEECCTTSCHHHHHHHHHHHH
T ss_pred             EEECCCCCCHHHHHHHHHHHh
Confidence            456778999999999998765

>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=87.27  E-value=0.21  Score=37.80  Aligned_cols=30  Identities=30%  Similarity=0.172  Sum_probs=21.6

Q ss_pred             ccCCCCCcHHHHHHHHHHHHHhcCCCCeEEEEecC
Q psy14655          3 ASSKGGVGKSTTTVNLATAMKICYPDKEIGILDAD   37 (261)
Q Consensus         3 ~s~KGGvGKTT~a~~lA~~la~~g~~~~VllvD~D   37 (261)
                      +.+.-|+||||++..|+..   .+  ...+.+|.|
T Consensus        14 l~G~~GsGKSTl~~~La~~---~~--~g~i~i~~d   43 (191)
T 1zp6_A           14 LSGHPGSGKSTIAEALANL---PG--VPKVHFHSD   43 (191)
T ss_dssp             EEECTTSCHHHHHHHHHTC---SS--SCEEEECTT
T ss_pred             EECCCCCCHHHHHHHHHhc---cC--CCeEEEccc
Confidence            4567799999999988764   33  455666655

>1zuh_A Shikimate kinase; alpha-beta protein, transferase; 1.80A {Helicobacter pylori} PDB: 1zui_A* 3hr7_A 3muf_A* 3mrs_A 3n2e_A*

Probab=87.08  E-value=0.29  Score=36.24  Aligned_cols=30  Identities=33%  Similarity=0.423  Sum_probs=21.7

Q ss_pred             cccCCCCCcHHHHHHHHHHHHHhcCCCCeEEEEecCC
Q psy14655          2 IASSKGGVGKSTTTVNLATAMKICYPDKEIGILDADV   38 (261)
Q Consensus         2 v~s~KGGvGKTT~a~~lA~~la~~g~~~~VllvD~D~   38 (261)
                      ++.+--|+||||++..||..|   |  .+  ++|+|.
T Consensus        11 ~l~G~~GsGKSTva~~La~~l---g--~~--~id~D~   40 (168)
T 1zuh_A           11 VLIGFMGSGKSSLAQELGLAL---K--LE--VLDTDM   40 (168)
T ss_dssp             EEESCTTSSHHHHHHHHHHHH---T--CC--EEEHHH
T ss_pred             EEECCCCCCHHHHHHHHHHHh---C--CC--EEEChH
Confidence            345667999999999888765   4  54  456664

>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=87.02  E-value=1.6  Score=32.29  Aligned_cols=65  Identities=14%  Similarity=0.082  Sum_probs=42.3

Q ss_pred             CCCCEEEEeCCCCCC--hhHHHHhhhcCCCeEEEEeCCC-cchHHHHHHHHHHHHhC----CCCeEEEEEcCCCC
Q psy14655        105 GPCDILFIDTPPGTG--DTHLSLIQNLFIDTAIIITIPD-TMSLQVAQRGYTMFKKL----NIPVAGLVMNMNSV  172 (261)
Q Consensus       105 ~~yd~IiiD~~~~~~--~~~~~~~~~~~ad~viiv~~~~-~~s~~~~~~~~~~l~~~----~~~~~giv~N~~~~  172 (261)
                      ..+.+.|+|+|+...  ......+..  +|.+++|...+ ..++..+...+..+...    +.+ +.+|.|+.+.
T Consensus        64 ~~~~~~l~Dt~G~~~~~~~~~~~~~~--~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~p-iilv~nK~Dl  135 (187)
T 2a9k_A           64 EEVQIDILDTAGQEDYAAIRDNYFRS--GEGFLCVFSITEMESFAATADFREQILRVKEDENVP-FLLVGNKSDL  135 (187)
T ss_dssp             EEEEEEEEECCCTTCCHHHHHHHHHH--CSEEEEEEETTCHHHHHHHHHHHHHHHHHHCCTTCC-EEEEEECGGG
T ss_pred             EEEEEEEEECCCCcccHHHHHHHhcc--CCEEEEEEECcCHHHHHHHHHHHHHHHHhcCCCCCC-EEEEEECccc
Confidence            346899999997543  223344455  89999999854 45666666665554432    445 5589999664

>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=86.98  E-value=0.29  Score=38.05  Aligned_cols=24  Identities=29%  Similarity=0.369  Sum_probs=20.1

Q ss_pred             cccCCCCCcHHHHHHHHHHHHHhc
Q psy14655          2 IASSKGGVGKSTTTVNLATAMKIC   25 (261)
Q Consensus         2 v~s~KGGvGKTT~a~~lA~~la~~   25 (261)
                      ++.+..|+||||++..++..+...
T Consensus        49 ll~G~~G~GKT~l~~~~~~~~~~~   72 (250)
T 1njg_A           49 LFSGTRGVGKTSIARLLAKGLNCE   72 (250)
T ss_dssp             EEECSTTSCHHHHHHHHHHHHHCT
T ss_pred             EEECCCCCCHHHHHHHHHHHhcCC
Confidence            456788999999999999888654

>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=86.89  E-value=1.4  Score=31.80  Aligned_cols=65  Identities=14%  Similarity=0.082  Sum_probs=41.2

Q ss_pred             CCCCEEEEeCCCCCC--hhHHHHhhhcCCCeEEEEeCCC-cchHHHHHHHHHHHHhC----CCCeEEEEEcCCCC
Q psy14655        105 GPCDILFIDTPPGTG--DTHLSLIQNLFIDTAIIITIPD-TMSLQVAQRGYTMFKKL----NIPVAGLVMNMNSV  172 (261)
Q Consensus       105 ~~yd~IiiD~~~~~~--~~~~~~~~~~~ad~viiv~~~~-~~s~~~~~~~~~~l~~~----~~~~~giv~N~~~~  172 (261)
                      ..+.+.|+|+|+...  ......+..  +|.+++|...+ ..+...+...+..+...    +.+ +-+|.|+.+.
T Consensus        50 ~~~~~~l~D~~G~~~~~~~~~~~~~~--~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~p-iilv~nK~Dl  121 (168)
T 1u8z_A           50 EEVQIDILDTAGQEDYAAIRDNYFRS--GEGFLCVFSITEMESFAATADFREQILRVKEDENVP-FLLVGNKSDL  121 (168)
T ss_dssp             EEEEEEEEECCC---CHHHHHHHHHH--CSEEEEEEETTCHHHHHHHHHHHHHHHHHHCCTTSC-EEEEEECGGG
T ss_pred             EEEEEEEEECCCcchhHHHHHHHhhc--CCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCc-EEEEEECccc
Confidence            346899999997432  223344455  89999999854 55666666665555432    445 5699999664

>1w36_D RECD, exodeoxyribonuclease V alpha chain; recombination, helicase, hydrolase, DNA repair; HET: DNA; 3.1A {Escherichia coli} SCOP: c.37.1.19 c.37.1.19 PDB: 3k70_D*

Probab=86.77  E-value=0.43  Score=43.60  Aligned_cols=33  Identities=27%  Similarity=0.275  Sum_probs=25.7

Q ss_pred             cccCCCCCcHHHHHHHHHHHHHhc--CCCCeEEEE
Q psy14655          2 IASSKGGVGKSTTTVNLATAMKIC--YPDKEIGIL   34 (261)
Q Consensus         2 v~s~KGGvGKTT~a~~lA~~la~~--g~~~~Vllv   34 (261)
                      ++.+..|+||||+...+...|.+.  +++.+|+++
T Consensus       168 vi~G~pGTGKTt~l~~ll~~l~~~~~~~~~~vll~  202 (608)
T 1w36_D          168 VISGGPGTGKTTTVAKLLAALIQMADGERCRIRLA  202 (608)
T ss_dssp             EEECCTTSTHHHHHHHHHHHHHHTCSSCCCCEEEE
T ss_pred             EEEeCCCCCHHHHHHHHHHHHHHhhhcCCCeEEEE
Confidence            567889999999999999888743  212688775

>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=86.67  E-value=0.38  Score=42.94  Aligned_cols=33  Identities=21%  Similarity=0.189  Sum_probs=27.2

Q ss_pred             cccCCCCCcHHHHHHHHHHHHHhcCCCCeEEEEecCCC
Q psy14655          2 IASSKGGVGKSTTTVNLATAMKICYPDKEIGILDADVF   39 (261)
Q Consensus         2 v~s~KGGvGKTT~a~~lA~~la~~g~~~~VllvD~D~~   39 (261)
                      ++.+.-|+||||+|..+|..+   |  .+++.+++...
T Consensus        81 LL~GppGtGKTtla~~la~~l---~--~~~i~in~s~~  113 (516)
T 1sxj_A           81 MLYGPPGIGKTTAAHLVAQEL---G--YDILEQNASDV  113 (516)
T ss_dssp             EEECSTTSSHHHHHHHHHHHT---T--CEEEEECTTSC
T ss_pred             EEECCCCCCHHHHHHHHHHHc---C--CCEEEEeCCCc
Confidence            456778999999999999887   7  89988887544

>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=86.67  E-value=1.6  Score=31.53  Aligned_cols=65  Identities=14%  Similarity=0.078  Sum_probs=42.9

Q ss_pred             CCCCEEEEeCCCCC--ChhHHHHhhhcCCCeEEEEeCC-CcchHHHHHHHHHHHHh----CCCCeEEEEEcCCCC
Q psy14655        105 GPCDILFIDTPPGT--GDTHLSLIQNLFIDTAIIITIP-DTMSLQVAQRGYTMFKK----LNIPVAGLVMNMNSV  172 (261)
Q Consensus       105 ~~yd~IiiD~~~~~--~~~~~~~~~~~~ad~viiv~~~-~~~s~~~~~~~~~~l~~----~~~~~~giv~N~~~~  172 (261)
                      ..+.+.|+|+|+..  .......+..  +|.++++... +..+...+...++.+..    .+.+ +-+|.|+.+.
T Consensus        49 ~~~~~~l~D~~G~~~~~~~~~~~~~~--~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~p-iilv~nK~Dl  120 (167)
T 1c1y_A           49 QQCMLEILDTAGTEQFTAMRDLYMKN--GQGFALVYSITAQSTFNDLQDLREQILRVKDTEDVP-MILVGNKCDL  120 (167)
T ss_dssp             CEEEEEEEEECSSCSSTTHHHHHHHH--CSEEEEEEETTCHHHHHTHHHHHHHHHHHHCCSCCC-EEEEEECTTC
T ss_pred             EEEEEEEEECCChHHHHHHHHHHhcc--CCEEEEEEECCCHHHHHHHHHHHHHHHHhhCcCCCc-EEEEEECccc
Confidence            45689999999743  2333344555  8999999974 45566666666655543    2445 5589999764

>2erx_A GTP-binding protein DI-RAS2; GTP hydrolysis, transport protein; HET: GDP; 1.65A {Homo sapiens} SCOP: c.37.1.8

Probab=86.64  E-value=1.1  Score=32.57  Aligned_cols=65  Identities=20%  Similarity=0.168  Sum_probs=41.9

Q ss_pred             CCCCEEEEeCCCCCC--hhHHHHhhhcCCCeEEEEeCCC-cchHHHHHHHHHHHHhC-----CCCeEEEEEcCCCC
Q psy14655        105 GPCDILFIDTPPGTG--DTHLSLIQNLFIDTAIIITIPD-TMSLQVAQRGYTMFKKL-----NIPVAGLVMNMNSV  172 (261)
Q Consensus       105 ~~yd~IiiD~~~~~~--~~~~~~~~~~~ad~viiv~~~~-~~s~~~~~~~~~~l~~~-----~~~~~giv~N~~~~  172 (261)
                      ..+.+.|+|+|+...  ......+..  +|.+++|...+ ..+...+...+..+.+.     +.+ +.+|.|+.+.
T Consensus        49 ~~~~~~~~Dt~G~~~~~~~~~~~~~~--~~~~i~v~d~~~~~~~~~~~~~~~~i~~~~~~~~~~p-ii~v~nK~Dl  121 (172)
T 2erx_A           49 SICTLQITDTTGSHQFPAMQRLSISK--GHAFILVYSITSRQSLEELKPIYEQICEIKGDVESIP-IMLVGNKCDE  121 (172)
T ss_dssp             EEEEEEEEECCSCSSCHHHHHHHHHH--CSEEEEEEETTCHHHHHTTHHHHHHHHHHHC---CCC-EEEEEECGGG
T ss_pred             EEEEEEEEECCCchhhHHHHHHhccc--CCEEEEEEECcCHHHHHHHHHHHHHHHHHhCCCCCCC-EEEEEEcccc
Confidence            356799999997543  223334444  89999999854 44555556555555432     445 5689999664

>1g7s_A Translation initiation factor IF2/EIF5B; translational GTPase; HET: GDP; 2.00A {Methanothermobacterthermautotrophicus} SCOP: b.43.3.1 b.43.3.1 c.20.1.1 c.37.1.8 PDB: 1g7r_A* 1g7t_A*

Probab=86.59  E-value=0.93  Score=41.26  Aligned_cols=64  Identities=20%  Similarity=0.105  Sum_probs=43.7

Q ss_pred             CCCEEEEeCCCCCChh--HHHHhhhcCCCeEEEEeCCCcchHHHHHHHHHHHHhCCCCeEEEEEcCCCC
Q psy14655        106 PCDILFIDTPPGTGDT--HLSLIQNLFIDTAIIITIPDTMSLQVAQRGYTMFKKLNIPVAGLVMNMNSV  172 (261)
Q Consensus       106 ~yd~IiiD~~~~~~~~--~~~~~~~~~ad~viiv~~~~~~s~~~~~~~~~~l~~~~~~~~giv~N~~~~  172 (261)
                      .+.+.|+|||+.....  ....+..  ||.+++|++.+..-..++...++.+...+.+ +-+++|+++.
T Consensus        69 ~~~i~liDTPGhe~F~~~~~r~~~~--aD~aILVvDa~~Gv~~qT~e~l~~l~~~~vP-iIVViNKiDl  134 (594)
T 1g7s_A           69 LPGLFFIDTPGHEAFTTLRKRGGAL--ADLAILIVDINEGFKPQTQEALNILRMYRTP-FVVAANKIDR  134 (594)
T ss_dssp             CCEEEEECCCTTSCCTTSBCSSSBS--CSEEEEEEETTTCCCHHHHHHHHHHHHTTCC-EEEEEECGGG
T ss_pred             cCCEEEEECCCcHHHHHHHHHHHhh--CCEEEEEEECCCCccHhHHHHHHHHHHcCCe-EEEEeccccc
Confidence            3469999999754322  1122233  8999999997764445555666777777888 5589999775

>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=86.58  E-value=1.4  Score=32.35  Aligned_cols=64  Identities=11%  Similarity=0.042  Sum_probs=40.3

Q ss_pred             CCCEEEEeCCCCCCh--hHHHHhhhcCCCeEEEEeCCC-cchHHHHHHHHHHHHhC---CCCeEEEEEcCCCC
Q psy14655        106 PCDILFIDTPPGTGD--THLSLIQNLFIDTAIIITIPD-TMSLQVAQRGYTMFKKL---NIPVAGLVMNMNSV  172 (261)
Q Consensus       106 ~yd~IiiD~~~~~~~--~~~~~~~~~~ad~viiv~~~~-~~s~~~~~~~~~~l~~~---~~~~~giv~N~~~~  172 (261)
                      .+.+.|+|+|+....  .....+..  +|.+++|...+ ..+...+...+..+...   +. .+-+|.|+.+.
T Consensus        59 ~~~~~~~Dt~G~~~~~~~~~~~~~~--~d~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~-piilv~nK~Dl  128 (180)
T 2g6b_A           59 KVKLQMWDTAGQERFRSVTHAYYRD--AHALLLLYDVTNKASFDNIQAWLTEIHEYAQHDV-ALMLLGNKVDS  128 (180)
T ss_dssp             EEEEEEEECCCC--------CCGGG--CSEEEEEEETTCHHHHHTHHHHHHHHHHHSCTTC-EEEEEEECCST
T ss_pred             EEEEEEEeCCCcHHHHHHHHHHccC--CCEEEEEEECCCHHHHHHHHHHHHHHHHhCCCCC-cEEEEEECccc
Confidence            468999999974322  22233444  89999999854 45666666666665542   33 46689999775

>3oes_A GTPase rhebl1; small GTPase, structural genomics, structural genomics conso SGC, hydrolase; HET: GNP; 2.30A {Homo sapiens}

Probab=86.56  E-value=1.4  Score=33.44  Aligned_cols=65  Identities=18%  Similarity=0.206  Sum_probs=43.2

Q ss_pred             CCCCEEEEeCCCCCC--hhHHHHhhhcCCCeEEEEeCC-CcchHHHHHHHHHHHHhC----CCCeEEEEEcCCCC
Q psy14655        105 GPCDILFIDTPPGTG--DTHLSLIQNLFIDTAIIITIP-DTMSLQVAQRGYTMFKKL----NIPVAGLVMNMNSV  172 (261)
Q Consensus       105 ~~yd~IiiD~~~~~~--~~~~~~~~~~~ad~viiv~~~-~~~s~~~~~~~~~~l~~~----~~~~~giv~N~~~~  172 (261)
                      ..+.+.|+|+|+...  ......+..  +|.++++... +..++..+...++.+...    +.+ +.+|.|+.+.
T Consensus        70 ~~~~~~l~Dt~G~~~~~~~~~~~~~~--~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~p-iilv~nK~Dl  141 (201)
T 3oes_A           70 DEFHLHLVDTAGQDEYSILPYSFIIG--VHGYVLVYSVTSLHSFQVIESLYQKLHEGHGKTRVP-VVLVGNKADL  141 (201)
T ss_dssp             -CEEEEEEEECCCCTTCCCCGGGTTT--CCEEEEEEETTCHHHHHHHHHHHHHHHC-----CCC-EEEEEECTTC
T ss_pred             EEEEEEEEECCCccchHHHHHHHHhc--CCEEEEEEeCCCHHHHHHHHHHHHHHHHhcCCCCCC-EEEEEECccC
Confidence            567889999996432  222334444  8999999984 456777777777766543    444 5689999764

>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=86.55  E-value=3.5  Score=30.90  Aligned_cols=65  Identities=12%  Similarity=0.019  Sum_probs=42.4

Q ss_pred             CCCCEEEEeCCCCC--ChhHHHHhhhcCCCeEEEEeCC-CcchHHHHHHHHHHHHhC----CCCeEEEEEcCCCC
Q psy14655        105 GPCDILFIDTPPGT--GDTHLSLIQNLFIDTAIIITIP-DTMSLQVAQRGYTMFKKL----NIPVAGLVMNMNSV  172 (261)
Q Consensus       105 ~~yd~IiiD~~~~~--~~~~~~~~~~~~ad~viiv~~~-~~~s~~~~~~~~~~l~~~----~~~~~giv~N~~~~  172 (261)
                      ..+.+.|+|+|+..  .......+..  +|.+++|.+. +..++..+...+..+...    +. .+-+|.|+.+.
T Consensus        71 ~~~~~~i~Dt~G~~~~~~~~~~~~~~--~d~iilv~D~~~~~s~~~~~~~l~~~~~~~~~~~~-piilv~NK~Dl  142 (192)
T 2b6h_A           71 KNICFTVWDVGGQDKIRPLWRHYFQN--TQGLIFVVDSNDRERVQESADELQKMLQEDELRDA-VLLVFANKQDM  142 (192)
T ss_dssp             TTEEEEEEECC-----CTTHHHHHHT--CCEEEEEEETTCGGGHHHHHHHHHHHHTCGGGTTC-EEEEEEECTTS
T ss_pred             CCEEEEEEECCCCHhHHHHHHHHhcc--CCEEEEEEECCCHHHHHHHHHHHHHHhcccccCCC-eEEEEEECCCC
Confidence            46789999999643  2333344555  9999999985 455677777666655432    33 46689999764

>2bwj_A Adenylate kinase 5; phosphoryl transfer reaction, transferase; HET: AMP; 2.3A {Homo sapiens}

Probab=86.54  E-value=0.27  Score=37.42  Aligned_cols=21  Identities=24%  Similarity=0.259  Sum_probs=17.4

Q ss_pred             cccCCCCCcHHHHHHHHHHHH
Q psy14655          2 IASSKGGVGKSTTTVNLATAM   22 (261)
Q Consensus         2 v~s~KGGvGKTT~a~~lA~~l   22 (261)
                      ++.+--|+||||++..||..+
T Consensus        16 ~l~G~~GsGKsT~a~~L~~~l   36 (199)
T 2bwj_A           16 FIIGGPGSGKGTQCEKLVEKY   36 (199)
T ss_dssp             EEEECTTSSHHHHHHHHHHHH
T ss_pred             EEECCCCCCHHHHHHHHHHHh
Confidence            356678999999999998876

>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=86.49  E-value=0.48  Score=37.44  Aligned_cols=29  Identities=14%  Similarity=0.114  Sum_probs=24.4

Q ss_pred             ccCCCCCcHHHHHHHHHHHHHhcCCCCeEEEE
Q psy14655          3 ASSKGGVGKSTTTVNLATAMKICYPDKEIGIL   34 (261)
Q Consensus         3 ~s~KGGvGKTT~a~~lA~~la~~g~~~~Vllv   34 (261)
                      +-+--|+||||++..|+..+.. |  .+|+..
T Consensus        31 i~G~~GsGKsT~~~~l~~~l~~-~--~~~~~~   59 (229)
T 4eaq_A           31 FEGPEGSGKTTVINEVYHRLVK-D--YDVIMT   59 (229)
T ss_dssp             EECCTTSCHHHHHHHHHHHHTT-T--SCEEEE
T ss_pred             EEcCCCCCHHHHHHHHHHHHhc-C--CCceee
Confidence            4566799999999999999988 8  888654

>3fb4_A Adenylate kinase; psychrophIle, phosphotransferase, ATP-binding, nucleotide-binding, transferase; HET: AP5; 2.00A {Marinibacillus marinus}

Probab=86.48  E-value=0.32  Score=37.66  Aligned_cols=21  Identities=19%  Similarity=0.276  Sum_probs=17.6

Q ss_pred             cccCCCCCcHHHHHHHHHHHH
Q psy14655          2 IASSKGGVGKSTTTVNLATAM   22 (261)
Q Consensus         2 v~s~KGGvGKTT~a~~lA~~l   22 (261)
                      ++.+--|+||||+|..||..+
T Consensus         4 ~l~G~~GsGKsT~a~~L~~~~   24 (216)
T 3fb4_A            4 VLMGLPGAGKGTQAEQIIEKY   24 (216)
T ss_dssp             EEECSTTSSHHHHHHHHHHHH
T ss_pred             EEECCCCCCHHHHHHHHHHHh
Confidence            456778999999999998765

>3h4m_A Proteasome-activating nucleotidase; ATPase, PAN, ATP-binding, nucleotide-binding, HY; HET: ADP; 3.11A {Methanocaldococcus jannaschii}

Probab=86.45  E-value=0.46  Score=38.47  Aligned_cols=31  Identities=16%  Similarity=0.110  Sum_probs=24.1

Q ss_pred             cccCCCCCcHHHHHHHHHHHHHhcCCCCeEEEEecC
Q psy14655          2 IASSKGGVGKSTTTVNLATAMKICYPDKEIGILDAD   37 (261)
Q Consensus         2 v~s~KGGvGKTT~a~~lA~~la~~g~~~~VllvD~D   37 (261)
                      +..+..|+||||++..+|..+   +  .+++.+++.
T Consensus        55 ll~G~~GtGKT~la~~la~~~---~--~~~~~v~~~   85 (285)
T 3h4m_A           55 LLYGPPGTGKTLLAKAVATET---N--ATFIRVVGS   85 (285)
T ss_dssp             EEESSSSSSHHHHHHHHHHHT---T--CEEEEEEGG
T ss_pred             EEECCCCCcHHHHHHHHHHHh---C--CCEEEEehH
Confidence            345778999999999988764   5  777777764

>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=86.36  E-value=0.21  Score=38.57  Aligned_cols=31  Identities=26%  Similarity=0.368  Sum_probs=22.1

Q ss_pred             ccCCCCCcHHHHHHHHHHHHHhcCCCCeEEEEecCCC
Q psy14655          3 ASSKGGVGKSTTTVNLATAMKICYPDKEIGILDADVF   39 (261)
Q Consensus         3 ~s~KGGvGKTT~a~~lA~~la~~g~~~~VllvD~D~~   39 (261)
                      +.+..|+||||++..|+..+      ..+.+|+.|..
T Consensus        26 i~G~~GsGKSTl~~~L~~~~------~~~~~i~~D~~   56 (207)
T 2qt1_A           26 ISGVTNSGKTTLAKNLQKHL------PNCSVISQDDF   56 (207)
T ss_dssp             EEESTTSSHHHHHHHHHTTS------TTEEEEEGGGG
T ss_pred             EECCCCCCHHHHHHHHHHhc------CCcEEEeCCcc
Confidence            34566999999988776432      25788888854

>2xb4_A Adenylate kinase; ATP-binding, nucleotide-binding, transferase; HET: SRT; 1.80A {Desulfovibrio gigas} PDB: 3l0s_A* 3l0p_A*

Probab=86.15  E-value=0.36  Score=37.85  Aligned_cols=21  Identities=19%  Similarity=0.196  Sum_probs=17.9

Q ss_pred             cccCCCCCcHHHHHHHHHHHH
Q psy14655          2 IASSKGGVGKSTTTVNLATAM   22 (261)
Q Consensus         2 v~s~KGGvGKTT~a~~lA~~l   22 (261)
                      ++.+--|+||||++..||..+
T Consensus         4 ~l~G~~GsGKsT~a~~La~~l   24 (223)
T 2xb4_A            4 LIFGPNGSGKGTQGNLVKDKY   24 (223)
T ss_dssp             EEECCTTSCHHHHHHHHHHHH
T ss_pred             EEECCCCCCHHHHHHHHHHHh
Confidence            456778999999999998876

>1c9k_A COBU, adenosylcobinamide kinase; alpha/beta structure rossmann fold P-loop, transferase; HET: 5GP; 2.20A {Salmonella typhimurium} SCOP: c.37.1.11 PDB: 1cbu_A

Probab=86.12  E-value=0.3  Score=37.17  Aligned_cols=30  Identities=13%  Similarity=0.114  Sum_probs=24.4

Q ss_pred             ccCCCCCcHHHHHHHHHHHHHhcCCCCeEEEEecCC
Q psy14655          3 ASSKGGVGKSTTTVNLATAMKICYPDKEIGILDADV   38 (261)
Q Consensus         3 ~s~KGGvGKTT~a~~lA~~la~~g~~~~VllvD~D~   38 (261)
                      +.+-.|+||||+|..||..    |  .++++|+...
T Consensus         4 V~Gg~~SGKS~~A~~la~~----~--~~~~yiaT~~   33 (180)
T 1c9k_A            4 VTGGARSGKSRHAEALIGD----A--PQVLYIATSQ   33 (180)
T ss_dssp             EEECTTSSHHHHHHHHHCS----C--SSEEEEECCC
T ss_pred             EECCCCCcHHHHHHHHHhc----C--CCeEEEecCC
Confidence            4566799999999998744    7  8899999865

>2c95_A Adenylate kinase 1; transferase, AP4A, nucleotide kinase, transferase ATP-bindi; HET: B4P; 1.71A {Homo sapiens} PDB: 1z83_A* 3adk_A

Probab=86.06  E-value=0.29  Score=37.09  Aligned_cols=29  Identities=17%  Similarity=0.158  Sum_probs=21.5

Q ss_pred             cccCCCCCcHHHHHHHHHHHHHhcCCCCeEEEEecC
Q psy14655          2 IASSKGGVGKSTTTVNLATAMKICYPDKEIGILDAD   37 (261)
Q Consensus         2 v~s~KGGvGKTT~a~~lA~~la~~g~~~~VllvD~D   37 (261)
                      ++.+--|+||||++..||..+   |  ..  ++|.|
T Consensus        13 ~l~G~~GsGKsT~~~~La~~l---~--~~--~i~~d   41 (196)
T 2c95_A           13 FVVGGPGSGKGTQCEKIVQKY---G--YT--HLSTG   41 (196)
T ss_dssp             EEEECTTSSHHHHHHHHHHHH---C--CE--EEEHH
T ss_pred             EEECCCCCCHHHHHHHHHHHh---C--Ce--EEcHH
Confidence            345667999999999998766   4  44  56665

>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=85.96  E-value=1.4  Score=33.32  Aligned_cols=65  Identities=15%  Similarity=0.123  Sum_probs=42.7

Q ss_pred             CCCCEEEEeCCCCCC--hhHHHHhhhcCCCeEEEEeCCC-cchHHHHHHHHHHHHhC---CCCeEEEEEcCCCC
Q psy14655        105 GPCDILFIDTPPGTG--DTHLSLIQNLFIDTAIIITIPD-TMSLQVAQRGYTMFKKL---NIPVAGLVMNMNSV  172 (261)
Q Consensus       105 ~~yd~IiiD~~~~~~--~~~~~~~~~~~ad~viiv~~~~-~~s~~~~~~~~~~l~~~---~~~~~giv~N~~~~  172 (261)
                      ..+.+.|+|+|+...  ......+..  +|.+++|.+.+ ..+...+...++.+...   +.+ +.+|.|+.+.
T Consensus        75 ~~~~l~i~Dt~G~~~~~~~~~~~~~~--~d~iilv~d~~~~~s~~~~~~~~~~i~~~~~~~~p-iilv~NK~Dl  145 (199)
T 2p5s_A           75 ERTVLQLWDTAGQERFRSIAKSYFRK--ADGVLLLYDVTCEKSFLNIREWVDMIEDAAHETVP-IMLVGNKADI  145 (199)
T ss_dssp             EEEEEEEEECTTCTTCHHHHHHHHHH--CSEEEEEEETTCHHHHHTHHHHHHHHHHHC---CC-EEEEEECGGG
T ss_pred             EEEEEEEEECCCCcchhhhHHHHHhh--CCEEEEEEECCChHHHHHHHHHHHHHHHhcCCCCC-EEEEEECccc
Confidence            346799999997543  223334455  89999999854 45666666666666543   444 6689999653

>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=85.93  E-value=0.32  Score=37.79  Aligned_cols=21  Identities=19%  Similarity=0.098  Sum_probs=17.5

Q ss_pred             cccCCCCCcHHHHHHHHHHHH
Q psy14655          2 IASSKGGVGKSTTTVNLATAM   22 (261)
Q Consensus         2 v~s~KGGvGKTT~a~~lA~~l   22 (261)
                      ++.+.-|+||||++..||..+
T Consensus         4 ~l~G~~GsGKsT~a~~L~~~~   24 (214)
T 1e4v_A            4 ILLGAPVAGKGTQAQFIMEKY   24 (214)
T ss_dssp             EEEESTTSSHHHHHHHHHHHH
T ss_pred             EEECCCCCCHHHHHHHHHHHh
Confidence            455677999999999998876

>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=85.89  E-value=1.4  Score=33.11  Aligned_cols=66  Identities=14%  Similarity=0.022  Sum_probs=43.7

Q ss_pred             CCCCEEEEeCCCCCC--hhHHHHhhhcCCCeEEEEeCC-CcchHHHHHHHHHHHHhCC--CCeEEEEEcCCCC
Q psy14655        105 GPCDILFIDTPPGTG--DTHLSLIQNLFIDTAIIITIP-DTMSLQVAQRGYTMFKKLN--IPVAGLVMNMNSV  172 (261)
Q Consensus       105 ~~yd~IiiD~~~~~~--~~~~~~~~~~~ad~viiv~~~-~~~s~~~~~~~~~~l~~~~--~~~~giv~N~~~~  172 (261)
                      ..+.+.|+|+|+...  ......+..  +|.+++|... +..+...+...+..+....  -..+.+|.|+.+.
T Consensus        70 ~~~~~~i~Dt~G~~~~~~~~~~~~~~--~d~iilV~d~~~~~s~~~~~~~~~~i~~~~~~~~piiiv~NK~Dl  140 (192)
T 2fg5_A           70 ELHKFLIWDTAGQERFHSLAPMYYRG--SAAAVIVYDITKQDSFYTLKKWVKELKEHGPENIVMAIAGNKCDL  140 (192)
T ss_dssp             SEEEEEEEEECCSGGGGGGTHHHHTT--CSEEEEEEETTCTHHHHHHHHHHHHHHHHSCTTCEEEEEEECGGG
T ss_pred             EEEEEEEEcCCCchhhHhhhHHhhcc--CCEEEEEEeCCCHHHHHHHHHHHHHHHHhCCCCCcEEEEEECccc
Confidence            456899999996432  222334444  8999999985 4556777777777666532  2346689999664

>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=85.88  E-value=0.54  Score=38.78  Aligned_cols=33  Identities=15%  Similarity=0.226  Sum_probs=26.2

Q ss_pred             cccCCCCCcHHHHHHHHHHHHHhcCCCCeEEEEecCCC
Q psy14655          2 IASSKGGVGKSTTTVNLATAMKICYPDKEIGILDADVF   39 (261)
Q Consensus         2 v~s~KGGvGKTT~a~~lA~~la~~g~~~~VllvD~D~~   39 (261)
                      ++.+-.|+||||+|..++..+   +  .++..+++...
T Consensus        42 ll~G~~GtGKT~la~~i~~~~---~--~~~~~~~~~~~   74 (324)
T 1hqc_A           42 LLFGPPGLGKTTLAHVIAHEL---G--VNLRVTSGPAI   74 (324)
T ss_dssp             EEECCTTCCCHHHHHHHHHHH---T--CCEEEECTTTC
T ss_pred             EEECCCCCCHHHHHHHHHHHh---C--CCEEEEecccc
Confidence            456788999999999999876   5  67777777654

>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=85.86  E-value=2.6  Score=31.71  Aligned_cols=65  Identities=9%  Similarity=0.041  Sum_probs=41.1

Q ss_pred             CCCCEEEEeCCCCCC--hhH---HHHhhhcCCCeEEEEeCCCcchHHHHHHHHHHHHh-----CCCCeEEEEEcCCCC
Q psy14655        105 GPCDILFIDTPPGTG--DTH---LSLIQNLFIDTAIIITIPDTMSLQVAQRGYTMFKK-----LNIPVAGLVMNMNSV  172 (261)
Q Consensus       105 ~~yd~IiiD~~~~~~--~~~---~~~~~~~~ad~viiv~~~~~~s~~~~~~~~~~l~~-----~~~~~~giv~N~~~~  172 (261)
                      ..+.+.|+|+|+...  ...   ...+..  +|.+++|.+.+.........+.+.+..     .+. .+-+|.|+.+.
T Consensus        67 ~~~~l~i~Dt~G~~~~~~~~~~~~~~~~~--~~~~i~v~d~~~~~~~~~~~~~~~l~~~~~~~~~~-piilv~nK~Dl  141 (196)
T 3llu_A           67 SFVNFQIWDFPGQMDFFDPTFDYEMIFRG--TGALIYVIDAQDDYMEALTRLHITVSKAYKVNPDM-NFEVFIHKVDG  141 (196)
T ss_dssp             TSCCEEEEECCSSCCTTCTTCCHHHHHHT--CSEEEEEEETTSCCHHHHHHHHHHHHHHHHHCTTC-EEEEEEECGGG
T ss_pred             CeeEEEEEECCCCHHHHhhhhhccccccc--CCEEEEEEECCCchHHHHHHHHHHHHHHHhcCCCC-cEEEEEecccc
Confidence            568999999997533  222   345555  999999998766444444444444432     234 46689999653

>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=85.80  E-value=0.49  Score=40.19  Aligned_cols=32  Identities=28%  Similarity=0.292  Sum_probs=25.7

Q ss_pred             ccCCCCCcHHHHHHHHHHHHHhcCCCCeEEEEecCCC
Q psy14655          3 ASSKGGVGKSTTTVNLATAMKICYPDKEIGILDADVF   39 (261)
Q Consensus         3 ~s~KGGvGKTT~a~~lA~~la~~g~~~~VllvD~D~~   39 (261)
                      ..+.-|+||||+|..+|..+   +  .++..+|+..-
T Consensus        77 l~Gp~GtGKT~la~~la~~l---~--~~~~~~~~~~~  108 (376)
T 1um8_A           77 LIGPTGSGKTLMAQTLAKHL---D--IPIAISDATSL  108 (376)
T ss_dssp             EECCTTSSHHHHHHHHHHHT---T--CCEEEEEGGGC
T ss_pred             EECCCCCCHHHHHHHHHHHh---C--CCEEEecchhh
Confidence            45667999999999999877   6  78888887653

>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=85.78  E-value=0.3  Score=36.81  Aligned_cols=29  Identities=24%  Similarity=0.191  Sum_probs=21.1

Q ss_pred             cccCCCCCcHHHHHHHHHHHHHhcCCCCeEEEEecC
Q psy14655          2 IASSKGGVGKSTTTVNLATAMKICYPDKEIGILDAD   37 (261)
Q Consensus         2 v~s~KGGvGKTT~a~~lA~~la~~g~~~~VllvD~D   37 (261)
                      ++.+--|+||||++..|+..+   |  .  ..+|.|
T Consensus        10 ~l~G~~GsGKsT~~~~L~~~l---~--~--~~i~~d   38 (194)
T 1qf9_A           10 FVLGGPGSGKGTQCANIVRDF---G--W--VHLSAG   38 (194)
T ss_dssp             EEEESTTSSHHHHHHHHHHHH---C--C--EEEEHH
T ss_pred             EEECCCCCCHHHHHHHHHHHh---C--C--eEeeHH
Confidence            355678999999999888765   4  3  455665

>3te6_A Regulatory protein SIR3; heterochromatin, gene silencing, SIR complex, HMR, HML, TELO AAA+ domain, structural, nucleus, gene RE; 2.80A {Saccharomyces cerevisiae}

Probab=85.75  E-value=0.47  Score=39.61  Aligned_cols=39  Identities=10%  Similarity=-0.003  Sum_probs=29.6

Q ss_pred             cccCCCCCcHHHHHHHHHHHHHhcC-----CCCeEEEEecCCCC
Q psy14655          2 IASSKGGVGKSTTTVNLATAMKICY-----PDKEIGILDADVFG   40 (261)
Q Consensus         2 v~s~KGGvGKTT~a~~lA~~la~~g-----~~~~VllvD~D~~~   40 (261)
                      ++++.-|+|||+++..++..|.+..     ++.+++.|+|-...
T Consensus        49 li~GpPGTGKT~~v~~v~~~L~~~~~~~~~~~~~~v~INc~~~~   92 (318)
T 3te6_A           49 YITNADDSTKFQLVNDVMDELITSSARKELPIFDYIHIDALELA   92 (318)
T ss_dssp             EEECCCSHHHHHHHHHHHHHHHHTTTTTSSCCEEEEEEETTCCC
T ss_pred             EEECCCCCCHHHHHHHHHHHHHHHhhhccCCceEEEEEeccccC
Confidence            5678999999999999999997531     11567778876543

>1z6t_A APAF-1, apoptotic protease activating factor 1; caspase activation, ADP, nucleotide binding, CARD, apoptosis; HET: ADP; 2.21A {Homo sapiens}

Probab=85.74  E-value=0.28  Score=44.33  Aligned_cols=37  Identities=14%  Similarity=0.206  Sum_probs=25.9

Q ss_pred             cccCCCCCcHHHHHHHHHHHH---HhcCCCCeEEEEecCCC
Q psy14655          2 IASSKGGVGKSTTTVNLATAM---KICYPDKEIGILDADVF   39 (261)
Q Consensus         2 v~s~KGGvGKTT~a~~lA~~l---a~~g~~~~VllvD~D~~   39 (261)
                      ++.+-||+||||+|..++...   ...- ...|+.++++..
T Consensus       151 ~I~G~~GiGKTtLa~~~~~~~~~~~~~f-~~~v~wv~~~~~  190 (591)
T 1z6t_A          151 TIHGMAGCGKSVLAAEAVRDHSLLEGCF-PGGVHWVSVGKQ  190 (591)
T ss_dssp             EEECCTTSSHHHHHHHHHCCHHHHHHHC-TTCEEEEEEESC
T ss_pred             EEEcCCCCCHHHHHHHHHhchhHHHhhC-CCceEEEECCCC
Confidence            467889999999999998654   2222 125788877654

>1kag_A SKI, shikimate kinase I; transferase, structural genomics, PSI, protein structure initiative; 2.05A {Escherichia coli} SCOP: c.37.1.2

Probab=85.70  E-value=0.32  Score=36.14  Aligned_cols=28  Identities=32%  Similarity=0.349  Sum_probs=20.3

Q ss_pred             ccCCCCCcHHHHHHHHHHHHHhcCCCCeEEEEecC
Q psy14655          3 ASSKGGVGKSTTTVNLATAMKICYPDKEIGILDAD   37 (261)
Q Consensus         3 ~s~KGGvGKTT~a~~lA~~la~~g~~~~VllvD~D   37 (261)
                      +.+.-|+||||++..||..+   |  .  .++|.|
T Consensus         9 l~G~~GsGKSTl~~~La~~l---~--~--~~id~d   36 (173)
T 1kag_A            9 LVGPMGAGKSTIGRQLAQQL---N--M--EFYDSD   36 (173)
T ss_dssp             EECCTTSCHHHHHHHHHHHT---T--C--EEEEHH
T ss_pred             EECCCCCCHHHHHHHHHHHh---C--C--CEEecc
Confidence            45677999999998887654   3  3  456765

>1vco_A CTP synthetase; tetramer, riken structural genomics/proteomics initiative, RSGI, structural genomics, ligase; HET: GLN; 2.15A {Thermus thermophilus} SCOP: c.23.16.1 c.37.1.10 PDB: 1vcn_A 1vcm_A

Probab=85.67  E-value=0.62  Score=41.87  Aligned_cols=34  Identities=15%  Similarity=0.231  Sum_probs=31.3

Q ss_pred             cCCCCCcHHHHHHHHHHHHHhcCCCCeEEEEecCCC
Q psy14655          4 SSKGGVGKSTTTVNLATAMKICYPDKEIGILDADVF   39 (261)
Q Consensus         4 s~KGGvGKTT~a~~lA~~la~~g~~~~VllvD~D~~   39 (261)
                      +.-.|+|||.+++.|++.|+++|  .+|..+-+||.
T Consensus        20 g~~s~~gk~~~~~~~~~~l~~~g--~~v~~~k~~py   53 (550)
T 1vco_A           20 GVVSSLGKGILTSSLGALLRARG--YRVTAIKIDPY   53 (550)
T ss_dssp             CSSSCSCHHHHHHHHHHHHHTTT--CCEEEEEEECS
T ss_pred             CcccCcchHHHHHHHHHHHHhCC--ceeeEeecccc
Confidence            66789999999999999999999  99999999864

>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=85.58  E-value=0.55  Score=37.85  Aligned_cols=30  Identities=10%  Similarity=0.039  Sum_probs=22.9

Q ss_pred             cccCCCCCcHHHHHHHHHHHHHhcCCCCeEEEEec
Q psy14655          2 IASSKGGVGKSTTTVNLATAMKICYPDKEIGILDA   36 (261)
Q Consensus         2 v~s~KGGvGKTT~a~~lA~~la~~g~~~~VllvD~   36 (261)
                      +..+.-|+|||++|..+|..+   +  .+++.+++
T Consensus        68 Ll~G~~GtGKT~la~~ia~~~---~--~~~~~i~~   97 (272)
T 1d2n_A           68 LLEGPPHSGKTALAAKIAEES---N--FPFIKICS   97 (272)
T ss_dssp             EEECSTTSSHHHHHHHHHHHH---T--CSEEEEEC
T ss_pred             EEECCCCCcHHHHHHHHHHHh---C--CCEEEEeC
Confidence            355778999999999998873   5  66666654

>3be4_A Adenylate kinase; malaria, cryptosporidium parvum nonprotein inhibitors, nucleotide-binding, transferase; HET: AP5; 1.60A {Cryptosporidium parvum iowa II}

Probab=85.57  E-value=0.33  Score=37.83  Aligned_cols=21  Identities=24%  Similarity=0.232  Sum_probs=17.4

Q ss_pred             cccCCCCCcHHHHHHHHHHHH
Q psy14655          2 IASSKGGVGKSTTTVNLATAM   22 (261)
Q Consensus         2 v~s~KGGvGKTT~a~~lA~~l   22 (261)
                      ++.+--|+||||++..||..+
T Consensus         9 ~l~G~~GsGKsT~a~~La~~l   29 (217)
T 3be4_A            9 ILIGAPGSGKGTQCEFIKKEY   29 (217)
T ss_dssp             EEEECTTSSHHHHHHHHHHHH
T ss_pred             EEECCCCCCHHHHHHHHHHHh
Confidence            345667999999999999877

>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=85.55  E-value=1.5  Score=32.81  Aligned_cols=65  Identities=15%  Similarity=0.017  Sum_probs=42.6

Q ss_pred             CCCCEEEEeCCCCCC--hhHHHHhhhcCCCeEEEEeCCC-cchHHHHH-HHHHHHHhC--CCCeEEEEEcCCCC
Q psy14655        105 GPCDILFIDTPPGTG--DTHLSLIQNLFIDTAIIITIPD-TMSLQVAQ-RGYTMFKKL--NIPVAGLVMNMNSV  172 (261)
Q Consensus       105 ~~yd~IiiD~~~~~~--~~~~~~~~~~~ad~viiv~~~~-~~s~~~~~-~~~~~l~~~--~~~~~giv~N~~~~  172 (261)
                      ..+.+.|+|+|+...  ......+..  +|.+++|.+.+ ..++..+. .++..+...  +.+ +-+|.|+.+.
T Consensus        64 ~~~~~~i~D~~G~~~~~~~~~~~~~~--~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p-iilv~nK~Dl  134 (194)
T 2atx_A           64 KQYLLGLYDTAGQEDYDRLRPLSYPM--TDVFLICFSVVNPASFQNVKEEWVPELKEYAPNVP-FLLIGTQIDL  134 (194)
T ss_dssp             CEEEEEEECCCCSSSSTTTGGGGCTT--CSEEEEEEETTCHHHHHHHHHTHHHHHHHHSTTCC-EEEEEECTTS
T ss_pred             EEEEEEEEECCCCcchhHHHHHhcCC--CCEEEEEEECCCHHHHHHHHHHHHHHHHHhCCCCC-EEEEEEChhh
Confidence            346889999996432  222333444  89999999854 45666665 566666553  455 5599999775

>1ojl_A Transcriptional regulatory protein ZRAR; response regulator, two component system, AAA domain, NTRC family, DNA-binding; HET: ATP; 3.0A {Salmonella typhimurium}

Probab=85.55  E-value=0.26  Score=40.80  Aligned_cols=36  Identities=14%  Similarity=0.221  Sum_probs=29.9

Q ss_pred             cccCCCCCcHHHHHHHHHHHHHhcCCCCeEEEEecCCC
Q psy14655          2 IASSKGGVGKSTTTVNLATAMKICYPDKEIGILDADVF   39 (261)
Q Consensus         2 v~s~KGGvGKTT~a~~lA~~la~~g~~~~VllvD~D~~   39 (261)
                      ++.+.-|+|||++|..++....+.+  .+.+.|+|...
T Consensus        29 Li~Ge~GtGKt~lAr~i~~~~~~~~--~~~v~v~~~~~   64 (304)
T 1ojl_A           29 LIHGDSGTGKELVARALHACSARSD--RPLVTLNCAAL   64 (304)
T ss_dssp             EEESCTTSCHHHHHHHHHHHSSCSS--SCCCEEECSSC
T ss_pred             EEECCCCchHHHHHHHHHHhCcccC--CCeEEEeCCCC
Confidence            3557789999999999998877777  88999998754

>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=85.54  E-value=0.39  Score=37.40  Aligned_cols=21  Identities=29%  Similarity=0.398  Sum_probs=17.5

Q ss_pred             cccCCCCCcHHHHHHHHHHHH
Q psy14655          2 IASSKGGVGKSTTTVNLATAM   22 (261)
Q Consensus         2 v~s~KGGvGKTT~a~~lA~~l   22 (261)
                      ++.+--|+||||++..||..+
T Consensus         8 ~l~G~~GsGKsT~a~~La~~l   28 (220)
T 1aky_A            8 VLIGPPGAGKGTQAPNLQERF   28 (220)
T ss_dssp             EEECCTTSSHHHHHHHHHHHH
T ss_pred             EEECCCCCCHHHHHHHHHHHc
Confidence            455778999999999998866

>1lv7_A FTSH; alpha/beta domain, four helix bundle, hydrolase; 1.50A {Escherichia coli} SCOP: c.37.1.20

Probab=85.54  E-value=0.61  Score=37.19  Aligned_cols=30  Identities=13%  Similarity=0.102  Sum_probs=22.8

Q ss_pred             ccCCCCCcHHHHHHHHHHHHHhcCCCCeEEEEecC
Q psy14655          3 ASSKGGVGKSTTTVNLATAMKICYPDKEIGILDAD   37 (261)
Q Consensus         3 ~s~KGGvGKTT~a~~lA~~la~~g~~~~VllvD~D   37 (261)
                      ..+.-|+||||++..+|..+   +  .+++.+++.
T Consensus        50 l~G~~GtGKT~la~~la~~~---~--~~~~~i~~~   79 (257)
T 1lv7_A           50 MVGPPGTGKTLLAKAIAGEA---K--VPFFTISGS   79 (257)
T ss_dssp             EECCTTSCHHHHHHHHHHHH---T--CCEEEECSC
T ss_pred             EECcCCCCHHHHHHHHHHHc---C--CCEEEEeHH
Confidence            45677999999999999865   4  566666543

>2qtf_A Protein HFLX, GTP-binding protein; beta-alpha-barrels, nucleotide-binding, nucleotide binding protein; 2.00A {Sulfolobus solfataricus P2} PDB: 2qth_A* 3kxi_A* 3kxl_A 3kxk_A

Probab=85.51  E-value=2  Score=36.52  Aligned_cols=63  Identities=16%  Similarity=0.213  Sum_probs=34.2

Q ss_pred             CCEEEEeCCCCCChh----------HHHHhhhcCCCeEEEEeCCCcch---HHHHHHHHHHHHhC---CCCeEEEEEcCC
Q psy14655        107 CDILFIDTPPGTGDT----------HLSLIQNLFIDTAIIITIPDTMS---LQVAQRGYTMFKKL---NIPVAGLVMNMN  170 (261)
Q Consensus       107 yd~IiiD~~~~~~~~----------~~~~~~~~~ad~viiv~~~~~~s---~~~~~~~~~~l~~~---~~~~~giv~N~~  170 (261)
                      ..+.++||++.....          ....+..  +|.+++|+..+...   ........+.+...   +.+ +-+|.|+.
T Consensus       226 ~~v~l~DT~G~i~~lp~~lve~f~~tl~~~~~--aD~il~VvD~s~~~~~~~~~~~~~~~~L~~l~~~~~p-~ilV~NK~  302 (364)
T 2qtf_A          226 RKIMLVDTVGFIRGIPPQIVDAFFVTLSEAKY--SDALILVIDSTFSENLLIETLQSSFEILREIGVSGKP-ILVTLNKI  302 (364)
T ss_dssp             EEEEEEECCCBCSSCCGGGHHHHHHHHHGGGG--SSEEEEEEETTSCHHHHHHHHHHHHHHHHHHTCCSCC-EEEEEECG
T ss_pred             EEEEEEeCCCchhcCCHHHHHHHHHHHHHHHh--CCEEEEEEECCCCcchHHHHHHHHHHHHHHhCcCCCC-EEEEEECC
Confidence            456778887643210          1112233  89999998854433   33333334445443   344 55889986


Q ss_pred             CC
Q psy14655        171 SV  172 (261)
Q Consensus       171 ~~  172 (261)
                      +.
T Consensus       303 Dl  304 (364)
T 2qtf_A          303 DK  304 (364)
T ss_dssp             GG
T ss_pred             CC
Confidence            53

>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=85.47  E-value=1.9  Score=31.16  Aligned_cols=66  Identities=14%  Similarity=0.026  Sum_probs=42.0

Q ss_pred             CCCCEEEEeCCCCCC--hhHHHHhhhcCCCeEEEEeCCC-cchHHHHHHHHHHHHhCC--CCeEEEEEcCCCC
Q psy14655        105 GPCDILFIDTPPGTG--DTHLSLIQNLFIDTAIIITIPD-TMSLQVAQRGYTMFKKLN--IPVAGLVMNMNSV  172 (261)
Q Consensus       105 ~~yd~IiiD~~~~~~--~~~~~~~~~~~ad~viiv~~~~-~~s~~~~~~~~~~l~~~~--~~~~giv~N~~~~  172 (261)
                      ..+.+.|+|+|+...  ......+..  +|.+++|...+ ..++..+...+..+....  ...+.+|.|+.+.
T Consensus        53 ~~~~~~~~D~~G~~~~~~~~~~~~~~--~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~iilv~nK~Dl  123 (170)
T 1r2q_A           53 TTVKFEIWDTAGQERYHSLAPMYYRG--AQAAIVVYDITNEESFARAKNWVKELQRQASPNIVIALSGNKADL  123 (170)
T ss_dssp             EEEEEEEEEECCSGGGGGGHHHHHTT--CSEEEEEEETTCHHHHHHHHHHHHHHHHHSCTTCEEEEEEECGGG
T ss_pred             EEEEEEEEeCCCcHHhhhhhHHhccC--CCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCcEEEEEECccC
Confidence            357899999997432  222333444  89999999854 456677776666655432  1235577799664

>4b3f_X DNA-binding protein smubp-2; hydrolase, helicase; 2.50A {Homo sapiens} PDB: 4b3g_A

Probab=85.46  E-value=0.58  Score=43.02  Aligned_cols=32  Identities=19%  Similarity=0.098  Sum_probs=27.5

Q ss_pred             ccCCCCCcHHHHHHHHHHHHHhcCCCCeEEEEec
Q psy14655          3 ASSKGGVGKSTTTVNLATAMKICYPDKEIGILDA   36 (261)
Q Consensus         3 ~s~KGGvGKTT~a~~lA~~la~~g~~~~VllvD~   36 (261)
                      +-+--|+|||++.+++...+.++|  .+||++=.
T Consensus       210 I~GPPGTGKT~ti~~~I~~l~~~~--~~ILv~a~  241 (646)
T 4b3f_X          210 IHGPPGTGKTTTVVEIILQAVKQG--LKVLCCAP  241 (646)
T ss_dssp             EECCTTSCHHHHHHHHHHHHHHTT--CCEEEEES
T ss_pred             EECCCCCCHHHHHHHHHHHHHhCC--CeEEEEcC
Confidence            445579999999999999999999  99998753

>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=85.43  E-value=0.26  Score=37.86  Aligned_cols=27  Identities=33%  Similarity=0.383  Sum_probs=19.8

Q ss_pred             ccCCCCCcHHHHHHHHHHHHHhcCCCCeEEEEecC
Q psy14655          3 ASSKGGVGKSTTTVNLATAMKICYPDKEIGILDAD   37 (261)
Q Consensus         3 ~s~KGGvGKTT~a~~lA~~la~~g~~~~VllvD~D   37 (261)
                      +.+.-|+||||++..||. +   |  .++  +|+|
T Consensus         6 i~G~~GsGKSTl~~~L~~-~---g--~~~--i~~d   32 (204)
T 2if2_A            6 LTGNIGCGKSTVAQMFRE-L---G--AYV--LDAD   32 (204)
T ss_dssp             EEECTTSSHHHHHHHHHH-T---T--CEE--EEHH
T ss_pred             EECCCCcCHHHHHHHHHH-C---C--CEE--EEcc
Confidence            456679999999988887 4   6  655  4554

>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=85.40  E-value=2.9  Score=31.36  Aligned_cols=65  Identities=11%  Similarity=0.004  Sum_probs=43.5

Q ss_pred             CCCCEEEEeCCCCCC-hhHHHHhhhcCCCeEEEEeCCC-cchHHHHHHHHHHHHh----CCCCeEEEEEcCCCC
Q psy14655        105 GPCDILFIDTPPGTG-DTHLSLIQNLFIDTAIIITIPD-TMSLQVAQRGYTMFKK----LNIPVAGLVMNMNSV  172 (261)
Q Consensus       105 ~~yd~IiiD~~~~~~-~~~~~~~~~~~ad~viiv~~~~-~~s~~~~~~~~~~l~~----~~~~~~giv~N~~~~  172 (261)
                      ..+.+.|+|+|+... ......+..  +|.+++|...+ ..++..+...++.+..    .+.+ +-+|.|+.+.
T Consensus        74 ~~~~~~l~Dt~G~~~~~~~~~~~~~--~d~iilv~D~~~~~s~~~~~~~~~~i~~~~~~~~~p-iilv~NK~Dl  144 (196)
T 2atv_A           74 EVVSMEILDTAGQEDTIQREGHMRW--GEGFVLVYDITDRGSFEEVLPLKNILDEIKKPKNVT-LILVGNKADL  144 (196)
T ss_dssp             EEEEEEEEECCCCCCCHHHHHHHHH--CSEEEEEEETTCHHHHHTHHHHHHHHHHHHTTSCCC-EEEEEECGGG
T ss_pred             EEEEEEEEECCCCCcccchhhhhcc--CCEEEEEEECcCHHHHHHHHHHHHHHHHhhCCCCCc-EEEEEECccc
Confidence            357899999997554 333444455  89999999854 4666666666655543    2444 5699999664

>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=85.34  E-value=0.56  Score=41.96  Aligned_cols=34  Identities=12%  Similarity=0.103  Sum_probs=28.7

Q ss_pred             ccCCCCCcHHHHHHHHHHHHHhcCCCCeEEEEecCC
Q psy14655          3 ASSKGGVGKSTTTVNLATAMKICYPDKEIGILDADV   38 (261)
Q Consensus         3 ~s~KGGvGKTT~a~~lA~~la~~g~~~~VllvD~D~   38 (261)
                      +.+.-|+||||++..++..+...|  .+++++....
T Consensus       286 i~G~~GsGKSTLl~~l~g~~~~~G--~~vi~~~~ee  319 (525)
T 1tf7_A          286 ATGATGTGKTLLVSRFVENACANK--ERAILFAYEE  319 (525)
T ss_dssp             EEECTTSSHHHHHHHHHHHHHTTT--CCEEEEESSS
T ss_pred             EEeCCCCCHHHHHHHHHHHHHhCC--CCEEEEEEeC
Confidence            456679999999999999998888  8898887653

>2orv_A Thymidine kinase; TP4A (P1-(5'-adenosyl)P4-(5'- (2'deoxythymidil))tetraphosphate, transferase; HET: 4TA; 2.30A {Homo sapiens} SCOP: c.37.1.24 g.39.1.14

Probab=85.24  E-value=0.83  Score=36.23  Aligned_cols=30  Identities=17%  Similarity=0.069  Sum_probs=26.7

Q ss_pred             cCCCCCcHHHHHHHHHHHHHhcCCCCeEEEEe
Q psy14655          4 SSKGGVGKSTTTVNLATAMKICYPDKEIGILD   35 (261)
Q Consensus         4 s~KGGvGKTT~a~~lA~~la~~g~~~~VllvD   35 (261)
                      .+.=|.||||-+..++..+..+|  ++|+++-
T Consensus        25 ~G~MgsGKTT~lL~~~~r~~~~g--~kvli~k   54 (234)
T 2orv_A           25 LGPMFSGKSTELMRRVRRFQIAQ--YKCLVIK   54 (234)
T ss_dssp             ECCTTSCHHHHHHHHHHHHHTTT--CCEEEEE
T ss_pred             ECCCCCcHHHHHHHHHHHHHHCC--CeEEEEe
Confidence            34458999999999999999999  9999987

>2jeo_A Uridine-cytidine kinase 1; UCK, transferase, ATP-binding, nucleoside kinase, nucleotide-binding; 2.50A {Homo sapiens} PDB: 2uvq_A*

Probab=85.23  E-value=0.7  Score=36.68  Aligned_cols=33  Identities=24%  Similarity=0.250  Sum_probs=24.7

Q ss_pred             cCCCCCcHHHHHHHHHHHHHhc-----CCCCeEEEEecCC
Q psy14655          4 SSKGGVGKSTTTVNLATAMKIC-----YPDKEIGILDADV   38 (261)
Q Consensus         4 s~KGGvGKTT~a~~lA~~la~~-----g~~~~VllvD~D~   38 (261)
                      .+.-|+||||++..|+..+...     .  .++.+++.|.
T Consensus        31 ~G~~GsGKSTl~k~L~~~lG~~~~~~~~--~~i~~v~~d~   68 (245)
T 2jeo_A           31 SGGTASGKSTVCEKIMELLGQNEVEQRQ--RKVVILSQDR   68 (245)
T ss_dssp             ECSTTSSHHHHHHHHHHHHTGGGSCGGG--CSEEEEEGGG
T ss_pred             ECCCCCCHHHHHHHHHHHhchhcccccC--CceEEEeCCc
Confidence            4667999999999999877321     2  4677888774

>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=85.14  E-value=1.5  Score=33.39  Aligned_cols=64  Identities=19%  Similarity=0.190  Sum_probs=41.4

Q ss_pred             CCCEEEEeCCCCCC--hhHHHHhhhcCCCeEEEEeCCC-cchHHHH-HHHHHHHHhC--CCCeEEEEEcCCCC
Q psy14655        106 PCDILFIDTPPGTG--DTHLSLIQNLFIDTAIIITIPD-TMSLQVA-QRGYTMFKKL--NIPVAGLVMNMNSV  172 (261)
Q Consensus       106 ~yd~IiiD~~~~~~--~~~~~~~~~~~ad~viiv~~~~-~~s~~~~-~~~~~~l~~~--~~~~~giv~N~~~~  172 (261)
                      .+.+.|+|+|+...  ......+..  +|.+++|...+ ..++..+ ..+++.+...  +.+ +-+|.|+.+.
T Consensus        72 ~~~~~i~Dt~G~~~~~~~~~~~~~~--~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p-iilv~nK~Dl  141 (207)
T 2fv8_A           72 QVELALWDTAGQEDYDRLRPLSYPD--TDVILMCFSVDSPDSLENIPEKWVPEVKHFCPNVP-IILVANKKDL  141 (207)
T ss_dssp             EEEEEEEECTTCTTCTTTGGGGCTT--CCEEEEEEETTCHHHHHHHHHTHHHHHHHHSTTCC-EEEEEECGGG
T ss_pred             EEEEEEEECCCcHHHHHHHHhhcCC--CCEEEEEEECCCHHHHHHHHHHHHHHHHHhCCCCC-EEEEEEchhh
Confidence            47899999996532  222233444  89999998854 4566666 4566666553  455 5599999664

>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=85.06  E-value=3.4  Score=29.84  Aligned_cols=65  Identities=9%  Similarity=0.011  Sum_probs=41.7

Q ss_pred             CCCCEEEEeCCCCCC--hhHHHHhhhcCCCeEEEEeCCC-cchHHHHHHHHHHHHh----CCCCeEEEEEcCCCC
Q psy14655        105 GPCDILFIDTPPGTG--DTHLSLIQNLFIDTAIIITIPD-TMSLQVAQRGYTMFKK----LNIPVAGLVMNMNSV  172 (261)
Q Consensus       105 ~~yd~IiiD~~~~~~--~~~~~~~~~~~ad~viiv~~~~-~~s~~~~~~~~~~l~~----~~~~~~giv~N~~~~  172 (261)
                      ..+.+.|+|+|+...  ......+..  +|.+++|.+.+ ..++......+..+..    .+. .+-+|.|+.+.
T Consensus        49 ~~~~~~~~Dt~G~~~~~~~~~~~~~~--~d~ii~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~-piilv~nK~Dl  120 (171)
T 1upt_A           49 KNLKFQVWDLGGLTSIRPYWRCYYSN--TDAVIYVVDSCDRDRIGISKSELVAMLEEEELRKA-ILVVFANKQDM  120 (171)
T ss_dssp             TTEEEEEEEECCCGGGGGGGGGGCTT--CSEEEEEEETTCCTTHHHHHHHHHHHHTCGGGTTC-EEEEEEECTTS
T ss_pred             CCEEEEEEECCCChhhhHHHHHHhcc--CCEEEEEEECCCHHHHHHHHHHHHHHHhchhhCCC-EEEEEEECCCC
Confidence            357899999996432  222233344  89999999854 4567766666655443    233 46699999764

>3crm_A TRNA delta(2)-isopentenylpyrophosphate transferase; ATP-binding, nucleotide-binding, nucleotidyltransferase, tRNA processing; 1.90A {Pseudomonas aeruginosa} PDB: 3crq_A 3crr_A

Probab=84.98  E-value=0.51  Score=39.48  Aligned_cols=31  Identities=19%  Similarity=0.286  Sum_probs=24.1

Q ss_pred             cccCCCCCcHHHHHHHHHHHHHhcCCCCeEEEEecCCC
Q psy14655          2 IASSKGGVGKSTTTVNLATAMKICYPDKEIGILDADVF   39 (261)
Q Consensus         2 v~s~KGGvGKTT~a~~lA~~la~~g~~~~VllvD~D~~   39 (261)
                      ++.+--|+||||++..||..+       ...+||+|..
T Consensus         9 ~i~GptGsGKTtla~~La~~l-------~~~iis~Ds~   39 (323)
T 3crm_A            9 FLMGPTAAGKTDLAMALADAL-------PCELISVDSA   39 (323)
T ss_dssp             EEECCTTSCHHHHHHHHHHHS-------CEEEEEECTT
T ss_pred             EEECCCCCCHHHHHHHHHHHc-------CCcEEeccch
Confidence            467788999999998888643       3578888854

>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=84.96  E-value=2.4  Score=30.41  Aligned_cols=64  Identities=19%  Similarity=0.101  Sum_probs=41.1

Q ss_pred             CCCEEEEeCCCCCCh--hHHHHhhhcCCCeEEEEeCC-CcchHHHHHHHHHHHHh----CCCCeEEEEEcCCCC
Q psy14655        106 PCDILFIDTPPGTGD--THLSLIQNLFIDTAIIITIP-DTMSLQVAQRGYTMFKK----LNIPVAGLVMNMNSV  172 (261)
Q Consensus       106 ~yd~IiiD~~~~~~~--~~~~~~~~~~ad~viiv~~~-~~~s~~~~~~~~~~l~~----~~~~~~giv~N~~~~  172 (261)
                      .+.+.|+|+|+....  .....+..  +|.++++... +..+...+......+.+    .+.+ +-+|.|+.+.
T Consensus        50 ~~~~~l~D~~G~~~~~~~~~~~~~~--~~~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~p-iilv~nK~Dl  120 (167)
T 1kao_A           50 PSVLEILDTAGTEQFASMRDLYIKN--GQGFILVYSLVNQQSFQDIKPMRDQIIRVKRYEKVP-VILVGNKVDL  120 (167)
T ss_dssp             EEEEEEEECCCTTCCHHHHHHHHHH--CSEEEEEEETTCHHHHHHHHHHHHHHHHHTTTSCCC-EEEEEECGGG
T ss_pred             EEEEEEEECCCchhhHHHHHHHhcc--CCEEEEEEeCCCHHHHHHHHHHHHHHHHhcCCCCCC-EEEEEECCcc
Confidence            456899999974432  22334444  8999999884 44566666666654443    2445 6699999664

>3cb4_D GTP-binding protein LEPA; GTPase, OB-fold, membrane, nucleotide-binding, translation; 2.80A {Escherichia coli} PDB: 3deg_C*

Probab=84.91  E-value=1.1  Score=40.84  Aligned_cols=65  Identities=12%  Similarity=0.094  Sum_probs=43.1

Q ss_pred             CCCCEEEEeCCCCCC--hhHHHHhhhcCCCeEEEEeCCCcchHHHHHHHHHHHHhCCCCeEEEEEcCCCC
Q psy14655        105 GPCDILFIDTPPGTG--DTHLSLIQNLFIDTAIIITIPDTMSLQVAQRGYTMFKKLNIPVAGLVMNMNSV  172 (261)
Q Consensus       105 ~~yd~IiiD~~~~~~--~~~~~~~~~~~ad~viiv~~~~~~s~~~~~~~~~~l~~~~~~~~giv~N~~~~  172 (261)
                      ..|.+.|+|||+..+  ......+..  ||.+++|++.+.....+....+..+...+.+ +-+++|+++.
T Consensus        69 ~~~~l~liDTPGh~dF~~ev~~~l~~--aD~aILVVDa~~gv~~qt~~~~~~~~~~~ip-iIvViNKiDl  135 (599)
T 3cb4_D           69 ETYQLNFIDTPGHVDFSYEVSRSLAA--CEGALLVVDAGQGVEAQTLANCYTAMEMDLE-VVPVLNKIDL  135 (599)
T ss_dssp             CEEEEEEEECCCCGGGHHHHHHHHHH--CSEEEEEEETTTCCCTHHHHHHHHHHHTTCE-EEEEEECTTS
T ss_pred             CeEEEEEEECCCchHHHHHHHHHHHH--CCEEEEEEECCCCCCHHHHHHHHHHHHCCCC-EEEeeeccCc
Confidence            357899999997643  223445555  9999999987554333344444444556776 5589999775

>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=84.90  E-value=0.64  Score=34.57  Aligned_cols=30  Identities=27%  Similarity=0.408  Sum_probs=22.3

Q ss_pred             ccCCCCCcHHHHHHHHHHHHHhcCCCCeEEEEecCCC
Q psy14655          3 ASSKGGVGKSTTTVNLATAMKICYPDKEIGILDADVF   39 (261)
Q Consensus         3 ~s~KGGvGKTT~a~~lA~~la~~g~~~~VllvD~D~~   39 (261)
                      +.+--|+||||++..|+..+   |  .  .++|.|.-
T Consensus        13 l~G~~GsGKSTl~~~l~~~~---g--~--~~i~~d~~   42 (175)
T 1knq_A           13 LMGVSGSGKSAVASEVAHQL---H--A--AFLDGDFL   42 (175)
T ss_dssp             EECSTTSCHHHHHHHHHHHH---T--C--EEEEGGGG
T ss_pred             EEcCCCCCHHHHHHHHHHhh---C--c--EEEeCccc
Confidence            45677999999999988765   5  4  35677643

>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=84.90  E-value=2.3  Score=31.72  Aligned_cols=65  Identities=9%  Similarity=0.116  Sum_probs=43.2

Q ss_pred             CCCCEEEEeCCCCCC--hhHHHHhhhcCCCeEEEEeCCC-cchHHHHHHHHHHHHh----CCCCeEEEEEcCCCC
Q psy14655        105 GPCDILFIDTPPGTG--DTHLSLIQNLFIDTAIIITIPD-TMSLQVAQRGYTMFKK----LNIPVAGLVMNMNSV  172 (261)
Q Consensus       105 ~~yd~IiiD~~~~~~--~~~~~~~~~~~ad~viiv~~~~-~~s~~~~~~~~~~l~~----~~~~~~giv~N~~~~  172 (261)
                      ..+.+.|+|+|+...  ......+..  +|.+++|.+.+ ..++..+...+..+..    .+.+ +.+|.|+.+.
T Consensus        65 ~~~~~~l~Dt~G~~~~~~~~~~~~~~--~d~ii~v~D~~~~~s~~~~~~~~~~~~~~~~~~~~p-iilv~NK~Dl  136 (188)
T 1zd9_A           65 GNVTIKLWDIGGQPRFRSMWERYCRG--VSAIVYMVDAADQEKIEASKNELHNLLDKPQLQGIP-VLVLGNKRDL  136 (188)
T ss_dssp             TTEEEEEEEECCSHHHHTTHHHHHTT--CSEEEEEEETTCGGGHHHHHHHHHHHHTCGGGTTCC-EEEEEECTTS
T ss_pred             CCEEEEEEECCCCHhHHHHHHHHHcc--CCEEEEEEECCCHHHHHHHHHHHHHHHhCcccCCCC-EEEEEECCCC
Confidence            567899999996432  222333444  89999999854 5677777766665543    3444 6689999764

>2vli_A Antibiotic resistance protein; transferase, tunicamycin, phosphotransferase; 1.95A {Deinococcus radiodurans}

Probab=84.89  E-value=0.21  Score=37.52  Aligned_cols=21  Identities=29%  Similarity=0.332  Sum_probs=13.0

Q ss_pred             cccCCCCCcHHHHHHHHHHHH
Q psy14655          2 IASSKGGVGKSTTTVNLATAM   22 (261)
Q Consensus         2 v~s~KGGvGKTT~a~~lA~~l   22 (261)
                      ++.+--|+||||++..||..+
T Consensus         9 ~l~G~~GsGKST~a~~La~~l   29 (183)
T 2vli_A            9 WINGPFGVGKTHTAHTLHERL   29 (183)
T ss_dssp             EEECCC----CHHHHHHHHHS
T ss_pred             EEECCCCCCHHHHHHHHHHhc
Confidence            456778999999999887654

>4ehx_A Tetraacyldisaccharide 4'-kinase; membrane protein, lipid A, P-loop, P-loop containing nucleoside triphosphate hydrolase; HET: EPE; 1.90A {Aquifex aeolicus} PDB: 4ehy_A* 4ehw_A

Probab=84.81  E-value=0.6  Score=38.90  Aligned_cols=31  Identities=32%  Similarity=0.399  Sum_probs=23.4

Q ss_pred             CCCCcHHHHHHHHHHHHHhcCCCCeEEEEecCCCC
Q psy14655          6 KGGVGKSTTTVNLATAMKICYPDKEIGILDADVFG   40 (261)
Q Consensus         6 KGGvGKTT~a~~lA~~la~~g~~~~VllvD~D~~~   40 (261)
                      =||+|||-++..|+..|.  +  +++.+|---+.+
T Consensus        46 vGGTGKTP~vi~L~~~L~--~--~~~~ilsRGYg~   76 (315)
T 4ehx_A           46 VGGSGKTSFVMYLADLLK--D--KRVCILSRGYKR   76 (315)
T ss_dssp             SSCCSHHHHHHHHHHHTT--T--SCEEEEECCCSC
T ss_pred             eCCCChHHHHHHHHHHHh--h--cCceEEeecccc
Confidence            399999999999999994  4  566666554443

>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=84.80  E-value=0.92  Score=37.69  Aligned_cols=37  Identities=24%  Similarity=0.281  Sum_probs=27.4

Q ss_pred             ccCCCCCcHHHHHHHHHHHHHhcCCCCeEEEEecCCC
Q psy14655          3 ASSKGGVGKSTTTVNLATAMKICYPDKEIGILDADVF   39 (261)
Q Consensus         3 ~s~KGGvGKTT~a~~lA~~la~~g~~~~VllvD~D~~   39 (261)
                      +.+.-|+||||++..|+..+...+...+|.+|-.|..
T Consensus        95 I~G~sGsGKSTL~~~L~gll~~~~G~~~v~~v~qd~~  131 (312)
T 3aez_A           95 VAGSVAVGKSTTARVLQALLARWDHHPRVDLVTTDGF  131 (312)
T ss_dssp             EECCTTSCHHHHHHHHHHHHHTSTTCCCEEEEEGGGG
T ss_pred             EECCCCchHHHHHHHHHhhccccCCCCeEEEEecCcc
Confidence            3467799999999999999875421256888877653

>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=84.71  E-value=0.33  Score=37.60  Aligned_cols=21  Identities=19%  Similarity=0.257  Sum_probs=16.9

Q ss_pred             cccCCCCCcHHHHHHHHHHHH
Q psy14655          2 IASSKGGVGKSTTTVNLATAM   22 (261)
Q Consensus         2 v~s~KGGvGKTT~a~~lA~~l   22 (261)
                      ++.+--|+||||+|..||..+
T Consensus         4 ~l~G~~GsGKsT~a~~L~~~~   24 (216)
T 3dl0_A            4 VLMGLPGAGKGTQGERIVEKY   24 (216)
T ss_dssp             EEECSTTSSHHHHHHHHHHHS
T ss_pred             EEECCCCCCHHHHHHHHHHHh
Confidence            456778999999999887554

>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=84.62  E-value=1.3  Score=36.44  Aligned_cols=65  Identities=14%  Similarity=0.096  Sum_probs=38.5

Q ss_pred             CCCEEEEeCCCCCC---------------hhHHHHhhhcCCCeEEEEeCC-Ccc-hHHHHHHHHHHHHhCCCCeEEEEEc
Q psy14655        106 PCDILFIDTPPGTG---------------DTHLSLIQNLFIDTAIIITIP-DTM-SLQVAQRGYTMFKKLNIPVAGLVMN  168 (261)
Q Consensus       106 ~yd~IiiD~~~~~~---------------~~~~~~~~~~~ad~viiv~~~-~~~-s~~~~~~~~~~l~~~~~~~~giv~N  168 (261)
                      .++++|+|||+...               ......+..  +|.+++++.+ +.. .-.....+++.+...+.+ +-+|+|
T Consensus       130 ~~~~~lvDTpG~~~~~~~~~~~~~~~~~~~~~~~~~~~--~d~iilvvd~~~~~~~~~~~~~i~~~~~~~~~~-~i~v~N  206 (315)
T 1jwy_B          130 VVNLTLVDLPGITKVPVGDQPTDIEQQIRRMVMAYIKK--QNAIIVAVTPANTDLANSDALQLAKEVDPEGKR-TIGVIT  206 (315)
T ss_dssp             SCSEEEEECCCCC---------CSHHHHHHHHHHHHHS--TTEEEEEEEESSSCSTTCSHHHHHHHHCSSCSS-EEEEEE
T ss_pred             CCCcEEEECCCCccCCCCCCchhHHHHHHHHHHHHHcC--CCeEEEEEEecCcchhhhHHHHHHHHhCCCCCc-EEEEEc
Confidence            47899999997432               111223344  8988888875 222 112223455666655666 558899


Q ss_pred             CCCCC
Q psy14655        169 MNSVL  173 (261)
Q Consensus       169 ~~~~~  173 (261)
                      +.+..
T Consensus       207 K~Dl~  211 (315)
T 1jwy_B          207 KLDLM  211 (315)
T ss_dssp             CTTSS
T ss_pred             CcccC
Confidence            97753

>2qpt_A EH domain-containing protein-2; protein-nucleotide complex, membrane protein, endocytosis; HET: ANP; 3.10A {Mus musculus}

Probab=84.62  E-value=0.98  Score=40.69  Aligned_cols=62  Identities=15%  Similarity=0.129  Sum_probs=40.9

Q ss_pred             CEEEEeCCCCCC-------------hhHHHHhhhcCCCeEEEEeCCCcc-hHHHHHHHHHHHHhCCCCeEEEEEcCCCC
Q psy14655        108 DILFIDTPPGTG-------------DTHLSLIQNLFIDTAIIITIPDTM-SLQVAQRGYTMFKKLNIPVAGLVMNMNSV  172 (261)
Q Consensus       108 d~IiiD~~~~~~-------------~~~~~~~~~~~ad~viiv~~~~~~-s~~~~~~~~~~l~~~~~~~~giv~N~~~~  172 (261)
                      .++|+|||+...             ......+..  +|.+++|+.++.. .......+++.+...+.+ +.+|+|+++.
T Consensus       155 ~l~lIDTPG~~~~~~~~~~~~~~f~~~~~~~l~~--aD~il~VvDa~~~~~~~~~~~~l~~l~~~~~p-vilVlNK~Dl  230 (550)
T 2qpt_A          155 SISIIDTPGILSGAKQRVSRGYDFPAVLRWFAER--VDLIILLFDAHKLEISDEFSEAIGALRGHEDK-IRVVLNKADM  230 (550)
T ss_dssp             HCEEEECCCBCC-------CCSCHHHHHHHHHHH--CSEEEEEEETTSCCCCHHHHHHHHHTTTCGGG-EEEEEECGGG
T ss_pred             CEEEEECcCCCCcchhHHHHHhhHHHHHHHHHHh--CCEEEEEEeCCcCCCCHHHHHHHHHHHhcCCC-EEEEEECCCc
Confidence            689999996443             122233444  8999999997663 344555666666655555 6699999664

>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=84.59  E-value=0.7  Score=43.99  Aligned_cols=35  Identities=26%  Similarity=0.225  Sum_probs=27.6

Q ss_pred             cccCCCCCcHHHHHHHHHHHHHh-------cCCCCeEEEEecCC
Q psy14655          2 IASSKGGVGKSTTTVNLATAMKI-------CYPDKEIGILDADV   38 (261)
Q Consensus         2 v~s~KGGvGKTT~a~~lA~~la~-------~g~~~~VllvD~D~   38 (261)
                      +..+..|+||||++..+|..+..       .+  .+++.+|+..
T Consensus       195 lL~G~pG~GKT~la~~la~~l~~~~~p~~l~~--~~~~~l~~~~  236 (854)
T 1qvr_A          195 VLIGEPGVGKTAIVEGLAQRIVKGDVPEGLKG--KRIVSLQMGS  236 (854)
T ss_dssp             EEEECTTSCHHHHHHHHHHHHHHTCSCTTSTT--CEEEEECC--
T ss_pred             EEEcCCCCCHHHHHHHHHHHHhcCCCchhhcC--CeEEEeehHH
Confidence            44567899999999999999976       35  8899888743

>3iby_A Ferrous iron transport protein B; G protein, G domain, iron uptake, cell inner membrane, cell GTP-binding, ION transport, membrane; 2.50A {Legionella pneumophila}

Probab=84.56  E-value=2.5  Score=33.85  Aligned_cols=64  Identities=19%  Similarity=0.069  Sum_probs=41.1

Q ss_pred             CCCCEEEEeCCCCCCh------------hHHHHhhhcCCCeEEEEeCCCcchHHHHHHHHHHHHhCCCCeEEEEEcCCC
Q psy14655        105 GPCDILFIDTPPGTGD------------THLSLIQNLFIDTAIIITIPDTMSLQVAQRGYTMFKKLNIPVAGLVMNMNS  171 (261)
Q Consensus       105 ~~yd~IiiD~~~~~~~------------~~~~~~~~~~ad~viiv~~~~~~s~~~~~~~~~~l~~~~~~~~giv~N~~~  171 (261)
                      .+..+.|+|+|+..+.            .....+....+|.+++|++.+.  ......+...+...+.+ +.+|+|+++
T Consensus        46 ~~~~~~lvDtpG~~~~~~~~~~~~~~e~i~~~~~~~~~~d~vi~VvDas~--~~~~~~l~~~l~~~~~p-vilv~NK~D  121 (256)
T 3iby_A           46 GEHLIEITDLPGVYSLVANAEGISQDEQIAAQSVIDLEYDCIINVIDACH--LERHLYLTSQLFELGKP-VVVALNMMD  121 (256)
T ss_dssp             TTEEEEEEECCCCSSCC------CHHHHHHHHHHHHSCCSEEEEEEEGGG--HHHHHHHHHHHTTSCSC-EEEEEECHH
T ss_pred             CCeEEEEEeCCCcccccccccCCCHHHHHHHHHHhhCCCCEEEEEeeCCC--chhHHHHHHHHHHcCCC-EEEEEEChh
Confidence            4568999999975432            1122231122899999998665  34444556667677777 558999955

>3asz_A Uridine kinase; cytidine phosphorylation, transferase; HET: C5P; 2.25A {Thermus thermophilus} PDB: 3asy_A*

Probab=84.53  E-value=0.66  Score=35.70  Aligned_cols=31  Identities=23%  Similarity=0.399  Sum_probs=23.8

Q ss_pred             cCCCCCcHHHHHHHHHHHHHhcCCCCeEEEEecCCC
Q psy14655          4 SSKGGVGKSTTTVNLATAMKICYPDKEIGILDADVF   39 (261)
Q Consensus         4 s~KGGvGKTT~a~~lA~~la~~g~~~~VllvD~D~~   39 (261)
                      .+.-|+||||++..|+..+.     .++.+|+.|..
T Consensus        12 ~G~~GsGKSTl~~~l~~~~~-----~~i~~v~~d~~   42 (211)
T 3asz_A           12 AGGTASGKTTLAQALARTLG-----ERVALLPMDHY   42 (211)
T ss_dssp             EESTTSSHHHHHHHHHHHHG-----GGEEEEEGGGC
T ss_pred             ECCCCCCHHHHHHHHHHHhC-----CCeEEEecCcc
Confidence            35569999999998887762     25788888864

>2qor_A Guanylate kinase; phosphotransferase, purine metabolism, structural genomics, structural genomics of pathogenic protozoa consortium; HET: 5GP POP; 1.80A {Plasmodium vivax}

Probab=84.44  E-value=0.4  Score=36.88  Aligned_cols=21  Identities=24%  Similarity=0.431  Sum_probs=17.7

Q ss_pred             cccCCCCCcHHHHHHHHHHHH
Q psy14655          2 IASSKGGVGKSTTTVNLATAM   22 (261)
Q Consensus         2 v~s~KGGvGKTT~a~~lA~~l   22 (261)
                      ++.+--|+||||++..|+..+
T Consensus        16 ~l~G~sGsGKsTl~~~L~~~~   36 (204)
T 2qor_A           16 VVCGPSGVGKGTLIKKVLSEF   36 (204)
T ss_dssp             EEECCTTSCHHHHHHHHHHHC
T ss_pred             EEECCCCCCHHHHHHHHHHhC
Confidence            456778999999999988766

>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=84.38  E-value=1.5  Score=33.34  Aligned_cols=65  Identities=18%  Similarity=0.159  Sum_probs=41.7

Q ss_pred             CCCCEEEEeCCCCCC--hhHHHHhhhcCCCeEEEEeCCC-cchHHHH-HHHHHHHHhC--CCCeEEEEEcCCCC
Q psy14655        105 GPCDILFIDTPPGTG--DTHLSLIQNLFIDTAIIITIPD-TMSLQVA-QRGYTMFKKL--NIPVAGLVMNMNSV  172 (261)
Q Consensus       105 ~~yd~IiiD~~~~~~--~~~~~~~~~~~ad~viiv~~~~-~~s~~~~-~~~~~~l~~~--~~~~~giv~N~~~~  172 (261)
                      ..+.+.|+|+|+...  ......+..  +|.+++|.+.+ ..++..+ ..+++.+...  +.+ +.+|.|+.+.
T Consensus        71 ~~~~l~i~Dt~G~~~~~~~~~~~~~~--~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p-iilv~nK~Dl  141 (201)
T 2gco_A           71 KQVELALWDTAGQEDYDRLRPLSYPD--TDVILMCFSIDSPDSLENIPEKWTPEVKHFCPNVP-IILVGNKKDL  141 (201)
T ss_dssp             EEEEEEEECCCCSGGGTTTGGGGCTT--CSEEEEEEETTCHHHHHHHHHTHHHHHHHHSTTCC-EEEEEECGGG
T ss_pred             EEEEEEEEECCCchhHHHHHHHhcCC--CCEEEEEEECCCHHHHHHHHHHHHHHHHHhCCCCC-EEEEEecHHh
Confidence            346889999986432  222233334  89999998844 4566666 4566666553  555 5599999664

>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=84.05  E-value=0.49  Score=37.24  Aligned_cols=21  Identities=29%  Similarity=0.395  Sum_probs=17.6

Q ss_pred             cccCCCCCcHHHHHHHHHHHH
Q psy14655          2 IASSKGGVGKSTTTVNLATAM   22 (261)
Q Consensus         2 v~s~KGGvGKTT~a~~lA~~l   22 (261)
                      ++.+.-|+||||++..||..+
T Consensus        20 ~l~G~~GsGKsT~a~~La~~l   40 (233)
T 1ak2_A           20 VLLGPPGAGKGTQAPKLAKNF   40 (233)
T ss_dssp             EEECCTTSSHHHHHHHHHHHH
T ss_pred             EEECCCCCCHHHHHHHHHHHh
Confidence            455677999999999999876

>1zak_A Adenylate kinase; ATP:AMP-phosphotransferase, transferase; HET: AP5; 3.50A {Zea mays} SCOP: c.37.1.1 g.41.2.1

Probab=84.04  E-value=0.4  Score=37.39  Aligned_cols=21  Identities=24%  Similarity=0.215  Sum_probs=17.5

Q ss_pred             cccCCCCCcHHHHHHHHHHHH
Q psy14655          2 IASSKGGVGKSTTTVNLATAM   22 (261)
Q Consensus         2 v~s~KGGvGKTT~a~~lA~~l   22 (261)
                      ++.+--|+||||++..||..+
T Consensus         9 ~l~G~~GsGKsT~~~~La~~l   29 (222)
T 1zak_A            9 MISGAPASGKGTQCELIKTKY   29 (222)
T ss_dssp             EEEESTTSSHHHHHHHHHHHH
T ss_pred             EEECCCCCCHHHHHHHHHHHh
Confidence            455678999999999998876

>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=84.01  E-value=4.8  Score=29.60  Aligned_cols=64  Identities=16%  Similarity=0.158  Sum_probs=42.1

Q ss_pred             CCCEEEEeCCCCC--ChhHHHHhhhcCCCeEEEEeCC-CcchHHHHHHHHHHHHh----CCCCeEEEEEcCCCC
Q psy14655        106 PCDILFIDTPPGT--GDTHLSLIQNLFIDTAIIITIP-DTMSLQVAQRGYTMFKK----LNIPVAGLVMNMNSV  172 (261)
Q Consensus       106 ~yd~IiiD~~~~~--~~~~~~~~~~~~ad~viiv~~~-~~~s~~~~~~~~~~l~~----~~~~~~giv~N~~~~  172 (261)
                      .+.+.|+|+|+..  .......+..  +|.++++... +..+...+...+..+..    .+.+ +.+|.|+.+.
T Consensus        51 ~~~~~i~Dt~G~~~~~~~~~~~~~~--~~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~p-~i~v~nK~Dl  121 (189)
T 4dsu_A           51 TCLLDILDTAGQEEYSAMRDQYMRT--GEGFLCVFAINNTKSFEDIHHYREQIKRVKDSEDVP-MVLVGNKCDL  121 (189)
T ss_dssp             EEEEEEEECCCC---CTTHHHHHHH--CSEEEEEEETTCHHHHHHHHHHHHHHHHHTTCSCCC-EEEEEECTTS
T ss_pred             EEEEEEEECCCcHHHHHHHHHHHhc--CCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCc-EEEEEECccC
Confidence            4668889999743  3334444555  8999999884 45566666666665554    2344 5689999774

>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=84.01  E-value=2.7  Score=31.13  Aligned_cols=66  Identities=11%  Similarity=0.005  Sum_probs=42.4

Q ss_pred             CCCCEEEEeCCCCCC--hhHHHHhhhcCCCeEEEEeCCC-cchHHHHHHHHHHHHhC---CCCeEEEEEcCCCC
Q psy14655        105 GPCDILFIDTPPGTG--DTHLSLIQNLFIDTAIIITIPD-TMSLQVAQRGYTMFKKL---NIPVAGLVMNMNSV  172 (261)
Q Consensus       105 ~~yd~IiiD~~~~~~--~~~~~~~~~~~ad~viiv~~~~-~~s~~~~~~~~~~l~~~---~~~~~giv~N~~~~  172 (261)
                      +++.+.|+|+|+...  ......+..  +|.+++|.+.+ ..++..+...+..+...   .-..+-+|.|+.+.
T Consensus        60 ~~~~~~~~Dt~G~~~~~~~~~~~~~~--~d~ii~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl  131 (186)
T 1ksh_A           60 RGFKLNIWDVGGQKSLRSYWRNYFES--TDGLIWVVDSADRQRMQDCQRELQSLLVEERLAGATLLIFANKQDL  131 (186)
T ss_dssp             TTEEEEEEEECCSHHHHTTGGGGCTT--CSEEEEEEETTCGGGHHHHHHHHHHHHTCGGGTTCEEEEEEECTTS
T ss_pred             CCEEEEEEECCCCHhHHHHHHHHhcC--CCEEEEEEECcCHHHHHHHHHHHHHHHhChhcCCCcEEEEEeCccC
Confidence            457899999986421  112223334  89999999854 55677777666655432   22346699999774

>1ukz_A Uridylate kinase; transferase; HET: ADP AMP; 1.90A {Saccharomyces cerevisiae} SCOP: c.37.1.1 PDB: 1uky_A*

Probab=83.94  E-value=0.38  Score=36.82  Aligned_cols=29  Identities=24%  Similarity=0.169  Sum_probs=21.5

Q ss_pred             cccCCCCCcHHHHHHHHHHHHHhcCCCCeEEEEecC
Q psy14655          2 IASSKGGVGKSTTTVNLATAMKICYPDKEIGILDAD   37 (261)
Q Consensus         2 v~s~KGGvGKTT~a~~lA~~la~~g~~~~VllvD~D   37 (261)
                      ++.+--|+||||++..|+..+   |  .  ..+|.|
T Consensus        19 ~l~G~~GsGKsT~~~~L~~~~---g--~--~~i~~d   47 (203)
T 1ukz_A           19 FVLGGPGAGKGTQCEKLVKDY---S--F--VHLSAG   47 (203)
T ss_dssp             EEECSTTSSHHHHHHHHHHHS---S--C--EEEEHH
T ss_pred             EEECCCCCCHHHHHHHHHHHc---C--c--eEEeHH
Confidence            456778999999999888654   4  4  456666

>1zd8_A GTP:AMP phosphotransferase mitochondrial; ATP:AMP phosphotransferase, myokinase, structural genomics, structural genomics consortium, SGC; 1.48A {Homo sapiens} PDB: 2ak3_A*

Probab=83.89  E-value=0.32  Score=38.16  Aligned_cols=21  Identities=24%  Similarity=0.400  Sum_probs=17.1

Q ss_pred             cccCCCCCcHHHHHHHHHHHH
Q psy14655          2 IASSKGGVGKSTTTVNLATAM   22 (261)
Q Consensus         2 v~s~KGGvGKTT~a~~lA~~l   22 (261)
                      ++.+--|+||||++..||..+
T Consensus        11 ~l~G~~GsGKsT~a~~La~~l   31 (227)
T 1zd8_A           11 VIMGAPGSGKGTVSSRITTHF   31 (227)
T ss_dssp             EEEECTTSSHHHHHHHHHHHS
T ss_pred             EEECCCCCCHHHHHHHHHHHc
Confidence            456778999999999888754

>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=83.79  E-value=0.5  Score=36.14  Aligned_cols=21  Identities=33%  Similarity=0.431  Sum_probs=16.8

Q ss_pred             CcccCCCCCcHHHHHHHHHHH
Q psy14655          1 MIASSKGGVGKSTTTVNLATA   21 (261)
Q Consensus         1 ~v~s~KGGvGKTT~a~~lA~~   21 (261)
                      +|+++..|+||||+...|...
T Consensus         4 IVi~GPSG~GK~Tl~~~L~~~   24 (186)
T 1ex7_A            4 IVISGPSGTGKSTLLKKLFAE   24 (186)
T ss_dssp             EEEECCTTSSHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHh
Confidence            378899999999998776443

>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=83.64  E-value=0.5  Score=38.59  Aligned_cols=28  Identities=29%  Similarity=0.329  Sum_probs=21.0

Q ss_pred             ccCCCCCcHHHHHHHHHHHHHhcCCCCeEEEEecCC
Q psy14655          3 ASSKGGVGKSTTTVNLATAMKICYPDKEIGILDADV   38 (261)
Q Consensus         3 ~s~KGGvGKTT~a~~lA~~la~~g~~~~VllvD~D~   38 (261)
                      +.+--|+||||++..|+ .   .|  ..+  ||+|.
T Consensus        80 I~G~~GSGKSTva~~La-~---lg--~~~--id~D~  107 (281)
T 2f6r_A           80 LTGISGSGKSSVAQRLK-N---LG--AYI--IDSDH  107 (281)
T ss_dssp             EEECTTSCHHHHHHHHH-H---HT--CEE--EEHHH
T ss_pred             EECCCCCCHHHHHHHHH-H---CC--CcE--EehhH
Confidence            45677999999999888 3   47  654  77764

>4eun_A Thermoresistant glucokinase; putative sugar kinase, enzyme function initiative, EFI, STRU genomics, transferase; 1.60A {Janibacter SP}

Probab=83.57  E-value=0.79  Score=35.05  Aligned_cols=29  Identities=24%  Similarity=0.255  Sum_probs=22.1

Q ss_pred             ccCCCCCcHHHHHHHHHHHHHhcCCCCeEEEEecCC
Q psy14655          3 ASSKGGVGKSTTTVNLATAMKICYPDKEIGILDADV   38 (261)
Q Consensus         3 ~s~KGGvGKTT~a~~lA~~la~~g~~~~VllvD~D~   38 (261)
                      +.+--|+||||++..|+..+   |  .  ..+|.|.
T Consensus        34 l~G~~GsGKSTl~~~L~~~~---g--~--~~i~~d~   62 (200)
T 4eun_A           34 VMGVSGSGKTTIAHGVADET---G--L--EFAEADA   62 (200)
T ss_dssp             EECCTTSCHHHHHHHHHHHH---C--C--EEEEGGG
T ss_pred             EECCCCCCHHHHHHHHHHhh---C--C--eEEcccc
Confidence            45677999999999999877   6  4  4566664

>1vt4_I APAF-1 related killer DARK; drosophila apoptosome, apoptosis, programmed cell death; HET: DTP; 6.90A {Drosophila melanogaster} PDB: 3iz8_A*

Probab=83.57  E-value=1  Score=43.86  Aligned_cols=36  Identities=14%  Similarity=0.119  Sum_probs=26.4

Q ss_pred             cccCCCCCcHHHHHHHHHHH--HHh-cCCCCeEEEEecCCC
Q psy14655          2 IASSKGGVGKSTTTVNLATA--MKI-CYPDKEIGILDADVF   39 (261)
Q Consensus         2 v~s~KGGvGKTT~a~~lA~~--la~-~g~~~~VllvD~D~~   39 (261)
                      .+.+-||+||||+|..++..  ... -.  ..++.++++..
T Consensus       154 ~IvGmGGIGKTTLAk~Vy~d~rV~~~Fd--~gV~WVsVs~~  192 (1221)
T 1vt4_I          154 LIDGVLGSGKTWVALDVCLSYKVQCKMD--FKIFWLNLKNC  192 (1221)
T ss_dssp             EECCSTTSSHHHHHHHHHHHCHHHHHHS--SCEEEEECCCS
T ss_pred             EEEcCCCccHHHHHHHHHHhhHHHHhCC--CcEEEEEeCCC
Confidence            35678999999999999853  333 33  56888988654

>2eyu_A Twitching motility protein PILT; pilus retraction motor, C-terminal domain PILT, protein transport; 1.87A {Aquifex aeolicus}

Probab=83.50  E-value=1.1  Score=36.08  Aligned_cols=33  Identities=21%  Similarity=0.242  Sum_probs=25.9

Q ss_pred             ccCCCCCcHHHHHHHHHHHHHhc-CCCCeEEEEecC
Q psy14655          3 ASSKGGVGKSTTTVNLATAMKIC-YPDKEIGILDAD   37 (261)
Q Consensus         3 ~s~KGGvGKTT~a~~lA~~la~~-g~~~~VllvD~D   37 (261)
                      +.+.-|+||||+...++..+... .  -+|.+.+-+
T Consensus        30 i~Gp~GsGKSTll~~l~g~~~~~~~--G~I~~~g~~   63 (261)
T 2eyu_A           30 VTGPTGSGKSTTIASMIDYINQTKS--YHIITIEDP   63 (261)
T ss_dssp             EECSTTCSHHHHHHHHHHHHHHHCC--CEEEEEESS
T ss_pred             EECCCCccHHHHHHHHHHhCCCCCC--CEEEEcCCc
Confidence            45677999999999999998765 5  577776644

>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=83.33  E-value=0.75  Score=40.47  Aligned_cols=35  Identities=9%  Similarity=0.042  Sum_probs=28.3

Q ss_pred             cccCCCCCcHHHHHHHHHHHHHhcCCCCeEEEEecCC
Q psy14655          2 IASSKGGVGKSTTTVNLATAMKICYPDKEIGILDADV   38 (261)
Q Consensus         2 v~s~KGGvGKTT~a~~lA~~la~~g~~~~VllvD~D~   38 (261)
                      ++-+--|+||||++..||..+...+  .++..++.|.
T Consensus        43 vlvGlpGsGKSTia~~La~~l~~~~--~~t~~~~~d~   77 (469)
T 1bif_A           43 VMVGLPARGKTYISKKLTRYLNFIG--VPTREFNVGQ   77 (469)
T ss_dssp             EEECCTTSSHHHHHHHHHHHHHHTT--CCEEEEEHHH
T ss_pred             EEECCCCCCHHHHHHHHHHHHhccC--CCceEEecch
Confidence            3456679999999999999998877  7877777553

>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=83.14  E-value=0.75  Score=38.02  Aligned_cols=32  Identities=19%  Similarity=0.320  Sum_probs=25.4

Q ss_pred             cccCCCCCcHHHHHHHHHHHHHhcCCCCeEEEEecCC
Q psy14655          2 IASSKGGVGKSTTTVNLATAMKICYPDKEIGILDADV   38 (261)
Q Consensus         2 v~s~KGGvGKTT~a~~lA~~la~~g~~~~VllvD~D~   38 (261)
                      +.++.-|+||||++..+|..+   +  .+++.+++..
T Consensus        52 L~~G~~G~GKT~la~~la~~l---~--~~~~~i~~~~   83 (324)
T 3u61_B           52 LHSPSPGTGKTTVAKALCHDV---N--ADMMFVNGSD   83 (324)
T ss_dssp             EECSSTTSSHHHHHHHHHHHT---T--EEEEEEETTT
T ss_pred             EeeCcCCCCHHHHHHHHHHHh---C--CCEEEEcccc
Confidence            456778999999999998776   6  7888888543

>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=83.09  E-value=0.82  Score=38.65  Aligned_cols=30  Identities=17%  Similarity=0.073  Sum_probs=24.4

Q ss_pred             ccCCCCCcHHHHHHHHHHHHHhcCCCCeEEEEecC
Q psy14655          3 ASSKGGVGKSTTTVNLATAMKICYPDKEIGILDAD   37 (261)
Q Consensus         3 ~s~KGGvGKTT~a~~lA~~la~~g~~~~VllvD~D   37 (261)
                      +.+.-|+|||++|..+|..+   +  .+++.+++.
T Consensus       122 l~GppGtGKT~la~aia~~~---~--~~~~~i~~~  151 (357)
T 3d8b_A          122 LFGPPGTGKTLIGKCIASQS---G--ATFFSISAS  151 (357)
T ss_dssp             EESSTTSSHHHHHHHHHHHT---T--CEEEEEEGG
T ss_pred             EECCCCCCHHHHHHHHHHHc---C--CeEEEEehH
Confidence            45677999999999998764   6  888888875

>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=83.02  E-value=0.95  Score=38.23  Aligned_cols=30  Identities=20%  Similarity=0.131  Sum_probs=24.3

Q ss_pred             ccCCCCCcHHHHHHHHHHHHHhcCCCCeEEEEecC
Q psy14655          3 ASSKGGVGKSTTTVNLATAMKICYPDKEIGILDAD   37 (261)
Q Consensus         3 ~s~KGGvGKTT~a~~lA~~la~~g~~~~VllvD~D   37 (261)
                      ..+.-|+|||++|..+|..+   +  .+++.|++.
T Consensus        89 L~GppGtGKT~la~ala~~~---~--~~~~~v~~~  118 (355)
T 2qp9_X           89 LYGPPGTGKSYLAKAVATEA---N--STFFSVSSS  118 (355)
T ss_dssp             EECSTTSCHHHHHHHHHHHH---T--CEEEEEEHH
T ss_pred             EECCCCCcHHHHHHHHHHHh---C--CCEEEeeHH
Confidence            45677999999999999877   5  778888764

>3tqf_A HPR(Ser) kinase; transferase, hydrolase; 2.80A {Coxiella burnetii}

Probab=83.00  E-value=0.62  Score=35.30  Aligned_cols=19  Identities=21%  Similarity=0.455  Sum_probs=15.3

Q ss_pred             cccCCCCCcHHHHHHHHHH
Q psy14655          2 IASSKGGVGKSTTTVNLAT   20 (261)
Q Consensus         2 v~s~KGGvGKTT~a~~lA~   20 (261)
                      ++.+..|+||||+|..|..
T Consensus        20 li~G~SGaGKStlal~L~~   38 (181)
T 3tqf_A           20 LITGEANIGKSELSLALID   38 (181)
T ss_dssp             EEEESSSSSHHHHHHHHHH
T ss_pred             EEEcCCCCCHHHHHHHHHH
Confidence            4567789999999987765

>3b9p_A CG5977-PA, isoform A; AAA ATPase, ATP-binding, nucleotide-binding, hydrolase; 2.70A {Drosophila melanogaster}

Probab=82.98  E-value=0.8  Score=37.29  Aligned_cols=31  Identities=19%  Similarity=0.120  Sum_probs=23.8

Q ss_pred             cccCCCCCcHHHHHHHHHHHHHhcCCCCeEEEEecC
Q psy14655          2 IASSKGGVGKSTTTVNLATAMKICYPDKEIGILDAD   37 (261)
Q Consensus         2 v~s~KGGvGKTT~a~~lA~~la~~g~~~~VllvD~D   37 (261)
                      +..+.-|+||||++..+|..+   +  .+.+.+++.
T Consensus        58 ll~Gp~GtGKT~la~~la~~~---~--~~~~~i~~~   88 (297)
T 3b9p_A           58 LLFGPPGNGKTLLARAVATEC---S--ATFLNISAA   88 (297)
T ss_dssp             EEESSSSSCHHHHHHHHHHHT---T--CEEEEEEST
T ss_pred             EEECcCCCCHHHHHHHHHHHh---C--CCeEEeeHH
Confidence            345778999999999998765   5  677777764

>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=82.98  E-value=0.95  Score=37.56  Aligned_cols=31  Identities=19%  Similarity=0.157  Sum_probs=24.5

Q ss_pred             cccCCCCCcHHHHHHHHHHHHHhcCCCCeEEEEecC
Q psy14655          2 IASSKGGVGKSTTTVNLATAMKICYPDKEIGILDAD   37 (261)
Q Consensus         2 v~s~KGGvGKTT~a~~lA~~la~~g~~~~VllvD~D   37 (261)
                      +..+.-|+|||++|..+|..+   +  .+++.|++.
T Consensus        55 Ll~GppGtGKT~la~aia~~~---~--~~~~~v~~~   85 (322)
T 3eie_A           55 LLYGPPGTGKSYLAKAVATEA---N--STFFSVSSS   85 (322)
T ss_dssp             EEECSSSSCHHHHHHHHHHHH---T--CEEEEEEHH
T ss_pred             EEECCCCCcHHHHHHHHHHHH---C--CCEEEEchH
Confidence            345678999999999998775   5  788888763

>3pqc_A Probable GTP-binding protein ENGB; rossmann fold, GTPase, cell cycle, hydrolase; HET: GDP; 1.90A {Thermotoga maritima} PDB: 3pr1_A

Probab=82.93  E-value=2.5  Score=31.41  Aligned_cols=66  Identities=15%  Similarity=0.115  Sum_probs=39.2

Q ss_pred             CCCEEEEeCCCCCC------------hhHHHHhhh-cCCCeEEEEeCCCcchHHHHHHHHHHHHhCCCCeEEEEEcCCCC
Q psy14655        106 PCDILFIDTPPGTG------------DTHLSLIQN-LFIDTAIIITIPDTMSLQVAQRGYTMFKKLNIPVAGLVMNMNSV  172 (261)
Q Consensus       106 ~yd~IiiD~~~~~~------------~~~~~~~~~-~~ad~viiv~~~~~~s~~~~~~~~~~l~~~~~~~~giv~N~~~~  172 (261)
                      +..+.|+|+|+...            ......+.. ..+|.+++++..+.........+.+.+...+.+ +.+|.|+.+.
T Consensus        67 ~~~~~i~Dt~G~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~vi~v~d~~~~~~~~~~~~~~~~~~~~~p-~i~v~nK~Dl  145 (195)
T 3pqc_A           67 NSKYYFVDLPGYGYAKVSKKERMLWKRLVEDYFKNRWSLQMVFLLVDGRIPPQDSDLMMVEWMKSLNIP-FTIVLTKMDK  145 (195)
T ss_dssp             TTTEEEEECCCBSSSCCCHHHHHHHHHHHHHHHHHCTTEEEEEEEEETTSCCCHHHHHHHHHHHHTTCC-EEEEEECGGG
T ss_pred             CCcEEEEECCCCccccCChhhHHHHHHHHHHHHhcCcCceEEEEEecCCCCCCHHHHHHHHHHHHcCCC-EEEEEEChhc
Confidence            45688999996210            111112222 014788888886654444444566777777777 4589999663

>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=82.90  E-value=0.74  Score=38.90  Aligned_cols=30  Identities=23%  Similarity=0.227  Sum_probs=24.5

Q ss_pred             ccCCCCCcHHHHHHHHHHHHHhcCCCCeEEEEecC
Q psy14655          3 ASSKGGVGKSTTTVNLATAMKICYPDKEIGILDAD   37 (261)
Q Consensus         3 ~s~KGGvGKTT~a~~lA~~la~~g~~~~VllvD~D   37 (261)
                      ..+--|+|||++|..+|..+   +  .+.+.+++-
T Consensus        56 l~GppGtGKT~la~~ia~~~---~--~~~~~~~~~   85 (363)
T 3hws_A           56 LIGPTGSGKTLLAETLARLL---D--VPFTMADAT   85 (363)
T ss_dssp             EECCTTSSHHHHHHHHHHHT---T--CCEEEEEHH
T ss_pred             EECCCCCCHHHHHHHHHHHc---C--CCEEEechH
Confidence            44667999999999999887   5  788888775

>3pxg_A Negative regulator of genetic competence CLPC/MEC; CLPB, proteolysis, CLPX, HSP100/CLP, AAA+ proteins, PR binding; 3.65A {Bacillus subtilis}

Probab=82.89  E-value=0.46  Score=41.91  Aligned_cols=36  Identities=28%  Similarity=0.319  Sum_probs=23.7

Q ss_pred             cccCCCCCcHHHHHHHHHHHHHhcC-----CCCeEEEEecC
Q psy14655          2 IASSKGGVGKSTTTVNLATAMKICY-----PDKEIGILDAD   37 (261)
Q Consensus         2 v~s~KGGvGKTT~a~~lA~~la~~g-----~~~~VllvD~D   37 (261)
                      +.-+--|+|||+++..+|..+...+     .+.+++.+|+.
T Consensus       205 LL~G~pG~GKT~la~~la~~l~~~~~p~~l~~~~~~~l~~~  245 (468)
T 3pxg_A          205 VLIGEPGVGKTAIAEGLAQQIINNEVPEILRDKRVMTLDMG  245 (468)
T ss_dssp             EEESCTTTTTHHHHHHHHHHHHSSCSCTTTSSCCEECC---
T ss_pred             EEECCCCCCHHHHHHHHHHHHHhCCCChhhcCCeEEEeeCC
Confidence            3456789999999999999987632     01555555544

>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=82.85  E-value=0.77  Score=36.76  Aligned_cols=21  Identities=19%  Similarity=0.241  Sum_probs=17.9

Q ss_pred             cccCCCCCcHHHHHHHHHHHH
Q psy14655          2 IASSKGGVGKSTTTVNLATAM   22 (261)
Q Consensus         2 v~s~KGGvGKTT~a~~lA~~l   22 (261)
                      +..+.-|+|||++|..+|..+
T Consensus        48 ll~G~~GtGKT~la~~la~~~   68 (268)
T 2r62_A           48 LLVGPPGTGKTLLAKAVAGEA   68 (268)
T ss_dssp             CCBCSSCSSHHHHHHHHHHHH
T ss_pred             EEECCCCCcHHHHHHHHHHHh
Confidence            456778999999999999876

>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=82.61  E-value=0.38  Score=39.55  Aligned_cols=35  Identities=29%  Similarity=0.222  Sum_probs=25.0

Q ss_pred             cccCCCCCcHHHHHHHHHHHHHhcCCCCeEEEEec
Q psy14655          2 IASSKGGVGKSTTTVNLATAMKICYPDKEIGILDA   36 (261)
Q Consensus         2 v~s~KGGvGKTT~a~~lA~~la~~g~~~~VllvD~   36 (261)
                      ++.+..|+||||++..+|..+...+.+..++.+++
T Consensus        46 ll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~   80 (323)
T 1sxj_B           46 IISGMPGIGKTTSVHCLAHELLGRSYADGVLELNA   80 (323)
T ss_dssp             EEECSTTSSHHHHHHHHHHHHHGGGHHHHEEEECT
T ss_pred             EEECcCCCCHHHHHHHHHHHhcCCcccCCEEEecC
Confidence            45678899999999999999865430134555554

>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=82.58  E-value=0.35  Score=39.87  Aligned_cols=35  Identities=26%  Similarity=0.209  Sum_probs=24.0

Q ss_pred             cccCCCCCcHHHHHHHHHHHHHhcCCCCeEEEEec
Q psy14655          2 IASSKGGVGKSTTTVNLATAMKICYPDKEIGILDA   36 (261)
Q Consensus         2 v~s~KGGvGKTT~a~~lA~~la~~g~~~~VllvD~   36 (261)
                      ++.+..|+||||++..+|..+...+....++.+++
T Consensus        50 ll~G~~G~GKT~la~~l~~~l~~~~~~~~~~~~~~   84 (327)
T 1iqp_A           50 LFAGPPGVGKTTAALALARELFGENWRHNFLELNA   84 (327)
T ss_dssp             EEESCTTSSHHHHHHHHHHHHHGGGHHHHEEEEET
T ss_pred             EEECcCCCCHHHHHHHHHHHhcCCcccCceEEeec
Confidence            45677899999999999999865430123444443

>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=82.53  E-value=0.62  Score=37.06  Aligned_cols=21  Identities=33%  Similarity=0.428  Sum_probs=17.6

Q ss_pred             cccCCCCCcHHHHHHHHHHHH
Q psy14655          2 IASSKGGVGKSTTTVNLATAM   22 (261)
Q Consensus         2 v~s~KGGvGKTT~a~~lA~~l   22 (261)
                      ++.+--|+||||+|..|+..+
T Consensus        33 ~l~G~~GsGKsT~a~~L~~~~   53 (243)
T 3tlx_A           33 IFLGAPGSGKGTQSLNLKKSH   53 (243)
T ss_dssp             EEECCTTSSHHHHHHHHHHHH
T ss_pred             EEECCCCCCHHHHHHHHHHHh
Confidence            456778999999999998665

>3cr8_A Sulfate adenylyltranferase, adenylylsulfate kinase; APS kinase, transferase, sulfate metabolism, nucleotide 2 kinase; 2.95A {Thiobacillus denitrificans}

Probab=82.49  E-value=0.48  Score=42.74  Aligned_cols=35  Identities=29%  Similarity=0.362  Sum_probs=27.1

Q ss_pred             ccCCCCCcHHHHHHHHHHHHHhcCCCCeEEEEecCC
Q psy14655          3 ASSKGGVGKSTTTVNLATAMKICYPDKEIGILDADV   38 (261)
Q Consensus         3 ~s~KGGvGKTT~a~~lA~~la~~g~~~~VllvD~D~   38 (261)
                      +-+.-|+||||++..||..+...+ +.++.++|.|.
T Consensus       374 LiG~sGSGKSTLar~La~~L~~~~-G~~i~~lDgD~  408 (552)
T 3cr8_A          374 FTGLSGAGKSTLARALAARLMEMG-GRCVTLLDGDI  408 (552)
T ss_dssp             EEESSCHHHHHHHHHHHHHHHTTC-SSCEEEESSHH
T ss_pred             EECCCCChHHHHHHHHHHhhcccC-CceEEEECCcH
Confidence            345679999999999999997654 24677888774

>1xwi_A SKD1 protein; VPS4B, AAA ATPase, protein transport; 2.80A {Homo sapiens}

Probab=82.35  E-value=0.87  Score=37.89  Aligned_cols=31  Identities=19%  Similarity=0.109  Sum_probs=24.7

Q ss_pred             ccCCCCCcHHHHHHHHHHHHHhcCCCCeEEEEecC
Q psy14655          3 ASSKGGVGKSTTTVNLATAMKICYPDKEIGILDAD   37 (261)
Q Consensus         3 ~s~KGGvGKTT~a~~lA~~la~~g~~~~VllvD~D   37 (261)
                      ..+.-|+|||++|..+|..+  .+  ..++.+++.
T Consensus        50 L~GppGtGKT~la~ala~~~--~~--~~~~~i~~~   80 (322)
T 1xwi_A           50 LFGPPGTGKSYLAKAVATEA--NN--STFFSISSS   80 (322)
T ss_dssp             EESSSSSCHHHHHHHHHHHT--TS--CEEEEEECC
T ss_pred             EECCCCccHHHHHHHHHHHc--CC--CcEEEEEhH
Confidence            45677999999999999876  35  777878775

>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=82.32  E-value=0.52  Score=38.59  Aligned_cols=30  Identities=20%  Similarity=0.103  Sum_probs=21.6

Q ss_pred             cccCCCCCcHHHHHHHHHHHHHhcCCCCeEEEEecC
Q psy14655          2 IASSKGGVGKSTTTVNLATAMKICYPDKEIGILDAD   37 (261)
Q Consensus         2 v~s~KGGvGKTT~a~~lA~~la~~g~~~~VllvD~D   37 (261)
                      ++.+--|+||||++..|+..+  .|    ..+||.|
T Consensus         6 ~l~G~~GsGKST~a~~L~~~~--~~----~~~i~~D   35 (301)
T 1ltq_A            6 LTIGCPGSGKSTWAREFIAKN--PG----FYNINRD   35 (301)
T ss_dssp             EEECCTTSSHHHHHHHHHHHS--TT----EEEECHH
T ss_pred             EEECCCCCCHHHHHHHHHHhC--CC----cEEeccc
Confidence            466778999999998887632  23    4566666

>3pxi_A Negative regulator of genetic competence CLPC/MEC; CLPB, proteolysis, CLPX, HSP100/CLP, AAA+ proteins, PR binding; 6.93A {Bacillus subtilis}

Probab=82.17  E-value=0.96  Score=42.37  Aligned_cols=36  Identities=19%  Similarity=0.120  Sum_probs=30.1

Q ss_pred             ccCCCCCcHHHHHHHHHHHHHhcCCCCeEEEEecCCCC
Q psy14655          3 ASSKGGVGKSTTTVNLATAMKICYPDKEIGILDADVFG   40 (261)
Q Consensus         3 ~s~KGGvGKTT~a~~lA~~la~~g~~~~VllvD~D~~~   40 (261)
                      ..+--|+|||++|..+|..+-..+  .+++.|||....
T Consensus       526 l~Gp~GtGKT~lA~ala~~l~~~~--~~~i~i~~s~~~  561 (758)
T 3pxi_A          526 FLGPTGVGKTELARALAESIFGDE--ESMIRIDMSEYM  561 (758)
T ss_dssp             EESCTTSSHHHHHHHHHHHHHSCT--TCEEEEEGGGGC
T ss_pred             EECCCCCCHHHHHHHHHHHhcCCC--cceEEEechhcc
Confidence            446679999999999999997777  899999986543

>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=82.16  E-value=4.1  Score=29.31  Aligned_cols=65  Identities=17%  Similarity=0.158  Sum_probs=38.0

Q ss_pred             CCCCEEEEeCCCCCCh--hHHHHhhhcCCCeEEEEeC-CCcchHHHHHHHHHHHHhC----CCCeEEEEEcCCCC
Q psy14655        105 GPCDILFIDTPPGTGD--THLSLIQNLFIDTAIIITI-PDTMSLQVAQRGYTMFKKL----NIPVAGLVMNMNSV  172 (261)
Q Consensus       105 ~~yd~IiiD~~~~~~~--~~~~~~~~~~ad~viiv~~-~~~~s~~~~~~~~~~l~~~----~~~~~giv~N~~~~  172 (261)
                      ..+.+.++|+|+....  .....+..  +|.++++.. .+..++..+...+..+...    +.+ +-+|.|+.+.
T Consensus        47 ~~~~~~i~D~~g~~~~~~~~~~~~~~--~~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~p-~ilv~nK~Dl  118 (166)
T 3q72_A           47 EEASLMVYDIWEQDGGRWLPGHCMAM--GDAYVIVYSVTDKGSFEKASELRVQLRRARQTDDVP-IILVGNKSDL  118 (166)
T ss_dssp             EEEEEEEEECC-----------------CCEEEEEEETTCHHHHHHHHHHHHHHHHCC---CCC-EEEEEECTTC
T ss_pred             EEEEEEEEECCCCccchhhhhhhhhh--CCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCC-EEEEEecccc
Confidence            4567889999864332  22233344  898988887 4556777777776666543    444 5689999774

>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=82.05  E-value=3.5  Score=31.20  Aligned_cols=65  Identities=15%  Similarity=0.013  Sum_probs=42.3

Q ss_pred             CCCEEEEeCCCCCCh--hHHHHhhhcCCCeEEEEeCCC-cchHHHHHHHHHHHHhCC--CCeEEEEEcCCCC
Q psy14655        106 PCDILFIDTPPGTGD--THLSLIQNLFIDTAIIITIPD-TMSLQVAQRGYTMFKKLN--IPVAGLVMNMNSV  172 (261)
Q Consensus       106 ~yd~IiiD~~~~~~~--~~~~~~~~~~ad~viiv~~~~-~~s~~~~~~~~~~l~~~~--~~~~giv~N~~~~  172 (261)
                      .+.+.|+|+|+....  .....+..  +|.+++|.+.+ ..++..+..+++.+....  -..+-+|.|+.+.
T Consensus        77 ~~~l~i~Dt~G~~~~~~~~~~~~~~--~d~iilv~D~~~~~s~~~~~~~~~~i~~~~~~~~piilv~NK~Dl  146 (201)
T 2hup_A           77 RVKLQIWDTAGQERFRTITQSYYRS--ANGAILAYDITKRSSFLSVPHWIEDVRKYAGSNIVQLLIGNKSDL  146 (201)
T ss_dssp             EEEEEEECCTTCGGGHHHHHHHHTT--CSEEEEEEETTBHHHHHTHHHHHHHHHHHSCTTCEEEEEEECTTC
T ss_pred             EEEEEEEECCCcHhHHHHHHHHHhh--CCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCEEEEEECCcc
Confidence            478999999964322  22333444  89999999854 456666666666665421  1245689999764

>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=82.04  E-value=5.5  Score=29.07  Aligned_cols=62  Identities=16%  Similarity=0.093  Sum_probs=41.3

Q ss_pred             CCCEEEEeCCCCCChhHHHHhhhcCCCeEEEEeCC-CcchHHHHHHHHHHHHhC-----CCCeEEEEEcCCCC
Q psy14655        106 PCDILFIDTPPGTGDTHLSLIQNLFIDTAIIITIP-DTMSLQVAQRGYTMFKKL-----NIPVAGLVMNMNSV  172 (261)
Q Consensus       106 ~yd~IiiD~~~~~~~~~~~~~~~~~ad~viiv~~~-~~~s~~~~~~~~~~l~~~-----~~~~~giv~N~~~~  172 (261)
                      .+.+.|+|+|+...   ...+..  +|.+++|.+. +..+...+..+++.+...     .-..+.+|.|+.+.
T Consensus        53 ~~~l~i~Dt~G~~~---~~~~~~--~d~~ilv~D~~~~~s~~~~~~~~~~i~~~~~~~~~~~piilv~nK~Dl  120 (178)
T 2iwr_A           53 THLVLIREEAGAPD---AKFSGW--ADAVIFVFSLEDENSFQAVSRLHGQLSSLRGEGRGGLALALVGTQDRI  120 (178)
T ss_dssp             EEEEEEEECSSSCC---HHHHHH--CSEEEEEEETTCHHHHHHHHHHHHHHHHHHCSSSCCCEEEEEEECTTC
T ss_pred             EEEEEEEECCCCch---hHHHHh--CCEEEEEEECcCHHHHHHHHHHHHHHHHHHhcCCCCCCEEEEEECccc
Confidence            46788999986544   234555  8999999984 456777777755544432     12246689999764

>1kgd_A CASK, peripheral plasma membrane CASK; maguk, guanylate kinase like domain, protein binding; 1.31A {Homo sapiens} SCOP: c.37.1.1

Probab=82.04  E-value=0.64  Score=34.97  Aligned_cols=21  Identities=24%  Similarity=0.303  Sum_probs=17.4

Q ss_pred             cccCCCCCcHHHHHHHHHHHH
Q psy14655          2 IASSKGGVGKSTTTVNLATAM   22 (261)
Q Consensus         2 v~s~KGGvGKTT~a~~lA~~l   22 (261)
                      ++.+.-|+||||++..|+..+
T Consensus         9 ~i~GpsGsGKSTL~~~L~~~~   29 (180)
T 1kgd_A            9 VLLGAHGVGRRHIKNTLITKH   29 (180)
T ss_dssp             EEECCTTSSHHHHHHHHHHHC
T ss_pred             EEECCCCCCHHHHHHHHHhhC
Confidence            456788999999999988765

>2yc2_C IFT27, small RAB-related GTPase; transport protein, cilium, IFT complex; 2.59A {Chlamydomonas reinhardtii} PDB: 2yc4_C

Probab=81.91  E-value=2.6  Score=31.70  Aligned_cols=65  Identities=15%  Similarity=0.138  Sum_probs=40.6

Q ss_pred             CCCEEEEeCCCCCChh--HHHHhhhcCCCeEEEEeCC-CcchHHHHHHHHHHHHhC-----CCCeEEEEEcCCCC
Q psy14655        106 PCDILFIDTPPGTGDT--HLSLIQNLFIDTAIIITIP-DTMSLQVAQRGYTMFKKL-----NIPVAGLVMNMNSV  172 (261)
Q Consensus       106 ~yd~IiiD~~~~~~~~--~~~~~~~~~ad~viiv~~~-~~~s~~~~~~~~~~l~~~-----~~~~~giv~N~~~~  172 (261)
                      .+.+.|+|+|+.....  ....+..  +|.+++|.+. +..+...+..++..+...     .-..+.+|.|+.+.
T Consensus        72 ~~~~~l~Dt~G~~~~~~~~~~~~~~--~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~~~piilv~nK~Dl  144 (208)
T 2yc2_C           72 SVELFLLDTAGSDLYKEQISQYWNG--VYYAILVFDVSSMESFESCKAWFELLKSARPDRERPLRAVLVANKTDL  144 (208)
T ss_dssp             EEEEEEEETTTTHHHHHHHSTTCCC--CCEEEEEEETTCHHHHHHHHHHHHHHHHHCSCTTSCCEEEEEEECC--
T ss_pred             EEEEEEEECCCcHHHHHHHHHHHhh--CcEEEEEEECCCHHHHHHHHHHHHHHHHhhcccccCCcEEEEEECccc
Confidence            5789999999642211  1122233  8999999985 445667777777766652     12246699999764

>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=81.89  E-value=4.3  Score=30.46  Aligned_cols=65  Identities=14%  Similarity=0.083  Sum_probs=42.7

Q ss_pred             CCCCEEEEeCCCCCCh--hHHHHhhhcCCCeEEEEeCC-CcchHHHHHHHHHHHHhC----CCCeEEEEEcCCCC
Q psy14655        105 GPCDILFIDTPPGTGD--THLSLIQNLFIDTAIIITIP-DTMSLQVAQRGYTMFKKL----NIPVAGLVMNMNSV  172 (261)
Q Consensus       105 ~~yd~IiiD~~~~~~~--~~~~~~~~~~ad~viiv~~~-~~~s~~~~~~~~~~l~~~----~~~~~giv~N~~~~  172 (261)
                      ..+.+.|+|+|+....  .....+..  +|.++++... +..++..+...+..+...    +.+ +.+|.|+.+.
T Consensus        60 ~~~~~~l~Dt~G~~~~~~~~~~~~~~--~~~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~p-iilv~nK~Dl  131 (206)
T 2bov_A           60 EEVQIDILDTAGQEDYAAIRDNYFRS--GEGFLCVFSITEMESFAATADFREQILRVKEDENVP-FLLVGNKSDL  131 (206)
T ss_dssp             EEEEEEEEECCCTTCCHHHHHHHHHH--CSEEEEEEETTCHHHHHHHHHHHHHHHHHTTCSCCC-EEEEEECTTC
T ss_pred             EEEEEEEEcCCChhhhHHHHHHHHhh--CCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCC-EEEEEeccCc
Confidence            3468999999975432  22334445  8999999884 455666666666655442    445 5699999774

>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=81.88  E-value=0.56  Score=35.70  Aligned_cols=28  Identities=32%  Similarity=0.303  Sum_probs=20.9

Q ss_pred             ccCCCCCcHHHHHHHHHHHHHhcCCCCeEEEEecCC
Q psy14655          3 ASSKGGVGKSTTTVNLATAMKICYPDKEIGILDADV   38 (261)
Q Consensus         3 ~s~KGGvGKTT~a~~lA~~la~~g~~~~VllvD~D~   38 (261)
                      +.+.-|+||||++..||..    |  ..  ++|.|.
T Consensus        13 i~G~~GsGKST~~~~La~~----g--~~--~id~d~   40 (203)
T 1uf9_A           13 ITGNIGSGKSTVAALLRSW----G--YP--VLDLDA   40 (203)
T ss_dssp             EEECTTSCHHHHHHHHHHT----T--CC--EEEHHH
T ss_pred             EECCCCCCHHHHHHHHHHC----C--CE--EEcccH
Confidence            4567799999999888864    6  54  567763

>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=81.75  E-value=0.98  Score=41.33  Aligned_cols=32  Identities=13%  Similarity=0.190  Sum_probs=26.0

Q ss_pred             cccCCCCCcHHHHHHHHHHHHHh-cCCCCeEEEEe
Q psy14655          2 IASSKGGVGKSTTTVNLATAMKI-CYPDKEIGILD   35 (261)
Q Consensus         2 v~s~KGGvGKTT~a~~lA~~la~-~g~~~~VllvD   35 (261)
                      ++.+--|+||||+...++..|.+ .+  .+||++=
T Consensus       199 li~GppGTGKT~~~~~~i~~l~~~~~--~~ilv~a  231 (624)
T 2gk6_A          199 LIQGPPGTGKTVTSATIVYHLARQGN--GPVLVCA  231 (624)
T ss_dssp             EEECCTTSCHHHHHHHHHHHHHTSSS--CCEEEEE
T ss_pred             EEECCCCCCHHHHHHHHHHHHHHcCC--CeEEEEe
Confidence            34566799999999999999887 56  8888864

>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=81.58  E-value=0.74  Score=35.31  Aligned_cols=30  Identities=27%  Similarity=0.302  Sum_probs=21.7

Q ss_pred             ccCCCCCcHHHHHHHHHHHHHhcCCCCeEEEEecCCC
Q psy14655          3 ASSKGGVGKSTTTVNLATAMKICYPDKEIGILDADVF   39 (261)
Q Consensus         3 ~s~KGGvGKTT~a~~lA~~la~~g~~~~VllvD~D~~   39 (261)
                      +.+.-|+||||++..|+..+   |  ..  +||+|--
T Consensus        17 ltG~~GSGKSTva~~L~~~l---g--~~--vid~D~~   46 (192)
T 2grj_A           17 VTGKIGTGKSTVCEILKNKY---G--AH--VVNVDRI   46 (192)
T ss_dssp             EECSTTSSHHHHHHHHHHHH---C--CE--EEEHHHH
T ss_pred             EECCCCCCHHHHHHHHHHhc---C--CE--EEECcHH
Confidence            34567999999998888653   5  54  5777754

>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=81.54  E-value=3.1  Score=30.58  Aligned_cols=65  Identities=17%  Similarity=0.132  Sum_probs=40.7

Q ss_pred             CCCCEEEEeCCCCCCh--hHHHHhhhcCCCeEEEEeCC-CcchHHHHHHHHHHHHh----CCCCeEEEEEcCCCC
Q psy14655        105 GPCDILFIDTPPGTGD--THLSLIQNLFIDTAIIITIP-DTMSLQVAQRGYTMFKK----LNIPVAGLVMNMNSV  172 (261)
Q Consensus       105 ~~yd~IiiD~~~~~~~--~~~~~~~~~~ad~viiv~~~-~~~s~~~~~~~~~~l~~----~~~~~~giv~N~~~~  172 (261)
                      ..+.+.|+|+|+....  .....+..  +|.++++... +..+...+...+..+..    .+.+ +-+|.|+.+.
T Consensus        52 ~~~~~~l~Dt~G~~~~~~~~~~~~~~--~~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~p-~ilv~nK~Dl  123 (181)
T 3t5g_A           52 QEYHLQLVDTAGQDEYSIFPQTYSID--INGYILVYSVTSIKSFEVIKVIHGKLLDMVGKVQIP-IMLVGNKKDL  123 (181)
T ss_dssp             EEEEEEEEECCCCCTTCCCCGGGTTT--CSEEEEEEETTCHHHHHHHHHHHHHHHHHC----CC-EEEEEECTTC
T ss_pred             EEEEEEEEeCCCchhhhHHHHHHHhc--CCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCC-EEEEEECccc
Confidence            3477899999964321  12233344  8999999884 45666666666655532    2444 5589999774

>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=81.52  E-value=0.88  Score=37.39  Aligned_cols=29  Identities=14%  Similarity=0.117  Sum_probs=22.6

Q ss_pred             ccCCCCCcHHHHHHHHHHHHHhcCCCCeEEEEec
Q psy14655          3 ASSKGGVGKSTTTVNLATAMKICYPDKEIGILDA   36 (261)
Q Consensus         3 ~s~KGGvGKTT~a~~lA~~la~~g~~~~VllvD~   36 (261)
                      ..+.-|+||||+|..+|..+   +  ...+.|++
T Consensus        54 L~Gp~GtGKT~la~ala~~~---~--~~~i~v~~   82 (301)
T 3cf0_A           54 FYGPPGCGKTLLAKAIANEC---Q--ANFISIKG   82 (301)
T ss_dssp             EECSSSSSHHHHHHHHHHHT---T--CEEEEECH
T ss_pred             EECCCCcCHHHHHHHHHHHh---C--CCEEEEEh
Confidence            45677999999999998765   4  67777765

>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=81.39  E-value=2.7  Score=30.95  Aligned_cols=64  Identities=8%  Similarity=-0.026  Sum_probs=37.5

Q ss_pred             CCCEEEEeCCCCCCh--hHHHHhhhcCCCeEEEEeCCC-cchHHHHHHHHHHHHhC---CCCeEEEEEcCCCC
Q psy14655        106 PCDILFIDTPPGTGD--THLSLIQNLFIDTAIIITIPD-TMSLQVAQRGYTMFKKL---NIPVAGLVMNMNSV  172 (261)
Q Consensus       106 ~yd~IiiD~~~~~~~--~~~~~~~~~~ad~viiv~~~~-~~s~~~~~~~~~~l~~~---~~~~~giv~N~~~~  172 (261)
                      .+.+.|+|+|+....  .....+..  +|.+++|.+.+ ..++..+..++..+...   +. .+-+|.|+.+.
T Consensus        56 ~~~~~l~Dt~G~~~~~~~~~~~~~~--~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~-piilv~nK~Dl  125 (183)
T 2fu5_C           56 RIKLQIWDTAGQERFRTITTAYYRG--AMGIMLVYDITNEKSFDNIRNWIRNIEEHASADV-EKMILGNKCDV  125 (183)
T ss_dssp             EEEEEEEEC---------CCTTTTT--CSEEEEEEETTCHHHHHHHHHHHHHHHHHSCTTC-EEEEEEEC--C
T ss_pred             EEEEEEEcCCCChhhhhhHHHHHhc--CCEEEEEEECcCHHHHHHHHHHHHHHHHhcCCCC-CEEEEEECccC
Confidence            478999999964321  11223334  89999999854 45667777777666543   33 46689999775

>3qq5_A Small GTP-binding protein; hydrogenase, H-cluster, HYDA maturation, GTP-binding domain, maturation enzyme, oxidoreductase; 2.99A {Thermotoga neapolitana}

Probab=81.33  E-value=4.7  Score=34.94  Aligned_cols=61  Identities=23%  Similarity=0.304  Sum_probs=42.5

Q ss_pred             CEEEEeCCCCCCh---------hHHHHhhhcCCCeEEEEeCCCcchHHHHHHHHHHHHhCCCCeEEEEEcCCCCC
Q psy14655        108 DILFIDTPPGTGD---------THLSLIQNLFIDTAIIITIPDTMSLQVAQRGYTMFKKLNIPVAGLVMNMNSVL  173 (261)
Q Consensus       108 d~IiiD~~~~~~~---------~~~~~~~~~~ad~viiv~~~~~~s~~~~~~~~~~l~~~~~~~~giv~N~~~~~  173 (261)
                      .+.|+|||+....         .....+..  +|.+++|++.  ........+++.+.+.+.+ +-+|+|+.+..
T Consensus        84 ~l~liDTpG~~d~~~l~~~~~~~~~~~l~~--aD~vllVvD~--~~~~~~~~~l~~l~~~~~p-iIvV~NK~Dl~  153 (423)
T 3qq5_A           84 PVTLVDTPGLDDVGELGRLRVEKARRVFYR--ADCGILVTDS--APTPYEDDVVNLFKEMEIP-FVVVVNKIDVL  153 (423)
T ss_dssp             EEEEEECSSTTCCCTTCCCCHHHHHHHHTS--CSEEEEECSS--SCCHHHHHHHHHHHHTTCC-EEEECCCCTTT
T ss_pred             eEEEEECcCCCcccchhHHHHHHHHHHHhc--CCEEEEEEeC--CChHHHHHHHHHHHhcCCC-EEEEEeCcCCC
Confidence            7899999964321         12334444  9999999987  3334456777888887877 45999998764

>2r2a_A Uncharacterized protein; zonular occludens toxin, structural genomics, APC84050.2, PS protein structure initiative; HET: MSE; 1.82A {Neisseria meningitidis MC58}

Probab=81.01  E-value=0.93  Score=35.00  Aligned_cols=22  Identities=18%  Similarity=0.341  Sum_probs=17.7

Q ss_pred             cccCCCCCcHHHHHHHHHHHHH
Q psy14655          2 IASSKGGVGKSTTTVNLATAMK   23 (261)
Q Consensus         2 v~s~KGGvGKTT~a~~lA~~la   23 (261)
                      ++.+.-|+|||+.|..++..++
T Consensus         9 l~tG~pGsGKT~~a~~~~~~~~   30 (199)
T 2r2a_A            9 LITGTPGSGKTLKMVSMMANDE   30 (199)
T ss_dssp             EEECCTTSSHHHHHHHHHHHCG
T ss_pred             EEEeCCCCCHHHHHHHHHHHHH
Confidence            3567789999999988876665

>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=80.92  E-value=0.93  Score=35.20  Aligned_cols=20  Identities=30%  Similarity=0.431  Sum_probs=16.1

Q ss_pred             ccCCCCCcHHHHHHHHHHHH
Q psy14655          3 ASSKGGVGKSTTTVNLATAM   22 (261)
Q Consensus         3 ~s~KGGvGKTT~a~~lA~~l   22 (261)
                      +-+.-|+||||++..|+..+
T Consensus        10 i~G~~GsGKSTl~~~L~~~~   29 (227)
T 1cke_A           10 IDGPSGAGKGTLCKAMAEAL   29 (227)
T ss_dssp             EECCTTSSHHHHHHHHHHHH
T ss_pred             EECCCCCCHHHHHHHHHHHh
Confidence            34667999999999888765

>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=80.81  E-value=0.77  Score=35.03  Aligned_cols=29  Identities=21%  Similarity=0.302  Sum_probs=21.1

Q ss_pred             ccCCCCCcHHHHHHHHHHHHHhcCCCCeEEEEecCC
Q psy14655          3 ASSKGGVGKSTTTVNLATAMKICYPDKEIGILDADV   38 (261)
Q Consensus         3 ~s~KGGvGKTT~a~~lA~~la~~g~~~~VllvD~D~   38 (261)
                      +.+--|+||||++..||..+   |    +-++|.|.
T Consensus         7 i~G~~GsGKst~~~~la~~l---g----~~~~d~d~   35 (208)
T 3ake_A            7 IDGPSASGKSSVARRVAAAL---G----VPYLSSGL   35 (208)
T ss_dssp             EECSTTSSHHHHHHHHHHHH---T----CCEEEHHH
T ss_pred             EECCCCCCHHHHHHHHHHhc---C----Cceeccch
Confidence            45677999999999988765   3    34566663

>1e9r_A Conjugal transfer protein TRWB; coupling protein, bacterial conjugation, F1-ATPase-like quaternary structure, ring helicases; 2.4A {Escherichia coli} SCOP: c.37.1.11 PDB: 1e9s_A 1gki_A* 1gl7_A* 1gl6_A*

Probab=80.69  E-value=1.2  Score=38.61  Aligned_cols=33  Identities=24%  Similarity=0.244  Sum_probs=27.5

Q ss_pred             ccCCCCCcHHHHHHHHHHHHHhcCCCCeEEEEecC
Q psy14655          3 ASSKGGVGKSTTTVNLATAMKICYPDKEIGILDAD   37 (261)
Q Consensus         3 ~s~KGGvGKTT~a~~lA~~la~~g~~~~VllvD~D   37 (261)
                      +-+.-|+|||++...+...+.+.|  .+|+++|..
T Consensus        58 i~G~tGsGKs~~~~~li~~~~~~g--~~viv~Dpk   90 (437)
T 1e9r_A           58 VNGATGTGKSVLLRELAYTGLLRG--DRMVIVDPN   90 (437)
T ss_dssp             EEECTTSSHHHHHHHHHHHHHHTT--CEEEEEEET
T ss_pred             EECCCCCCHHHHHHHHHHHHHHCC--CcEEEEeCC
Confidence            345669999999888888888888  999999864

>2aka_B Dynamin-1; fusion protein, GTPase domain, myosin, contractIle protein; 1.90A {Rattus norvegicus} SCOP: c.37.1.8 PDB: 3l43_A*

Probab=80.14  E-value=2  Score=34.78  Aligned_cols=64  Identities=9%  Similarity=0.058  Sum_probs=35.8

Q ss_pred             CCCEEEEeCCCCCC-------h--------hHHHHhhhcCCCeEE-EEeCCCc-chHHHHHHHHHHHHhCCCCeEEEEEc
Q psy14655        106 PCDILFIDTPPGTG-------D--------THLSLIQNLFIDTAI-IITIPDT-MSLQVAQRGYTMFKKLNIPVAGLVMN  168 (261)
Q Consensus       106 ~yd~IiiD~~~~~~-------~--------~~~~~~~~~~ad~vi-iv~~~~~-~s~~~~~~~~~~l~~~~~~~~giv~N  168 (261)
                      .++++|+|||+...       .        .....+..  ++.++ +++..+. .+......+++.+...+.+ +-+|+|
T Consensus       124 ~~~l~lvDtpG~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~il~v~d~~~~~~~~~~~~~~~~~~~~~~~-~i~V~N  200 (299)
T 2aka_B          124 VLNLTLVDLPGMTKVPVGDQPPDIEFQIRDMLMQFVTK--ENCLILAVSPANSDLANSDALKIAKEVDPQGQR-TIGVIT  200 (299)
T ss_dssp             CCSEEEEECCCBCSSCCSSSCTTHHHHHHHHHHHHHTS--TTEEEEEEEESSSCGGGCHHHHHHHHHCTTCSS-EEEEEE
T ss_pred             CCCceEEeCCCCCCCcCCCCCchHHHHHHHHHHHHHcC--CCeEEEEEecCCcchhhhHHHHHHHHhCCCCCe-EEEEEE
Confidence            48999999996321       1        11223333  66666 4555432 2323333455666555555 558999


Q ss_pred             CCCC
Q psy14655        169 MNSV  172 (261)
Q Consensus       169 ~~~~  172 (261)
                      +.+.
T Consensus       201 K~Dl  204 (299)
T 2aka_B          201 KLDL  204 (299)
T ss_dssp             CGGG
T ss_pred             cccc
Confidence            9664

>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=80.12  E-value=3  Score=31.10  Aligned_cols=64  Identities=16%  Similarity=0.108  Sum_probs=36.6

Q ss_pred             CCEEEEeCCCCCC-------hh-----HHHHhhh-cCCCeEEEEeCCCc-chHHHHHHHHHHHHhCCCCeEEEEEcCCCC
Q psy14655        107 CDILFIDTPPGTG-------DT-----HLSLIQN-LFIDTAIIITIPDT-MSLQVAQRGYTMFKKLNIPVAGLVMNMNSV  172 (261)
Q Consensus       107 yd~IiiD~~~~~~-------~~-----~~~~~~~-~~ad~viiv~~~~~-~s~~~~~~~~~~l~~~~~~~~giv~N~~~~  172 (261)
                      ..+.|+|+|+...       ..     ....+.. ..+|.++++++.+. .+... ..+.+.+...+.+ +.+|.|+.+.
T Consensus        69 ~~~~l~Dt~G~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~v~d~~~~~~~~~-~~~~~~~~~~~~p-~i~v~nK~Dl  146 (195)
T 1svi_A           69 DELHFVDVPGYGFAKVSKSEREAWGRMIETYITTREELKAVVQIVDLRHAPSNDD-VQMYEFLKYYGIP-VIVIATKADK  146 (195)
T ss_dssp             TTEEEEECCCBCCCSSCHHHHHHHHHHHHHHHHHCTTEEEEEEEEETTSCCCHHH-HHHHHHHHHTTCC-EEEEEECGGG
T ss_pred             CcEEEEECCCCCccccCHHHHHHHHHHHHHHHhhhhcCCEEEEEEECCCCCCHHH-HHHHHHHHHcCCC-EEEEEECccc
Confidence            3689999996211       00     1122222 00288888887544 33333 3455666666666 5589999664

---

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	261
d1ihua2	279	c.37.1.10 (A:308-586) Arsenite-translocating ATPas	5e-28
d1cp2a_	269	c.37.1.10 (A:) Nitrogenase iron protein {Clostridi	6e-16
d1ihua1	296	c.37.1.10 (A:1-296) Arsenite-translocating ATPase	4e-15
d2afhe1	289	c.37.1.10 (E:1-289) Nitrogenase iron protein {Azot	8e-15
d1g3qa_	237	c.37.1.10 (A:) Cell division regulator MinD {Archa	1e-12
d1hyqa_	232	c.37.1.10 (A:) Cell division regulator MinD {Archa	1e-10
d1byia_	224	c.37.1.10 (A:) Dethiobiotin synthetase {Escherichi	2e-10

>d1ihua2 c.37.1.10 (A:308-586) Arsenite-translocating ATPase ArsA {Escherichia coli [TaxId: 562]} Length = 279

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]

 Score =  106 bits (264), Expect = 5e-28
 Identities = 28/239 (11%), Positives = 74/239 (30%), Gaps = 35/239 (14%)

Query: 1   MIASSKGGVGKSTTTVNLATAMKICYPDKEIGILDAD-------VFGPSIPILMNLPDTP 53
           ++   KGGVGK+T    +A  +       ++ +  +D           S+  L      P
Sbjct: 23  IMLMGKGGVGKTTMAAAIAVRLADM--GFDVHLTTSDPAAHLSMTLNGSLNNLQVSRIDP 80

Query: 54  LLNKDNLMIPLVNYGVKCLSMGNLITEKSAAIWRGLMVMQALNKLTVQVQWGPCDILFID 113
               +     ++    K L        +          +      +  ++      + +D
Sbjct: 81  HEETERYRQHVLETKGKELDEAGKRLLEEDLRSPCTEEIAVFQAFSRVIREAGKRFVVMD 140

Query: 114 TPP-------------------------GTGDTHLSLIQNLFIDTAIIITIPDTMSLQVA 148
           T P                         G   T + L+Q+      +++T+P+T  +  A
Sbjct: 141 TAPTGHTLLLLDATGAYHREIAKKMGEKGHFTTPMMLLQDPERTKVLLVTLPETTPVLEA 200

Query: 149 QRGYTMFKKLNIPVAGLVMNMNSVLCPSCNHMFELYENNLHQFEAKNFLKSYERKLYGI 207
                  ++  I   G ++N +  +  + + +           + ++  + +  ++  +
Sbjct: 201 ANLQADLERAGIHPWGWIINNSLSIADTRSPLLR-MRAQQELPQIESVKRQHASRVALV 258

>d1cp2a_ c.37.1.10 (A:) Nitrogenase iron protein {Clostridium pasteurianum [TaxId: 1501]} Length = 269

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]

 Score = 73.1 bits (178), Expect = 6e-16
 Identities = 35/207 (16%), Positives = 62/207 (29%), Gaps = 20/207 (9%)

Query: 2   IA-SSKGGVGKSTTTVNLATAMKICYPDKEIGILDADVFGPSIPILMN----------LP 50
           +A   KGG+GKSTTT NL + +      K I ++  D    S  +L+           L 
Sbjct: 4   VAIYGKGGIGKSTTTQNLTSGL--HAMGKTIMVVGCDPKADSTRLLLGGLAQKSVLDTLR 61

Query: 51  DTPLLNKDNLMIPLVNYGVKCLSMGNLITEKSAAIWRGLMVMQALNKLTVQVQWGPCDIL 110
           +     + + ++     G++C+  G           RG++    + +          D +
Sbjct: 62  EEGEDVELDSILKEGYGGIRCVESG-GPEPGVGCAGRGIITSINMLEQLGAY-TDDLDYV 119

Query: 111 FIDTPPGTGDTHLSLIQNLFIDTAIIITIPDTMSLQVAQRGY-----TMFKKLNIPVAGL 165
           F D          ++         I I     M    A            K   + + G+
Sbjct: 120 FYDVLGDVVCGGFAMPIREGKAQEIYIVASGEMMALYAANNISKGIQKYAKSGGVRLGGI 179

Query: 166 VMNMNSVLCPSCNHMFELYENNLHQFE 192
           + N   V            E       
Sbjct: 180 ICNSRKVANEYELLDAFAKELGSQLIH 206

>d1ihua1 c.37.1.10 (A:1-296) Arsenite-translocating ATPase ArsA {Escherichia coli [TaxId: 562]} Length = 296

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]

 Score = 71.6 bits (174), Expect = 4e-15
 Identities = 33/272 (12%), Positives = 71/272 (26%), Gaps = 67/272 (24%)

Query: 4   SSKGGVGKSTTTVNLATAMKICYPDKEIGILDAD-------VFGPSIPILMNLPDT---- 52
           + KGGVGK++ +   A  +      K + ++  D       VF  +I   +    +    
Sbjct: 14  TGKGGVGKTSISCATAIRLAEQ--GKRVLLVSTDPASNVGQVFSQTIGNTIQAIASVPGL 71

Query: 53  ------PLLNKDNLMIPLVNYGVKCLSMGNLITEKSAAIWRGLMVMQALNKL----TVQV 102
                 P          +V+     L    + +            + A ++     T   
Sbjct: 72  SALEIDPQAAAQQYRARIVDPIKGVLPDDVVSSINEQLSGACTTEIAAFDEFTGLLTDAS 131

Query: 103 QWGPCDILFIDTPPGTG--------------------------------------DTHLS 124
                D +  DT P                                            + 
Sbjct: 132 LLTRFDHIIFDTAPTGHTIRLLQLPGAWSSFIDSNPEGASCLGPMAGLEKQREQYAYAVE 191

Query: 125 LIQNLFIDTAIIITIPDTMSLQVAQRGYTMFKKLNIPVAGLVMNMNSVLCPSCNHMFELY 184
            + +      +++      +LQ   R +     + +    LV+N    + P      +  
Sbjct: 192 ALSDPKRTRLVLVARLQKSTLQEVARTHLELAAIGLKNQYLVING---VLPKTEAANDTL 248

Query: 185 ENNLHQFEAKNFLKSYERKLYGIHMWNFLIPL 216
              + + E +  L +    L G+      + L
Sbjct: 249 AAAIWEREQE-ALANLPADLAGLPT--DTLFL 277

>d2afhe1 c.37.1.10 (E:1-289) Nitrogenase iron protein {Azotobacter vinelandii [TaxId: 354]} Length = 289

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]

 Score = 70.3 bits (171), Expect = 8e-15
 Identities = 33/206 (16%), Positives = 61/206 (29%), Gaps = 13/206 (6%)

Query: 2   IA-SSKGGVGKSTTTVNLATAMKICYPDKEIGILDADVFGPSIPILMNLPDTP------- 53
            A   KGG+GKSTTT NL  A+      K++ I+  D    S  ++++            
Sbjct: 5   CAIYGKGGIGKSTTTQNLVAALA--EMGKKVMIVGCDPKADSTRLILHSKAQNTIMEMAA 62

Query: 54  --LLNKDNLMIPLVNYGVKCLSMGNLITEKSAAIWRGLMVMQALNKLTV-QVQWGPCDIL 110
                +D  +  ++  G   +        +      G  V+ A+N L          D +
Sbjct: 63  EAGTVEDLELEDVLKAGYGGVKCVESGGPEPGVGCAGRGVITAINFLEEEGAYEDDLDFV 122

Query: 111 FIDTPPGTGDTHLSLIQNLFIDTAIIITIPDTMSLQVAQRGYTMFKKLNIPVAGLVMNMN 170
           F D          ++         I I     M    A    +           + +   
Sbjct: 123 FYDVLGDVVCGGFAMPIRENKAQEIYIVCSGEMMAMYAANNISKGIVKYANSGSVRLGGL 182

Query: 171 SVLCPSCNHMFELYENNLHQFEAKNF 196
                + +   EL     ++   +  
Sbjct: 183 ICNSRNTDREDELIIALANKLGTQMI 208

>d1g3qa_ c.37.1.10 (A:) Cell division regulator MinD {Archaeon Pyrococcus furiosus [TaxId: 2261]} Length = 237

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]

 Score = 63.2 bits (152), Expect = 1e-12
 Identities = 22/117 (18%), Positives = 44/117 (37%), Gaps = 4/117 (3%)

Query: 2   IASSKGGVGKSTTTVNLATAMKICYPDKEIGILDADVFGPSIPILMNLPDTPLLNKDNLM 61
           I S KGG GK+T T NL+ A+      +++  +D D+   ++ +++ + D  +   D L 
Sbjct: 7   IVSGKGGTGKTTVTANLSVALGDR--GRKVLAVDGDLTMANLSLVLGVDDPDVTLHDVLA 64

Query: 62  --IPLVNYGVKCLSMGNLITEKSAAIWRGLMVMQALNKLTVQVQWGPCDILFIDTPP 116
               + +           +   +      L          ++      D + ID P 
Sbjct: 65  GEANVEDAIYMTQFDNVYVLPGAVDWEHVLKADPRKLPEVIKSLKDKFDFILIDCPA 121

>d1hyqa_ c.37.1.10 (A:) Cell division regulator MinD {Archaeon Archaeoglobus fulgidus [TaxId: 2234]} Length = 232

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]

 Score = 57.5 bits (137), Expect = 1e-10
 Identities = 25/185 (13%), Positives = 58/185 (31%), Gaps = 4/185 (2%)

Query: 1   MIASSKGGVGKSTTTVNLATAMKICYPDKEIGILDADVFGPSIPILMNLPDTPLLNKDNL 60
            +AS KGG GK+T T NL  A+       ++ I+DAD+   ++ +++ +   P+  ++ L
Sbjct: 5   TVASGKGGTGKTTITANLGVALAQL--GHDVTIVDADITMANLELILGMEGLPVTLQNVL 62

Query: 61  MIPLVNYGVKCLSMG--NLITEKSAAIWRGLMVMQALNKLTVQVQWGPCDILFIDTPPGT 118
                      +  G   ++    +         + L  +  Q+      +L        
Sbjct: 63  AGEARIDEAIYVGPGGVKVVPAGVSLEGLRKANPEKLEDVLTQIMESTDILLLDAPAGLE 122

Query: 119 GDTHLSLIQNLFIDTAIIITIPDTMSLQVAQRGYTMFKKLNIPVAGLVMNMNSVLCPSCN 178
               +++     +   +   I         +          + V    +    +      
Sbjct: 123 RSAVIAIAAAQELLLVVNPEISSITDGLKTKIVAERLGTKVLGVVVNRITTLGIEMAKNE 182

Query: 179 HMFEL 183
               L
Sbjct: 183 IEAIL 187

>d1byia_ c.37.1.10 (A:) Dethiobiotin synthetase {Escherichia coli [TaxId: 562]} Length = 224

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]

 Score = 57.0 bits (136), Expect = 2e-10
 Identities = 24/193 (12%), Positives = 49/193 (25%), Gaps = 7/193 (3%)

Query: 1   MIASSKGGVGKSTTTVNLATAMKICYPDKEIGILDADVFGPSIPILMNLPDTPLLNKDNL 60
            +  +   VGK+  +  L  A K                G             L  + N 
Sbjct: 5   FVTGTDTEVGKTVASCALLQAAKAAG--YRTAGYKPVASGSEKTPEGLRNSDALALQRNS 62

Query: 61  MIPLVN-----YGVKCLSMGNLITEKSAAIWRGLMVMQALNKLTVQVQWGPCDILFIDTP 115
            + L       Y     +  ++I+ +       L++   L  L  Q  W   +       
Sbjct: 63  SLQLDYATVNPYTFAEPTSPHIISAQEGRPIESLVMSAGLRALEQQADWVLVEGAGGWFT 122

Query: 116 PGTGDTHLSLIQNLFIDTAIIITIPDTMSLQVAQRGYTMFKKLNIPVAGLVMNMNSVLCP 175
           P +     +          I++       +  A     + +   + +AG V N  +    
Sbjct: 123 PLSDTFTFADWVTQEQLPVILVVGVKLGCINHAMLTAQVIQHAGLTLAGWVANDVTPPGK 182

Query: 176 SCNHMFELYENNL 188
                       +
Sbjct: 183 RHAEYMTTLTRMI 195

Homologous Domains Detected by HHsearch

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

ID	Length	Definition	Probability
Query	261
d1hyqa_	232	Cell division regulator MinD {Archaeon Archaeoglob	99.98
d1g3qa_	237	Cell division regulator MinD {Archaeon Pyrococcus	99.97
d2afhe1	289	Nitrogenase iron protein {Azotobacter vinelandii [	99.97
d1cp2a_	269	Nitrogenase iron protein {Clostridium pasteurianum	99.96
d1ihua1	296	Arsenite-translocating ATPase ArsA {Escherichia co	99.88
d1ihua2	279	Arsenite-translocating ATPase ArsA {Escherichia co	99.87
d1byia_	224	Dethiobiotin synthetase {Escherichia coli [TaxId:	99.82
d1ls1a2	207	GTPase domain of the signal sequence recognition p	98.91
d2qy9a2	211	GTPase domain of the signal recognition particle r	98.81
d1okkd2	207	GTPase domain of the signal recognition particle r	98.72
d1j8yf2	211	GTPase domain of the signal sequence recognition p	98.71
d1vmaa2	213	GTPase domain of the signal recognition particle r	98.61
d2qm8a1	323	Metallochaperone MeaB {Methylobacterium extorquens	98.4
d2bv3a2	276	Elongation factor G (EF-G), N-terminal (G) domain	98.32
d2p67a1	327	LAO/AO transport system kinase ArgK {Escherichia c	98.18
d2c78a3	204	Elongation factor Tu (EF-Tu), N-terminal (G) domai	97.88
d1xjca_	165	Molybdopterin-guanine dinucleotide biosynthesis pr	97.79
d2dy1a2	267	Elongation factor G (EF-G), N-terminal (G) domain	97.73
d1bifa1	213	6-phosphofructo-2-kinase/fructose-2,6-bisphosphata	97.48
d1yrba1	244	ATP(GTP)-binding protein PAB0955 {Pyrococcus abyss	97.38
d1np6a_	170	Molybdopterin-guanine dinucleotide biosynthesis pr	97.34
d2i3ba1	189	Cancer-related NTPase, C1orf57 {Human (Homo sapien	97.26
d1d2ea3	196	Elongation factor Tu (EF-Tu), N-terminal (G) domai	97.04
d1mkya1	171	Probable GTPase Der, N-terminal and middle domains	96.63
d1g5ta_	157	ATP:corrinoid adenosyltransferase CobA {Salmonella	96.45
d1xp8a1	268	RecA protein, ATPase-domain {Deinococcus radiodura	96.45
d1u94a1	263	RecA protein, ATPase-domain {Escherichia coli [Tax	96.42
d1nlfa_	274	Hexameric replicative helicase repA {Escherichia c	96.25
d1cr2a_	277	Gene 4 protein (g4p, DNA primase), helicase domain	96.12
d1zunb3	222	Sulfate adenylate transferase subunit cysN/C, EF-T	96.09
d1f60a3	239	Elongation factor eEF-1alpha, N-terminal (G) domai	96.06
d1wf3a1	178	GTPase Era, N-terminal domain {Thermus thermophilu	96.03
d1rz3a_	198	Hypothetical protein rbstp0775 {Bacillus stearothe	95.93
d1mo6a1	269	RecA protein, ATPase-domain {Mycobacterium tubercu	95.92
d1tf7a2	242	Circadian clock protein KaiC {Synechococcus sp. st	95.89
d1g7sa4	227	Initiation factor IF2/eIF5b, N-terminal (G) domain	95.79
d1sq5a_	308	Pantothenate kinase PanK {Escherichia coli [TaxId:	95.76
d1nksa_	194	Adenylate kinase {Archaeon Sulfolobus acidocaldari	95.72
d1m8pa3	183	ATP sulfurylase C-terminal domain {Fungus (Penicil	95.42
d1zp6a1	176	Hypothetical protein Atu3015 {Agrobacterium tumefa	95.28
d1khta_	190	Adenylate kinase {Archaeon Methanococcus voltae [T	95.2
d1nija1	222	Hypothetical protein YjiA, N-terminal domain {Esch	95.18
d1m7ga_	208	Adenosine-5'phosphosulfate kinase (APS kinase) {Fu	94.99
d1tf7a1	242	Circadian clock protein KaiC {Synechococcus sp. st	94.97
d1gsia_	208	Thymidylate kinase {Mycobacterium tuberculosis [Ta	94.92
d1nn5a_	209	Thymidylate kinase {Human (Homo sapiens) [TaxId: 9	94.89
d1x6va3	195	Adenosine-5'phosphosulfate kinase (APS kinase) {Hu	94.85
d1qhxa_	178	Chloramphenicol phosphotransferase {Streptomyces v	94.85
d1a7ja_	288	Phosphoribulokinase {Rhodobacter sphaeroides [TaxI	94.82
d1uj2a_	213	Uridine-cytidine kinase 2 {Human (Homo sapiens) [T	94.76
d1udxa2	180	Obg GTP-binding protein middle domain {Thermus the	94.7
d1r5ba3	245	Eukaryotic peptide chain release factor ERF2, G do	94.65
d1z0fa1	166	Rab14 {Human (Homo sapiens) [TaxId: 9606]}	94.42
d1kaga_	169	Shikimate kinase (AroK) {Escherichia coli [TaxId:	94.39
d1mkya2	186	Probable GTPase Der, N-terminal and middle domains	94.2
d1n0ua2	341	Elongation factor 2 (eEF-2), N-terminal (G) domain	94.18
d2i1qa2	258	DNA repair protein Rad51, catalytic domain {Archae	94.05
d1jnya3	224	Elongation factor eEF-1alpha, N-terminal (G) domai	94.03
d1z2aa1	164	Rab23 {Mouse (Mus musculus) [TaxId: 10090]}	94.03
d2bdta1	176	Hypothetical protein BH3686 {Bacillus halodurans [	93.76
d1rkba_	173	Adenylate kinase {Human (Homo sapiens), isoenzyme	93.75
d1l8qa2	213	Chromosomal replication initiation factor DnaA {Aq	93.68
d2bcgy1	194	GTPase Ytp1 {Baker's yeast (Saccharomyces cerevisi	93.5
d1p9ra_	401	Extracellular secretion NTPase EpsE {Vibrio choler	93.43
d1odfa_	286	Hypothetical protein Ygr205W {Baker's yeast (Sacch	93.21
d4tmka_	210	Thymidylate kinase {Escherichia coli [TaxId: 562]}	93.05
d1pzna2	254	DNA repair protein Rad51, catalytic domain {Archae	92.96
d2qn6a3	205	Initiation factor eIF2 gamma subunit, N-terminal (	92.89
d1ye8a1	178	Hypothetical kinase-like protein Aq_1292 {Aquifex	92.7
d2iyva1	165	Shikimate kinase (AroK) {Mycobacterium tuberculosi	92.65
d1z08a1	167	Rab21 {Human (Homo sapiens) [TaxId: 9606]}	92.49
d1fnna2	276	CDC6, N-domain {Archaeon Pyrobaculum aerophilum [T	92.42
d1svia_	195	Probable GTPase EngB {Bacillus subtilis [TaxId: 14	92.36
d1y63a_	174	Probable kinase LmjF30.1890 {Leishmania major [Tax	92.33
d1lw7a2	192	Transcriptional regulator NadR, ribosylnicotinamid	92.23
d1r2qa_	170	Rab5a {Human (Homo sapiens) [TaxId: 9606]}	91.89
d1knqa_	171	Gluconate kinase {Escherichia coli [TaxId: 562]}	91.77
d1szpa2	251	DNA repair protein Rad51, catalytic domain {Baker'	91.76
d1g8fa3	122	ATP sulfurylase C-terminal domain {Baker's yeast (	91.73
d2a5yb3	277	CED-4, NB-ARC domain {Caenorhabditis elegans [TaxI	91.61
d1vg8a_	184	Rab7 {Rat (Rattus norvegicus) [TaxId: 10116]}	91.3
d1ly1a_	152	Polynucleotide kinase, kinase domain {Bacteriophag	90.99
d1yzqa1	164	Rab6 {Human (Homo sapiens) [TaxId: 9606]}	90.97
d1r6bx2	268	ClpA, an Hsp100 chaperone, AAA+ modules {Escherich	90.88
d1wb1a4	179	Elongation factor SelB, N-terminal domain {Methano	90.58
d1eg7a_	549	Formyltetrahydrofolate synthetase {Moorella thermo	90.51
d1kk1a3	195	Initiation factor eIF2 gamma subunit, N-terminal (	90.33
d1h65a_	257	Chloroplast protein translocon GTPase Toc34 {Garde	90.29
d1e6ca_	170	Shikimate kinase (AroK) {Erwinia chrysanthemi [Tax	90.14
d1osna_	331	Thymidine kinase {Varicella-zoster virus [TaxId: 1	90.13
d1viaa_	161	Shikimate kinase (AroK) {Campylobacter jejuni [Tax	89.98
d1sxje2	252	Replication factor C5 {Baker's yeast (Saccharomyce	89.65
d1jbka_	195	ClpB, AAA+ modules {Escherichia coli [TaxId: 562]}	89.53
d1g16a_	166	Rab-related protein Sec4 {Baker's yeast (Saccharom	89.19
d1n0wa_	242	DNA repair protein Rad51, catalytic domain {Human	88.87
d1gvnb_	273	Plasmid maintenance system epsilon/zeta, toxin zet	88.6
d2fnaa2	283	Archaeal ATPase SSO1545 {Sulfolobus solfataricus [	88.44
d1s3ga1	182	Adenylate kinase {Bacillus globisporus [TaxId: 145	88.32
d1e9ra_	433	Bacterial conjugative coupling protein TrwB {Esche	88.26
d2g0ta1	338	Hypothetical protein TM0796 {Thermotoga maritima [	88.25
d2gj8a1	161	Probable tRNA modification GTPase TrmE (MnmE), G d	88.17
d2cdna1	181	Adenylate kinase {Mycobacterium tuberculosis [TaxI	88.16
d1in4a2	238	Holliday junction helicase RuvB {Thermotoga mariti	88.12
d1gkub1	237	Helicase-like "domain" of reverse gyrase {Archaeon	88.01
d1q3ta_	223	CMP kinase {Streptococcus pneumoniae [TaxId: 1313]	87.88
d1qf9a_	194	UMP/CMP kinase {Dictyostelium discoideum [TaxId: 4	87.86
d1e8ca3	234	UDP-N-acetylmuramyl tripeptide synthetase MurE {Es	87.72
d1v5wa_	258	Meiotic recombination protein DMC1/LIM15 homolog {	87.67
d1ixsb2	239	Holliday junction helicase RuvB {Thermus thermophi	87.53
d1zina1	182	Adenylate kinase {Bacillus stearothermophilus [Tax	87.52
d1zaka1	189	Adenylate kinase {Maize (Zea mays) [TaxId: 4577]}	87.5
d1yj5a2	172	5' polynucleotide kinase-3' phosphatase, C-termina	87.48
d1ixza_	247	AAA domain of cell division protein FtsH {Thermus	87.32
d1tmka_	214	Thymidylate kinase {Baker's yeast (Saccharomyces c	86.79
d1pjra1	318	DEXX box DNA helicase {Bacillus stearothermophilus	86.73
d1ak2a1	190	Adenylate kinase {Cow (Bos taurus), mitochondrial	86.34
d1teva_	194	UMP/CMP kinase {Human (Homo sapiens) [TaxId: 9606]	86.28
d1htwa_	158	Hypothetical protein HI0065 {Haemophilus influenza	86.22
d1uaaa1	306	DEXX box DNA helicase {Escherichia coli, RepD [Tax	86.2
d1sxjd2	237	Replication factor C2 {Baker's yeast (Saccharomyce	86.03
d1sxja2	253	Replication factor C1 {Baker's yeast (Saccharomyce	86.01
d2ocpa1	241	Deoxyguanosine kinase {Human (Homo sapiens) [TaxId	85.9
d2jfga1	93	UDP-N-acetylmuramoyl-L-alanine:D-glutamate ligase	85.82
d1sxjb2	224	Replication factor C4 {Baker's yeast (Saccharomyce	85.71
d1wp9a1	200	putative ATP-dependent RNA helicase PF2015 {Pyroco	85.63
d1kkma_	176	HPr kinase HprK C-terminal domain {Lactobacillus c	85.24
d1iqpa2	231	Replication factor C {Archaeon Pyrococcus furiosus	84.48
d1lv7a_	256	AAA domain of cell division protein FtsH {Escheric	84.27
d1w5sa2	287	CDC6-like protein APE0152, N-terminal domain {Aero	83.64
d1ukza_	196	Uridylate kinase {Baker's yeast (Saccharomyces cer	83.44
d1sxjc2	227	Replication factor C3 {Baker's yeast (Saccharomyce	82.84
d1w36d1	359	Exodeoxyribonuclease V alpha chain (RecD) {Escheri	82.83
d1akya1	180	Adenylate kinase {Baker's yeast (Saccharomyces cer	82.65
d1r7ra3	265	Membrane fusion ATPase VCP/p97 {Mouse (Mus musculu	82.59
d1e4va1	179	Adenylate kinase {Escherichia coli [TaxId: 562]}	82.52
d1lvga_	190	Guanylate kinase {Mouse (Mus musculus) [TaxId: 100	82.37
d1p6xa_	333	Thymidine kinase {Equine herpesvirus type 4 [TaxId	82.25
d1knxa2	177	HPr kinase HprK C-terminal domain {Mycoplasma pneu	82.1
d1ko7a2	169	HPr kinase HprK C-terminal domain {Staphylococcus	81.9
d1d2na_	246	Hexamerization domain of N-ethylmalemide-sensitive	81.15
d1ofha_	309	HslU {Haemophilus influenzae [TaxId: 727]}	80.96
d1p5zb_	241	Deoxycytidine kinase {Human (Homo sapiens) [TaxId:	80.85
d1tf5a3	273	Translocation ATPase SecA, nucleotide-binding doma	80.8
d1r6bx3	315	ClpA, an Hsp100 chaperone, AAA+ modules {Escherich	80.76
d1gkya_	186	Guanylate kinase {Baker's yeast (Saccharomyces cer	80.73
d1ckea_	225	CMP kinase {Escherichia coli [TaxId: 562]}	80.69
d1a5ta2	207	delta prime subunit of DNA polymerase III, N-domai	80.22
d1rifa_	282	DNA helicase UvsW {Bacteriophage T4 [TaxId: 10665]	80.06
d1gm5a3	264	RecG helicase domain {Thermotoga maritima [TaxId:	80.02

>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=99.98  E-value=8.9e-33  Score=223.33  Aligned_cols=211  Identities=20%  Similarity=0.275  Sum_probs=162.1

Q ss_pred             CcccCCCCCcHHHHHHHHHHHHHhcCCCCeEEEEecCCCCCCcccccCCCCCCCCCc--------CCccccccccCceee
Q psy14655          1 MIASSKGGVGKSTTTVNLATAMKICYPDKEIGILDADVFGPSIPILMNLPDTPLLNK--------DNLMIPLVNYGVKCL   72 (261)
Q Consensus         1 ~v~s~KGGvGKTT~a~~lA~~la~~g~~~~VllvD~D~~~~~~~~~~~~~~~~~~~~--------~~~~~~~~~~~l~~~   72 (261)
                      +|+|+||||||||+|+|||.+||++|  ++|++||+|++++++..+++.+..+....        .+........++.++
T Consensus         5 av~s~KGGvGKTtia~nlA~~la~~g--~~VlliD~D~~~~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l   82 (232)
T d1hyqa_           5 TVASGKGGTGKTTITANLGVALAQLG--HDVTIVDADITMANLELILGMEGLPVTLQNVLAGEARIDEAIYVGPGGVKVV   82 (232)
T ss_dssp             EEEESSSCSCHHHHHHHHHHHHHHTT--CCEEEEECCCSSSSHHHHTTCCCCCCCHHHHHTTSSCGGGGCEECGGGCEEE
T ss_pred             EEECCCCCChHHHHHHHHHHHHHhCC--CCEEEEeCCCCCCCHHHHhCCCcCcchhhhhhccccccccccccCCccceeE
Confidence            48899999999999999999999999  99999999999999999999876433211        111122345678888


Q ss_pred             cCCCCcccchhhhhhchHHHHHHHHHHHHhccCCCCEEEEeCCCCCChhHHHHhhhcCCCeEEEEeCCCcchHHHHHHHH
Q psy14655         73 SMGNLITEKSAAIWRGLMVMQALNKLTVQVQWGPCDILFIDTPPGTGDTHLSLIQNLFIDTAIIITIPDTMSLQVAQRGY  152 (261)
Q Consensus        73 ~~~~~~~~~~~~~~~~~~~~~~l~~~l~~l~~~~yd~IiiD~~~~~~~~~~~~~~~~~ad~viiv~~~~~~s~~~~~~~~  152 (261)
                      |.+.....      ......+.++.+++.++ .+||+||+|+||+.+......+..  +|.+++|+.|+..++..+.+++
T Consensus        83 ~~~~~~~~------~~~~~~~~l~~~l~~l~-~~~D~viiD~~~~~~~~~~~~l~~--ad~v~~v~~~~~~~~~~~~~~~  153 (232)
T d1hyqa_          83 PAGVSLEG------LRKANPEKLEDVLTQIM-ESTDILLLDAPAGLERSAVIAIAA--AQELLLVVNPEISSITDGLKTK  153 (232)
T ss_dssp             ECCSCHHH------HHHHCHHHHHHHHHHHH-HTCSEEEEECCSSSSHHHHHHHHH--SSEEEEEECSSHHHHHHHHHHH
T ss_pred             eeeccccc------ccccchhhHHHHHHHHh-hccceeeecccccccchhHHHhhh--hheeeeeccccccchhhhhhhh
Confidence            87654321      11223456888888888 899999999999999888888877  9999999999999999999999


Q ss_pred             HHHHhCCCCeEEEEEcCCCCCCCCCCcccccccchhHHHHHhhhhhhhhhhhhcccccccccCcchhhhhhhccccCCCC
Q psy14655        153 TMFKKLNIPVAGLVMNMNSVLCPSCNHMFELYENNLHQFEAKNFLKSYERKLYGIHMWNFLIPLCNLIIKIRNVAYGNSH  232 (261)
Q Consensus       153 ~~l~~~~~~~~giv~N~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~ip~~~~~~~~~~~~~~~a~  232 (261)
                      ..+++.+.+.+++|+||++.              .......+     ...+.+|.+++. .||        ++..+.+|.
T Consensus       154 ~~~~~~~~~~~~iv~N~~~~--------------~~~~~~~~-----~i~~~~~~~~~~-~IP--------~d~~~~~a~  205 (232)
T d1hyqa_         154 IVAERLGTKVLGVVVNRITT--------------LGIEMAKN-----EIEAILEAKVIG-LIP--------EDPEVRRAA  205 (232)
T ss_dssp             HHHHHHTCEEEEEEEEEECT--------------TTHHHHHH-----HHHHHTTSCEEE-EEE--------CCHHHHHHH
T ss_pred             hhhhhccccccccccccccc--------------ccccchhh-----hHHhhcCCeEEE-ECC--------CCHHHHHHH
Confidence            99999999999999998432              11122211     223445666655 489        888888888


Q ss_pred             CCCCcchhhhhhhhcccc
Q psy14655        233 GHGNTVHHHHVLNLIGEE  250 (261)
Q Consensus       233 ~~g~~v~~~~~~~~~~~~  250 (261)
                      ..|+|+.++.+.+..++.
T Consensus       206 ~~g~p~~~~~p~s~~a~~  223 (232)
T d1hyqa_         206 AYGKPVVLRSPNSPAARA  223 (232)
T ss_dssp             HHTSCHHHHCTTSHHHHH
T ss_pred             HCCceEEEECCCCHHHHH
Confidence            999999988876655443

>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=99.97  E-value=2.7e-31  Score=214.99  Aligned_cols=211  Identities=18%  Similarity=0.189  Sum_probs=152.9

Q ss_pred             CcccCCCCCcHHHHHHHHHHHHHhcCCCCeEEEEecCCCCCCcccccCCCCCCCC---------CcCCccccccccCcee
Q psy14655          1 MIASSKGGVGKSTTTVNLATAMKICYPDKEIGILDADVFGPSIPILMNLPDTPLL---------NKDNLMIPLVNYGVKC   71 (261)
Q Consensus         1 ~v~s~KGGvGKTT~a~~lA~~la~~g~~~~VllvD~D~~~~~~~~~~~~~~~~~~---------~~~~~~~~~~~~~l~~   71 (261)
                      +|+|+||||||||+|+|||.+||+.|  ++|++||+|++++++..+++.......         ............+...
T Consensus         6 av~~~kGGvGKTtia~nLA~~la~~g--~~VlliD~D~~~~~l~~~l~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~   83 (237)
T d1g3qa_           6 SIVSGKGGTGKTTVTANLSVALGDRG--RKVLAVDGDLTMANLSLVLGVDDPDVTLHDVLAGEANVEDAIYMTQFDNVYV   83 (237)
T ss_dssp             EEECSSTTSSHHHHHHHHHHHHHHTT--CCEEEEECCTTSCCHHHHTTCCCCSSCHHHHHTTSSCGGGGCEECSSTTEEE
T ss_pred             EEECCCCCCcHHHHHHHHHHHHHhCC--CCEEEEeCCCCCCChhHHhCCCCcccchhhhccCCCcHHHhhhccccccccc
Confidence            47899999999999999999999999  999999999998898888886543211         1112222233334444


Q ss_pred             ecCCCCcccchhhhhhchHHHHHHHHHHHHhccCCCCEEEEeCCCCCChhHHHHhhhcCCCeEEEEeCCCcchHHHHHHH
Q psy14655         72 LSMGNLITEKSAAIWRGLMVMQALNKLTVQVQWGPCDILFIDTPPGTGDTHLSLIQNLFIDTAIIITIPDTMSLQVAQRG  151 (261)
Q Consensus        72 ~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~l~~~~yd~IiiD~~~~~~~~~~~~~~~~~ad~viiv~~~~~~s~~~~~~~  151 (261)
                      .+.+......      .......+.+++..++ +.||+||+|+||+.+.....++..  +|.+++|+.|+..++..+.++
T Consensus        84 ~~~~~~~~~~------~~~~~~~~~~~~~~l~-~~~d~IiiD~~~~~~~~~~~~l~~--aD~viiv~~~~~~s~~~~~~~  154 (237)
T d1g3qa_          84 LPGAVDWEHV------LKADPRKLPEVIKSLK-DKFDFILIDCPAGLQLDAMSAMLS--GEEALLVTNPEISCLTDTMKV  154 (237)
T ss_dssp             ECCCCSHHHH------HHCCGGGHHHHHHTTG-GGCSEEEEECCSSSSHHHHHHHTT--CSEEEEEECSCHHHHHHHHHH
T ss_pred             cccccchhhh------hhhhhHHHHHHHHHHH-hcCCEEEEcccccccccchhhhhh--hhcccccccccceecchhhHH
Confidence            4433222111      1112234677888888 899999999999999888888776  999999999999999999999


Q ss_pred             HHHHHhCCCCeEEEEEcCCCCCCCCCCcccccccchhHHHHHhhhhhhhhhhhhcccccccccCcchhhhhhhccccCCC
Q psy14655        152 YTMFKKLNIPVAGLVMNMNSVLCPSCNHMFELYENNLHQFEAKNFLKSYERKLYGIHMWNFLIPLCNLIIKIRNVAYGNS  231 (261)
Q Consensus       152 ~~~l~~~~~~~~giv~N~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~ip~~~~~~~~~~~~~~~a  231 (261)
                      ++.+++.+++..|+|+||+....       .   +....         ..++..+.. +...||        ++..+.+|
T Consensus       155 ~~~~~~~~~~~~giv~N~~~~~~-------~---~~~~~---------~~~~~~~~~-~~~~IP--------~d~~v~~a  206 (237)
T d1g3qa_         155 GIVLKKAGLAILGFVLNRYGRSD-------R---DIPPE---------AAEDVMEVP-LLAVIP--------EDPAIREG  206 (237)
T ss_dssp             HHHHHHTTCEEEEEEEEEETSCT-------T---CCCHH---------HHHHHHCSC-EEEEEE--------CCHHHHHH
T ss_pred             HHHHhhhhhhhhhhhhccccccc-------c---hhhhH---------HHHhhcCce-EEEEeC--------CCHHHHHH
Confidence            99999999999999999954210       0   01111         112223333 344589        88889899


Q ss_pred             CCCCCcchhhhhhhhcccc
Q psy14655        232 HGHGNTVHHHHVLNLIGEE  250 (261)
Q Consensus       232 ~~~g~~v~~~~~~~~~~~~  250 (261)
                      ...|+|++++++.+.+++.
T Consensus       207 ~~~g~~v~~~~p~s~~a~~  225 (237)
T d1g3qa_         207 TLEGIPAVKYKPESKGAKA  225 (237)
T ss_dssp             HHHTSCHHHHSTTSHHHHH
T ss_pred             HHcCceEEEECCCCHHHHH
Confidence            9999999999877655543

>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=99.97  E-value=1.2e-31  Score=223.83  Aligned_cols=216  Identities=19%  Similarity=0.194  Sum_probs=147.3

Q ss_pred             ccCCCCCcHHHHHHHHHHHHHhcCCCCeEEEEecCCCCCCcccccCCCCCCCCCc--------C----CccccccccCce
Q psy14655          3 ASSKGGVGKSTTTVNLATAMKICYPDKEIGILDADVFGPSIPILMNLPDTPLLNK--------D----NLMIPLVNYGVK   70 (261)
Q Consensus         3 ~s~KGGvGKTT~a~~lA~~la~~g~~~~VllvD~D~~~~~~~~~~~~~~~~~~~~--------~----~~~~~~~~~~l~   70 (261)
                      +|+||||||||+|+|||.+||++|  +|||+||+|||++++..+++.........        .    +.+......++.
T Consensus         7 isgKGGVGKTT~a~NLA~~LA~~G--~rVLlID~DpQ~~st~~~l~~~~~~~~~~~~~~~~~~~d~~~~~v~~~~~~~i~   84 (289)
T d2afhe1           7 IYGKGGIGKSTTTQNLVAALAEMG--KKVMIVGCDPKADSTRLILHSKAQNTIMEMAAEAGTVEDLELEDVLKAGYGGVK   84 (289)
T ss_dssp             EEECTTSSHHHHHHHHHHHHHHTT--CCEEEEEECSSSCSSHHHHCCSSCCBHHHHHHTTSSGGGCCHHHHCEECGGGCE
T ss_pred             EECCCCCCHHHHHHHHHHHHHHCC--CCEEEEecCCCCCcchhhcCCCCCCchhhhhhccCcccccccceeEecccccce
Confidence            478999999999999999999999  99999999999988777776554432211        0    011222345677


Q ss_pred             eecCCCCcccchhhhhhchHHHHHHHHHHHHhccCCCCEEEEeCCCCCChhHHHHh-hhcCCCeEEEEeCCCcchHHHHH
Q psy14655         71 CLSMGNLITEKSAAIWRGLMVMQALNKLTVQVQWGPCDILFIDTPPGTGDTHLSLI-QNLFIDTAIIITIPDTMSLQVAQ  149 (261)
Q Consensus        71 ~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~l~~~~yd~IiiD~~~~~~~~~~~~~-~~~~ad~viiv~~~~~~s~~~~~  149 (261)
                      .+|.+......... .........+...+..+. ++||||++||||+.+......+ ....+|.+++|+.++..++.++.
T Consensus        85 ~i~~~~~~~~~~~~-~~~~~~~~~l~~~l~~~~-~~~D~iiiD~pp~~~~~~~~~~~~~~~a~~vlv~~~~~~~s~~~~~  162 (289)
T d2afhe1          85 CVESGGPEPGVGCA-GRGVITAINFLEEEGAYE-DDLDFVFYDVLGDVVCGGFAMPIRENKAQEIYIVCSGEMMAMYAAN  162 (289)
T ss_dssp             EEECCCCCTTTCCH-HHHHHHHHHHHHHTTCSS-TTCSEEEEEEECSSCCTTTTHHHHTTCCCEEEEEECSSHHHHHHHH
T ss_pred             eeccCCchhhhhhh-hcchHHHHHHHHHHHHhh-ccCCeEeeccCCccCHHHHHHHHHhhccceeecccchhHHHHHHHH
Confidence            77765544322211 111222334555666666 8999999999998754433222 11228999999999999999999


Q ss_pred             HHHHHHHh----CCCCeEEEEEcCCCCCCCCCCcccccccchhHHHHHhhhhhhhhhhhhcccccccccCcchhhhhhhc
Q psy14655        150 RGYTMFKK----LNIPVAGLVMNMNSVLCPSCNHMFELYENNLHQFEAKNFLKSYERKLYGIHMWNFLIPLCNLIIKIRN  225 (261)
Q Consensus       150 ~~~~~l~~----~~~~~~giv~N~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~ip~~~~~~~~~~  225 (261)
                      ++++.+.+    .+.++.|+|+|+.+.             ....+...      ...+.+|.+++. .||        ++
T Consensus       163 ~~~~~i~~~~~~~~~~~~gvv~n~~~~-------------~~~~~~~~------~~~~~~g~~vl~-~IP--------~~  214 (289)
T d2afhe1         163 NISKGIVKYANSGSVRLGGLICNSRNT-------------DREDELII------ALANKLGTQMIH-FVP--------RD  214 (289)
T ss_dssp             HHHHHHHHHHTTSCCEEEEEEEECCCC-------------TTHHHHHH------HHHHHHTSCEEE-EEC--------CC
T ss_pred             HHHHHHHhhhhcccccccceeehhhcc-------------hhhHHHHH------HHHHHcCCeEEE-EEe--------cc
Confidence            88887654    356678999998432             11111111      123346777765 499        88


Q ss_pred             cccCCCCCCCCcchhhhhhhhcccc
Q psy14655        226 VAYGNSHGHGNTVHHHHVLNLIGEE  250 (261)
Q Consensus       226 ~~~~~a~~~g~~v~~~~~~~~~~~~  250 (261)
                      ..+.+|...|+|++++++.+.+++.
T Consensus       215 ~~v~eA~~~g~pv~~~~p~S~~a~~  239 (289)
T d2afhe1         215 NVVQRAEIRRMTVIEYDPKAKQADE  239 (289)
T ss_dssp             HHHHHHHHTTSCHHHHCTTSHHHHH
T ss_pred             HHHHHHHHcCCceEEECcCCHHHHH
Confidence            8999999999999999877766654

>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=99.96  E-value=2.5e-30  Score=213.67  Aligned_cols=215  Identities=20%  Similarity=0.191  Sum_probs=147.2

Q ss_pred             cCCCCCcHHHHHHHHHHHHHhcCCCCeEEEEecCCCCCCcccccCCCCCCCCCc----------CCccccccccCceeec
Q psy14655          4 SSKGGVGKSTTTVNLATAMKICYPDKEIGILDADVFGPSIPILMNLPDTPLLNK----------DNLMIPLVNYGVKCLS   73 (261)
Q Consensus         4 s~KGGvGKTT~a~~lA~~la~~g~~~~VllvD~D~~~~~~~~~~~~~~~~~~~~----------~~~~~~~~~~~l~~~~   73 (261)
                      ++||||||||+|+|||.+||++|  +|||+||+|+|++++..+++........+          .+.+.......+..+|
T Consensus         7 ~gKGGvGKTT~a~nLA~~LA~~G--~rVllID~D~q~~~t~~ll~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~   84 (269)
T d1cp2a_           7 YGKGGIGKSTTTQNLTSGLHAMG--KTIMVVGCDPKADSTRLLLGGLAQKSVLDTLREEGEDVELDSILKEGYGGIRCVE   84 (269)
T ss_dssp             EECTTSSHHHHHHHHHHHHHTTT--CCEEEEEECTTSCSSHHHHTSCCCCCHHHHHHHHGGGCCHHHHCEECGGGCEEEE
T ss_pred             ECCCcCCHHHHHHHHHHHHHhCC--CcEEEEecCCCCCchhhhhCCCcccchhhhhhhcccccccceEEEecCCceEEec
Confidence            45999999999999999999999  99999999999988888887765543311          0111122334567777


Q ss_pred             CCCCcccchhhhhhchHHHHHHHHHHHHhccCCCCEEEEeCCCCCChhHH-HHhhhcCCCeEEEEeCCCcchHHHHHHHH
Q psy14655         74 MGNLITEKSAAIWRGLMVMQALNKLTVQVQWGPCDILFIDTPPGTGDTHL-SLIQNLFIDTAIIITIPDTMSLQVAQRGY  152 (261)
Q Consensus        74 ~~~~~~~~~~~~~~~~~~~~~l~~~l~~l~~~~yd~IiiD~~~~~~~~~~-~~~~~~~ad~viiv~~~~~~s~~~~~~~~  152 (261)
                      .+........ ..........+.+.+..+. ++|||||+||||+.+.... ..+....||.+++|+.|+..++.++.+++
T Consensus        85 ~~~~~~~~~~-~~~~~~~~~~l~~~l~~l~-~~~D~viiD~p~~~~~~~~~~~~~~~~ad~vliv~~~~~~sl~~~~~~~  162 (269)
T d1cp2a_          85 SGGPEPGVGC-AGRGIITSINMLEQLGAYT-DDLDYVFYDVLGDVVCGGFAMPIREGKAQEIYIVASGEMMALYAANNIS  162 (269)
T ss_dssp             CCCCCTTSSC-HHHHHHHHHHHHHHTTCCC-TTCSEEEEEEECSSCSTTTTHHHHTTSCCEEEEEECSSHHHHHHHHHHH
T ss_pred             cCcchhhhhh-cccchHHHHHHHHHHHHhh-ccCCEEEeccCCccchhHHHHHHHhhccCceeeccchhhhHHHHHHHHH
Confidence            6655432222 1222333444555666666 8999999999998754322 22222238999999999999999999988


Q ss_pred             HHHHh----CCCCeEEEEEcCCCCCCCCCCcccccccchhHHHHHhhhhhhhhhhhhcccccccccCcchhhhhhhcccc
Q psy14655        153 TMFKK----LNIPVAGLVMNMNSVLCPSCNHMFELYENNLHQFEAKNFLKSYERKLYGIHMWNFLIPLCNLIIKIRNVAY  228 (261)
Q Consensus       153 ~~l~~----~~~~~~giv~N~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~ip~~~~~~~~~~~~~  228 (261)
                      +.++.    .+.++.++|+|+.+..             .....     .++ ..+.+|.+++. .||        ++..+
T Consensus       163 ~~i~~~~~~~~~~~~~vv~N~~~~~-------------~~~~~-----~~~-~~~~~~~~~~~-~IP--------~d~~i  214 (269)
T d1cp2a_         163 KGIQKYAKSGGVRLGGIICNSRKVA-------------NEYEL-----LDA-FAKELGSQLIH-FVP--------RSPMV  214 (269)
T ss_dssp             HHHHHHBTTBBCEEEEEEEECCSSS-------------CCHHH-----HHH-HHHHHTCCEEE-EEC--------CCHHH
T ss_pred             HHHHhhccccceeccceEEeeecCC-------------Cccch-----hhh-hHhhcCCeEEE-EEe--------cCHHH
Confidence            87765    3556789999985531             11111     111 12336766665 499        88899


Q ss_pred             CCCCCCCCcchhhhhhhhcccc
Q psy14655        229 GNSHGHGNTVHHHHVLNLIGEE  250 (261)
Q Consensus       229 ~~a~~~g~~v~~~~~~~~~~~~  250 (261)
                      .+|...|+|++++.+.+.++..
T Consensus       215 ~~a~~~g~~v~~~~p~s~~a~~  236 (269)
T d1cp2a_         215 TKAEINKQTVIEYDPTCEQAEE  236 (269)
T ss_dssp             HHHHHTTSCHHHHCTTSHHHHH
T ss_pred             HHHHHCCCCeEEECcCCHHHHH
Confidence            9999999999988776555443

>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=99.88  E-value=4.8e-24  Score=177.54  Aligned_cols=168  Identities=14%  Similarity=0.107  Sum_probs=102.7

Q ss_pred             cccCCCCCcHHHHHHHHHHHHHhcCCCCeEEEEecCCCCCCcccccCCCCCCCCCcCCcccc-----------------c
Q psy14655          2 IASSKGGVGKSTTTVNLATAMKICYPDKEIGILDADVFGPSIPILMNLPDTPLLNKDNLMIP-----------------L   64 (261)
Q Consensus         2 v~s~KGGvGKTT~a~~lA~~la~~g~~~~VllvD~D~~~~~~~~~~~~~~~~~~~~~~~~~~-----------------~   64 (261)
                      |+|+||||||||+|+|||.+||++|  +|||+||+|||. +++..||.+.............                 .
T Consensus        12 ~~sGKGGVGKTTvaa~lA~~lA~~G--~rVLlvD~Dp~~-~l~~~lg~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   88 (296)
T d1ihua1          12 FFTGKGGVGKTSISCATAIRLAEQG--KRVLLVSTDPAS-NVGQVFSQTIGNTIQAIASVPGLSALEIDPQAAAQQYRAR   88 (296)
T ss_dssp             EEECSTTSSHHHHHHHHHHHHHHTT--CCEEEEECCTTC-CHHHHTTSCCCSSCEECTTSTTEEEEECCHHHHHHHHHHH
T ss_pred             EEECCCcChHHHHHHHHHHHHHHCC--CCEEEEeCCCCC-CHHHHhCCCCcccccccccccccchhccChhhHHHHHHhh
Confidence            6899999999999999999999999  999999999986 6788888764322111000000                 0


Q ss_pred             cccCceeecCCCCcccchh-hhhhchHHHHHHHHHHHHhc----cCCCCEEEEeCCCCCChhHHHHh-------------
Q psy14655         65 VNYGVKCLSMGNLITEKSA-AIWRGLMVMQALNKLTVQVQ----WGPCDILFIDTPPGTGDTHLSLI-------------  126 (261)
Q Consensus        65 ~~~~l~~~~~~~~~~~~~~-~~~~~~~~~~~l~~~l~~l~----~~~yd~IiiD~~~~~~~~~~~~~-------------  126 (261)
                      ...++..++.......... ...........+..+...+.    ..+||+||+||||+.+......+             
T Consensus        89 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~yD~iviD~pp~~~~l~~~~l~~~~~~~~~~~~~  168 (296)
T d1ihua1          89 IVDPIKGVLPDDVVSSINEQLSGACTTEIAAFDEFTGLLTDASLLTRFDHIIFDTAPTGHTIRLLQLPGAWSSFIDSNPE  168 (296)
T ss_dssp             HHGGGTTTSCHHHHHHHHHHTSSHHHHHHHHHHHHHHHHHCTTHHHHCSEEEESSCCCHHHHHHHHCGGGGTCCC-----
T ss_pred             ccchhhhcccccchhhhHHhhhhhhhhhHHHHHHHHHHHHHhhhcccceEEEeccCCCchHHHHHhHHHHHHHHHhhccc
Confidence            0001111111000000000 00000011111222222111    25799999999997653322111             


Q ss_pred             -------------------------hhcCCCeEEEEeCCCcchHHHHHHHHHHHHhCCCCeEEEEEcCCCC
Q psy14655        127 -------------------------QNLFIDTAIIITIPDTMSLQVAQRGYTMFKKLNIPVAGLVMNMNSV  172 (261)
Q Consensus       127 -------------------------~~~~ad~viiv~~~~~~s~~~~~~~~~~l~~~~~~~~giv~N~~~~  172 (261)
                                               .....+.+++|+.|+..++.++.++++.+.+.+++..++|+||+.+
T Consensus       169 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~t~~~lVt~pe~~~~~~~~r~~~~l~~~gi~~~~vVvN~v~p  239 (296)
T d1ihua1         169 GASCLGPMAGLEKQREQYAYAVEALSDPKRTRLVLVARLQKSTLQEVARTHLELAAIGLKNQYLVINGVLP  239 (296)
T ss_dssp             -CCCCGGGGGCCSCHHHHHHHHHHHHCTTTEEEEEEEESCHHHHHHHHHHHHHHHHHTCCCEEEEEEEECC
T ss_pred             hhhhcccccchhHHHHHHHHHHhhccCcccceeeEecCcchhHHHHHHHHHHHHHhcCCCceEEEEcCCcC
Confidence                                     1111235789999999999999999999999999999999999653

>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=99.87  E-value=2.8e-23  Score=171.70  Aligned_cols=167  Identities=15%  Similarity=0.139  Sum_probs=95.0

Q ss_pred             CcccCCCCCcHHHHHHHHHHHHHhcCCCCeEEEEecCCCCCCcccccCCCCCCCCCcCCc--------ccccc-ccCcee
Q psy14655          1 MIASSKGGVGKSTTTVNLATAMKICYPDKEIGILDADVFGPSIPILMNLPDTPLLNKDNL--------MIPLV-NYGVKC   71 (261)
Q Consensus         1 ~v~s~KGGvGKTT~a~~lA~~la~~g~~~~VllvD~D~~~~~~~~~~~~~~~~~~~~~~~--------~~~~~-~~~l~~   71 (261)
                      +|+|+||||||||+|+|||.+||++|  +|||+||+|+|+ +++.+|+............        ..... ..+...
T Consensus        23 ii~sGKGGVGKTT~a~nLA~~lA~~G--~rVllvD~Dp~~-~l~~~lg~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   99 (279)
T d1ihua2          23 IMLMGKGGVGKTTMAAAIAVRLADMG--FDVHLTTSDPAA-HLSMTLNGSLNNLQVSRIDPHEETERYRQHVLETKGKEL   99 (279)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHHHHTT--CCEEEEESCCC------------CCEEEEECCHHHHHHHHHHHHHHHHHTTC
T ss_pred             EEEECCCCCCHHHHHHHHHHHHHHCC--CcEEEEeCCCCC-ChHHHhCCccccccccccccchhhHHHHHhhhhcccccc
Confidence            37899999999999999999999999  999999999996 5667777654322111000        00000 000000


Q ss_pred             ecCCCCcccchhhhhhchHHHHHHHHHHHHhccCCCCEEEEeCCCCCChhHHHH-------------------------h
Q psy14655         72 LSMGNLITEKSAAIWRGLMVMQALNKLTVQVQWGPCDILFIDTPPGTGDTHLSL-------------------------I  126 (261)
Q Consensus        72 ~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~l~~~~yd~IiiD~~~~~~~~~~~~-------------------------~  126 (261)
                      .+.+... ..................+...+...+||++++|+||+........                         .
T Consensus       100 ~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~d~~i~d~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~  178 (279)
T d1ihua2         100 DEAGKRL-LEEDLRSPCTEEIAVFQAFSRVIREAGKRFVVMDTAPTGHTLLLLDATGAYHREIAKKMGEKGHFTTPMMLL  178 (279)
T ss_dssp             CHHHHHH-HHHHTTSHHHHHHHHHHHHTTTGGGGGTSEEEESCCCCHHHHHHHHHC------------------CCHHHH
T ss_pred             ccccccc-chhhhcccchHHHHHHHHHHHHHhhcccccccccCCCchhHHHHHHHHHHHHhhHHHHhcchhhHHHHhhhc
Confidence            0000000 0000001111111122233333334689999999998633211100                         0


Q ss_pred             hhcCCCeEEEEeCCCcchHHHHHHHHHHHHhCCCCeEEEEEcCCC
Q psy14655        127 QNLFIDTAIIITIPDTMSLQVAQRGYTMFKKLNIPVAGLVMNMNS  171 (261)
Q Consensus       127 ~~~~ad~viiv~~~~~~s~~~~~~~~~~l~~~~~~~~giv~N~~~  171 (261)
                      ....+|.+++|+.|+..+..++.++++.+.+.+.+..++|+||+.
T Consensus       179 ~~~~~~~~vlV~~p~~~~~~~~~r~~~~l~~~~~~~~~iV~N~~~  223 (279)
T d1ihua2         179 QDPERTKVLLVTLPETTPVLEAANLQADLERAGIHPWGWIINNSL  223 (279)
T ss_dssp             HCTTTEEEEEEECSSHHHHHHHHHHHHHHHHTTCCCCEEEEEEES
T ss_pred             cccccccceEeccccHhHHHHHHHHHHHHHhcCCCccEEEEcCCc
Confidence            111146789999999999999999999999999999999999854

>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=99.82  E-value=2.3e-20  Score=148.37  Aligned_cols=205  Identities=11%  Similarity=0.027  Sum_probs=122.9

Q ss_pred             cccCCC-CCcHHHHHHHHHHHHHhcCCCCeEEEEecCCCCCCcccccCCCCCCCC--CcCCccccccccCceeecCCCCc
Q psy14655          2 IASSKG-GVGKSTTTVNLATAMKICYPDKEIGILDADVFGPSIPILMNLPDTPLL--NKDNLMIPLVNYGVKCLSMGNLI   78 (261)
Q Consensus         2 v~s~KG-GvGKTT~a~~lA~~la~~g~~~~VllvD~D~~~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~l~~~~~~~~~   78 (261)
                      |++++| ||||||+|+|||.+|+++|  +||++||.|+|++. ...++.......  ....... .........+.....
T Consensus         5 ~i~gt~~GVGKTtvs~~La~aLa~~G--~rVl~id~d~~g~~-~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~   80 (224)
T d1byia_           5 FVTGTDTEVGKTVASCALLQAAKAAG--YRTAGYKPVASGSE-KTPEGLRNSDALALQRNSSLQ-LDYATVNPYTFAEPT   80 (224)
T ss_dssp             EEEESSTTSCHHHHHHHHHHHHHHTT--CCEEEECSEEESCB-CCTTSCBCHHHHHHHHTCSSC-CCHHHHCSEEESSCS
T ss_pred             EEEECCCCccHHHHHHHHHHHHHHCC--CeEEEECccccCCC-CCCCCcchhHHHHHHHhhccC-cccccccccccccch
Confidence            678888 9999999999999999999  99999999999753 344433321100  0000000 000000000000000


Q ss_pred             -ccchhhhhhchHHHHHHHHHHHHhccCCCCEEEEeCCCCCChhH-----HHHhhhcCCCeEEEEeCCCcchHHHHHHHH
Q psy14655         79 -TEKSAAIWRGLMVMQALNKLTVQVQWGPCDILFIDTPPGTGDTH-----LSLIQNLFIDTAIIITIPDTMSLQVAQRGY  152 (261)
Q Consensus        79 -~~~~~~~~~~~~~~~~l~~~l~~l~~~~yd~IiiD~~~~~~~~~-----~~~~~~~~ad~viiv~~~~~~s~~~~~~~~  152 (261)
                       ................+...+.... ..||++++|++++.....     ...+.....+.+++|+.+...+...+....
T Consensus        81 ~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~~V~~~~~~~~~~~~~~~  159 (224)
T d1byia_          81 SPHIISAQEGRPIESLVMSAGLRALE-QQADWVLVEGAGGWFTPLSDTFTFADWVTQEQLPVILVVGVKLGCINHAMLTA  159 (224)
T ss_dssp             CHHHHHHHHTCCCCHHHHHHHHHHHH-TTCSEEEEECSSSTTCEEETTEEHHHHHHHHTCCEEEEEECSTTHHHHHHHHH
T ss_pred             hhhhhhhhhhhhhhHHHHHHHHhhhh-hccceEeecccccccccccccchhhcccccccceeeEEEeeccchhHHHHHHH
Confidence             0111111111223344566666666 899999999998764211     111111116788889999999999999999


Q ss_pred             HHHHhCCCCeEEEEEcCCCCCCCCCCcccccccchhHHHHHhhhhhhhhhhhhcccccccccCcchhhhhhhccccCCCC
Q psy14655        153 TMFKKLNIPVAGLVMNMNSVLCPSCNHMFELYENNLHQFEAKNFLKSYERKLYGIHMWNFLIPLCNLIIKIRNVAYGNSH  232 (261)
Q Consensus       153 ~~l~~~~~~~~giv~N~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~ip~~~~~~~~~~~~~~~a~  232 (261)
                      +.+++.+....|+|+|+++...+       ...+.          .+..++.+|.+++. .||        +.....+..
T Consensus       160 ~~~~~~~~~~~gvv~N~~~~~~~-------~~~~~----------~~~l~~~~gi~vlG-~IP--------~~~~~~e~~  213 (224)
T d1byia_         160 QVIQHAGLTLAGWVANDVTPPGK-------RHAEY----------MTTLTRMIPAPLLG-EIP--------WLAENPENA  213 (224)
T ss_dssp             HHHHHTTCCEEEEEEECCSSCCT-------THHHH----------HHHHHHHSSSCEEE-EEC--------CCTTCTTCC
T ss_pred             HHHhccCCccEEEEEeCcCCCch-------HHHHH----------HHHHHHHhCCCEEE-ECC--------CCCCCcccc
Confidence            99999999999999999653211       11111          12234457777774 589        776777666


Q ss_pred             CCCCc
Q psy14655        233 GHGNT  237 (261)
Q Consensus       233 ~~g~~  237 (261)
                      ..|+.
T Consensus       214 ~~~~~  218 (224)
T d1byia_         214 ATGKY  218 (224)
T ss_dssp             CCGGG
T ss_pred             ccccc
Confidence            66653

>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=98.91  E-value=2.5e-09  Score=82.84  Aligned_cols=140  Identities=19%  Similarity=0.157  Sum_probs=78.2

Q ss_pred             ccCCCCCcHHHHHHHHHHHHHhcCCCCeEEEEecCCCCCCcccccCCCCCCCCCcCCccccccccCceeecCCCCcccch
Q psy14655          3 ASSKGGVGKSTTTVNLATAMKICYPDKEIGILDADVFGPSIPILMNLPDTPLLNKDNLMIPLVNYGVKCLSMGNLITEKS   82 (261)
Q Consensus         3 ~s~KGGvGKTT~a~~lA~~la~~g~~~~VllvD~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~   82 (261)
                      ..+..||||||+++-||..++++|  ++|++|.+|..+......+....             ..-++.+.......    
T Consensus        15 lvGp~GvGKTTTiaKLA~~~~~~g--~kV~lit~Dt~R~gA~eQL~~~a-------------~~l~v~~~~~~~~~----   75 (207)
T d1ls1a2          15 LVGLQGSGKTTTAAKLALYYKGKG--RRPLLVAADTQRPAAREQLRLLG-------------EKVGVPVLEVMDGE----   75 (207)
T ss_dssp             EECCTTTTHHHHHHHHHHHHHHTT--CCEEEEECCSSCHHHHHHHHHHH-------------HHHTCCEEECCTTC----
T ss_pred             EECCCCCCHHHHHHHHHHHHHHCC--CcEEEEecccccchHHHHHHHHH-------------HhcCCccccccccc----
Confidence            357889999999999999999999  99999999988764322211100             00011121111100    


Q ss_pred             hhhhhchHHHHHHHHHHHHhccCCCCEEEEeCCCCCC--hhHH----HHhhhcCCCeEEEEeCCCcchHHHHHHHHHHHH
Q psy14655         83 AAIWRGLMVMQALNKLTVQVQWGPCDILFIDTPPGTG--DTHL----SLIQNLFIDTAIIITIPDTMSLQVAQRGYTMFK  156 (261)
Q Consensus        83 ~~~~~~~~~~~~l~~~l~~l~~~~yd~IiiD~~~~~~--~~~~----~~~~~~~ad~viiv~~~~~~s~~~~~~~~~~l~  156 (261)
                             .............+.+++|+|||||++...  ....    ........+.+++|+.+... ...........+
T Consensus        76 -------~~~~~~~~~~~~~~~~~~d~vlIDTaGr~~~d~~~~~el~~~~~~~~~~~~llv~~a~~~-~~~~~~~~~f~~  147 (207)
T d1ls1a2          76 -------SPESIRRRVEEKARLEARDLILVDTAGRLQIDEPLMGELARLKEVLGPDEVLLVLDAMTG-QEALSVARAFDE  147 (207)
T ss_dssp             -------CHHHHHHHHHHHHHHHTCCEEEEECCCCSSCCHHHHHHHHHHHHHHCCSEEEEEEEGGGT-HHHHHHHHHHHH
T ss_pred             -------hhhHHHHHHHHHHhhccCcceeecccccchhhhhhHHHHHHHHhhcCCceEEEEeccccc-hhHHHHHHHHHh
Confidence                   001111111111122789999999996432  1111    12222236888888886444 333333333344


Q ss_pred             hCCCCeEEEEEcCCC
Q psy14655        157 KLNIPVAGLVMNMNS  171 (261)
Q Consensus       157 ~~~~~~~giv~N~~~  171 (261)
                      ..+  +-++|+++.+
T Consensus       148 ~~~--~~~~I~TKlD  160 (207)
T d1ls1a2         148 KVG--VTGLVLTKLD  160 (207)
T ss_dssp             HTC--CCEEEEECGG
T ss_pred             hCC--CCeeEEeecC
Confidence            454  4688999855

>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=98.81  E-value=1e-08  Score=79.26  Aligned_cols=138  Identities=12%  Similarity=0.105  Sum_probs=79.7

Q ss_pred             CCCCCcHHHHHHHHHHHHHhcCCCCeEEEEecCCCCCCcccccCCCCCCCCCcCCccccccccCceeecCCCCcccchhh
Q psy14655          5 SKGGVGKSTTTVNLATAMKICYPDKEIGILDADVFGPSIPILMNLPDTPLLNKDNLMIPLVNYGVKCLSMGNLITEKSAA   84 (261)
Q Consensus         5 ~KGGvGKTT~a~~lA~~la~~g~~~~VllvD~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~   84 (261)
                      +--||||||+++-||+.+.++|  ++|++|-+|..+......+..-             ...-++.+......       
T Consensus        16 GptGvGKTTTiAKLA~~~~~~g--~kV~lit~Dt~R~gA~eQL~~~-------------a~~l~v~~~~~~~~-------   73 (211)
T d2qy9a2          16 GVNGVGKTTTIGKLARQFEQQG--KSVMLAAGDTFRAAAVEQLQVW-------------GQRNNIPVIAQHTG-------   73 (211)
T ss_dssp             CCTTSCHHHHHHHHHHHHHTTT--CCEEEECCCTTCHHHHHHHHHH-------------HHHTTCCEECCSTT-------
T ss_pred             CCCCCCHHHHHHHHHHHHHHCC--CcEEEEecccccccchhhhhhh-------------hhhcCCcccccccC-------
Confidence            4459999999999999999998  9999999999875321111000             00112222221111       


Q ss_pred             hhhchHHHHHHHHHHHHhccCCCCEEEEeCCCCCChhHH-------HHhhhc------CCCeEEEEeCCCcchHHHHHHH
Q psy14655         85 IWRGLMVMQALNKLTVQVQWGPCDILFIDTPPGTGDTHL-------SLIQNL------FIDTAIIITIPDTMSLQVAQRG  151 (261)
Q Consensus        85 ~~~~~~~~~~l~~~l~~l~~~~yd~IiiD~~~~~~~~~~-------~~~~~~------~ad~viiv~~~~~~s~~~~~~~  151 (261)
                          .+....+.+.++..+.++||+|||||++-. +...       ......      ..+.+++|+++... .......
T Consensus        74 ----~d~~~~l~~~~~~a~~~~~d~ilIDTaGr~-~~d~~~~~el~~l~~~~~~~~~~~p~~~~LVl~a~~~-~~~~~~~  147 (211)
T d2qy9a2          74 ----ADSASVIFDAIQAAKARNIDVLIADTAGRL-QNKSHLMEELKKIVRVMKKLDVEAPHEVMLTIDASTG-QNAVSQA  147 (211)
T ss_dssp             ----CCHHHHHHHHHHHHHHTTCSEEEECCCCCG-GGHHHHHHHHHHHHHHHTTTCTTCCSEEEEEEEGGGT-HHHHHHH
T ss_pred             ----CCHHHHHHHHHHHHHHcCCCEEEeccCCCc-cccHHHHHHHHHHHHHHhhhcccCcceeeeehhcccC-cchHHHH
Confidence                112233555555544478999999998632 2111       111110      13577777765443 3444555


Q ss_pred             HHHHHhCCCCeEEEEEcCCCC
Q psy14655        152 YTMFKKLNIPVAGLVMNMNSV  172 (261)
Q Consensus       152 ~~~l~~~~~~~~giv~N~~~~  172 (261)
                      .......+  +-++|+++.+.
T Consensus       148 ~~~~~~~~--~~~lIlTKlDe  166 (211)
T d2qy9a2         148 KLFHEAVG--LTGITLTKLDG  166 (211)
T ss_dssp             HHHHHHSC--CCEEEEECCTT
T ss_pred             hhhhhccC--CceEEEeecCC
Confidence            55666554  47899999664

>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=98.72  E-value=4.4e-08  Score=75.53  Aligned_cols=139  Identities=12%  Similarity=0.062  Sum_probs=79.3

Q ss_pred             CCCCCcHHHHHHHHHHHHHhcCCCCeEEEEecCCCCCCcccccCCCCCCCCCcCCccccccccCceeecCCCCcccchhh
Q psy14655          5 SKGGVGKSTTTVNLATAMKICYPDKEIGILDADVFGPSIPILMNLPDTPLLNKDNLMIPLVNYGVKCLSMGNLITEKSAA   84 (261)
Q Consensus         5 ~KGGvGKTT~a~~lA~~la~~g~~~~VllvD~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~   84 (261)
                      +--||||||+++-||.++.++|  ++|.+|-+|..+......+..-             ...-++.++......      
T Consensus        13 GptGvGKTTTiaKLA~~~~~~g--~kV~lit~Dt~R~gA~eQL~~~-------------a~~l~i~~~~~~~~~------   71 (207)
T d1okkd2          13 GVNGVGKTTTIAKLGRYYQNLG--KKVMFCAGDTFRAAGGTQLSEW-------------GKRLSIPVIQGPEGT------   71 (207)
T ss_dssp             CSTTSSHHHHHHHHHHHHHTTT--CCEEEECCCCSSTTHHHHHHHH-------------HHHHTCCEECCCTTC------
T ss_pred             CCCCCCHHHHHHHHHHHHHHCC--CcEEEEEeccccccchhhHhhc-------------ccccCceEEeccCCc------
Confidence            4459999999999999999999  9999999999876532211100             001122222211111      


Q ss_pred             hhhchHHHHHHHHHHHHhccCCCCEEEEeCCCCCCh--hHH----HHhhh------cCCCeEEEEeCCCcchHHHHHHHH
Q psy14655         85 IWRGLMVMQALNKLTVQVQWGPCDILFIDTPPGTGD--THL----SLIQN------LFIDTAIIITIPDTMSLQVAQRGY  152 (261)
Q Consensus        85 ~~~~~~~~~~l~~~l~~l~~~~yd~IiiD~~~~~~~--~~~----~~~~~------~~ad~viiv~~~~~~s~~~~~~~~  152 (261)
                           +....+.+.+...+.++||+|||||++-...  ...    .....      ...+.+++|+.+.... .++....
T Consensus        72 -----d~~~~~~~~~~~~~~~~~d~ilIDTaGr~~~d~~l~~el~~~~~~~~~~~~~~p~~~~LVl~a~~~~-~~~~~~~  145 (207)
T d1okkd2          72 -----DPAALAYDAVQAMKARGYDLLFVDTAGRLHTKHNLMEELKKVKRAIAKADPEEPKEVWLVLDAVTGQ-NGLEQAK  145 (207)
T ss_dssp             -----CHHHHHHHHHHHHHHHTCSEEEECCCCCCTTCHHHHHHHHHHHHHHHHHCTTCCSEEEEEEETTBCT-HHHHHHH
T ss_pred             -----cHHHHHHHHHHHHHHCCCCEEEcCccccchhhHHHHHHHHHHHHHhhhcccCCCceEEEEeecccCc-hHHHHHH
Confidence                 1222233433333336899999999974321  111    11110      0146788888755543 4444555


Q ss_pred             HHHHhCCCCeEEEEEcCCCC
Q psy14655        153 TMFKKLNIPVAGLVMNMNSV  172 (261)
Q Consensus       153 ~~l~~~~~~~~giv~N~~~~  172 (261)
                      ......++  -++|+++.+.
T Consensus       146 ~~~~~~~~--~~lI~TKlDe  163 (207)
T d1okkd2         146 KFHEAVGL--TGVIVTKLDG  163 (207)
T ss_dssp             HHHHHHCC--SEEEEECTTS
T ss_pred             HhhhccCC--ceEEEeccCC
Confidence            55555444  5889999664

>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=98.71  E-value=3.8e-08  Score=76.10  Aligned_cols=139  Identities=15%  Similarity=0.140  Sum_probs=75.0

Q ss_pred             CCCCCcHHHHHHHHHHHHHhcCCCCeEEEEecCCCCCCcccccCCCCCCCCCcCCccccccccCceeecCCCCcccchhh
Q psy14655          5 SKGGVGKSTTTVNLATAMKICYPDKEIGILDADVFGPSIPILMNLPDTPLLNKDNLMIPLVNYGVKCLSMGNLITEKSAA   84 (261)
Q Consensus         5 ~KGGvGKTT~a~~lA~~la~~g~~~~VllvD~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~   84 (261)
                      +--|+||||+++-||+.+.++|  +||.+|-+|..+......+...             ...-++.+.......      
T Consensus        19 GptGvGKTTTiAKLA~~~~~~g--~kV~lit~Dt~R~ga~eQL~~~-------------a~~l~v~~~~~~~~~------   77 (211)
T d1j8yf2          19 GVQGTGKATTAGKLAYFYKKKG--FKVGLVGADVYRPAALEQLQQL-------------GQQIGVPVYGEPGEK------   77 (211)
T ss_dssp             CSCCC----HHHHHHHHHHHTT--CCEEEEECCCSSHHHHHHHHHH-------------HHHHTCCEECCTTCC------
T ss_pred             CCCCCCHHHHHHHHHHHHHHCC--CceEEEEeeccccchhHHHHHh-------------ccccCcceeecccch------
Confidence            4459999999999999999998  9999999998875321111100             001122222111111      


Q ss_pred             hhhchHHHHHHHHHHHHhccCCCCEEEEeCCCCC--Ch-h-----HHHHhhhcCCCeEEEEeCCCcchHHHHHHHHHHHH
Q psy14655         85 IWRGLMVMQALNKLTVQVQWGPCDILFIDTPPGT--GD-T-----HLSLIQNLFIDTAIIITIPDTMSLQVAQRGYTMFK  156 (261)
Q Consensus        85 ~~~~~~~~~~l~~~l~~l~~~~yd~IiiD~~~~~--~~-~-----~~~~~~~~~ad~viiv~~~~~~s~~~~~~~~~~l~  156 (261)
                           +....+.+.+...+..++|+|+|||++..  +. .     ..........+.+++|+.+.... ...........
T Consensus        78 -----~~~~~~~~a~~~~~~~~~d~IlIDTaGr~~~~~~~~~~~el~~~~~~~~~~~~~LVl~a~~~~-~~~~~~~~~~~  151 (211)
T d1j8yf2          78 -----DVVGIAKRGVEKFLSEKMEIIIVDTAGRHGYGEEAALLEEMKNIYEAIKPDEVTLVIDASIGQ-KAYDLASKFNQ  151 (211)
T ss_dssp             -----CHHHHHHHHHHHHHHTTCSEEEEECCCSCCTTCHHHHHHHHHHHHHHHCCSEEEEEEEGGGGG-GHHHHHHHHHH
T ss_pred             -----hhhHHHHHHHHHhhccCCceEEEecCCcCccchhhHHHHHHHHHHhhcCCceEEEEEecccCc-chHHHHhhhhc
Confidence                 11222334333333378999999999632  21 1     11222223367888888755432 33344444555


Q ss_pred             hCCCCeEEEEEcCCCC
Q psy14655        157 KLNIPVAGLVMNMNSV  172 (261)
Q Consensus       157 ~~~~~~~giv~N~~~~  172 (261)
                      ..+  .-++|+++.+.
T Consensus       152 ~~~--~~~lI~TKlDe  165 (211)
T d1j8yf2         152 ASK--IGTIIITKMDG  165 (211)
T ss_dssp             HCT--TEEEEEECTTS
T ss_pred             ccC--cceEEEecccC
Confidence            554  46899999664

>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=98.61  E-value=8e-08  Score=74.34  Aligned_cols=138  Identities=14%  Similarity=0.090  Sum_probs=77.6

Q ss_pred             CCCCCcHHHHHHHHHHHHHhcCCCCeEEEEecCCCCCCcccccCCCCCCCCCcCCccccccccCceeecCCCCcccchhh
Q psy14655          5 SKGGVGKSTTTVNLATAMKICYPDKEIGILDADVFGPSIPILMNLPDTPLLNKDNLMIPLVNYGVKCLSMGNLITEKSAA   84 (261)
Q Consensus         5 ~KGGvGKTT~a~~lA~~la~~g~~~~VllvD~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~   84 (261)
                      +--||||||+++-||..+.++|  ++|.+|-+|..+......+...             ...-++.+.......      
T Consensus        18 GptGvGKTTTiAKLAa~~~~~~--~kV~lit~Dt~R~gA~eQL~~~-------------a~~l~i~~~~~~~~~------   76 (213)
T d1vmaa2          18 GVNGTGKTTSCGKLAKMFVDEG--KSVVLAAADTFRAAAIEQLKIW-------------GERVGATVISHSEGA------   76 (213)
T ss_dssp             CCTTSSHHHHHHHHHHHHHHTT--CCEEEEEECTTCHHHHHHHHHH-------------HHHHTCEEECCSTTC------
T ss_pred             CCCCCCHHHHHHHHHHHHHHCC--CceEEEeecccccchhHHHHHH-------------hhhcCccccccCCCC------
Confidence            4459999999999999999999  9999999998775321111100             011122232211111      


Q ss_pred             hhhchHHHHHHHHHHHHhccCCCCEEEEeCCCCCCh--hH----HHHhhhc------CCCeEEEEeCCCcchHHHHHHHH
Q psy14655         85 IWRGLMVMQALNKLTVQVQWGPCDILFIDTPPGTGD--TH----LSLIQNL------FIDTAIIITIPDTMSLQVAQRGY  152 (261)
Q Consensus        85 ~~~~~~~~~~l~~~l~~l~~~~yd~IiiD~~~~~~~--~~----~~~~~~~------~ad~viiv~~~~~~s~~~~~~~~  152 (261)
                           +....+.......+.++||+|||||++....  ..    .......      ..+.+++|+.... ....+....
T Consensus        77 -----d~~~~~~~~~~~~~~~~~d~ilIDTaGr~~~d~~~~~el~~~~~~~~~~~~~~p~~~~LVl~a~~-~~~~~~~~~  150 (213)
T d1vmaa2          77 -----DPAAVAFDAVAHALARNKDVVIIDTAGRLHTKKNLMEELRKVHRVVKKKIPDAPHETLLVIDATT-GQNGLVQAK  150 (213)
T ss_dssp             -----CHHHHHHHHHHHHHHTTCSEEEEEECCCCSCHHHHHHHHHHHHHHGGGTCTTCCSEEEEEEEGGG-HHHHHHHHH
T ss_pred             -----cHHHHHHHHHHHHHHcCCCEEEEeccccccchHHHHHHHHHHHhhhhhccccccceeEEeecccc-Ccchhhhhh
Confidence                 1111122222221227999999999964321  11    1111110      0356788877543 355556666


Q ss_pred             HHHHhCCCCeEEEEEcCCC
Q psy14655        153 TMFKKLNIPVAGLVMNMNS  171 (261)
Q Consensus       153 ~~l~~~~~~~~giv~N~~~  171 (261)
                      ......+  +-++|+++.+
T Consensus       151 ~~~~~~~--~~~lI~TKlD  167 (213)
T d1vmaa2         151 IFKEAVN--VTGIILTKLD  167 (213)
T ss_dssp             HHHHHSC--CCEEEEECGG
T ss_pred             hhccccC--CceEEEeccc
Confidence            6666654  4789999855

>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=98.40  E-value=1.5e-06  Score=71.40  Aligned_cols=143  Identities=15%  Similarity=0.170  Sum_probs=81.4

Q ss_pred             cCCCCCcHHHHHHHHHHHHHhcCCCCeEEEEecCCCCCCcccccCCCCCCCCCcCCccccc-cccCceeecCCCCcccch
Q psy14655          4 SSKGGVGKSTTTVNLATAMKICYPDKEIGILDADVFGPSIPILMNLPDTPLLNKDNLMIPL-VNYGVKCLSMGNLITEKS   82 (261)
Q Consensus         4 s~KGGvGKTT~a~~lA~~la~~g~~~~VllvD~D~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~l~~~~~~~~~~~~~   82 (261)
                      .+-.|+||||+.-.|+..+...|  ++|.+|-.||..+-..-       ..+.+....... ..+++.+-+..... ...
T Consensus        57 tG~pGaGKSTli~~l~~~~~~~g--~~vaViavDpss~~~gg-------~llgdr~rm~~~~~~~~~~ir~~~~~~-~~g  126 (323)
T d2qm8a1          57 TGVPGVGKSTTIDALGSLLTAAG--HKVAVLAVDPSSTRTGG-------SILGDKTRMARLAIDRNAFIRPSPSSG-TLG  126 (323)
T ss_dssp             ECCTTSCHHHHHHHHHHHHHHTT--CCEEEEEECGGGGSSCC-------CSSCCGGGSTTGGGCTTEEEECCCCCS-SHH
T ss_pred             eCCCCCCHHHHHHHHHHHHhhcC--CceeeeecccccHHHHh-------ccccchhhHHHHhcccceeeccccccc-ccc
Confidence            56789999999999999999999  99999999998653211       111111111111 22333333322111 111


Q ss_pred             hhhhhchHHHHHHHHHHHHhccCCCCEEEEeCCCCCChhHHHHhhhcCCCeEEEEeCCCcchHHHHHHHHHHHHhCCCCe
Q psy14655         83 AAIWRGLMVMQALNKLTVQVQWGPCDILFIDTPPGTGDTHLSLIQNLFIDTAIIITIPDTMSLQVAQRGYTMFKKLNIPV  162 (261)
Q Consensus        83 ~~~~~~~~~~~~l~~~l~~l~~~~yd~IiiD~~~~~~~~~~~~~~~~~ad~viiv~~~~~~s~~~~~~~~~~l~~~~~~~  162 (261)
                             .........+..+...+||+|||-|-+ .+.........  +|..+++..|...+--+..+ ...++-.+   
T Consensus       127 -------g~~~~~~~~i~~~~~~g~d~iiiETVG-~gq~e~~~~~~--~D~~v~v~~p~~GD~iQ~~k-~gilE~aD---  192 (323)
T d2qm8a1         127 -------GVAAKTRETMLLCEAAGFDVILVETVG-VGQSETAVADL--TDFFLVLMLPGAGDELQGIK-KGIFELAD---  192 (323)
T ss_dssp             -------HHHHHHHHHHHHHHHTTCCEEEEEECS-SSSCHHHHHTT--SSEEEEEECSCC------CC-TTHHHHCS---
T ss_pred             -------chhHHHHHHHHhhccCCCCeEEEeehh-hhhhhhhhhcc--cceEEEEeeccchhhhhhhh-hhHhhhhh---
Confidence                   122234444444444789999999985 44333344454  99999999988764322211 11333333   


Q ss_pred             EEEEEcCCC
Q psy14655        163 AGLVMNMNS  171 (261)
Q Consensus       163 ~giv~N~~~  171 (261)
                       -+|+|+++
T Consensus       193 -i~vvNKaD  200 (323)
T d2qm8a1         193 -MIAVNKAD  200 (323)
T ss_dssp             -EEEEECCS
T ss_pred             -eeeEeccc
Confidence             28999966

>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=98.32  E-value=1.9e-06  Score=69.04  Aligned_cols=65  Identities=17%  Similarity=0.178  Sum_probs=54.8

Q ss_pred             cCCCCEEEEeCCCCCC--hhHHHHhhhcCCCeEEEEeCCCcchHHHHHHHHHHHHhCCCCeEEEEEcCCC
Q psy14655        104 WGPCDILFIDTPPGTG--DTHLSLIQNLFIDTAIIITIPDTMSLQVAQRGYTMFKKLNIPVAGLVMNMNS  171 (261)
Q Consensus       104 ~~~yd~IiiD~~~~~~--~~~~~~~~~~~ad~viiv~~~~~~s~~~~~~~~~~l~~~~~~~~giv~N~~~  171 (261)
                      ++++.+-|+|||+..+  ..+..++..  +|..|+|+++...--.++.++.+.+++.++|.+ +++|+.+
T Consensus        68 ~~~~~~n~iDtPG~~dF~~e~~~~l~~--~D~avlVvda~~Gv~~~T~~~w~~a~~~~lP~i-~fINKmD  134 (276)
T d2bv3a2          68 WKDHRINIIDAPGHVDFTIEVERSMRV--LDGAIVVFDSSQGVEPQSETVWRQAEKYKVPRI-AFANKMD  134 (276)
T ss_dssp             ETTEEEEEECCCSSSSCSTTHHHHHHH--CCEEEEEEETTTSSCHHHHHHHHHHHTTTCCEE-EEEECTT
T ss_pred             cCCeEEEEecCCchhhhHHHHHHHHHh--hhheEEeccccCCcchhHHHHHHHHHHcCCCEE-EEEeccc
Confidence            3678899999998653  445666776  999999999999999999999999999999966 7888854

>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=98.18  E-value=4.9e-06  Score=68.41  Aligned_cols=142  Identities=13%  Similarity=0.094  Sum_probs=74.1

Q ss_pred             cCCCCCcHHHHHHHHHHHHHhcCCCCeEEEEecCCCCCCcc-cccCCCCCCCCCcCCcccc-ccccCceeecCCCCcccc
Q psy14655          4 SSKGGVGKSTTTVNLATAMKICYPDKEIGILDADVFGPSIP-ILMNLPDTPLLNKDNLMIP-LVNYGVKCLSMGNLITEK   81 (261)
Q Consensus         4 s~KGGvGKTT~a~~lA~~la~~g~~~~VllvD~D~~~~~~~-~~~~~~~~~~~~~~~~~~~-~~~~~l~~~~~~~~~~~~   81 (261)
                      .+-.|+||||+.-.|+..+...|  ++|.++-.||..+-.. .++|-        .-.... ...+++.+.+...... .
T Consensus        60 tG~pGaGKSTLi~~l~~~~~~~g--~~vavlavDpss~~~ggailgd--------r~rm~~~~~~~~~~ir~~~~~g~-l  128 (327)
T d2p67a1          60 TGTPGAGKSTFLEAFGMLLIREG--LKVAVIAVDPSSPVTGGSILGD--------KTRMNDLARAEAAFIRPVPSSGH-L  128 (327)
T ss_dssp             EECTTSCHHHHHHHHHHHHHHTT--CCEEEEEECCC-----------------------CTTTTCTTEEEEEECC-----
T ss_pred             eCCCCCCHHHHHHHHHHHHHhcC--CceeeecCCCceeeeccccccc--------hhHHHHhcccccccccccccccc-c
Confidence            45689999999999999999999  9999999999875321 11111        111111 1122333333221110 0


Q ss_pred             hhhhhhchHHHHHHHHHHHHhccCCCCEEEEeCCCCCChhHHHHhhhcCCCeEEEEeCCCcchHHHHHHHHHHHHhCCCC
Q psy14655         82 SAAIWRGLMVMQALNKLTVQVQWGPCDILFIDTPPGTGDTHLSLIQNLFIDTAIIITIPDTMSLQVAQRGYTMFKKLNIP  161 (261)
Q Consensus        82 ~~~~~~~~~~~~~l~~~l~~l~~~~yd~IiiD~~~~~~~~~~~~~~~~~ad~viiv~~~~~~s~~~~~~~~~~l~~~~~~  161 (261)
                      .       .........+..+...+||+||+.|-+ .+.........  +|.+++|+.|+..+-..... ...++-.+  
T Consensus       129 g-------g~~~~~~~~~~~~~~~g~d~iliEtvG-~gq~e~~i~~~--aD~~l~v~~P~~Gd~iq~~k-~gi~e~aD--  195 (327)
T d2p67a1         129 G-------GASQRARELMLLCEAAGYDVVIVETVG-VGQSETEVARM--VDCFISLQIAGGGDDLQGIK-KGLMEVAD--  195 (327)
T ss_dssp             --------CHHHHHHHHHHHHHHTTCSEEEEEEEC-CTTHHHHHHTT--CSEEEEEECC------CCCC-HHHHHHCS--
T ss_pred             c-------cchhhhhHHHHHHHhcCCCeEEEeecc-ccccchhhhhc--cceEEEEecCCCchhhhhhc-hhhhcccc--
Confidence            0       011123333333333789999999985 44444445555  99999999987764322211 11233332  


Q ss_pred             eEEEEEcCCC
Q psy14655        162 VAGLVMNMNS  171 (261)
Q Consensus       162 ~~giv~N~~~  171 (261)
                        .+|+|+++
T Consensus       196 --i~VvNKaD  203 (327)
T d2p67a1         196 --LIVINKDD  203 (327)
T ss_dssp             --EEEECCCC
T ss_pred             --EEEEEeec
Confidence              37889965

>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=97.88  E-value=3.9e-05  Score=58.56  Aligned_cols=66  Identities=12%  Similarity=0.165  Sum_probs=53.3

Q ss_pred             cCCCCEEEEeCCCCCChh--HHHHhhhcCCCeEEEEeCCCcchHHHHHHHHHHHHhCCCCeEEEEEcCCC
Q psy14655        104 WGPCDILFIDTPPGTGDT--HLSLIQNLFIDTAIIITIPDTMSLQVAQRGYTMFKKLNIPVAGLVMNMNS  171 (261)
Q Consensus       104 ~~~yd~IiiD~~~~~~~~--~~~~~~~~~ad~viiv~~~~~~s~~~~~~~~~~l~~~~~~~~giv~N~~~  171 (261)
                      ++++.+.|+|||+..+..  +...+..  ||.+|+|+.....-..++.+.+..+...+++.+-+++|+.+
T Consensus        64 ~~~~~i~iiDtPGh~df~~~~~~~~~~--aD~avlVvda~~Gv~~qt~~~~~~~~~~gi~~iiv~iNK~D  131 (204)
T d2c78a3          64 TAKRHYSHVDCPGHADYIKNMITGAAQ--MDGAILVVSAADGPMPQTREHILLARQVGVPYIVVFMNKVD  131 (204)
T ss_dssp             CSSCEEEEEECCCSGGGHHHHHHHHTT--CSSEEEEEETTTCCCHHHHHHHHHHHHTTCCCEEEEEECGG
T ss_pred             eCCeEEEEEeCCCchhhHHHHHHHHHH--CCEEEEEEECCCCCcHHHHHHHHHHHHcCCCeEEEEEEecc
Confidence            378899999999765433  3344444  99999999988888888999999999999987778899966

>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=97.79  E-value=5.4e-05  Score=55.49  Aligned_cols=36  Identities=17%  Similarity=0.046  Sum_probs=30.6

Q ss_pred             cCCCCCcHHHHHHHHHHHHHhcCCCCeEEEEecCCCCC
Q psy14655          4 SSKGGVGKSTTTVNLATAMKICYPDKEIGILDADVFGP   41 (261)
Q Consensus         4 s~KGGvGKTT~a~~lA~~la~~g~~~~VllvD~D~~~~   41 (261)
                      .+.-|+||||+...|+..|..+|  .+|.+|..|....
T Consensus         7 ~G~~gSGKTTli~~l~~~L~~~g--~~v~vik~d~~~~   42 (165)
T d1xjca_           7 VGYKHSGKTTLMEKWVAAAVREG--WRVGTVKHHGHGG   42 (165)
T ss_dssp             ECCTTSSHHHHHHHHHHHHHHTT--CCEEEEECCC---
T ss_pred             EeCCCCCHHHHHHHHHHHHHhCC--CeEEEEEeccCcc
Confidence            45669999999999999999999  9999999997753

>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=97.73  E-value=2.5e-05  Score=62.15  Aligned_cols=64  Identities=14%  Similarity=0.245  Sum_probs=52.7

Q ss_pred             CCCCEEEEeCCCCCC--hhHHHHhhhcCCCeEEEEeCCCcchHHHHHHHHHHHHhCCCCeEEEEEcCCC
Q psy14655        105 GPCDILFIDTPPGTG--DTHLSLIQNLFIDTAIIITIPDTMSLQVAQRGYTMFKKLNIPVAGLVMNMNS  171 (261)
Q Consensus       105 ~~yd~IiiD~~~~~~--~~~~~~~~~~~ad~viiv~~~~~~s~~~~~~~~~~l~~~~~~~~giv~N~~~  171 (261)
                      +++.+-+||||+..+  ..+..++..  +|.+++|+++...-..++.+..+.+.+.+++.+ +++|+.+
T Consensus        65 ~~~~~n~iDtPGh~dF~~e~~~al~~--~D~avlvvda~~Gv~~~t~~~~~~~~~~~~p~~-i~iNk~D  130 (267)
T d2dy1a2          65 RGHRVFLLDAPGYGDFVGEIRGALEA--ADAALVAVSAEAGVQVGTERAWTVAERLGLPRM-VVVTKLD  130 (267)
T ss_dssp             TTEEEEEEECCCSGGGHHHHHHHHHH--CSEEEEEEETTTCSCHHHHHHHHHHHHTTCCEE-EEEECGG
T ss_pred             cccceeEEccCchhhhhhhhhhhhcc--cCceEEEeeccCCccchhHHHHHhhhhcccccc-ccccccc
Confidence            677899999998765  334556666  999999999999888999999999999999865 6789844

>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=97.48  E-value=5.9e-05  Score=57.24  Aligned_cols=37  Identities=8%  Similarity=0.076  Sum_probs=33.2

Q ss_pred             cccCCCCCcHHHHHHHHHHHHHhcCCCCeEEEEecCCCC
Q psy14655          2 IASSKGGVGKSTTTVNLATAMKICYPDKEIGILDADVFG   40 (261)
Q Consensus         2 v~s~KGGvGKTT~a~~lA~~la~~g~~~~VllvD~D~~~   40 (261)
                      ++.+..|+||||+|..||..+...+  .++-+++.|...
T Consensus         6 ~l~GlpgsGKSTla~~L~~~l~~~~--~~~~~~~~D~~r   42 (213)
T d1bifa1           6 VMVGLPARGKTYISKKLTRYLNFIG--VPTREFNVGQYR   42 (213)
T ss_dssp             EEECCTTSSHHHHHHHHHHHHHHTT--CCEEEEEHHHHH
T ss_pred             EEECCCCCCHHHHHHHHHHHHHhcC--CCCeEEccccee
Confidence            5668899999999999999999999  999999999643

>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=97.38  E-value=0.00048  Score=53.11  Aligned_cols=37  Identities=16%  Similarity=0.172  Sum_probs=30.4

Q ss_pred             cccCCCCCcHHHHHHHHHHHHHhcCCCCeEEEEecCCCCC
Q psy14655          2 IASSKGGVGKSTTTVNLATAMKICYPDKEIGILDADVFGP   41 (261)
Q Consensus         2 v~s~KGGvGKTT~a~~lA~~la~~g~~~~VllvD~D~~~~   41 (261)
                      ++.+--|+||||+.-+|...+. .+  +++.+|.+|+...
T Consensus         4 ~v~G~~GsGKTTLl~~ll~~~~-~~--~~~~ivn~d~~~~   40 (244)
T d1yrba1           4 VFVGTAGSGKTTLTGEFGRYLE-DN--YKVAYVNLDTGVK   40 (244)
T ss_dssp             EEECSTTSSHHHHHHHHHHHHT-TT--SCEEEEECCSSCS
T ss_pred             EEEcCCCCcHHHHHHHHHHHHh-hC--CeEEEEecCcccc
Confidence            4566779999999999988764 55  8999999998853

>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=97.34  E-value=9.4e-05  Score=53.91  Aligned_cols=37  Identities=19%  Similarity=0.143  Sum_probs=32.3

Q ss_pred             ccCCCCCcHHHHHHHHHHHHHhcCCCCeEEEEecCCCCC
Q psy14655          3 ASSKGGVGKSTTTVNLATAMKICYPDKEIGILDADVFGP   41 (261)
Q Consensus         3 ~s~KGGvGKTT~a~~lA~~la~~g~~~~VllvD~D~~~~   41 (261)
                      +.+.-|+||||++..|+..|.++|  .+|.+++.|+...
T Consensus         7 itG~~GSGKTTL~~~L~~~l~~~g--~~v~v~~~d~~~~   43 (170)
T d1np6a_           7 FAAWSGTGKTTLLKKLIPALCARG--IRPGLIKHTHHDM   43 (170)
T ss_dssp             EECCTTSCHHHHHHHHHHHHHHTT--CCEEEEEECCC--
T ss_pred             EEcCCCCCHHHHHHHHHHHHHHCC--CeEEEeccccccc
Confidence            456679999999999999999999  9999999998754

>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=97.26  E-value=6.6e-05  Score=55.37  Aligned_cols=38  Identities=16%  Similarity=0.146  Sum_probs=34.4

Q ss_pred             cccCCCCCcHHHHHHHHHHHHHhcCCCCeEEEEecCCCCC
Q psy14655          2 IASSKGGVGKSTTTVNLATAMKICYPDKEIGILDADVFGP   41 (261)
Q Consensus         2 v~s~KGGvGKTT~a~~lA~~la~~g~~~~VllvD~D~~~~   41 (261)
                      +..+..|+||||++..++..|...|  .+|.++.+++...
T Consensus         5 ~ItG~~GtGKTtl~~~i~~~l~~~~--~~v~~~~~~~~~~   42 (189)
T d2i3ba1           5 FLTGPPGVGKTTLIHKASEVLKSSG--VPVDGFYTEEVRQ   42 (189)
T ss_dssp             EEESCCSSCHHHHHHHHHHHHHHTT--CCCEEEECCEEET
T ss_pred             EEECCCCCcHHHHHHHHHHHHHHCC--CEEEEEEeccccc
Confidence            5679999999999999999999999  9999999998653

>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=97.04  E-value=0.00049  Score=51.88  Aligned_cols=66  Identities=8%  Similarity=0.136  Sum_probs=50.7

Q ss_pred             CCCCEEEEeCCCCCChh--HHHHhhhcCCCeEEEEeCCCcchHHHHHHHHHHHHhCCCCeEEEEEcCCCC
Q psy14655        105 GPCDILFIDTPPGTGDT--HLSLIQNLFIDTAIIITIPDTMSLQVAQRGYTMFKKLNIPVAGLVMNMNSV  172 (261)
Q Consensus       105 ~~yd~IiiD~~~~~~~~--~~~~~~~~~ad~viiv~~~~~~s~~~~~~~~~~l~~~~~~~~giv~N~~~~  172 (261)
                      .++.+.++|||+..+..  +...+..  +|.+++|++....-..++.+.+..+...+.+.+-+++|+.+.
T Consensus        64 ~~~~~~~iDtPGh~~f~~~~~~~~~~--aD~allVVda~~G~~~QT~~~~~~a~~~~~~~iIv~iNK~D~  131 (196)
T d1d2ea3          64 AARHYAHTDCPGHADYVKNMITGTAP--LDGCILVVAANDGPMPQTREHLLLARQIGVEHVVVYVNKADA  131 (196)
T ss_dssp             SSCEEEEEECSSHHHHHHHHHHTSSC--CSEEEEEEETTTCSCHHHHHHHHHHHHTTCCCEEEEEECGGG
T ss_pred             ceeeEEeecCcchHHHHHHHHHHHhh--cCeEEEEEEcCCCCchhHHHHHHHHHHhcCCcEEEEEecccc
Confidence            67899999999644322  2233333  999999999888777788888999999888777788999663

>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=96.63  E-value=0.0031  Score=45.73  Aligned_cols=41  Identities=12%  Similarity=0.071  Sum_probs=30.6

Q ss_pred             CCeEEEEeCCCcchHHHHHHHHHHHHhCCCCeEEEEEcCCCC
Q psy14655        131 IDTAIIITIPDTMSLQVAQRGYTMFKKLNIPVAGLVMNMNSV  172 (261)
Q Consensus       131 ad~viiv~~~~~~s~~~~~~~~~~l~~~~~~~~giv~N~~~~  172 (261)
                      ||.++++..++.........+++.+++.+.+.+ +|+|+++.
T Consensus        81 ad~i~~~~~~~~~~~~~~~~~~~~l~~~~~pvi-iv~NK~Dl  121 (171)
T d1mkya1          81 ADLVLFVVDGKRGITKEDESLADFLRKSTVDTI-LVANKAEN  121 (171)
T ss_dssp             CSEEEEEEETTTCCCHHHHHHHHHHHHHTCCEE-EEEESCCS
T ss_pred             CcEEEEeeccccccccccccccccccccccccc-ccchhhhh
Confidence            788888888766666666677788888788754 88899663

>d1g5ta_ c.37.1.11 (A:) ATP:corrinoid adenosyltransferase CobA {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: RecA protein-like (ATPase-domain)
domain: ATP:corrinoid adenosyltransferase CobA
species: Salmonella typhimurium [TaxId: 90371]

Probab=96.45  E-value=0.0099  Score=42.58  Aligned_cols=30  Identities=23%  Similarity=0.241  Sum_probs=26.6

Q ss_pred             CCCcHHHHHHHHHHHHHhcCCCCeEEEEecCC
Q psy14655          7 GGVGKSTTTVNLATAMKICYPDKEIGILDADV   38 (261)
Q Consensus         7 GGvGKTT~a~~lA~~la~~g~~~~VllvD~D~   38 (261)
                      -|=||||-|..+|...+-+|  +||++|=+==
T Consensus        11 ~GKGKTTAAlG~alRA~G~G--~rV~ivQFlK   40 (157)
T d1g5ta_          11 NGKGKTTAAFGTAARAVGHG--KNVGVVQFIK   40 (157)
T ss_dssp             SSSCHHHHHHHHHHHHHHTT--CCEEEEESSC
T ss_pred             CCCCcHHHHHHHHHHHhcCC--CEEEEEEEec
Confidence            47799999999999999999  9999997644

>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=96.45  E-value=0.0024  Score=50.34  Aligned_cols=35  Identities=14%  Similarity=0.101  Sum_probs=30.8

Q ss_pred             cCCCCCcHHHHHHHHHHHHHhcCCCCeEEEEecCCCC
Q psy14655          4 SSKGGVGKSTTTVNLATAMKICYPDKEIGILDADVFG   40 (261)
Q Consensus         4 s~KGGvGKTT~a~~lA~~la~~g~~~~VllvD~D~~~   40 (261)
                      .+-.|+||||+|.+++..+.+.|  .+|++||.....
T Consensus        63 ~G~~~sGKT~l~l~~~~~aqk~g--~~v~yiDtE~~~   97 (268)
T d1xp8a1          63 YGPESGGKTTLALAIVAQAQKAG--GTCAFIDAEHAL   97 (268)
T ss_dssp             EESTTSSHHHHHHHHHHHHHHTT--CCEEEEESSCCC
T ss_pred             ecCCccchHHHHHHHHHHHHhCC--CEEEEEECCccC
Confidence            45679999999999999999998  999999998654

>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=96.42  E-value=0.0023  Score=50.29  Aligned_cols=35  Identities=23%  Similarity=0.162  Sum_probs=31.5

Q ss_pred             cCCCCCcHHHHHHHHHHHHHhcCCCCeEEEEecCCCC
Q psy14655          4 SSKGGVGKSTTTVNLATAMKICYPDKEIGILDADVFG   40 (261)
Q Consensus         4 s~KGGvGKTT~a~~lA~~la~~g~~~~VllvD~D~~~   40 (261)
                      .+--|+||||++.+++....+.|  .+|++||.....
T Consensus        60 ~G~~gsGKTtl~l~~~~~~q~~g--~~~vyidtE~~~   94 (263)
T d1u94a1          60 YGPESSGKTTLTLQVIAAAQREG--KTCAFIDAEHAL   94 (263)
T ss_dssp             ECSTTSSHHHHHHHHHHHHHHTT--CCEEEEESSCCC
T ss_pred             ecCCCcHHHHHHHHHHHHHHcCC--CEEEEEcccccc
Confidence            45678999999999999999999  999999999764

>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=96.25  E-value=0.0012  Score=51.88  Aligned_cols=39  Identities=28%  Similarity=0.244  Sum_probs=30.7

Q ss_pred             cccCCCCCcHHHHHHHHHHHHHhcC--------CCCeEEEEecCCCC
Q psy14655          2 IASSKGGVGKSTTTVNLATAMKICY--------PDKEIGILDADVFG   40 (261)
Q Consensus         2 v~s~KGGvGKTT~a~~lA~~la~~g--------~~~~VllvD~D~~~   40 (261)
                      ++.+.+|+||||++.++|..+|..+        .+.+|++++++...
T Consensus        33 ~i~G~~G~GKS~l~l~la~~ia~g~~~~~~~~~~~~~vl~~~~E~~~   79 (274)
T d1nlfa_          33 ALVSPGGAGKSMLALQLAAQIAGGPDLLEVGELPTGPVIYLPAEDPP   79 (274)
T ss_dssp             EEEESTTSSHHHHHHHHHHHHHTCCCTTCCCCCCCCCEEEEESSSCH
T ss_pred             EEEeCCCCCHHHHHHHHHHHHHcCCCcccccccCCCceEEEeccchH
Confidence            4678899999999999999988532        12589999988653

>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=96.12  E-value=0.0024  Score=50.26  Aligned_cols=37  Identities=24%  Similarity=0.205  Sum_probs=31.9

Q ss_pred             cccCCCCCcHHHHHHHHHHHHH-hcCCCCeEEEEecCCCC
Q psy14655          2 IASSKGGVGKSTTTVNLATAMK-ICYPDKEIGILDADVFG   40 (261)
Q Consensus         2 v~s~KGGvGKTT~a~~lA~~la-~~g~~~~VllvD~D~~~   40 (261)
                      ++.+..|+||||++.++|..++ ..|  .+|+++.++...
T Consensus        39 vi~G~~G~GKT~~~~~la~~~a~~~g--~~v~~~s~E~~~   76 (277)
T d1cr2a_          39 MVTSGSGMGKSTFVRQQALQWGTAMG--KKVGLAMLEESV   76 (277)
T ss_dssp             EEECSTTSSHHHHHHHHHHHHHHTSC--CCEEEEESSSCH
T ss_pred             EEEeCCCCCHHHHHHHHHHhhhhhcc--cceeEeeeccch
Confidence            5678889999999999999876 567  999999998653

>d1zunb3 c.37.1.8 (B:16-237) Sulfate adenylate transferase subunit cysN/C, EF-Tu domain G-like domain {Pseudomonas syringae pv. tomato [TaxId: 323]}

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: Sulfate adenylate transferase subunit cysN/C, EF-Tu domain G-like domain
species: Pseudomonas syringae pv. tomato [TaxId: 323]

Probab=96.09  E-value=0.0092  Score=45.46  Aligned_cols=68  Identities=18%  Similarity=0.061  Sum_probs=53.1

Q ss_pred             CCCCEEEEeCCCCCChhHHHHhhhcCCCeEEEEeCCCcchHHHHHHHHHHHHhCCCCeEEEEEcCCCC
Q psy14655        105 GPCDILFIDTPPGTGDTHLSLIQNLFIDTAIIITIPDTMSLQVAQRGYTMFKKLNIPVAGLVMNMNSV  172 (261)
Q Consensus       105 ~~yd~IiiD~~~~~~~~~~~~~~~~~ad~viiv~~~~~~s~~~~~~~~~~l~~~~~~~~giv~N~~~~  172 (261)
                      .++.+.|+|||+..+...........+|.+++|+.....-..++...+..+...+++.+-+++|+.+.
T Consensus        87 ~~~~~~iiD~PGH~dfv~~~~~g~~~aD~ailVvda~~G~~~Qt~e~~~~~~~~gv~~iiv~vNK~D~  154 (222)
T d1zunb3          87 AKRKFIIADTPGHEQYTRNMATGASTCDLAIILVDARYGVQTQTRRHSYIASLLGIKHIVVAINKMDL  154 (222)
T ss_dssp             SSEEEEEEECCCSGGGHHHHHHHHTTCSEEEEEEETTTCSCHHHHHHHHHHHHTTCCEEEEEEECTTT
T ss_pred             cceEEEEEeccchhhhhhhhccccccCceEEEEeccccCcccchHHHHHHHHHcCCCEEEEEEEcccc
Confidence            46789999999875543322222223999999999888888888888999999999988899999775

>d1f60a3 c.37.1.8 (A:2-240) Elongation factor eEF-1alpha, 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 eEF-1alpha, N-terminal (G) domain
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=96.06  E-value=0.011  Score=45.50  Aligned_cols=68  Identities=13%  Similarity=0.062  Sum_probs=50.4

Q ss_pred             CCCCEEEEeCCCCCChhHHHHhhhcCCCeEEEEeCCCcchHH-------HHHHHHHHHHhCCCCeEEEEEcCCCC
Q psy14655        105 GPCDILFIDTPPGTGDTHLSLIQNLFIDTAIIITIPDTMSLQ-------VAQRGYTMFKKLNIPVAGLVMNMNSV  172 (261)
Q Consensus       105 ~~yd~IiiD~~~~~~~~~~~~~~~~~ad~viiv~~~~~~s~~-------~~~~~~~~l~~~~~~~~giv~N~~~~  172 (261)
                      .+|.+.|+|||+..+...........+|..|+|+.+....+.       ++...+..++..+++.+-+++|+++.
T Consensus        82 ~~~~i~iiDtPGH~df~~~~~~g~~~~D~ailvvda~~G~~e~g~~~~~QT~eh~~~~~~~gv~~iiv~iNKmD~  156 (239)
T d1f60a3          82 PKYQVTVIDAPGHRDFIKNMITGTSQADCAILIIAGGVGEFEAGISKDGQTREHALLAFTLGVRQLIVAVNKMDS  156 (239)
T ss_dssp             SSEEEEEEECCCCTTHHHHHHHSSSCCSEEEEEEECSHHHHHHHTCTTSHHHHHHHHHHHTTCCEEEEEEECGGG
T ss_pred             CCEEEEEEECCCcHHHHHHHHHHHHHhCEEEEEEECCCCccccccCchHhHHHHHHHHHHcCCCeEEEEEECCCC
Confidence            678999999998776443322222339999999998876543       56777778888999988889999663

>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=96.03  E-value=0.0068  Score=44.18  Aligned_cols=65  Identities=18%  Similarity=0.200  Sum_probs=38.5

Q ss_pred             CCCCEEEEeCCCCCCh----------hHHHHhhhcCCCeEEEEeCCCcchHHHHHHHHHHHHhC--CCCeEEEEEcCCCC
Q psy14655        105 GPCDILFIDTPPGTGD----------THLSLIQNLFIDTAIIITIPDTMSLQVAQRGYTMFKKL--NIPVAGLVMNMNSV  172 (261)
Q Consensus       105 ~~yd~IiiD~~~~~~~----------~~~~~~~~~~ad~viiv~~~~~~s~~~~~~~~~~l~~~--~~~~~giv~N~~~~  172 (261)
                      .+..++++|+|+....          .....+..  ||.+++|++.+......-..+.+.+++.  +.+ +-+|+|+++.
T Consensus        51 ~~~~~~~~DtpG~~~~~~~~~~~~~~~~~~~~~~--ad~il~v~D~~~~~~~~~~~i~~~l~~~~~~~p-iilv~NK~Dl  127 (178)
T d1wf3a1          51 GRRQIVFVDTPGLHKPMDALGEFMDQEVYEALAD--VNAVVWVVDLRHPPTPEDELVARALKPLVGKVP-ILLVGNKLDA  127 (178)
T ss_dssp             TTEEEEEEECCCCCCCCSHHHHHHHHHHHHHTSS--CSEEEEEEETTSCCCHHHHHHHHHHGGGTTTSC-EEEEEECGGG
T ss_pred             eeeeeeecccccccccccccchhccccccccccc--ccceeeeechhhhhcccccchhhheeccccchh-hhhhhccccc
Confidence            4557888999864321          01122333  8999999886554333334556666554  334 5588999663

>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=95.93  E-value=0.0027  Score=46.86  Aligned_cols=35  Identities=14%  Similarity=0.153  Sum_probs=31.0

Q ss_pred             ccCCCCCcHHHHHHHHHHHHHhcCCCCeEEEEecCCC
Q psy14655          3 ASSKGGVGKSTTTVNLATAMKICYPDKEIGILDADVF   39 (261)
Q Consensus         3 ~s~KGGvGKTT~a~~lA~~la~~g~~~~VllvD~D~~   39 (261)
                      +++-.|+||||+|..|+..+...+  ..+..++.|..
T Consensus        27 I~G~~GSGKSTla~~L~~~l~~~~--~~~~~~~~~~~   61 (198)
T d1rz3a_          27 IDGLSRSGKTTLANQLSQTLREQG--ISVCVFHMDDH   61 (198)
T ss_dssp             EEECTTSSHHHHHHHHHHHHHHTT--CCEEEEEGGGG
T ss_pred             EECCCCCCHHHHHHHHHHHhcccc--ccceecccccc
Confidence            567889999999999999999999  99988887754

>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=95.92  E-value=0.0045  Score=48.68  Aligned_cols=35  Identities=14%  Similarity=0.109  Sum_probs=31.0

Q ss_pred             cCCCCCcHHHHHHHHHHHHHhcCCCCeEEEEecCCCC
Q psy14655          4 SSKGGVGKSTTTVNLATAMKICYPDKEIGILDADVFG   40 (261)
Q Consensus         4 s~KGGvGKTT~a~~lA~~la~~g~~~~VllvD~D~~~   40 (261)
                      .+-.|+||||+|.+++....+.|  .+|++||.....
T Consensus        66 ~G~~~~GKT~l~l~~~~~~q~~g--~~~vyIDtE~~~  100 (269)
T d1mo6a1          66 YGPESSGKTTVALHAVANAQAAG--GVAAFIDAEHAL  100 (269)
T ss_dssp             ECSSSSSHHHHHHHHHHHHHHTT--CEEEEEESSCCC
T ss_pred             ecCCCcHHHHHHHHHHHHHhcCC--CEEEEEECCccC
Confidence            45679999999999999999999  999999998754

>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=95.89  E-value=0.0031  Score=48.45  Aligned_cols=37  Identities=11%  Similarity=0.086  Sum_probs=32.5

Q ss_pred             cccCCCCCcHHHHHHHHHHHHHhcCCCCeEEEEecCCCC
Q psy14655          2 IASSKGGVGKSTTTVNLATAMKICYPDKEIGILDADVFG   40 (261)
Q Consensus         2 v~s~KGGvGKTT~a~~lA~~la~~g~~~~VllvD~D~~~   40 (261)
                      ++.+-.|+|||+++.++|..++++|  .+|++++++...
T Consensus        30 li~G~pGsGKT~l~~qia~~~~~~~--~~~~~is~e~~~   66 (242)
T d1tf7a2          30 LATGATGTGKTLLVSRFVENACANK--ERAILFAYEESR   66 (242)
T ss_dssp             EEEECTTSSHHHHHHHHHHHHHTTT--CCEEEEESSSCH
T ss_pred             EEEeCCCCCHHHHHHHHHHHHHHhc--cccceeeccCCH
Confidence            3456779999999999999999999  999999998654

>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=95.79  E-value=0.0067  Score=46.33  Aligned_cols=67  Identities=18%  Similarity=0.135  Sum_probs=50.3

Q ss_pred             CCCCEEEEeCCCCCC--hhHHHHhhhcCCCeEEEEeCCCcchHHHHHHHHHHHHhCCCCeEEEEEcCCCCCC
Q psy14655        105 GPCDILFIDTPPGTG--DTHLSLIQNLFIDTAIIITIPDTMSLQVAQRGYTMFKKLNIPVAGLVMNMNSVLC  174 (261)
Q Consensus       105 ~~yd~IiiD~~~~~~--~~~~~~~~~~~ad~viiv~~~~~~s~~~~~~~~~~l~~~~~~~~giv~N~~~~~~  174 (261)
                      ..+.+.|+|||+...  .....++..  ||.+|+|+.....-.......++.+...+.+.+ +++|+.+...
T Consensus        68 ~~~~~~~iDtPGh~~f~~~~~~~~~~--~D~~ilVvda~~g~~~~~~~~~~~~~~~~~p~i-ivlNK~D~~~  136 (227)
T d1g7sa4          68 TLPGLFFIDTPGHEAFTTLRKRGGAL--ADLAILIVDINEGFKPQTQEALNILRMYRTPFV-VAANKIDRIH  136 (227)
T ss_dssp             TCCEEEEECCCTTSCCTTSBCSSSBS--CSEEEEEEETTTCCCHHHHHHHHHHHHTTCCEE-EEEECGGGST
T ss_pred             cccccccccccceecccccchhcccc--cceEEEEEecccCcccchhHHHHHhhcCCCeEE-EEEECccCCC
Confidence            567899999997533  222233444  999999999877666778889999999999855 8999987643

>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=95.76  E-value=0.0031  Score=50.67  Aligned_cols=37  Identities=24%  Similarity=0.310  Sum_probs=31.0

Q ss_pred             ccCCCCCcHHHHHHHHHHHHHhcCCCCeEEEEecCCC
Q psy14655          3 ASSKGGVGKSTTTVNLATAMKICYPDKEIGILDADVF   39 (261)
Q Consensus         3 ~s~KGGvGKTT~a~~lA~~la~~g~~~~VllvD~D~~   39 (261)
                      +++-.|+||||+|..|+..|++...+.+|.+|..|--
T Consensus        85 IaG~sgSGKSTla~~L~~lL~~~~~~~~v~~Is~D~F  121 (308)
T d1sq5a_          85 IAGSVAVGKSTTARVLQALLSRWPEHRRVELITTDGF  121 (308)
T ss_dssp             EEECTTSSHHHHHHHHHHHHTTSTTCCCEEEEEGGGG
T ss_pred             EeCCCCCCCcHHHHHHHHHHhhhcCCCceEEEeeeee
Confidence            4677899999999999999997533389999999954

>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=95.72  E-value=0.0031  Score=46.20  Aligned_cols=33  Identities=24%  Similarity=0.231  Sum_probs=28.7

Q ss_pred             cccCCCCCcHHHHHHHHHHHHHhcCCCCeEEEEec
Q psy14655          2 IASSKGGVGKSTTTVNLATAMKICYPDKEIGILDA   36 (261)
Q Consensus         2 v~s~KGGvGKTT~a~~lA~~la~~g~~~~VllvD~   36 (261)
                      |+.+--|+||||++..||..|...|  .++..+..
T Consensus         5 vi~G~~GsGKTT~~~~La~~L~~~~--~~~~~~~~   37 (194)
T d1nksa_           5 IVTGIPGVGKSTVLAKVKEILDNQG--INNKIINY   37 (194)
T ss_dssp             EEEECTTSCHHHHHHHHHHHHHTTT--CCEEEEEH
T ss_pred             EEECCCCCCHHHHHHHHHHHHHHcC--CCEEEEEC
Confidence            4556679999999999999999999  99988874

>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=95.42  E-value=0.0047  Score=44.63  Aligned_cols=36  Identities=14%  Similarity=0.163  Sum_probs=28.2

Q ss_pred             ccCCCCCcHHHHHHHHHHHHHhcCCCCeEEEEecCCC
Q psy14655          3 ASSKGGVGKSTTTVNLATAMKICYPDKEIGILDADVF   39 (261)
Q Consensus         3 ~s~KGGvGKTT~a~~lA~~la~~g~~~~VllvD~D~~   39 (261)
                      .++--|+||||+|..||..|...+ ...+..+|.|..
T Consensus        11 l~G~~GsGKTTia~~La~~L~~~~-~~~~~~~~~~~~   46 (183)
T d1m8pa3          11 LTGYMNSGKDAIARALQVTLNQQG-GRSVSLLLGDTV   46 (183)
T ss_dssp             EECSTTSSHHHHHHHHHHHHHHHC-SSCEEEEEHHHH
T ss_pred             EECCCCCCHHHHHHHHHHHHhhcC-CCchhhhhhHHh
Confidence            567789999999999999998766 245667777654

>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=95.28  E-value=0.019  Score=41.19  Aligned_cols=32  Identities=28%  Similarity=0.160  Sum_probs=23.7

Q ss_pred             cccCCCCCcHHHHHHHHHHHHHhcCCCCeEEEEecCC
Q psy14655          2 IASSKGGVGKSTTTVNLATAMKICYPDKEIGILDADV   38 (261)
Q Consensus         2 v~s~KGGvGKTT~a~~lA~~la~~g~~~~VllvD~D~   38 (261)
                      ++++--|+||||+|..||..   .|  .+.+.+|.|.
T Consensus         8 ~l~G~~GsGKSTia~~La~~---lg--~~~~~~~~d~   39 (176)
T d1zp6a1           8 LLSGHPGSGKSTIAEALANL---PG--VPKVHFHSDD   39 (176)
T ss_dssp             EEEECTTSCHHHHHHHHHTC---SS--SCEEEECTTH
T ss_pred             EEECCCCCCHHHHHHHHHHH---hC--CCEEEecHHH
Confidence            46678899999998777542   35  7888887763

>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=95.20  E-value=0.0047  Score=44.94  Aligned_cols=34  Identities=12%  Similarity=0.151  Sum_probs=28.7

Q ss_pred             cccCCCCCcHHHHHHHHHHHHHhcCCCCeEEEEecC
Q psy14655          2 IASSKGGVGKSTTTVNLATAMKICYPDKEIGILDAD   37 (261)
Q Consensus         2 v~s~KGGvGKTT~a~~lA~~la~~g~~~~VllvD~D   37 (261)
                      ++.+--|+||||++..|+..|...+  .++.++..+
T Consensus         5 ~i~G~~GsGKsT~~~~L~~~l~~~~--~~~~~~~~~   38 (190)
T d1khta_           5 VVTGVPGVGSTTSSQLAMDNLRKEG--VNYKMVSFG   38 (190)
T ss_dssp             EEECCTTSCHHHHHHHHHHHHHTTT--CCCEEEEHH
T ss_pred             EEECCCCCCHHHHHHHHHHHHHHcC--CCeEEEecC
Confidence            4566779999999999999999998  888887653

>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=95.18  E-value=0.064  Score=40.50  Aligned_cols=142  Identities=15%  Similarity=0.113  Sum_probs=71.1

Q ss_pred             cccCCCCCcHHHHHHHHHHHHHhcCCCCeEEEEecCCCCCCccc-ccCCCCCCCCCcCCccccccccCceeecCCCCccc
Q psy14655          2 IASSKGGVGKSTTTVNLATAMKICYPDKEIGILDADVFGPSIPI-LMNLPDTPLLNKDNLMIPLVNYGVKCLSMGNLITE   80 (261)
Q Consensus         2 v~s~KGGvGKTT~a~~lA~~la~~g~~~~VllvD~D~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~   80 (261)
                      ++++=-|+||||+-.++...  ..|  +|+.+|--|.-.-+... .+....               ..+.-+..|-....
T Consensus         7 iitGFLGaGKTTll~~lL~~--~~~--~riaVI~Ne~g~~~iD~~~~~~~~---------------~~~~el~~gcicc~   67 (222)
T d1nija1           7 LLTGFLGAGKTTLLRHILNE--QHG--YKIAVIENEFGEVSVDDQLIGDRA---------------TQIKTLTNGCICCS   67 (222)
T ss_dssp             EEEESSSSSCHHHHHHHHHS--CCC--CCEEEECSSCCSCCEEEEEECTTS---------------CEEEEETTSCEEEC
T ss_pred             EEeeCCCCCHHHHHHHHHhc--CCC--CcEEEEEecccchhhhhhhhcccc---------------cceEEecCCcceec
Confidence            45566699999998777553  456  99999988864333321 111110               00111111111111


Q ss_pred             chhhhhhchHHHHHHHHHHHHhc--cCCCCEEEEeCCCCCChhHHHH-h-------hhcCCCeEEEEeCCCcchHHH--H
Q psy14655         81 KSAAIWRGLMVMQALNKLTVQVQ--WGPCDILFIDTPPGTGDTHLSL-I-------QNLFIDTAIIITIPDTMSLQV--A  148 (261)
Q Consensus        81 ~~~~~~~~~~~~~~l~~~l~~l~--~~~yd~IiiD~~~~~~~~~~~~-~-------~~~~ad~viiv~~~~~~s~~~--~  148 (261)
                      ..      ......+..++..+.  ...+|+|||-+.+......... +       .....+.++.++.+......-  .
T Consensus        68 ~~------~~~~~~l~~~~~~~~~~~~~~d~iiIE~sG~~~p~~l~~~~~~~~~~~~~~~l~~vi~vVDa~~~~~~~~~~  141 (222)
T d1nija1          68 RS------NELEDALLDLLDNLDKGNIQFDRLVIECTGMADPGPIIQTFFSHEVLCQRYLLDGVIALVDAVHADEQMNQF  141 (222)
T ss_dssp             TT------SCHHHHHHHHHHHHHHTSCCCSEEEEEEETTCCHHHHHHHHHHSHHHHHHEEEEEEEEEEETTTHHHHHHHC
T ss_pred             cc------hhHHHHHHHHHHHHhhccCCcceeEEeecccchhhHHHHHHHhhhcccccccccchhhhhhhhhhhhhhhhh
Confidence            11      112223334433332  1468999999986554332211 1       111136678888765543321  1


Q ss_pred             HHHHHHHHhCCCCeEEEEEcCCCC
Q psy14655        149 QRGYTMFKKLNIPVAGLVMNMNSV  172 (261)
Q Consensus       149 ~~~~~~l~~~~~~~~giv~N~~~~  172 (261)
                      ..+.+++...++    +|+|+++.
T Consensus       142 ~~~~~Qi~~AD~----ivlNK~Dl  161 (222)
T d1nija1         142 TIAQSQVGYADR----ILLTKTDV  161 (222)
T ss_dssp             HHHHHHHHTCSE----EEEECTTT
T ss_pred             HHHHHHHHhCCc----cccccccc
Confidence            223345555543    89999764

>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=94.99  E-value=0.0074  Score=45.52  Aligned_cols=37  Identities=24%  Similarity=0.130  Sum_probs=31.2

Q ss_pred             ccCCCCCcHHHHHHHHHHHHHh-cCCCCeEEEEecCCCCC
Q psy14655          3 ASSKGGVGKSTTTVNLATAMKI-CYPDKEIGILDADVFGP   41 (261)
Q Consensus         3 ~s~KGGvGKTT~a~~lA~~la~-~g~~~~VllvD~D~~~~   41 (261)
                      +.+--|+||||+|..|+..|.+ .+  .++..+|.|.-..
T Consensus        29 ltGlsGsGKTTia~~L~~~l~~~~~--~~~~~ldgD~iR~   66 (208)
T d1m7ga_          29 LTGLSASGKSTLAVELEHQLVRDRR--VHAYRLDGDNIRF   66 (208)
T ss_dssp             EECSTTSSHHHHHHHHHHHHHHHHC--CCEEEECHHHHTT
T ss_pred             EECCCCCCHHHHHHHHHHHHHHhcC--ceEEEEcchHHHH
Confidence            4677899999999999988864 56  8999999997654

>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=94.97  E-value=0.0071  Score=45.76  Aligned_cols=38  Identities=16%  Similarity=0.176  Sum_probs=29.4

Q ss_pred             cccCCCCCcHHHHHHHHHHHHHhcCCCCeEEEEecCCCC
Q psy14655          2 IASSKGGVGKSTTTVNLATAMKICYPDKEIGILDADVFG   40 (261)
Q Consensus         2 v~s~KGGvGKTT~a~~lA~~la~~g~~~~VllvD~D~~~   40 (261)
                      ++.+.-|+|||++|.++|...+..+ +.+|++++++...
T Consensus        30 ~I~G~~G~GKT~la~~~~~~~~~~~-~~~~~~~s~e~~~   67 (242)
T d1tf7a1          30 LVSGTSGTGKTLFSIQFLYNGIIEF-DEPGVFVTFEETP   67 (242)
T ss_dssp             EEEESTTSSHHHHHHHHHHHHHHHH-CCCEEEEESSSCH
T ss_pred             EEEeCCCCCHHHHHHHHHHHHHHhc-CCCcccccccCCH
Confidence            3557789999999999988655443 2799999998653

>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=94.92  E-value=0.011  Score=44.00  Aligned_cols=33  Identities=21%  Similarity=0.279  Sum_probs=28.7

Q ss_pred             cccCCCCCcHHHHHHHHHHHHHhcCCCCeEEEEec
Q psy14655          2 IASSKGGVGKSTTTVNLATAMKICYPDKEIGILDA   36 (261)
Q Consensus         2 v~s~KGGvGKTT~a~~lA~~la~~g~~~~VllvD~   36 (261)
                      ++.+--|+||||++..|+..|..+|  .+|.++..
T Consensus         4 ~ieG~dGsGKST~~~~L~~~l~~~g--~~v~~~~~   36 (208)
T d1gsia_           4 AIEGVDGAGKRTLVEKLSGAFRAAG--RSVATLAF   36 (208)
T ss_dssp             EEECSTTSSHHHHHHHHHHHHHHTT--CCEEEEES
T ss_pred             EEECCCCCCHHHHHHHHHHHHHHCC--CCEEEEec
Confidence            3456779999999999999999999  99988764

>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=94.89  E-value=0.01  Score=44.66  Aligned_cols=29  Identities=24%  Similarity=0.240  Sum_probs=26.6

Q ss_pred             CCCCCcHHHHHHHHHHHHHhcCCCCeEEEEe
Q psy14655          5 SKGGVGKSTTTVNLATAMKICYPDKEIGILD   35 (261)
Q Consensus         5 ~KGGvGKTT~a~~lA~~la~~g~~~~VllvD   35 (261)
                      +=-|+||||.+..|+..|..+|  .+|.+++
T Consensus        10 G~dGsGKsT~~~~L~~~L~~~g--~~v~~~~   38 (209)
T d1nn5a_          10 GVDRAGKSTQSRKLVEALCAAG--HRAELLR   38 (209)
T ss_dssp             ESTTSSHHHHHHHHHHHHHHTT--CCEEEEE
T ss_pred             CCCCCCHHHHHHHHHHHHHHCC--CcEEEEe
Confidence            5569999999999999999999  9999887

>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=94.85  E-value=0.0046  Score=45.49  Aligned_cols=36  Identities=22%  Similarity=0.199  Sum_probs=29.8

Q ss_pred             cccCCCCCcHHHHHHHHHHHHHhcCCCCeEEEEecCCC
Q psy14655          2 IASSKGGVGKSTTTVNLATAMKICYPDKEIGILDADVF   39 (261)
Q Consensus         2 v~s~KGGvGKTT~a~~lA~~la~~g~~~~VllvD~D~~   39 (261)
                      +.++--|+||||+|..||..|...+  ..+-.++.|..
T Consensus        23 ~L~G~pGSGKTTiAk~La~~l~~~~--~~~~~~~~d~~   58 (195)
T d1x6va3          23 WLTGLSGAGKTTVSMALEEYLVCHG--IPCYTLDGDNI   58 (195)
T ss_dssp             EEESSCHHHHHHHHHHHHHHHHHTT--CCEEEECHHHH
T ss_pred             EEECCCCCCHHHHHHHHHHHHHhcC--CCccchhHHhh
Confidence            3567789999999999999999988  77777776644

>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=94.85  E-value=0.0059  Score=43.95  Aligned_cols=33  Identities=18%  Similarity=0.175  Sum_probs=26.2

Q ss_pred             cccCCCCCcHHHHHHHHHHHHHhcCCCCeEEEEecCCC
Q psy14655          2 IASSKGGVGKSTTTVNLATAMKICYPDKEIGILDADVF   39 (261)
Q Consensus         2 v~s~KGGvGKTT~a~~lA~~la~~g~~~~VllvD~D~~   39 (261)
                      ++++--|+||||+|..||..|   +  .+++.+|.|..
T Consensus         7 ~l~G~~GsGKsTva~~L~~~l---~--~~~~~~~~d~~   39 (178)
T d1qhxa_           7 ILNGGSSAGKSGIVRCLQSVL---P--EPWLAFGVDSL   39 (178)
T ss_dssp             EEECCTTSSHHHHHHHHHHHS---S--SCEEEEEHHHH
T ss_pred             EEECCCCCCHHHHHHHHHHHc---C--CCeEEeecchh
Confidence            567888999999999998876   4  66777777654

>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=94.82  E-value=0.0048  Score=48.94  Aligned_cols=35  Identities=17%  Similarity=0.253  Sum_probs=28.6

Q ss_pred             ccCCCCCcHHHHHHHHHHHHHhcCCCCeEEEEecCCC
Q psy14655          3 ASSKGGVGKSTTTVNLATAMKICYPDKEIGILDADVF   39 (261)
Q Consensus         3 ~s~KGGvGKTT~a~~lA~~la~~g~~~~VllvD~D~~   39 (261)
                      +++-.|+||||++..|+..+.+.+  .++++|..|--
T Consensus         9 IaG~SGSGKTTva~~l~~i~~~~~--v~~~iI~~Dsf   43 (288)
T d1a7ja_           9 VTGSSGAGTSTVKHTFDQIFRREG--VKAVSIEGDAF   43 (288)
T ss_dssp             EESCC---CCTHHHHHHHHHHHHT--CCEEEEEGGGG
T ss_pred             EECCCCCcHHHHHHHHHHHHhhcC--CCeEEEeCCCC
Confidence            467789999999999999999999  99999999954

>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=94.76  E-value=0.0086  Score=44.96  Aligned_cols=36  Identities=22%  Similarity=0.249  Sum_probs=28.1

Q ss_pred             ccCCCCCcHHHHHHHHHHHHHhcCC---CCeEEEEecCC
Q psy14655          3 ASSKGGVGKSTTTVNLATAMKICYP---DKEIGILDADV   38 (261)
Q Consensus         3 ~s~KGGvGKTT~a~~lA~~la~~g~---~~~VllvD~D~   38 (261)
                      +++-.|+||||+|..|+..|...+-   ..+|.+|..|-
T Consensus         7 I~G~~gSGKSTla~~L~~~l~~~~~~~~~~~~~vi~~D~   45 (213)
T d1uj2a_           7 VSGGTASGKSSVCAKIVQLLGQNEVDYRQKQVVILSQDS   45 (213)
T ss_dssp             EECSTTSSHHHHHHHHHHHTTGGGSCGGGCSEEEEEGGG
T ss_pred             EECCCCCCHHHHHHHHHHHhchhccccCCCceEEEeccc
Confidence            4578899999999999999876430   15788888873

>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=94.70  E-value=0.097  Score=37.62  Aligned_cols=65  Identities=12%  Similarity=0.045  Sum_probs=37.8

Q ss_pred             CCCCEEEEeCCCCCC---------hhHHHHhhhcCCCeEEEEeCCCcchHHHHHHHHHHHHh-----CCCCeEEEEEcCC
Q psy14655        105 GPCDILFIDTPPGTG---------DTHLSLIQNLFIDTAIIITIPDTMSLQVAQRGYTMFKK-----LNIPVAGLVMNMN  170 (261)
Q Consensus       105 ~~yd~IiiD~~~~~~---------~~~~~~~~~~~ad~viiv~~~~~~s~~~~~~~~~~l~~-----~~~~~~giv~N~~  170 (261)
                      .++.+.++|+|+...         ......+..  ++.++.++..............+.+..     .+.+ +-+|+|++
T Consensus        47 ~~~~~~~~DtpG~~~~~~~~~~~~~~~l~~~~~--~~~~~~~~d~~~~~~~~~~~~~~~~~~~~~~~~~~p-~iiv~NK~  123 (180)
T d1udxa2          47 EEERFTLADIPGIIEGASEGKGLGLEFLRHIAR--TRVLLYVLDAADEPLKTLETLRKEVGAYDPALLRRP-SLVALNKV  123 (180)
T ss_dssp             SSCEEEEEECCCCCCCGGGSCCSCHHHHHHHTS--SSEEEEEEETTSCHHHHHHHHHHHHHHHCHHHHHSC-EEEEEECC
T ss_pred             CCCeEEEcCCCeeecCchHHHHHHHHHHHHHHh--hhhhhhhcccccccccchhhhhhhhhccccccchhh-hhhhhhhh
Confidence            456788999986332         112222333  788888877665555555544444432     1334 55788997


Q ss_pred             CC
Q psy14655        171 SV  172 (261)
Q Consensus       171 ~~  172 (261)
                      +.
T Consensus       124 D~  125 (180)
T d1udxa2         124 DL  125 (180)
T ss_dssp             TT
T ss_pred             hh
Confidence            64

>d1r5ba3 c.37.1.8 (A:215-459) Eukaryotic peptide chain release factor ERF2, G 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: Eukaryotic peptide chain release factor ERF2, G domain
species: Fission yeast (Schizosaccharomyces pombe) [TaxId: 4896]

Probab=94.65  E-value=0.036  Score=42.64  Aligned_cols=66  Identities=11%  Similarity=0.130  Sum_probs=45.9

Q ss_pred             CCCCEEEEeCCCCCChhH--HHHhhhcCCCeEEEEeCCCcchHH-------HHHHHHHHHHhCCCCeEEEEEcCCCC
Q psy14655        105 GPCDILFIDTPPGTGDTH--LSLIQNLFIDTAIIITIPDTMSLQ-------VAQRGYTMFKKLNIPVAGLVMNMNSV  172 (261)
Q Consensus       105 ~~yd~IiiD~~~~~~~~~--~~~~~~~~ad~viiv~~~~~~s~~-------~~~~~~~~l~~~~~~~~giv~N~~~~  172 (261)
                      ..+.+.++|||+..+...  ......  +|.+++|+.+...-..       ++...+..+...+.+.+-+++|+.+.
T Consensus       100 ~~~~i~~iDtPGH~df~~~~~~g~~~--aD~ailVVda~~G~~~~~~~~~~QT~e~l~l~~~~~i~~iiv~iNKmD~  174 (245)
T d1r5ba3         100 EHRRFSLLDAPGHKGYVTNMINGASQ--ADIGVLVISARRGEFEAGFERGGQTREHAVLARTQGINHLVVVINKMDE  174 (245)
T ss_dssp             SSEEEEECCCCC-----------TTS--CSEEEEEEECSTTHHHHTTSTTCCHHHHHHHHHHTTCSSEEEEEECTTS
T ss_pred             ccceeeeecccccccchhhhhhhhhh--hcceeeEEEcCCCccCCccccccchHHHHHHHHHcCCCeEEEEEEcCCC
Confidence            567899999998765332  333333  9999999998776544       56777788888899888899999775

>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=94.42  E-value=0.18  Score=35.56  Aligned_cols=66  Identities=14%  Similarity=0.039  Sum_probs=43.8

Q ss_pred             CCCCEEEEeCCCCC--ChhHHHHhhhcCCCeEEEEeC-CCcchHHHHHHHHHHHHhCC--CCeEEEEEcCCCC
Q psy14655        105 GPCDILFIDTPPGT--GDTHLSLIQNLFIDTAIIITI-PDTMSLQVAQRGYTMFKKLN--IPVAGLVMNMNSV  172 (261)
Q Consensus       105 ~~yd~IiiD~~~~~--~~~~~~~~~~~~ad~viiv~~-~~~~s~~~~~~~~~~l~~~~--~~~~giv~N~~~~  172 (261)
                      ..+.+.|.|+++.-  ..........  +|.++++.. .+..+...+......+.+..  ...+.++.|+.+.
T Consensus        51 ~~~~l~i~D~~g~~~~~~~~~~~~~~--~d~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~iilvgnK~Dl  121 (166)
T d1z0fa1          51 QKIKLQIWDTAGQERFRAVTRSYYRG--AAGALMVYDITRRSTYNHLSSWLTDARNLTNPNTVIILIGNKADL  121 (166)
T ss_dssp             EEEEEEEEECTTGGGTCHHHHHHHHT--CSEEEEEEETTCHHHHHTHHHHHHHHHHHSCTTCEEEEEEECTTC
T ss_pred             EEEEEEEeccCCchhHHHHHHHHhcC--CcEEEEEeccCchHHHHHHHHHHHHHHhhccccceEEEEcccccc
Confidence            45688999998632  2333344444  899999988 56677777777777666432  2356678898653

>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=94.39  E-value=0.0081  Score=42.47  Aligned_cols=29  Identities=34%  Similarity=0.399  Sum_probs=22.3

Q ss_pred             cccCCCCCcHHHHHHHHHHHHHhcCCCCeEEEEecC
Q psy14655          2 IASSKGGVGKSTTTVNLATAMKICYPDKEIGILDAD   37 (261)
Q Consensus         2 v~s~KGGvGKTT~a~~lA~~la~~g~~~~VllvD~D   37 (261)
                      |..+-.|+||||+|..||..|   |  .++  +|.|
T Consensus         6 ~l~G~~GsGKSTvak~La~~L---~--~~~--id~~   34 (169)
T d1kaga_           6 FLVGPMGAGKSTIGRQLAQQL---N--MEF--YDSD   34 (169)
T ss_dssp             EEECCTTSCHHHHHHHHHHHT---T--CEE--EEHH
T ss_pred             EEECCCCCCHHHHHHHHHHHh---C--CCe--Eeec
Confidence            456888999999999999876   5  655  4554

>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=94.20  E-value=0.06  Score=38.94  Aligned_cols=48  Identities=15%  Similarity=0.112  Sum_probs=35.2

Q ss_pred             HHHHhhhcCCCeEEEEeCCCcchHHHHHHHHHHHHhCCCCeEEEEEcCCCC
Q psy14655        122 HLSLIQNLFIDTAIIITIPDTMSLQVAQRGYTMFKKLNIPVAGLVMNMNSV  172 (261)
Q Consensus       122 ~~~~~~~~~ad~viiv~~~~~~s~~~~~~~~~~l~~~~~~~~giv~N~~~~  172 (261)
                      ....+..  +|.+++++..+.........++..+...+.+. -+|.|+.+.
T Consensus        85 ~~~~~~~--~dvii~v~d~~~~~~~~~~~~~~~~~~~~~~~-i~v~nK~D~  132 (186)
T d1mkya2          85 VVDSIEK--ADVVVIVLDATQGITRQDQRMAGLMERRGRAS-VVVFNKWDL  132 (186)
T ss_dssp             HHHHHHH--CSEEEEEEETTTCCCHHHHHHHHHHHHTTCEE-EEEEECGGG
T ss_pred             HHHHHhc--CCEEEEeecccccchhhHHHHHHHHHHcCCce-eeeccchhh
Confidence            3344455  89999999987776677777788888777664 578898664

>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=94.18  E-value=0.047  Score=44.14  Aligned_cols=64  Identities=14%  Similarity=0.057  Sum_probs=51.8

Q ss_pred             CCCCEEEEeCCCCCC--hhHHHHhhhcCCCeEEEEeCCCcchHHHHHHHHHHHHhCCCCeEEEEEcCCC
Q psy14655        105 GPCDILFIDTPPGTG--DTHLSLIQNLFIDTAIIITIPDTMSLQVAQRGYTMFKKLNIPVAGLVMNMNS  171 (261)
Q Consensus       105 ~~yd~IiiD~~~~~~--~~~~~~~~~~~ad~viiv~~~~~~s~~~~~~~~~~l~~~~~~~~giv~N~~~  171 (261)
                      ..|-+=|||||+..+  ..+..++..  ||.+++|+.+...-..++.+.++.+.+.+++.+ +++|+.+
T Consensus        94 ~~~~inliDtPGh~dF~~ev~~al~~--~D~allVVda~eGv~~qT~~~~~~a~~~~~p~i-~viNKiD  159 (341)
T d1n0ua2          94 NSFLINLIDSPGHVDFSSEVTAALRV--TDGALVVVDTIEGVCVQTETVLRQALGERIKPV-VVINKVD  159 (341)
T ss_dssp             SEEEEEEECCCCCCSSCHHHHHHHHT--CSEEEEEEETTTBSCHHHHHHHHHHHHTTCEEE-EEEECHH
T ss_pred             cceEEEEEcCCCcHHHHHHHHHHHhh--cCceEEEEecccCcchhHHHHHHHHHHcCCCeE-EEEECcc
Confidence            345567899998654  556667776  999999999999999999999999999898855 7789844

>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=94.05  E-value=0.015  Score=44.15  Aligned_cols=25  Identities=12%  Similarity=-0.027  Sum_probs=21.2

Q ss_pred             cccCCCCCcHHHHHHHHHHHHHhcC
Q psy14655          2 IASSKGGVGKSTTTVNLATAMKICY   26 (261)
Q Consensus         2 v~s~KGGvGKTT~a~~lA~~la~~g   26 (261)
                      ++.+-.|+|||+++.++|..++..+
T Consensus        38 ~i~G~~G~GKT~~~l~~a~~~~~~~   62 (258)
T d2i1qa2          38 EFAGVFGSGKTQIMHQSCVNLQNPE   62 (258)
T ss_dssp             EEEESTTSSHHHHHHHHHHHTTCGG
T ss_pred             EEEeCCCCCHHHHHHHHHHHHHhcC
Confidence            3456789999999999999998765

>d1jnya3 c.37.1.8 (A:4-227) Elongation factor eEF-1alpha, N-terminal (G) 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: G proteins
domain: Elongation factor eEF-1alpha, N-terminal (G) domain
species: Archaeon Sulfolobus solfataricus [TaxId: 2287]

Probab=94.03  E-value=0.056  Score=40.85  Aligned_cols=69  Identities=12%  Similarity=0.037  Sum_probs=47.5

Q ss_pred             cCCCCEEEEeCCCCCChhHHHHhhhcCCCeEEEEeCCCcch-------HHHHHHHHHHHHhCCCCeEEEEEcCCCC
Q psy14655        104 WGPCDILFIDTPPGTGDTHLSLIQNLFIDTAIIITIPDTMS-------LQVAQRGYTMFKKLNIPVAGLVMNMNSV  172 (261)
Q Consensus       104 ~~~yd~IiiD~~~~~~~~~~~~~~~~~ad~viiv~~~~~~s-------~~~~~~~~~~l~~~~~~~~giv~N~~~~  172 (261)
                      ...+.+-|||||+..+...........||..++|+.....-       ..++.+.+..+...+.+.+-+++|+.+.
T Consensus        78 ~~~~~i~iiDtPGH~df~~~~~~g~~~~D~allVVda~~G~~~~t~~~~~qt~e~l~~~~~~~~~~iIv~iNK~D~  153 (224)
T d1jnya3          78 TKKYFFTIIDAPGHRDFVKNMITGASQADAAILVVSAKKGEYEAGMSVEGQTREHIILAKTMGLDQLIVAVNKMDL  153 (224)
T ss_dssp             CSSCEEEECCCSSSTTHHHHHHHTSSCCSEEEEEEECSTTHHHHHHSTTCHHHHHHHHHHHTTCTTCEEEEECGGG
T ss_pred             cCCceeEEeeCCCcHHHHHHHHHHHHhhceEEEEEecccCcccccccccchhHHHHHHHHHhCCCceEEEEEcccC
Confidence            46788999999987664433222223399999999977653       2345555666666777767788999765

>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=94.03  E-value=0.069  Score=37.84  Aligned_cols=65  Identities=14%  Similarity=0.167  Sum_probs=43.5

Q ss_pred             CCCCEEEEeCCCCCC--hhHHHHhhhcCCCeEEEEeC-CCcchHHHHHHHHHHHHhC--CCCeEEEEEcCCCC
Q psy14655        105 GPCDILFIDTPPGTG--DTHLSLIQNLFIDTAIIITI-PDTMSLQVAQRGYTMFKKL--NIPVAGLVMNMNSV  172 (261)
Q Consensus       105 ~~yd~IiiD~~~~~~--~~~~~~~~~~~ad~viiv~~-~~~~s~~~~~~~~~~l~~~--~~~~~giv~N~~~~  172 (261)
                      ..+.+.+.|+++...  ......+..  +|.++++.. .+..++..+..+++.+.+.  +.+ +-+|.|+.+.
T Consensus        49 ~~~~~~i~d~~g~~~~~~~~~~~~~~--~~~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~-iilVgnK~Dl  118 (164)
T d1z2aa1          49 EDVRLMLWDTAGQEEFDAITKAYYRG--AQACVLVFSTTDRESFEAISSWREKVVAEVGDIP-TALVQNKIDL  118 (164)
T ss_dssp             EEEEEEEECCTTGGGTTCCCHHHHTT--CCEEEEEEETTCHHHHHTHHHHHHHHHHHHCSCC-EEEEEECGGG
T ss_pred             ceeeeeeeccCCccchhhhhhhhhcc--CceEEEEEeccchhhhhhcccccccccccCCCce-EEEeeccCCc
Confidence            356788889875432  222334444  899999988 5667888888777766543  555 4578899664

>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=93.76  E-value=0.012  Score=42.10  Aligned_cols=21  Identities=48%  Similarity=0.631  Sum_probs=17.5

Q ss_pred             cccCCCCCcHHHHHHHHHHHH
Q psy14655          2 IASSKGGVGKSTTTVNLATAM   22 (261)
Q Consensus         2 v~s~KGGvGKTT~a~~lA~~l   22 (261)
                      ++.+.-|+||||+|..||..+
T Consensus         6 ~i~G~~GsGKTTva~~L~~~~   26 (176)
T d2bdta1           6 IITGPAGVGKSTTCKRLAAQL   26 (176)
T ss_dssp             EEECSTTSSHHHHHHHHHHHS
T ss_pred             EEECCCCCCHHHHHHHHHHHc
Confidence            467889999999999888654

>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=93.75  E-value=0.015  Score=41.46  Aligned_cols=26  Identities=27%  Similarity=0.240  Sum_probs=20.6

Q ss_pred             cccCCCCCcHHHHHHHHHHHHHhcCCCCeEE
Q psy14655          2 IASSKGGVGKSTTTVNLATAMKICYPDKEIG   32 (261)
Q Consensus         2 v~s~KGGvGKTT~a~~lA~~la~~g~~~~Vl   32 (261)
                      ++.+--|+||||+|..||..+   |  .+++
T Consensus         8 ~i~G~pGsGKTTia~~La~~l---~--~~~i   33 (173)
T d1rkba_           8 LLTGTPGVGKTTLGKELASKS---G--LKYI   33 (173)
T ss_dssp             EEECSTTSSHHHHHHHHHHHH---C--CEEE
T ss_pred             EEECCCCCCHHHHHHHHHHHH---C--CcEE
Confidence            456788999999999998765   5  6664

>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=93.68  E-value=0.025  Score=42.65  Aligned_cols=35  Identities=17%  Similarity=0.017  Sum_probs=31.2

Q ss_pred             cccCCCCCcHHHHHHHHHHHHHhcCCCCeEEEEecCC
Q psy14655          2 IASSKGGVGKSTTTVNLATAMKICYPDKEIGILDADV   38 (261)
Q Consensus         2 v~s~KGGvGKTT~a~~lA~~la~~g~~~~VllvD~D~   38 (261)
                      +..+..|+|||.++..++..+.+.+  .+|+++++.-
T Consensus        40 ~l~G~~G~GKTHLl~A~~~~~~~~~--~~~~~~~~~~   74 (213)
T d1l8qa2          40 FIYGSVGTGKTHLLQAAGNEAKKRG--YRVIYSSADD   74 (213)
T ss_dssp             EEECSSSSSHHHHHHHHHHHHHHTT--CCEEEEEHHH
T ss_pred             EEECCCCCcHHHHHHHHHHHhccCc--cceEEechHH
Confidence            4568889999999999999999999  9999998764

>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=93.50  E-value=0.18  Score=36.64  Aligned_cols=66  Identities=14%  Similarity=0.025  Sum_probs=41.8

Q ss_pred             CCCCEEEEeCCCCCC--hhHHHHhhhcCCCeEEEEeCCC-cchHHHHHHHHHHHHhC--CCCeEEEEEcCCCC
Q psy14655        105 GPCDILFIDTPPGTG--DTHLSLIQNLFIDTAIIITIPD-TMSLQVAQRGYTMFKKL--NIPVAGLVMNMNSV  172 (261)
Q Consensus       105 ~~yd~IiiD~~~~~~--~~~~~~~~~~~ad~viiv~~~~-~~s~~~~~~~~~~l~~~--~~~~~giv~N~~~~  172 (261)
                      ..+.+-|+|+|+.-.  ......+..  ||.+|+|.+++ ..+...+......+.+.  ....+.+|.|+.+.
T Consensus        53 ~~~~l~i~Dt~G~e~~~~~~~~~~~~--a~~~i~v~d~t~~~s~~~~~~~~~~~~~~~~~~~~iilv~nK~D~  123 (194)
T d2bcgy1          53 KTVKLQIWDTAGQERFRTITSSYYRG--SHGIIIVYDVTDQESFNGVKMWLQEIDRYATSTVLKLLVGNKCDL  123 (194)
T ss_dssp             EEEEEEEECCTTTTTTTCCCGGGGTT--CSEEEEEEETTCHHHHHHHHHHHHHHHHHSCTTCEEEEEEECTTC
T ss_pred             EEEEEEEEECCCchhhHHHHHHHhcc--CCEEEEEEeCcchhhhhhHhhhhhhhhhcccCCceEEEEEecccc
Confidence            456788899986432  222334444  89999999865 46666666666666542  22256788888553

>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=93.43  E-value=0.22  Score=40.92  Aligned_cols=141  Identities=15%  Similarity=0.212  Sum_probs=76.6

Q ss_pred             cccCCCCCcHHHHHHHHHHHHHhcCCCCeEEEEecCCCCCCcccccCCCCCCCCCcCCccccccccCceeecCCCCcccc
Q psy14655          2 IASSKGGVGKSTTTVNLATAMKICYPDKEIGILDADVFGPSIPILMNLPDTPLLNKDNLMIPLVNYGVKCLSMGNLITEK   81 (261)
Q Consensus         2 v~s~KGGvGKTT~a~~lA~~la~~g~~~~VllvD~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~   81 (261)
                      ++++-=|+||||+...+-..+.+.+  ++++-|+ ||-.......                       .-++..    ..
T Consensus       162 LvtGpTGSGKSTTl~~~l~~~~~~~--~~i~tiE-dPiE~~~~~~-----------------------~q~~v~----~~  211 (401)
T d1p9ra_         162 LVTGPTGSGKSTTLYAGLQELNSSE--RNILTVE-DPIEFDIDGI-----------------------GQTQVN----PR  211 (401)
T ss_dssp             EEECSTTSCHHHHHHHHHHHHCCTT--SCEEEEE-SSCCSCCSSS-----------------------EEEECB----GG
T ss_pred             EEEcCCCCCccHHHHHHhhhhcCCC--ceEEEec-cCcccccCCC-----------------------Ceeeec----CC
Confidence            5678889999999999998887777  8888888 5543211110                       000000    00


Q ss_pred             hhhhhhchHHHHHHHHHHHHhccCCCCEEEEeCCCCCChhHHHHhhhcCCCeEEEEeCCCcchHHHHHHHHHHHHh---C
Q psy14655         82 SAAIWRGLMVMQALNKLTVQVQWGPCDILFIDTPPGTGDTHLSLIQNLFIDTAIIITIPDTMSLQVAQRGYTMFKK---L  158 (261)
Q Consensus        82 ~~~~~~~~~~~~~l~~~l~~l~~~~yd~IiiD~~~~~~~~~~~~~~~~~ad~viiv~~~~~~s~~~~~~~~~~l~~---~  158 (261)
                           .+..    +...+..+...+.|+|+|.=-.. ......++.++...+.++.+--.......+.+++++-..   .
T Consensus       212 -----~~~~----~~~~l~~~lR~dPDvi~igEiRd-~~ta~~a~~aa~tGhlV~tTlHa~~a~~~~~Rl~~~~~~~~~l  281 (401)
T d1p9ra_         212 -----VDMT----FARGLRAILRQDPDVVMVGEIRD-LETAQIAVQASLTGHLVMSTLHTNTAVGAVTRLRDMGIEPFLI  281 (401)
T ss_dssp             -----GTBC----HHHHHHHHGGGCCSEEEESCCCS-HHHHHHHHHHHHTTCEEEEEECCSSSHHHHHHHHHHTCCHHHH
T ss_pred             -----cCCC----HHHHHHHHHhhcCCEEEecCcCC-hHHHHHHHHHHhcCCeEEEEeccCchHhhhhhhhhcccchhhH
Confidence                 0001    23333333338999999976421 122334444433667777777677777777776654211   0


Q ss_pred             CCCeEEEEEc-CCCCCCCCCCcccc
Q psy14655        159 NIPVAGLVMN-MNSVLCPSCNHMFE  182 (261)
Q Consensus       159 ~~~~~giv~N-~~~~~~~~~~~~~~  182 (261)
                      .-.+.++|-- -++..|+.|.....
T Consensus       282 ~~~l~~vv~QrLv~~lCp~Ck~~~~  306 (401)
T d1p9ra_         282 SSSLLGVLAQRLVRTLCPDCKEPYE  306 (401)
T ss_dssp             HHHEEEEEEEEEEEEECTTTCEEEE
T ss_pred             HHHHHHHHhccchhhhCCCcCcCCC
Confidence            0012333222 23445777765543

>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=93.21  E-value=0.036  Score=43.65  Aligned_cols=37  Identities=30%  Similarity=0.324  Sum_probs=28.5

Q ss_pred             ccCCCCCcHHHHHHHHHHHHHhc-CCCCeEEEEecCCC
Q psy14655          3 ASSKGGVGKSTTTVNLATAMKIC-YPDKEIGILDADVF   39 (261)
Q Consensus         3 ~s~KGGvGKTT~a~~lA~~la~~-g~~~~VllvD~D~~   39 (261)
                      +++--|+||||+|..|...|.+. +...+|.+|-+|--
T Consensus        32 i~G~qGSGKSTl~~~l~~~L~~~~~~~~~v~~iS~Ddf   69 (286)
T d1odfa_          32 FSGPQGSGKSFTSIQIYNHLMEKYGGEKSIGYASIDDF   69 (286)
T ss_dssp             EECCTTSSHHHHHHHHHHHHHHHHGGGSCEEEEEGGGG
T ss_pred             eECCCCCCHHHHHHHHHHHHHHHhCCCcceEeeccCCC
Confidence            46777999999999999888763 21267999988753

>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=93.05  E-value=0.028  Score=41.89  Aligned_cols=34  Identities=12%  Similarity=0.046  Sum_probs=27.4

Q ss_pred             cCCCCCcHHHHHHHHHHHHHhcCCCCeEEEEecCCC
Q psy14655          4 SSKGGVGKSTTTVNLATAMKICYPDKEIGILDADVF   39 (261)
Q Consensus         4 s~KGGvGKTT~a~~lA~~la~~g~~~~VllvD~D~~   39 (261)
                      -+--|+||||.+..|+..|...|  .++.++---|.
T Consensus         8 EG~dGsGKsT~~~~L~~~L~~~g--~~~~~~~~ep~   41 (210)
T d4tmka_           8 EGLEGAGKTTARNVVVETLEQLG--IRDMVFTREPG   41 (210)
T ss_dssp             EECTTSCHHHHHHHHHHHHHHTT--CCCEEEEESSC
T ss_pred             ECCCCCCHHHHHHHHHHHHHhCC--CCeEEEecCCC
Confidence            35569999999999999999999  87666655443

>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=92.96  E-value=0.029  Score=42.70  Aligned_cols=39  Identities=15%  Similarity=0.064  Sum_probs=30.5

Q ss_pred             cccCCCCCcHHHHHHHHHHHHHhc----CCCCeEEEEecCCCC
Q psy14655          2 IASSKGGVGKSTTTVNLATAMKIC----YPDKEIGILDADVFG   40 (261)
Q Consensus         2 v~s~KGGvGKTT~a~~lA~~la~~----g~~~~VllvD~D~~~   40 (261)
                      ++.+-.|+||||++.++|...+.+    +.+.+++++++....
T Consensus        40 li~G~pGsGKT~~~lq~~~~~~~~~~~~~~~~~~~~~~~~~~~   82 (254)
T d1pzna2          40 EVFGEFGSGKTQLAHTLAVMVQLPPEEGGLNGSVIWIDTENTF   82 (254)
T ss_dssp             EEEESTTSSHHHHHHHHHHHTTSCGGGTSCSCEEEEEESSSCC
T ss_pred             EEEcCCCCCHHHHHHHHHHHhhchHHhcCCCceEEEEeccchh
Confidence            456778999999999999998854    112789999987664

>d2qn6a3 c.37.1.8 (A:2-206) Initiation factor eIF2 gamma subunit, N-terminal (G) domain {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: G proteins
domain: Initiation factor eIF2 gamma subunit, N-terminal (G) domain
species: Sulfolobus solfataricus [TaxId: 2287]

Probab=92.89  E-value=0.076  Score=39.36  Aligned_cols=64  Identities=20%  Similarity=0.184  Sum_probs=45.3

Q ss_pred             CCEEEEeCCCCCChh--HHHHhhhcCCCeEEEEeCCCcc-hHHHHHHHHHHHHhCCCCeEEEEEcCCCC
Q psy14655        107 CDILFIDTPPGTGDT--HLSLIQNLFIDTAIIITIPDTM-SLQVAQRGYTMFKKLNIPVAGLVMNMNSV  172 (261)
Q Consensus       107 yd~IiiD~~~~~~~~--~~~~~~~~~ad~viiv~~~~~~-s~~~~~~~~~~l~~~~~~~~giv~N~~~~  172 (261)
                      ..+.++|||+..+..  +...+..  ||.+++++..... ...++...+..+...+.+.+-+++|+.+.
T Consensus        86 r~~~iiD~PGH~df~~~~~~~~~~--ad~ailvVda~~gi~~~~t~e~~~~~~~~~i~~iIV~vNK~Dl  152 (205)
T d2qn6a3          86 RRISFIDAPGHEVLMATMLSGAAL--MDGAILVVAANEPFPQPQTREHFVALGIIGVKNLIIVQNKVDV  152 (205)
T ss_dssp             EEEEEEECSCHHHHHHHHHHTSSC--CSEEEEEEETTSCSSCHHHHHHHHHHHHTTCCCEEEEEECGGG
T ss_pred             EEEEEeccchHHHHHhhhhcceec--cccccccccccccccchhHHHHHHHHHHcCCceeeeccccCCC
Confidence            358899999754322  2233333  9999999997665 35566777888888888767788999664

>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=92.70  E-value=0.3  Score=34.55  Aligned_cols=25  Identities=24%  Similarity=0.318  Sum_probs=20.9

Q ss_pred             cccCCCCCcHHHHHHHHHHHHHhcC
Q psy14655          2 IASSKGGVGKSTTTVNLATAMKICY   26 (261)
Q Consensus         2 v~s~KGGvGKTT~a~~lA~~la~~g   26 (261)
                      +..+.-|+||||+...++..+....
T Consensus         4 ~I~G~~G~GKSTLl~~i~~~l~~~~   28 (178)
T d1ye8a1           4 IITGEPGVGKTTLVKKIVERLGKRA   28 (178)
T ss_dssp             EEECCTTSSHHHHHHHHHHHHGGGE
T ss_pred             EEECCCCcHHHHHHHHHHhcCCCCc
Confidence            4557789999999999999998654

>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=92.65  E-value=0.028  Score=40.17  Aligned_cols=26  Identities=42%  Similarity=0.455  Sum_probs=20.8

Q ss_pred             CCCCCcHHHHHHHHHHHHHhcCCCCeEEEEecC
Q psy14655          5 SKGGVGKSTTTVNLATAMKICYPDKEIGILDAD   37 (261)
Q Consensus         5 ~KGGvGKTT~a~~lA~~la~~g~~~~VllvD~D   37 (261)
                      +=-|+||||++..||..|   |  .+  ++|+|
T Consensus         8 G~~G~GKSTig~~La~~l---~--~~--fiD~D   33 (165)
T d2iyva1           8 GLPGSGKSTIGRRLAKAL---G--VG--LLDTD   33 (165)
T ss_dssp             CSTTSSHHHHHHHHHHHH---T--CC--EEEHH
T ss_pred             CCCCCCHHHHHHHHHHHh---C--CC--eEeec
Confidence            557999999999999777   4  55  46877

>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=92.49  E-value=0.26  Score=34.70  Aligned_cols=66  Identities=17%  Similarity=0.085  Sum_probs=40.5

Q ss_pred             CCCCEEEEeCCCCCChhH--HHHhhhcCCCeEEEEeC-CCcchHHHHHHHHHHHHhC--CCCeEEEEEcCCCC
Q psy14655        105 GPCDILFIDTPPGTGDTH--LSLIQNLFIDTAIIITI-PDTMSLQVAQRGYTMFKKL--NIPVAGLVMNMNSV  172 (261)
Q Consensus       105 ~~yd~IiiD~~~~~~~~~--~~~~~~~~ad~viiv~~-~~~~s~~~~~~~~~~l~~~--~~~~~giv~N~~~~  172 (261)
                      ..+.+.+.|+++......  ...+..  +|.+++|.+ .+..|...+...++.+...  ....+.+|.|+.+.
T Consensus        50 ~~~~~~~~d~~g~~~~~~~~~~~~~~--~~~~i~v~d~~~~~Sf~~~~~~~~~~~~~~~~~~~~ilvgnK~Dl  120 (167)
T d1z08a1          50 KRVNLAIWDTAGQERFHALGPIYYRD--SNGAILVYDITDEDSFQKVKNWVKELRKMLGNEICLCIVGNKIDL  120 (167)
T ss_dssp             CEEEEEEEECCCC-------CCSSTT--CSEEEEEEETTCHHHHHHHHHHHHHHHHHHGGGSEEEEEEECGGG
T ss_pred             ccceeeeeccCCcceecccchhhccC--CceeEEEEeCCchhHHHhhhhhhhhcccccccccceeeecccccc
Confidence            457888899886543221  223333  899999998 4556788877777655432  22345577898653

>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=92.42  E-value=0.064  Score=40.99  Aligned_cols=38  Identities=16%  Similarity=0.128  Sum_probs=30.0

Q ss_pred             cccCCCCCcHHHHHHHHHHHHHhcCCCCeEEEEecCCCC
Q psy14655          2 IASSKGGVGKSTTTVNLATAMKICYPDKEIGILDADVFG   40 (261)
Q Consensus         2 v~s~KGGvGKTT~a~~lA~~la~~g~~~~VllvD~D~~~   40 (261)
                      ++.+.-|+||||++..++..+.... +.+++.+.+....
T Consensus        47 ll~GppGtGKT~l~~~l~~~l~~~~-~~~~~~~~~~~~~   84 (276)
T d1fnna2          47 TLLGRPGTGKTVTLRKLWELYKDKT-TARFVYINGFIYR   84 (276)
T ss_dssp             EEECCTTSSHHHHHHHHHHHHTTSC-CCEEEEEETTTCC
T ss_pred             EEECCCCCCHHHHHHHHHHHHhccc-CCcEEEecchhhh
Confidence            4567889999999999999997654 4777777776554

>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=92.36  E-value=0.21  Score=36.22  Aligned_cols=41  Identities=12%  Similarity=0.131  Sum_probs=27.5

Q ss_pred             CCeEEEEeCCCcchHHHHHHHHHHHHhCCCCeEEEEEcCCCC
Q psy14655        131 IDTAIIITIPDTMSLQVAQRGYTMFKKLNIPVAGLVMNMNSV  172 (261)
Q Consensus       131 ad~viiv~~~~~~s~~~~~~~~~~l~~~~~~~~giv~N~~~~  172 (261)
                      +|.++++++.+..-......+++.+...+.+ +-+|+|+.+.
T Consensus       106 ~~~vi~viD~~~~~~~~~~~~~~~l~~~~~p-iivv~NK~D~  146 (195)
T d1svia_         106 LKAVVQIVDLRHAPSNDDVQMYEFLKYYGIP-VIVIATKADK  146 (195)
T ss_dssp             EEEEEEEEETTSCCCHHHHHHHHHHHHTTCC-EEEEEECGGG
T ss_pred             hhhhhhhhhccccccccccccccccccccCc-ceechhhccc
Confidence            4566666665443334556777788888877 5699999653

>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=92.33  E-value=0.025  Score=40.41  Aligned_cols=21  Identities=19%  Similarity=0.419  Sum_probs=17.4

Q ss_pred             cccCCCCCcHHHHHHHHHHHH
Q psy14655          2 IASSKGGVGKSTTTVNLATAM   22 (261)
Q Consensus         2 v~s~KGGvGKTT~a~~lA~~l   22 (261)
                      ++.+.-|+||||+|..||..+
T Consensus         9 ~i~G~~GsGKTT~~~~La~~l   29 (174)
T d1y63a_           9 LITGTPGTGKTSMAEMIAAEL   29 (174)
T ss_dssp             EEECSTTSSHHHHHHHHHHHS
T ss_pred             EEEeCCCCCHHHHHHHHHHHh
Confidence            456888999999998888665

>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=92.23  E-value=0.026  Score=40.53  Aligned_cols=21  Identities=24%  Similarity=0.196  Sum_probs=17.3

Q ss_pred             cccCCCCCcHHHHHHHHHHHH
Q psy14655          2 IASSKGGVGKSTTTVNLATAM   22 (261)
Q Consensus         2 v~s~KGGvGKTT~a~~lA~~l   22 (261)
                      ++.|--|+||||+|..||..+
T Consensus        11 ~i~G~~GsGKTTla~~La~~~   31 (192)
T d1lw7a2          11 AILGGESSGKSVLVNKLAAVF   31 (192)
T ss_dssp             EEECCTTSHHHHHHHHHHHHT
T ss_pred             EEECCCCCCHHHHHHHHHHHh
Confidence            456677999999999988865

>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=91.89  E-value=0.41  Score=33.73  Aligned_cols=65  Identities=14%  Similarity=0.032  Sum_probs=41.2

Q ss_pred             CCCCEEEEeCCCCCCh--hHHHHhhhcCCCeEEEEeC-CCcchHHHHHHHHHHHHhC-CC-CeEEEEEcCCC
Q psy14655        105 GPCDILFIDTPPGTGD--THLSLIQNLFIDTAIIITI-PDTMSLQVAQRGYTMFKKL-NI-PVAGLVMNMNS  171 (261)
Q Consensus       105 ~~yd~IiiD~~~~~~~--~~~~~~~~~~ad~viiv~~-~~~~s~~~~~~~~~~l~~~-~~-~~~giv~N~~~  171 (261)
                      ..+.+.+.|+++....  .....+..  +|.++++.+ .+..+..........+.+. .. ..+.+|.|+.+
T Consensus        53 ~~~~~~~~d~~g~~~~~~~~~~~~~~--~~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~iilvgnK~D  122 (170)
T d1r2qa_          53 TTVKFEIWDTAGQERYHSLAPMYYRG--AQAAIVVYDITNEESFARAKNWVKELQRQASPNIVIALSGNKAD  122 (170)
T ss_dssp             EEEEEEEEEECCSGGGGGGHHHHHTT--CSEEEEEEETTCHHHHHHHHHHHHHHHHHSCTTCEEEEEEECGG
T ss_pred             eEEEEEeccCCCchhhhhhHHHHhhC--cceEEEEeccchhhHHHHHHHHhhhhhhccCCCceEEeeccccc
Confidence            3467888898864322  22233444  899999888 5667777777776666442 22 24557889865

>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=91.77  E-value=0.042  Score=39.03  Aligned_cols=21  Identities=24%  Similarity=0.395  Sum_probs=18.1

Q ss_pred             cccCCCCCcHHHHHHHHHHHH
Q psy14655          2 IASSKGGVGKSTTTVNLATAM   22 (261)
Q Consensus         2 v~s~KGGvGKTT~a~~lA~~l   22 (261)
                      |+.+--|+||||+|..||..|
T Consensus        10 vl~G~~GsGKsT~a~~La~~l   30 (171)
T d1knqa_          10 VLMGVSGSGKSAVASEVAHQL   30 (171)
T ss_dssp             EEECSTTSCHHHHHHHHHHHH
T ss_pred             EEECCCCCCHHHHHHHHHHHh
Confidence            456778999999999999876

>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=91.76  E-value=0.028  Score=42.51  Aligned_cols=38  Identities=18%  Similarity=-0.020  Sum_probs=30.1

Q ss_pred             cccCCCCCcHHHHHHHHHHHHHh------cCCCCeEEEEecCCCCC
Q psy14655          2 IASSKGGVGKSTTTVNLATAMKI------CYPDKEIGILDADVFGP   41 (261)
Q Consensus         2 v~s~KGGvGKTT~a~~lA~~la~------~g~~~~VllvD~D~~~~   41 (261)
                      .+.+--|+||||++.++|...+.      .|  .+++++|......
T Consensus        38 li~G~pGsGKT~l~lq~~~~~~~~~~~~~~~--~~~~~i~~~~~~~   81 (251)
T d1szpa2          38 ELFGEFRTGKSQLCHTLAVTCQIPLDIGGGE--GKCLYIDTEGTFR   81 (251)
T ss_dssp             EEEESTTSSHHHHHHHHTTTTTSCTTTTCCS--CEEEEEESSSCCC
T ss_pred             EEEcCCCCCHHHHHHHHHHHhhhhhhhccCC--ceEEEEeecchHH
Confidence            34567899999999999977643      34  8999999988764

>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=91.73  E-value=0.062  Score=36.34  Aligned_cols=35  Identities=9%  Similarity=0.132  Sum_probs=29.7

Q ss_pred             cccCCCCCcHHHHHHHHHHHHHhc-CCCCeEEEEecC
Q psy14655          2 IASSKGGVGKSTTTVNLATAMKIC-YPDKEIGILDAD   37 (261)
Q Consensus         2 v~s~KGGvGKTT~a~~lA~~la~~-g~~~~VllvD~D   37 (261)
                      |..+--|+||||+|..|-..|.+. | +++|=++|-|
T Consensus        10 ~~tg~~~~gk~~ia~al~~~l~q~~G-~R~vtll~~~   45 (122)
T d1g8fa3          10 VLGNSLTVSREQLSIALLSTFLQFGG-GRYYKIFEHN   45 (122)
T ss_dssp             EECTTCCSCHHHHHHHHHHHHTTSCS-CCCEEECCCT
T ss_pred             EEeCCCCCCHHHHHHHHHHHHHHhcC-CcceEEecCC
Confidence            556777999999999999999884 4 5899999887

>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=91.61  E-value=0.034  Score=43.55  Aligned_cols=20  Identities=20%  Similarity=0.282  Sum_probs=16.9

Q ss_pred             ccCCCCCcHHHHHHHHHHHH
Q psy14655          3 ASSKGGVGKSTTTVNLATAM   22 (261)
Q Consensus         3 ~s~KGGvGKTT~a~~lA~~l   22 (261)
                      +-+-||+||||+|.++....
T Consensus        49 I~GmgGiGKTtLA~~v~~~~   68 (277)
T d2a5yb3          49 LHGRAGSGKSVIASQALSKS   68 (277)
T ss_dssp             EECSTTSSHHHHHHHHHHHC
T ss_pred             EECCCCCCHHHHHHHHHHhh
Confidence            55789999999999987664

>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=91.30  E-value=0.24  Score=35.53  Aligned_cols=65  Identities=11%  Similarity=0.074  Sum_probs=40.6

Q ss_pred             CCCCEEEEeCCCCCC--hhHHHHhhhcCCCeEEEEeCC-CcchHHHHHHHHHHHHhC-------CCCeEEEEEcCCCC
Q psy14655        105 GPCDILFIDTPPGTG--DTHLSLIQNLFIDTAIIITIP-DTMSLQVAQRGYTMFKKL-------NIPVAGLVMNMNSV  172 (261)
Q Consensus       105 ~~yd~IiiD~~~~~~--~~~~~~~~~~~ad~viiv~~~-~~~s~~~~~~~~~~l~~~-------~~~~~giv~N~~~~  172 (261)
                      ..+.+.+.|+++...  .........  ||.++++... +..+...+...+..+...       +.+ +-+|.|+++.
T Consensus        49 ~~~~~~~~d~~g~~~~~~~~~~~~~~--~~~~i~~~d~~~~~~~~~~~~~~~~i~~~~~~~~~~~ip-~ilv~nK~Dl  123 (184)
T d1vg8a_          49 RLVTMQIWDTAGQERFQSLGVAFYRG--ADCCVLVFDVTAPNTFKTLDSWRDEFLIQASPRDPENFP-FVVLGNKIDL  123 (184)
T ss_dssp             CEEEEEEEEECSSGGGSCSCCGGGTT--CSEEEEEEETTCHHHHHTHHHHHHHHHHHHCCSSGGGSC-EEEEEECTTS
T ss_pred             ceEEEEeeecCCcccccccccccccC--ccEEEEeecccchhhhhcchhhHHHHHHHhccccccCCC-EEEEEEeecc
Confidence            446778889875432  222233333  8999999985 557777777766555431       234 4588899764

>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=90.99  E-value=0.044  Score=38.17  Aligned_cols=30  Identities=20%  Similarity=0.133  Sum_probs=21.0

Q ss_pred             cccCCCCCcHHHHHHHHHHHHHhcCCCCeEEEEecC
Q psy14655          2 IASSKGGVGKSTTTVNLATAMKICYPDKEIGILDAD   37 (261)
Q Consensus         2 v~s~KGGvGKTT~a~~lA~~la~~g~~~~VllvD~D   37 (261)
                      ++.+--|+||||+|..|+    +..  .....++.|
T Consensus         6 ii~G~pGsGKTTla~~L~----~~~--~~~~~~~~d   35 (152)
T d1ly1a_           6 LTIGCPGSGKSTWAREFI----AKN--PGFYNINRD   35 (152)
T ss_dssp             EEECCTTSSHHHHHHHHH----HHS--TTEEEECHH
T ss_pred             EEECCCCCCHHHHHHHHH----HhC--CCCEEechH
Confidence            567888999999987653    344  455666665

>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=90.97  E-value=0.41  Score=33.43  Aligned_cols=66  Identities=15%  Similarity=0.085  Sum_probs=42.3

Q ss_pred             CCCCEEEEeCCCCCC--hhHHHHhhhcCCCeEEEEeC-CCcchHHHHHHHHHHHHhC--CCCeEEEEEcCCCC
Q psy14655        105 GPCDILFIDTPPGTG--DTHLSLIQNLFIDTAIIITI-PDTMSLQVAQRGYTMFKKL--NIPVAGLVMNMNSV  172 (261)
Q Consensus       105 ~~yd~IiiD~~~~~~--~~~~~~~~~~~ad~viiv~~-~~~~s~~~~~~~~~~l~~~--~~~~~giv~N~~~~  172 (261)
                      ..+.+-+.|+++.-.  ......+..  +|.++++.+ .+..+...+...+..+...  .-..+.+|.|+.+.
T Consensus        47 ~~~~~~i~d~~g~~~~~~~~~~~~~~--~~~~ilv~d~~~~~s~~~i~~~~~~~~~~~~~~~~iilvgnK~Dl  117 (164)
T d1yzqa1          47 RTIRLQLWDTAGQERFRSLIPSYIRD--SAAAVVVYDITNVNSFQQTTKWIDDVRTERGSDVIIMLVGNKTDL  117 (164)
T ss_dssp             CEEEEEEEEECCSGGGGGGHHHHHTT--CSEEEEEEETTCHHHHHTHHHHHHHHHHHHTTSSEEEEEEECTTC
T ss_pred             CceeeeecccCCcchhccchHHHhhc--cceEEEeeccccccchhhhHhhHHHHHHhcCCCceEEEEecccch
Confidence            346677888876432  222333444  899999988 5667788877777655542  22346688899664

>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=90.88  E-value=0.34  Score=37.45  Aligned_cols=33  Identities=30%  Similarity=0.276  Sum_probs=23.9

Q ss_pred             CCCCCcHHHHHHHHHHHHHhcC-----CCCeEEEEecC
Q psy14655          5 SKGGVGKSTTTVNLATAMKICY-----PDKEIGILDAD   37 (261)
Q Consensus         5 ~KGGvGKTT~a~~lA~~la~~g-----~~~~VllvD~D   37 (261)
                      +.-|||||+++-.||..+....     .+++|.-+|+.
T Consensus        46 G~~GvGKTalv~~la~ri~~~~vp~~l~~~~i~~l~~~   83 (268)
T d1r6bx2          46 GESGVGKTAIAEGLAWRIVQGDVPEVMADCTIYSLDIG   83 (268)
T ss_dssp             CCTTSSHHHHHHHHHHHHHHTCSCGGGTTCEEEECCCC
T ss_pred             CCCCCcHHHHHHHHHHHHHhCCcccccccceeEEeeec
Confidence            5679999999999999998632     12555555543

>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=90.58  E-value=0.46  Score=33.92  Aligned_cols=65  Identities=18%  Similarity=0.246  Sum_probs=45.5

Q ss_pred             CCCCEEEEeCCCCCChh--HHHHhhhcCCCeEEEEeCCCcchHHHHHHHHHHHHhCCCCeEEEEEcCCCC
Q psy14655        105 GPCDILFIDTPPGTGDT--HLSLIQNLFIDTAIIITIPDTMSLQVAQRGYTMFKKLNIPVAGLVMNMNSV  172 (261)
Q Consensus       105 ~~yd~IiiD~~~~~~~~--~~~~~~~~~ad~viiv~~~~~~s~~~~~~~~~~l~~~~~~~~giv~N~~~~  172 (261)
                      .++.+.++|+|......  ....+..  +|.+++++..+..-..+.......+...+.|.+ +|+|+.+.
T Consensus        57 ~~~~~~~~d~~g~~~~~~~~~~~l~~--~d~~ilv~d~~~g~~~~~~~~~~~~~~~~~p~i-iv~NKiD~  123 (179)
T d1wb1a4          57 ENYRITLVDAPGHADLIRAVVSAADI--IDLALIVVDAKEGPKTQTGEHMLILDHFNIPII-VVITKSDN  123 (179)
T ss_dssp             TTEEEEECCCSSHHHHHHHHHHHTTS--CCEEEEEEETTTCSCHHHHHHHHHHHHTTCCBC-EEEECTTS
T ss_pred             CCccccccccccccccccchhhhhhh--ccccccccccccccchhhhhhhhhhhhcCCcce-eccccccc
Confidence            56678888887643322  2233333  899999988777666667777888888898854 88999764

>d1eg7a_ c.37.1.10 (A:) Formyltetrahydrofolate synthetase {Moorella thermoacetica [TaxId: 1525]}

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: Formyltetrahydrofolate synthetase
species: Moorella thermoacetica [TaxId: 1525]

Probab=90.51  E-value=0.1  Score=44.08  Aligned_cols=45  Identities=27%  Similarity=0.310  Sum_probs=34.7

Q ss_pred             cccCCCCCcHHHHHHHHHHHHHhcCCCCeEEEEecCCCCCCcccccCCCC
Q psy14655          2 IASSKGGVGKSTTTVNLATAMKICYPDKEIGILDADVFGPSIPILMNLPD   51 (261)
Q Consensus         2 v~s~KGGvGKTT~a~~lA~~la~~g~~~~VllvD~D~~~~~~~~~~~~~~   51 (261)
                      +.-..=|.||||++..|+..|++.|  +++.+.=   ..||+.-.||+..
T Consensus        59 itPTp~GEGKtTttiGL~~aL~~lg--k~~~~~l---RePSlGP~fGiKG  103 (549)
T d1eg7a_          59 ITPTPAGEGKTTTSVGLTDALARLG--KRVMVCL---REPSLGPSFGIKG  103 (549)
T ss_dssp             SSCCTTCCCHHHHHHHHHHHHHHTT--CCEEEEE---CCCCSTHHHHTTC
T ss_pred             CCCCCCCCCcceeHHhHHHHHHHhC--CceEEEE---ecCCCCCcccccc
Confidence            3445679999999999999999999  8887753   4455656666654

>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=90.33  E-value=0.13  Score=37.57  Aligned_cols=64  Identities=14%  Similarity=0.098  Sum_probs=44.4

Q ss_pred             CCCEEEEeCCCCCChh--HHHHhhhcCCCeEEEEeCCCcch-HHHHHHHHHHHHhCCCCeEEEEEcCCC
Q psy14655        106 PCDILFIDTPPGTGDT--HLSLIQNLFIDTAIIITIPDTMS-LQVAQRGYTMFKKLNIPVAGLVMNMNS  171 (261)
Q Consensus       106 ~yd~IiiD~~~~~~~~--~~~~~~~~~ad~viiv~~~~~~s-~~~~~~~~~~l~~~~~~~~giv~N~~~  171 (261)
                      .+.+.++|||+.....  ....+..  +|.+++++...... ...+...+..+...+.+.+-+++|+.+
T Consensus        77 ~~~~~~iDtPGh~~f~~~~~~~~~~--~d~~ilvvda~~g~~~~~t~e~~~~~~~~~~~~iiv~inK~D  143 (195)
T d1kk1a3          77 VRRVSFIDAPGHEALMTTMLAGASL--MDGAILVIAANEPCPRPQTREHLMALQIIGQKNIIIAQNKIE  143 (195)
T ss_dssp             EEEEEEEECSSHHHHHHHHHHCGGG--CSEEEEEEETTSCSSCHHHHHHHHHHHHHTCCCEEEEEECGG
T ss_pred             ceeEeeeccchhhhhhHHhhccccc--ccccccccchhhhhhhhhhHHHHHHHHHhcCccceeeeeccc
Confidence            3558999999754322  2233334  89999999876654 455667777788778887778899855

>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=90.29  E-value=0.14  Score=39.40  Aligned_cols=67  Identities=15%  Similarity=0.097  Sum_probs=32.6

Q ss_pred             CCCCEEEEeCCCCCC-----hhHHH----HhhhcCCCeEEEEeCCCcc--hHHHHHHHHHHHHh-CC---CCeEEEEEcC
Q psy14655        105 GPCDILFIDTPPGTG-----DTHLS----LIQNLFIDTAIIITIPDTM--SLQVAQRGYTMFKK-LN---IPVAGLVMNM  169 (261)
Q Consensus       105 ~~yd~IiiD~~~~~~-----~~~~~----~~~~~~ad~viiv~~~~~~--s~~~~~~~~~~l~~-~~---~~~~giv~N~  169 (261)
                      .+..++|+|||+-.+     .....    .......+.++++...+..  +-.+.. .++.+.. ++   .+..-+|+|+
T Consensus        78 ~g~~i~viDTPGl~~~~~~~~~~~~~i~~~~~~~~~~~il~v~~~~~~r~~~~~~~-~l~~l~~~fg~~~~~~~ivv~t~  156 (257)
T d1h65a_          78 AGFTLNIIDTPGLIEGGYINDMALNIIKSFLLDKTIDVLLYVDRLDAYRVDNLDKL-VAKAITDSFGKGIWNKAIVALTH  156 (257)
T ss_dssp             TTEEEEEEECCCSEETTEECHHHHHHHHHHTTTCEECEEEEEEESSCCCCCHHHHH-HHHHHHHHHCGGGGGGEEEEEEC
T ss_pred             ccEEEEEEeeecccCCcchHHHHHHHHHHHHhcCCCCeEEEEEECCCCCCCHHHHH-HHHHHHHHcchhhhhCEEEEEEC
Confidence            567899999996431     11111    1111114566666665432  322222 2333222 12   2346689999


Q ss_pred             CCC
Q psy14655        170 NSV  172 (261)
Q Consensus       170 ~~~  172 (261)
                      .+.
T Consensus       157 ~D~  159 (257)
T d1h65a_         157 AQF  159 (257)
T ss_dssp             CSC
T ss_pred             ccc
Confidence            765

>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=90.14  E-value=0.075  Score=38.00  Aligned_cols=27  Identities=33%  Similarity=0.412  Sum_probs=21.2

Q ss_pred             cCCCCCcHHHHHHHHHHHHHhcCCCCeEEEEecC
Q psy14655          4 SSKGGVGKSTTTVNLATAMKICYPDKEIGILDAD   37 (261)
Q Consensus         4 s~KGGvGKTT~a~~lA~~la~~g~~~~VllvD~D   37 (261)
                      -+-.|+||||++..||..|   |  .+  ++|.|
T Consensus         8 ~G~~GsGKSTia~~LA~~L---g--~~--~id~D   34 (170)
T d1e6ca_           8 VGARGCGMTTVGRELARAL---G--YE--FVDTD   34 (170)
T ss_dssp             ESCTTSSHHHHHHHHHHHH---T--CE--EEEHH
T ss_pred             ECCCCCCHHHHHHHHHHHh---C--CC--EEehh
Confidence            3567999999999999777   4  55  56776

>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=90.13  E-value=0.033  Score=44.91  Aligned_cols=29  Identities=21%  Similarity=0.318  Sum_probs=25.5

Q ss_pred             CCCCCcHHHHHHHHHHHHHhcCCCCeEEEEe
Q psy14655          5 SKGGVGKSTTTVNLATAMKICYPDKEIGILD   35 (261)
Q Consensus         5 ~KGGvGKTT~a~~lA~~la~~g~~~~VllvD   35 (261)
                      +-=|+||||++..|+..+...|  .+|+++.
T Consensus        12 G~iGsGKSTl~~~L~~~l~~~g--~~v~~~~   40 (331)
T d1osna_          12 GAYGIGKTTAAEEFLHHFAITP--NRILLIG   40 (331)
T ss_dssp             ESSSSCTTHHHHHHHHTTTTSG--GGEEEEC
T ss_pred             CCCCCCHHHHHHHHHHHHhhcC--CceEEEe
Confidence            4459999999999999999888  8888885

>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=89.98  E-value=0.081  Score=37.53  Aligned_cols=28  Identities=36%  Similarity=0.291  Sum_probs=21.5

Q ss_pred             ccCCCCCcHHHHHHHHHHHHHhcCCCCeEEEEecC
Q psy14655          3 ASSKGGVGKSTTTVNLATAMKICYPDKEIGILDAD   37 (261)
Q Consensus         3 ~s~KGGvGKTT~a~~lA~~la~~g~~~~VllvD~D   37 (261)
                      ..+-.|+||||++..||..|   |  .+  ++|+|
T Consensus         5 liG~~GsGKsTi~k~La~~l---~--~~--~~d~d   32 (161)
T d1viaa_           5 FIGFMGSGKSTLARALAKDL---D--LV--FLDSD   32 (161)
T ss_dssp             EECCTTSCHHHHHHHHHHHH---T--CE--EEEHH
T ss_pred             EECCCCCCHHHHHHHHHHHh---C--CC--EEecC
Confidence            34668999999999999888   4  44  45766

>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=89.65  E-value=0.047  Score=41.60  Aligned_cols=34  Identities=18%  Similarity=0.050  Sum_probs=22.0

Q ss_pred             cccCCCCCcHHHHHHHHHHHHHhcCCCCeEEEEecC
Q psy14655          2 IASSKGGVGKSTTTVNLATAMKICYPDKEIGILDAD   37 (261)
Q Consensus         2 v~s~KGGvGKTT~a~~lA~~la~~g~~~~VllvD~D   37 (261)
                      +..+..|+||||++..+|..+-..+  .....+|+.
T Consensus        37 ll~Gp~G~GKTt~~~~la~~l~~~~--~~~~~~~~~   70 (252)
T d1sxje2          37 LLYGPNGTGKKTRCMALLESIFGPG--VYRLKIDVR   70 (252)
T ss_dssp             EEECSTTSSHHHHHHTHHHHHSCTT--CCC------
T ss_pred             EEECCCCCCHHHHHHHHHHhhcCcc--ccccccccc
Confidence            4678899999999999999885444  343344433

>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=89.53  E-value=0.18  Score=37.04  Aligned_cols=33  Identities=24%  Similarity=0.275  Sum_probs=24.0

Q ss_pred             CCCCCcHHHHHHHHHHHHHhcC-----CCCeEEEEecC
Q psy14655          5 SKGGVGKSTTTVNLATAMKICY-----PDKEIGILDAD   37 (261)
Q Consensus         5 ~KGGvGKTT~a~~lA~~la~~g-----~~~~VllvD~D   37 (261)
                      +.-|||||+++-.||..+....     .+++++-+|+.
T Consensus        50 G~pGVGKTalv~~LA~ri~~~~vp~~L~~~~i~~ld~~   87 (195)
T d1jbka_          50 GEPGVGKTAIVEGLAQRIINGEVPEGLKGRRVLALDMG   87 (195)
T ss_dssp             CCTTSCHHHHHHHHHHHHHHTCSCGGGTTCEEEEECHH
T ss_pred             ecCCcccHHHHHHHHHHHHhCCCCHHHcCceEEEeeHH
Confidence            5679999999999999998532     12555555543

>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=89.19  E-value=0.23  Score=34.92  Aligned_cols=65  Identities=11%  Similarity=0.036  Sum_probs=37.7

Q ss_pred             CCCCEEEEeCCCCC--ChhHHHHhhhcCCCeEEEEeCC-CcchHHHHHHHHHHHHhC--CCCeEEEEEcCCC
Q psy14655        105 GPCDILFIDTPPGT--GDTHLSLIQNLFIDTAIIITIP-DTMSLQVAQRGYTMFKKL--NIPVAGLVMNMNS  171 (261)
Q Consensus       105 ~~yd~IiiD~~~~~--~~~~~~~~~~~~ad~viiv~~~-~~~s~~~~~~~~~~l~~~--~~~~~giv~N~~~  171 (261)
                      ..+.+.|.|+|+.-  .......+..  +|.++++... +..+...+......+...  .....-++.|+..
T Consensus        49 ~~~~~~i~Dt~G~~~~~~~~~~~~~~--~~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~i~~~~k~d  118 (166)
T d1g16a_          49 KKVKLQIWDTAGQERFRTITTAYYRG--AMGIILVYDITDERTFTNIKQWFKTVNEHANDEAQLLLVGNKSD  118 (166)
T ss_dssp             CEEEEEEECCTTGGGTSCCCHHHHTT--EEEEEEEEETTCHHHHHTHHHHHHHHHHHSCTTCEEEEEEECTT
T ss_pred             EEEEEEEEECCCchhhHHHHHHHHhc--CCEEEEEEECCCccCHHHHHhhhhhhhccccCcceeeeecchhh
Confidence            45678889998642  2222234444  8889999884 455666666655544432  2233445666633

>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=88.87  E-value=0.072  Score=39.06  Aligned_cols=25  Identities=16%  Similarity=0.062  Sum_probs=20.9

Q ss_pred             cccCCCCCcHHHHHHHHHHHHHhcC
Q psy14655          2 IASSKGGVGKSTTTVNLATAMKICY   26 (261)
Q Consensus         2 v~s~KGGvGKTT~a~~lA~~la~~g   26 (261)
                      .+.+-.|+||||++.++|...+..+
T Consensus        27 ~i~G~~GsGKT~l~l~la~~~~~~~   51 (242)
T d1n0wa_          27 EMFGEFRTGKTQICHTLAVTCQLPI   51 (242)
T ss_dssp             EEECCTTSSHHHHHHHHHHHTTSCG
T ss_pred             EEEeCCCCCHHHHHHHHHHHHHHhh
Confidence            3567789999999999999888654

>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=88.60  E-value=0.066  Score=41.09  Aligned_cols=32  Identities=16%  Similarity=0.308  Sum_probs=23.3

Q ss_pred             cccCCCCCcHHHHHHHHHHHHHhcCCCCeEEEEecCC
Q psy14655          2 IASSKGGVGKSTTTVNLATAMKICYPDKEIGILDADV   38 (261)
Q Consensus         2 v~s~KGGvGKTT~a~~lA~~la~~g~~~~VllvD~D~   38 (261)
                      +..+--|+||||+|..+|..+   +  ...+.|++|.
T Consensus        36 lL~GpPGtGKT~la~~la~~~---~--~~~~~i~~d~   67 (273)
T d1gvnb_          36 LLGGQPGSGKTSLRSAIFEET---Q--GNVIVIDNDT   67 (273)
T ss_dssp             EEECCTTSCTHHHHHHHHHHT---T--TCCEEECTHH
T ss_pred             EEECCCCCCHHHHHHHHHHHh---h--cceEEEecHH
Confidence            345677999999998888766   4  5567776643

>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=88.44  E-value=0.14  Score=39.03  Aligned_cols=33  Identities=18%  Similarity=0.059  Sum_probs=24.7

Q ss_pred             cccCCCCCcHHHHHHHHHHHHHhcCCCCeEEEEecCCC
Q psy14655          2 IASSKGGVGKSTTTVNLATAMKICYPDKEIGILDADVF   39 (261)
Q Consensus         2 v~s~KGGvGKTT~a~~lA~~la~~g~~~~VllvD~D~~   39 (261)
                      ++.+-+|+||||++..++..+   +  .+...+++...
T Consensus        33 ~i~G~~G~GKTsLl~~~~~~~---~--~~~~~i~~~~~   65 (283)
T d2fnaa2          33 LVLGLRRTGKSSIIKIGINEL---N--LPYIYLDLRKF   65 (283)
T ss_dssp             EEEESTTSSHHHHHHHHHHHH---T--CCEEEEEGGGG
T ss_pred             EEEcCCCCcHHHHHHHHHHHC---C--CCeEEEEeccc
Confidence            456788999999998876544   5  67788887544

>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=88.32  E-value=0.1  Score=37.59  Aligned_cols=21  Identities=19%  Similarity=0.268  Sum_probs=18.0

Q ss_pred             cccCCCCCcHHHHHHHHHHHH
Q psy14655          2 IASSKGGVGKSTTTVNLATAM   22 (261)
Q Consensus         2 v~s~KGGvGKTT~a~~lA~~l   22 (261)
                      |+-+--|+||||+|..||..+
T Consensus         4 ~i~G~pGSGKsT~a~~La~~~   24 (182)
T d1s3ga1           4 VLMGLPGAGKGTQADRIVEKY   24 (182)
T ss_dssp             EEECSTTSSHHHHHHHHHHHH
T ss_pred             EEECCCCCCHHHHHHHHHHHH
Confidence            456778999999999999876

>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=88.26  E-value=0.16  Score=41.92  Aligned_cols=33  Identities=24%  Similarity=0.244  Sum_probs=28.2

Q ss_pred             ccCCCCCcHHHHHHHHHHHHHhcCCCCeEEEEecC
Q psy14655          3 ASSKGGVGKSTTTVNLATAMKICYPDKEIGILDAD   37 (261)
Q Consensus         3 ~s~KGGvGKTT~a~~lA~~la~~g~~~~VllvD~D   37 (261)
                      +-+.-|+|||++..++...+.+.|  ..++++|.-
T Consensus        55 I~G~tGsGKT~~l~~li~~~~~~g--~~~iiiD~k   87 (433)
T d1e9ra_          55 VNGATGTGKSVLLRELAYTGLLRG--DRMVIVDPN   87 (433)
T ss_dssp             EEECTTSSHHHHHHHHHHHHHHTT--CEEEEEEET
T ss_pred             EEeCCCCcHHHHHHHHHHHHHhCC--CCEEEEeCC
Confidence            446779999999989998888888  999999754

>d2g0ta1 c.37.1.10 (A:1-338) Hypothetical protein TM0796 {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: Hypothetical protein TM0796
species: Thermotoga maritima [TaxId: 2336]

Probab=88.25  E-value=0.83  Score=36.23  Aligned_cols=134  Identities=19%  Similarity=0.197  Sum_probs=78.4

Q ss_pred             cccCCCCCcHHHHHHHHHHHHHhcCCCCeEEEEecCCCCCCcccccCCCCCCCCCcCCccccccccCceeecCCCCcccc
Q psy14655          2 IASSKGGVGKSTTTVNLATAMKICYPDKEIGILDADVFGPSIPILMNLPDTPLLNKDNLMIPLVNYGVKCLSMGNLITEK   81 (261)
Q Consensus         2 v~s~KGGvGKTT~a~~lA~~la~~g~~~~VllvD~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~   81 (261)
                      +++.---+||=|+|..|..+|.++|  .++-++-.-..+    .+.+.+  .++.            ++.++.       
T Consensus       162 ~vGTDca~GK~tTal~l~~~l~~~G--~~a~fiaTGQTG----ili~g~--~Gv~------------~Dav~~-------  214 (338)
T d2g0ta1         162 VFGTDCVVGKRTTAVQLWERALEKG--IKAGFLATGQTG----ILIGAD--AGYV------------IDAVPA-------  214 (338)
T ss_dssp             EEESSSSSSHHHHHHHHHHHHHHTT--CCEEEEECSHHH----HHTTCS--EECC------------GGGSBG-------
T ss_pred             EeccCccccHHHHHHHHHHHHHhCC--CCeeEEEcCCee----Eeeccc--ccee------------cCcchh-------
Confidence            4556667999999999999999999  999888765442    333322  0110            111111       


Q ss_pred             hhhhhhchHHHHHHHHHHHHhccCCCCEEEEeCCCCCChh-----HHHHhhhcCCCeEEEEeCCCcch---------HHH
Q psy14655         82 SAAIWRGLMVMQALNKLTVQVQWGPCDILFIDTPPGTGDT-----HLSLIQNLFIDTAIIITIPDTMS---------LQV  147 (261)
Q Consensus        82 ~~~~~~~~~~~~~l~~~l~~l~~~~yd~IiiD~~~~~~~~-----~~~~~~~~~ad~viiv~~~~~~s---------~~~  147 (261)
                             .+..-.++.++-....++.|+|||-..+++.+.     ...++.....|.+|+.-.|+...         +-.
T Consensus       215 -------DfvaGavE~~v~~~~~~~~d~iiIEGQgSL~hP~~s~vtl~LL~Gs~Pd~lVL~H~p~r~~~~~~~~~~~iP~  287 (338)
T d2g0ta1         215 -------DFVSGVVEKAVLKLEKTGKEIVFVEGQGALRHPAYGQVTLGLLYGSNPDVVFLVHDPSRDHFESFPEIPKKPD  287 (338)
T ss_dssp             -------GGHHHHHHHHHHHHHHTTCSEEEEECCSCTTCTTTHHHHHHHHHHHCCSEEEEECCTTCSSCTTCTTSSCCCC
T ss_pred             -------hhhHHHHHHHHhhhhcCCCCEEEEcccccccccccccccHHHHhcCCCCEEEEeecCCccccccCcccCCCCC
Confidence                   122223444332222257899999999877443     33455555589999986665332         223


Q ss_pred             HHHHHHHHHhC-CCCeE-EEEEcC
Q psy14655        148 AQRGYTMFKKL-NIPVA-GLVMNM  169 (261)
Q Consensus       148 ~~~~~~~l~~~-~~~~~-giv~N~  169 (261)
                      +...++.++.+ +.+++ |+-+|-
T Consensus       288 l~~~i~l~e~l~~~~vv~gIslNt  311 (338)
T d2g0ta1         288 FEEERRLIETLSNAKVIGGVSLNG  311 (338)
T ss_dssp             HHHHHHHHHHSSSCEEEEEECSSC
T ss_pred             HHHHHHHHHhhCCCCEEEEEEecc
Confidence            34445555554 33334 777775

>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=88.17  E-value=0.38  Score=33.34  Aligned_cols=18  Identities=28%  Similarity=0.375  Sum_probs=13.4

Q ss_pred             cccCCCCCcHHHHHHHHH
Q psy14655          2 IASSKGGVGKSTTTVNLA   19 (261)
Q Consensus         2 v~s~KGGvGKTT~a~~lA   19 (261)
                      ++-++.||||||+.-.|.
T Consensus         5 ~lvG~~nvGKSsLin~l~   22 (161)
T d2gj8a1           5 VIAGRPNAGKSSLLNALA   22 (161)
T ss_dssp             EEEESTTSSHHHHHHHHH
T ss_pred             EEECCCCCCHHHHHHHHh
Confidence            345788999999876554

>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=88.16  E-value=0.13  Score=37.01  Aligned_cols=21  Identities=33%  Similarity=0.487  Sum_probs=18.2

Q ss_pred             cccCCCCCcHHHHHHHHHHHH
Q psy14655          2 IASSKGGVGKSTTTVNLATAM   22 (261)
Q Consensus         2 v~s~KGGvGKTT~a~~lA~~l   22 (261)
                      |+-+.-|+||||+|..||..+
T Consensus         4 ~i~G~pGsGKsT~a~~La~~~   24 (181)
T d2cdna1           4 LLLGPPGAGKGTQAVKLAEKL   24 (181)
T ss_dssp             EEECCTTSSHHHHHHHHHHHH
T ss_pred             EEECCCCCCHHHHHHHHHHHH
Confidence            456788999999999999877

>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=88.12  E-value=0.1  Score=39.32  Aligned_cols=21  Identities=24%  Similarity=0.431  Sum_probs=17.2

Q ss_pred             cccCCCCCcHHHHHHHHHHHH
Q psy14655          2 IASSKGGVGKSTTTVNLATAM   22 (261)
Q Consensus         2 v~s~KGGvGKTT~a~~lA~~l   22 (261)
                      +..+--|+||||+|..+|..+
T Consensus        39 L~~GPpGtGKT~lA~~la~~~   59 (238)
T d1in4a2          39 LLAGPPGLGKTTLAHIIASEL   59 (238)
T ss_dssp             EEESSTTSSHHHHHHHHHHHH
T ss_pred             EEECCCCCcHHHHHHHHHhcc
Confidence            456678999999999888775

>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=88.01  E-value=0.14  Score=38.62  Aligned_cols=32  Identities=19%  Similarity=0.232  Sum_probs=26.5

Q ss_pred             cccCCCCCcHHHHHHHHHHHHHhcCCCCeEEEEe
Q psy14655          2 IASSKGGVGKSTTTVNLATAMKICYPDKEIGILD   35 (261)
Q Consensus         2 v~s~KGGvGKTT~a~~lA~~la~~g~~~~VllvD   35 (261)
                      ++...-|.|||+++...+..+++.|  .+|++|=
T Consensus        62 ~i~apTGsGKT~~~~~~~~~~~~~~--~rvliv~   93 (237)
T d1gkub1          62 AATAPTGVGKTSFGLAMSLFLALKG--KRCYVIF   93 (237)
T ss_dssp             ECCCCBTSCSHHHHHHHHHHHHTTS--CCEEEEE
T ss_pred             EEEecCCChHHHHHHHHHHHHHHhc--CeEEEEe
Confidence            3445679999999988888888888  8998886

>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=87.88  E-value=0.13  Score=38.19  Aligned_cols=21  Identities=24%  Similarity=0.248  Sum_probs=18.2

Q ss_pred             ccCCCCCcHHHHHHHHHHHHH
Q psy14655          3 ASSKGGVGKSTTTVNLATAMK   23 (261)
Q Consensus         3 ~s~KGGvGKTT~a~~lA~~la   23 (261)
                      +.+.-|+||||+|..||..|.
T Consensus         8 IdGp~GsGKgT~ak~La~~lg   28 (223)
T d1q3ta_           8 IDGPASSGKSTVAKIIAKDFG   28 (223)
T ss_dssp             EECSSCSSHHHHHHHHHHHHC
T ss_pred             EECCCCCCHHHHHHHHHHHhC
Confidence            457889999999999998883

>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=87.86  E-value=0.094  Score=38.23  Aligned_cols=21  Identities=24%  Similarity=0.357  Sum_probs=17.2

Q ss_pred             cccCCCCCcHHHHHHHHHHHH
Q psy14655          2 IASSKGGVGKSTTTVNLATAM   22 (261)
Q Consensus         2 v~s~KGGvGKTT~a~~lA~~l   22 (261)
                      ++-+--|+||||+|..||..+
T Consensus        10 ~i~G~pGSGKsT~a~~La~~~   30 (194)
T d1qf9a_          10 FVLGGPGSGKGTQCANIVRDF   30 (194)
T ss_dssp             EEEESTTSSHHHHHHHHHHHH
T ss_pred             EEECCCCCCHHHHHHHHHHHH
Confidence            445678999999999998765

>d1e8ca3 c.72.2.1 (A:104-337) UDP-N-acetylmuramyl tripeptide synthetase MurE {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: Ribokinase-like
superfamily: MurD-like peptide ligases, catalytic domain
family: MurCDEF
domain: UDP-N-acetylmuramyl tripeptide synthetase MurE
species: Escherichia coli [TaxId: 562]

Probab=87.72  E-value=0.16  Score=38.00  Aligned_cols=30  Identities=27%  Similarity=0.230  Sum_probs=26.0

Q ss_pred             ccCCCCCcHHHHHHHHHHHHHhcCCCCeEEEE
Q psy14655          3 ASSKGGVGKSTTTVNLATAMKICYPDKEIGIL   34 (261)
Q Consensus         3 ~s~KGGvGKTT~a~~lA~~la~~g~~~~Vllv   34 (261)
                      ++--|=.||||++..++..|...|  +++.++
T Consensus         8 I~ITGT~GKTTt~~~l~~iL~~~g--~~~~~~   37 (234)
T d1e8ca3           8 VGVTGTNGKTTTTQLLAQWSQLLG--EISAVM   37 (234)
T ss_dssp             EEEESSSCHHHHHHHHHHHHHHTT--CCEEEE
T ss_pred             EEEECCCcHHHHHHHHHHHHHHCC--CCeEEE
Confidence            344577899999999999999999  999876

>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=87.67  E-value=0.15  Score=38.47  Aligned_cols=39  Identities=18%  Similarity=0.117  Sum_probs=29.6

Q ss_pred             cccCCCCCcHHHHHHHHHHHHHhcC----CCCeEEEEecCCCC
Q psy14655          2 IASSKGGVGKSTTTVNLATAMKICY----PDKEIGILDADVFG   40 (261)
Q Consensus         2 v~s~KGGvGKTT~a~~lA~~la~~g----~~~~VllvD~D~~~   40 (261)
                      ++.+.-|+|||++|.++|...+..+    ....|+.+|.....
T Consensus        41 ~i~G~~GsGKT~lalq~~~~~~~~~~~~~~~~~~~~~~~~~~~   83 (258)
T d1v5wa_          41 EAFGEFRTGKTQLSHTLCVTAQLPGAGGYPGGKIIFIDTENTF   83 (258)
T ss_dssp             EEECCTTCTHHHHHHHHHHHTTSCBTTTBCCCEEEEEESSSCC
T ss_pred             EEECCCCCCHHHHHHHHHHHHHhhhhcccccceEEEechHHHH
Confidence            4567789999999999998766432    12678888887764

>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=87.53  E-value=0.12  Score=38.93  Aligned_cols=21  Identities=24%  Similarity=0.351  Sum_probs=17.5

Q ss_pred             cccCCCCCcHHHHHHHHHHHH
Q psy14655          2 IASSKGGVGKSTTTVNLATAM   22 (261)
Q Consensus         2 v~s~KGGvGKTT~a~~lA~~l   22 (261)
                      +..+--|+||||+|..+|..+
T Consensus        39 Ll~GPpG~GKTtla~~la~~~   59 (239)
T d1ixsb2          39 LLFGPPGLGKTTLAHVIAHEL   59 (239)
T ss_dssp             EEECCTTSCHHHHHHHHHHHH
T ss_pred             EEECCCCCCHHHHHHHHHHHh
Confidence            456778999999999888765

>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=87.52  E-value=0.14  Score=36.56  Aligned_cols=21  Identities=24%  Similarity=0.347  Sum_probs=17.7

Q ss_pred             cccCCCCCcHHHHHHHHHHHH
Q psy14655          2 IASSKGGVGKSTTTVNLATAM   22 (261)
Q Consensus         2 v~s~KGGvGKTT~a~~lA~~l   22 (261)
                      ++-+.-|+||||+|..||..+
T Consensus         4 ~i~G~pGSGKsT~a~~La~~~   24 (182)
T d1zina1           4 VLMGLPGAGKGTQAEKIVAAY   24 (182)
T ss_dssp             EEECSTTSSHHHHHHHHHHHH
T ss_pred             EEECCCCCCHHHHHHHHHHHH
Confidence            456778999999999988876

>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=87.50  E-value=0.12  Score=37.55  Aligned_cols=21  Identities=24%  Similarity=0.215  Sum_probs=17.4

Q ss_pred             cccCCCCCcHHHHHHHHHHHH
Q psy14655          2 IASSKGGVGKSTTTVNLATAM   22 (261)
Q Consensus         2 v~s~KGGvGKTT~a~~lA~~l   22 (261)
                      ++.+.-|+||||+|.-||..+
T Consensus         7 ~i~GppGsGKsT~a~~La~~~   27 (189)
T d1zaka1           7 MISGAPASGKGTQCELIKTKY   27 (189)
T ss_dssp             EEEESTTSSHHHHHHHHHHHH
T ss_pred             EEECCCCCCHHHHHHHHHHHH
Confidence            456778999999999888766

>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=87.48  E-value=0.085  Score=38.00  Aligned_cols=18  Identities=33%  Similarity=0.274  Sum_probs=15.0

Q ss_pred             cccCCCCCcHHHHHHHHH
Q psy14655          2 IASSKGGVGKSTTTVNLA   19 (261)
Q Consensus         2 v~s~KGGvGKTT~a~~lA   19 (261)
                      ++.+--|+||||+|.+++
T Consensus        18 il~G~pGsGKST~a~~l~   35 (172)
T d1yj5a2          18 VAVGFPGAGKSTFIQEHL   35 (172)
T ss_dssp             EEECCTTSSHHHHHHHHT
T ss_pred             EEECCCCCCHHHHHHHHH
Confidence            567889999999988764

>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=87.32  E-value=0.17  Score=38.68  Aligned_cols=31  Identities=16%  Similarity=0.125  Sum_probs=25.0

Q ss_pred             cccCCCCCcHHHHHHHHHHHHHhcCCCCeEEEEecC
Q psy14655          2 IASSKGGVGKSTTTVNLATAMKICYPDKEIGILDAD   37 (261)
Q Consensus         2 v~s~KGGvGKTT~a~~lA~~la~~g~~~~VllvD~D   37 (261)
                      +..+.-|+|||+++..+|..+   +  .+++.||+.
T Consensus        46 Ll~GppGtGKT~la~aia~~~---~--~~~~~i~~~   76 (247)
T d1ixza_          46 LLVGPPGVGKTHLARAVAGEA---R--VPFITASGS   76 (247)
T ss_dssp             EEECCTTSSHHHHHHHHHHHT---T--CCEEEEEHH
T ss_pred             EEecCCCCChhHHHHHHHHHc---C--CCEEEEEhH
Confidence            345677999999999999754   6  888888864

>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=86.79  E-value=0.11  Score=38.88  Aligned_cols=23  Identities=17%  Similarity=0.101  Sum_probs=18.4

Q ss_pred             cCCCCCcHHHHHHHHHHHHHhcC
Q psy14655          4 SSKGGVGKSTTTVNLATAMKICY   26 (261)
Q Consensus         4 s~KGGvGKTT~a~~lA~~la~~g   26 (261)
                      -+=-|+||||++..|+..|..++
T Consensus         9 EG~DGsGKST~~~~L~~~L~~~~   31 (214)
T d1tmka_           9 EGLDRTGKTTQCNILYKKLQPNC   31 (214)
T ss_dssp             EESTTSSHHHHHHHHHHHTTTSE
T ss_pred             ECCCCCcHHHHHHHHHHHHHhCC
Confidence            34459999999999998886554

>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=86.73  E-value=0.17  Score=39.74  Aligned_cols=36  Identities=11%  Similarity=0.048  Sum_probs=25.1

Q ss_pred             cccCCCCCcHHHHHHHHHHHHHhcC--CCCeEEEEecC
Q psy14655          2 IASSKGGVGKSTTTVNLATAMKICY--PDKEIGILDAD   37 (261)
Q Consensus         2 v~s~KGGvGKTT~a~~lA~~la~~g--~~~~VllvD~D   37 (261)
                      ++++--|+||||+.++-+..|...+  ++.++|++=..
T Consensus        28 lV~g~aGSGKTt~l~~ri~~ll~~~~~~p~~il~lt~t   65 (318)
T d1pjra1          28 LIMAGAGSGKTRVLTHRIAYLMAEKHVAPWNILAITFT   65 (318)
T ss_dssp             EEEECTTSCHHHHHHHHHHHHHHTTCCCGGGEEEEESS
T ss_pred             EEEecCCccHHHHHHHHHHHHHHcCCCCHHHeEeEecc
Confidence            3456679999999999777766544  23578887543

>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=86.34  E-value=0.16  Score=36.76  Aligned_cols=20  Identities=30%  Similarity=0.363  Sum_probs=17.0

Q ss_pred             ccCCCCCcHHHHHHHHHHHH
Q psy14655          3 ASSKGGVGKSTTTVNLATAM   22 (261)
Q Consensus         3 ~s~KGGvGKTT~a~~lA~~l   22 (261)
                      +-+-.|+||||+|..||..+
T Consensus         8 l~G~pGSGKsT~a~~La~~~   27 (190)
T d1ak2a1           8 LLGPPGAGKGTQAPKLAKNF   27 (190)
T ss_dssp             EECCTTSSHHHHHHHHHHHH
T ss_pred             EECCCCCCHHHHHHHHHHHh
Confidence            44778999999999999766

>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=86.28  E-value=0.16  Score=36.81  Aligned_cols=21  Identities=19%  Similarity=0.291  Sum_probs=17.3

Q ss_pred             cccCCCCCcHHHHHHHHHHHH
Q psy14655          2 IASSKGGVGKSTTTVNLATAM   22 (261)
Q Consensus         2 v~s~KGGvGKTT~a~~lA~~l   22 (261)
                      ++-+--|+||||+|..||..+
T Consensus         5 ~i~GppGSGKsT~a~~La~~~   25 (194)
T d1teva_           5 FVLGGPGAGKGTQCARIVEKY   25 (194)
T ss_dssp             EEECCTTSSHHHHHHHHHHHH
T ss_pred             EEECCCCCCHHHHHHHHHHHh
Confidence            345668999999999999766

>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=86.22  E-value=0.14  Score=36.32  Aligned_cols=23  Identities=22%  Similarity=0.182  Sum_probs=18.1

Q ss_pred             cCCCCCcHHHHHHHHHHHHHhcC
Q psy14655          4 SSKGGVGKSTTTVNLATAMKICY   26 (261)
Q Consensus         4 s~KGGvGKTT~a~~lA~~la~~g   26 (261)
                      .+-=|+||||++..++..|.-.+
T Consensus        39 ~G~LGaGKTtfvr~~~~~lg~~~   61 (158)
T d1htwa_          39 NGDLGAGKTTLTRGMLQGIGHQG   61 (158)
T ss_dssp             ECSTTSSHHHHHHHHHHHTTCCS
T ss_pred             ecCCCccHHHHHHHHHhhccccc
Confidence            34449999999999999985443

>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=86.20  E-value=0.2  Score=38.90  Aligned_cols=35  Identities=14%  Similarity=0.130  Sum_probs=25.5

Q ss_pred             ccCCCCCcHHHHHHHHHHHHHhc-C-CCCeEEEEecC
Q psy14655          3 ASSKGGVGKSTTTVNLATAMKIC-Y-PDKEIGILDAD   37 (261)
Q Consensus         3 ~s~KGGvGKTT~a~~lA~~la~~-g-~~~~VllvD~D   37 (261)
                      +.+--|+||||+.++.+..|.++ + +..+||++-..
T Consensus        19 I~g~aGTGKTt~l~~rv~~ll~~~~~~~~~ILvlt~t   55 (306)
T d1uaaa1          19 VLAGAGSGKTRVITNKIAHLIRGCGYQARHIAAVTFT   55 (306)
T ss_dssp             ECCCTTSCHHHHHHHHHHHHHHHHCCCGGGEEEEESS
T ss_pred             EEeeCCccHHHHHHHHHHHHHHhcCCChhHEEEEeCc
Confidence            44668999999999887777654 2 23589888654

>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=86.03  E-value=0.16  Score=37.96  Aligned_cols=38  Identities=21%  Similarity=0.111  Sum_probs=26.8

Q ss_pred             cccCCCCCcHHHHHHHHHHHHHhcC-CCCeEEEEecCCC
Q psy14655          2 IASSKGGVGKSTTTVNLATAMKICY-PDKEIGILDADVF   39 (261)
Q Consensus         2 v~s~KGGvGKTT~a~~lA~~la~~g-~~~~VllvD~D~~   39 (261)
                      +..+.-|+||||++..+|..+.... .+....-++....
T Consensus        37 ll~Gp~G~GKTtl~~~i~~~l~~~~~~~~~~~~~~~~~~   75 (237)
T d1sxjd2          37 LFYGPPGTGKTSTILALTKELYGPDLMKSRILELNASDE   75 (237)
T ss_dssp             EEECSTTSSHHHHHHHHHHHHHHHHHHTTSEEEECSSSC
T ss_pred             EEECCCCCChHHHHHHHHHHHcCCcccccchhheecccc
Confidence            5678889999999999999886321 0155666665444

>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=86.01  E-value=0.13  Score=38.96  Aligned_cols=34  Identities=21%  Similarity=0.174  Sum_probs=25.9

Q ss_pred             cccCCCCCcHHHHHHHHHHHHHhcCCCCeEEEEecCCCC
Q psy14655          2 IASSKGGVGKSTTTVNLATAMKICYPDKEIGILDADVFG   40 (261)
Q Consensus         2 v~s~KGGvGKTT~a~~lA~~la~~g~~~~VllvD~D~~~   40 (261)
                      +..+.-|+||||++..+|..+   +  ..+..+++....
T Consensus        56 ll~GPpG~GKTt~a~~la~~~---~--~~~~~~~~~~~~   89 (253)
T d1sxja2          56 MLYGPPGIGKTTAAHLVAQEL---G--YDILEQNASDVR   89 (253)
T ss_dssp             EEECSTTSSHHHHHHHHHHHT---T--CEEEEECTTSCC
T ss_pred             EEECCCCCCHHHHHHHHHHHH---H--hhhhccccccch
Confidence            456778999999999888654   5  788888776543

>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=85.90  E-value=0.11  Score=39.30  Aligned_cols=23  Identities=26%  Similarity=0.104  Sum_probs=17.9

Q ss_pred             cCCCCCcHHHHHHHHHHHHHhcC
Q psy14655          4 SSKGGVGKSTTTVNLATAMKICY   26 (261)
Q Consensus         4 s~KGGvGKTT~a~~lA~~la~~g   26 (261)
                      -|-=|+||||++..|+..|...+
T Consensus         8 EG~~GsGKST~~~~L~~~l~~~~   30 (241)
T d2ocpa1           8 EGNIAVGKSTFVKLLTKTYPEWH   30 (241)
T ss_dssp             EECTTSSHHHHHHHHHHHCTTSE
T ss_pred             ECCCCCcHHHHHHHHHHHHhhcC
Confidence            34459999999999998875543

>d2jfga1 c.5.1.1 (A:1-93) UDP-N-acetylmuramoyl-L-alanine:D-glutamate ligase MurD {Escherichia coli [TaxId: 562]}

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-acetylmuramoyl-L-alanine:D-glutamate ligase MurD
species: Escherichia coli [TaxId: 562]

Probab=85.82  E-value=0.47  Score=29.98  Aligned_cols=30  Identities=13%  Similarity=0.165  Sum_probs=24.9

Q ss_pred             CCcHHHHHHHHHHHHHhcCCCCeEEEEecCCCCC
Q psy14655          8 GVGKSTTTVNLATAMKICYPDKEIGILDADVFGP   41 (261)
Q Consensus         8 GvGKTT~a~~lA~~la~~g~~~~VllvD~D~~~~   41 (261)
                      |.|||-+++  |.+|+++|  .+|.+.|......
T Consensus        12 GlG~sG~s~--a~~L~~~g--~~v~~~D~~~~~~   41 (93)
T d2jfga1          12 GLGLTGLSC--VDFFLARG--VTPRVMDTRMTPP   41 (93)
T ss_dssp             CCSHHHHHH--HHHHHHTT--CCCEEEESSSSCT
T ss_pred             eECHHHHHH--HHHHHHCC--CEEEEeeCCcCch
Confidence            789997764  89999999  9999999866543

>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=85.71  E-value=0.17  Score=37.68  Aligned_cols=35  Identities=29%  Similarity=0.222  Sum_probs=24.8

Q ss_pred             cccCCCCCcHHHHHHHHHHHHHhcCCCCeEEEEec
Q psy14655          2 IASSKGGVGKSTTTVNLATAMKICYPDKEIGILDA   36 (261)
Q Consensus         2 v~s~KGGvGKTT~a~~lA~~la~~g~~~~VllvD~   36 (261)
                      +..+.-|+||||+|..+|..+........++.++.
T Consensus        40 ll~Gp~G~GKTt~a~~la~~l~~~~~~~~~~~~n~   74 (224)
T d1sxjb2          40 IISGMPGIGKTTSVHCLAHELLGRSYADGVLELNA   74 (224)
T ss_dssp             EEECSTTSSHHHHHHHHHHHHHGGGHHHHEEEECT
T ss_pred             EEECCCCCCchhhHHHHHHHHhccccccccccccc
Confidence            45677899999999999999875431144555543

>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=85.63  E-value=0.33  Score=35.21  Aligned_cols=32  Identities=16%  Similarity=0.148  Sum_probs=23.1

Q ss_pred             cccCCCCCcHHHHHHHHHHHHHh-cCCCCeEEEEe
Q psy14655          2 IASSKGGVGKSTTTVNLATAMKI-CYPDKEIGILD   35 (261)
Q Consensus         2 v~s~KGGvGKTT~a~~lA~~la~-~g~~~~VllvD   35 (261)
                      ++...-|.|||+++..++..... .+  .++++|=
T Consensus        27 lv~~pTGsGKT~i~~~~~~~~~~~~~--~~il~i~   59 (200)
T d1wp9a1          27 LIVLPTGLGKTLIAMMIAEYRLTKYG--GKVLMLA   59 (200)
T ss_dssp             EEECCTTSCHHHHHHHHHHHHHHHSC--SCEEEEC
T ss_pred             EEEeCCCCcHHHHHHHHHHHHHHhcC--CcEEEEc
Confidence            34566799999988888766554 45  7787763

>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=85.24  E-value=0.18  Score=36.51  Aligned_cols=25  Identities=24%  Similarity=0.332  Sum_probs=18.2

Q ss_pred             cccCCCCCcHHHHHHHHHHHHHhcCCCCeEE
Q psy14655          2 IASSKGGVGKSTTTVNLATAMKICYPDKEIG   32 (261)
Q Consensus         2 v~s~KGGvGKTT~a~~lA~~la~~g~~~~Vl   32 (261)
                      ++.++.|+||||+|..    |.++|  .+.+
T Consensus        18 l~~G~sG~GKStlal~----l~~~g--~~lv   42 (176)
T d1kkma_          18 LITGDSGVGKSETALE----LVQRG--HRLI   42 (176)
T ss_dssp             EEECCTTSCHHHHHHH----HHHTT--CEEE
T ss_pred             EEEeCCCCCHHHHHHH----HHHcC--CeEE
Confidence            4568899999998865    44567  6543

>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=84.48  E-value=0.21  Score=37.29  Aligned_cols=34  Identities=24%  Similarity=0.192  Sum_probs=23.6

Q ss_pred             cccCCCCCcHHHHHHHHHHHHHhcCCCCeEEEEe
Q psy14655          2 IASSKGGVGKSTTTVNLATAMKICYPDKEIGILD   35 (261)
Q Consensus         2 v~s~KGGvGKTT~a~~lA~~la~~g~~~~VllvD   35 (261)
                      +..|--|+||||++..+|..+.....+..++-++
T Consensus        49 ll~Gp~G~GKTtla~~iak~l~~~~~~~~~~e~n   82 (231)
T d1iqpa2          49 LFAGPPGVGKTTAALALARELFGENWRHNFLELN   82 (231)
T ss_dssp             EEESCTTSSHHHHHHHHHHHHHGGGHHHHEEEEE
T ss_pred             EEECCCCCcHHHHHHHHHHHHHhcccCCCeeEEe
Confidence            4567789999999999999886433013444444

>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=84.27  E-value=0.34  Score=37.13  Aligned_cols=30  Identities=13%  Similarity=0.102  Sum_probs=24.1

Q ss_pred             ccCCCCCcHHHHHHHHHHHHHhcCCCCeEEEEecC
Q psy14655          3 ASSKGGVGKSTTTVNLATAMKICYPDKEIGILDAD   37 (261)
Q Consensus         3 ~s~KGGvGKTT~a~~lA~~la~~g~~~~VllvD~D   37 (261)
                      ..+--|+|||+++..+|..+   +  .+++.|++.
T Consensus        50 L~GppGtGKT~la~~iA~~~---~--~~~~~i~~~   79 (256)
T d1lv7a_          50 MVGPPGTGKTLLAKAIAGEA---K--VPFFTISGS   79 (256)
T ss_dssp             EECCTTSCHHHHHHHHHHHH---T--CCEEEECSC
T ss_pred             eeCCCCCCccHHHHHHHHHc---C--CCEEEEEhH
Confidence            45677999999999999776   5  777777764

>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=83.64  E-value=0.28  Score=37.36  Aligned_cols=38  Identities=13%  Similarity=0.034  Sum_probs=26.3

Q ss_pred             ccCCCCCcHHHHHHHHHHHHHhcC----CCCeEEEEecCCCC
Q psy14655          3 ASSKGGVGKSTTTVNLATAMKICY----PDKEIGILDADVFG   40 (261)
Q Consensus         3 ~s~KGGvGKTT~a~~lA~~la~~g----~~~~VllvD~D~~~   40 (261)
                      +.+.-|+||||++..++..|.+.+    ....+..+++....
T Consensus        51 l~GppGtGKT~l~~~l~~~l~~~~~~~~~~~~~~~~~~~~~~   92 (287)
T d1w5sa2          51 SIGRVGIGKTTLAKFTVKRVSEAAAKEGLTVKQAYVNAFNAP   92 (287)
T ss_dssp             CTTCCSSSHHHHHHHHHHHHHHHHHHTTCCEEEEEEEGGGCC
T ss_pred             eECCCCCCHHHHHHHHHHHHHhhcccccCCceeeeecccccc
Confidence            457789999999999999986532    11445555555443

>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=83.44  E-value=0.22  Score=36.14  Aligned_cols=20  Identities=25%  Similarity=0.288  Sum_probs=16.3

Q ss_pred             ccCCCCCcHHHHHHHHHHHH
Q psy14655          3 ASSKGGVGKSTTTVNLATAM   22 (261)
Q Consensus         3 ~s~KGGvGKTT~a~~lA~~l   22 (261)
                      +-+--|+||||+|..||..+
T Consensus        13 i~GppGSGKsT~a~~La~~~   32 (196)
T d1ukza_          13 VLGGPGAGKGTQCEKLVKDY   32 (196)
T ss_dssp             EECSTTSSHHHHHHHHHHHS
T ss_pred             EECCCCCCHHHHHHHHHHHh
Confidence            44667999999999998755

>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=82.84  E-value=0.27  Score=36.55  Aligned_cols=34  Identities=24%  Similarity=0.215  Sum_probs=24.3

Q ss_pred             cccCCCCCcHHHHHHHHHHHHHhcCCCCeEEEEecC
Q psy14655          2 IASSKGGVGKSTTTVNLATAMKICYPDKEIGILDAD   37 (261)
Q Consensus         2 v~s~KGGvGKTT~a~~lA~~la~~g~~~~VllvD~D   37 (261)
                      +..+.-|+||||++..+|..+-...  .....++.+
T Consensus        39 Ll~Gp~G~GKttl~~~la~~l~~~~--~~~~~~e~~   72 (227)
T d1sxjc2          39 LFYGPPGTGKTSTIVALAREIYGKN--YSNMVLELN   72 (227)
T ss_dssp             EEECSSSSSHHHHHHHHHHHHHTTS--HHHHEEEEC
T ss_pred             EEECCCCCChhHHHHHHHHHhhcCC--CcceeEEec
Confidence            4567789999999999999886554  433444444

>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=82.83  E-value=0.45  Score=38.37  Aligned_cols=34  Identities=26%  Similarity=0.282  Sum_probs=24.1

Q ss_pred             cccCCCCCcHHHHHHHHHHHHHhcC--CCCeEEEEe
Q psy14655          2 IASSKGGVGKSTTTVNLATAMKICY--PDKEIGILD   35 (261)
Q Consensus         2 v~s~KGGvGKTT~a~~lA~~la~~g--~~~~VllvD   35 (261)
                      ++.+..|+||||+...+...+.+..  ++.+|++.=
T Consensus       167 vI~G~pGTGKTt~i~~~l~~l~~~~~~~~~~I~l~A  202 (359)
T d1w36d1         167 VISGGPGTGKTTTVAKLLAALIQMADGERCRIRLAA  202 (359)
T ss_dssp             EEECCTTSTHHHHHHHHHHHHHHTCSSCCCCEEEEB
T ss_pred             EEEcCCCCCceehHHHHHHHHHHHHhccCCeEEEec
Confidence            5678899999999988776665421  226777654

>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=82.65  E-value=0.3  Score=34.98  Aligned_cols=20  Identities=30%  Similarity=0.366  Sum_probs=16.5

Q ss_pred             ccCCCCCcHHHHHHHHHHHH
Q psy14655          3 ASSKGGVGKSTTTVNLATAM   22 (261)
Q Consensus         3 ~s~KGGvGKTT~a~~lA~~l   22 (261)
                      +-+--|+||||+|..||..+
T Consensus         7 l~G~pGSGKtT~a~~La~~~   26 (180)
T d1akya1           7 LIGPPGAGKGTQAPNLQERF   26 (180)
T ss_dssp             EECCTTSSHHHHHHHHHHHH
T ss_pred             EECCCCCCHHHHHHHHHHHh
Confidence            34677999999999998765

>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=82.59  E-value=0.41  Score=36.79  Aligned_cols=30  Identities=13%  Similarity=0.144  Sum_probs=24.5

Q ss_pred             cccCCCCCcHHHHHHHHHHHHHhcCCCCeEEEEec
Q psy14655          2 IASSKGGVGKSTTTVNLATAMKICYPDKEIGILDA   36 (261)
Q Consensus         2 v~s~KGGvGKTT~a~~lA~~la~~g~~~~VllvD~   36 (261)
                      +..+.-|+|||+++..+|..+   |  .+++.+++
T Consensus        45 LL~Gp~GtGKT~l~~ala~~~---~--~~~~~~~~   74 (265)
T d1r7ra3          45 LFYGPPGCGKTLLAKAIANEC---Q--ANFISIKG   74 (265)
T ss_dssp             EEBCCTTSSHHHHHHHHHHHT---T--CEEEEECH
T ss_pred             EEECCCCCcchhHHHHHHHHh---C--CcEEEEEH
Confidence            356788999999999998887   5  77777765

>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=82.52  E-value=0.24  Score=35.37  Aligned_cols=21  Identities=19%  Similarity=0.098  Sum_probs=16.9

Q ss_pred             cccCCCCCcHHHHHHHHHHHH
Q psy14655          2 IASSKGGVGKSTTTVNLATAM   22 (261)
Q Consensus         2 v~s~KGGvGKTT~a~~lA~~l   22 (261)
                      ++-+.-|+||||+|..||..+
T Consensus         4 ~i~G~pGSGKsT~~~~La~~~   24 (179)
T d1e4va1           4 ILLGAPVAGKGTQAQFIMEKY   24 (179)
T ss_dssp             EEEESTTSSHHHHHHHHHHHH
T ss_pred             EEECCCCCCHHHHHHHHHHHh
Confidence            345677999999999998665

>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=82.37  E-value=0.31  Score=35.40  Aligned_cols=22  Identities=32%  Similarity=0.342  Sum_probs=18.5

Q ss_pred             cccCCCCCcHHHHHHHHHHHHH
Q psy14655          2 IASSKGGVGKSTTTVNLATAMK   23 (261)
Q Consensus         2 v~s~KGGvGKTT~a~~lA~~la   23 (261)
                      |+++..|+||||++..|+..+.
T Consensus         4 vl~GPsGsGK~tl~~~L~~~~~   25 (190)
T d1lvga_           4 VLSGPSGAGKSTLLKKLFQEHS   25 (190)
T ss_dssp             EEECCTTSSHHHHHHHHHHHHT
T ss_pred             EEECCCCCCHHHHHHHHHHhCC
Confidence            6788899999999988877764

>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=82.25  E-value=0.25  Score=39.58  Aligned_cols=29  Identities=28%  Similarity=0.132  Sum_probs=21.8

Q ss_pred             ccCCCCCcHHHHHHHHHHHHHhcCCCCeEEEE
Q psy14655          3 ASSKGGVGKSTTTVNLATAMKICYPDKEIGIL   34 (261)
Q Consensus         3 ~s~KGGvGKTT~a~~lA~~la~~g~~~~Vllv   34 (261)
                      +-+-=|+||||++..|+..+...+   .+.++
T Consensus        11 iEG~iGsGKSTl~~~L~~~l~~~~---~v~~~   39 (333)
T d1p6xa_          11 LDGVYGIGKSTTGRVMASAASGGS---PTLYF   39 (333)
T ss_dssp             EECSTTSSHHHHHHHHHSGGGCSS---CEEEE
T ss_pred             EECCccCCHHHHHHHHHHHhccCC---CeEEE
Confidence            345569999999999999987654   44444

>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=82.10  E-value=0.2  Score=36.17  Aligned_cols=25  Identities=20%  Similarity=0.322  Sum_probs=18.2

Q ss_pred             cccCCCCCcHHHHHHHHHHHHHhcCCCCeEE
Q psy14655          2 IASSKGGVGKSTTTVNLATAMKICYPDKEIG   32 (261)
Q Consensus         2 v~s~KGGvGKTT~a~~lA~~la~~g~~~~Vl   32 (261)
                      ++.++.|+||||+|..|.    ++|  .+.+
T Consensus        19 li~G~sG~GKS~lal~l~----~~G--~~lv   43 (177)
T d1knxa2          19 LLTGRSGIGKSECALDLI----NKN--HLFV   43 (177)
T ss_dssp             EEEESSSSSHHHHHHHHH----TTT--CEEE
T ss_pred             EEEcCCCCCHHHHHHHHH----HcC--Ccee
Confidence            456788999999997654    567  6543

>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=81.90  E-value=0.23  Score=35.60  Aligned_cols=21  Identities=24%  Similarity=0.392  Sum_probs=15.5

Q ss_pred             cccCCCCCcHHHHHHHHHHHHHhcC
Q psy14655          2 IASSKGGVGKSTTTVNLATAMKICY   26 (261)
Q Consensus         2 v~s~KGGvGKTT~a~~lA~~la~~g   26 (261)
                      ++.++.|+||||+|..    |.++|
T Consensus        19 li~G~sg~GKS~la~~----l~~~g   39 (169)
T d1ko7a2          19 LITGDSGIGKSETALE----LIKRG   39 (169)
T ss_dssp             EEEESTTSSHHHHHHH----HHHTT
T ss_pred             EEEeCCCCCHHHHHHH----HHHcC
Confidence            4567889999998754    44567

>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=81.15  E-value=0.34  Score=36.85  Aligned_cols=29  Identities=10%  Similarity=0.008  Sum_probs=21.7

Q ss_pred             ccCCCCCcHHHHHHHHHHHHHhcCCCCeEEEEec
Q psy14655          3 ASSKGGVGKSTTTVNLATAMKICYPDKEIGILDA   36 (261)
Q Consensus         3 ~s~KGGvGKTT~a~~lA~~la~~g~~~~VllvD~   36 (261)
                      ..+.-|+|||++|..+|..+   +  .+++-+++
T Consensus        45 L~GppGtGKT~la~alA~~~---~--~~~~~i~~   73 (246)
T d1d2na_          45 LEGPPHSGKTALAAKIAEES---N--FPFIKICS   73 (246)
T ss_dssp             EECSTTSSHHHHHHHHHHHH---T--CSEEEEEC
T ss_pred             EECcCCCCHHHHHHHHhhcc---c--cccccccc
Confidence            45667999999999998764   5  66666553

>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=80.96  E-value=0.61  Score=36.63  Aligned_cols=30  Identities=23%  Similarity=0.205  Sum_probs=22.7

Q ss_pred             cCCCCCcHHHHHHHHHHHHHhcCCCCeEEEEecCC
Q psy14655          4 SSKGGVGKSTTTVNLATAMKICYPDKEIGILDADV   38 (261)
Q Consensus         4 s~KGGvGKTT~a~~lA~~la~~g~~~~VllvD~D~   38 (261)
                      -+--|||||++|..+|..+   +  .+...+|+-.
T Consensus        55 ~GPpG~GKT~lAkalA~~~---~--~~~~~i~~s~   84 (309)
T d1ofha_          55 IGPTGVGKTEIARRLAKLA---N--APFIKVEATK   84 (309)
T ss_dssp             ECCTTSSHHHHHHHHHHHH---T--CCEEEEEGGG
T ss_pred             ECCCCCCHHHHHHHHhhcc---c--cchhcccccc
Confidence            3556999999999999875   4  5667777644

>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=80.85  E-value=0.065  Score=40.39  Aligned_cols=24  Identities=21%  Similarity=-0.009  Sum_probs=18.7

Q ss_pred             ccCCCCCcHHHHHHHHHHHHHhcC
Q psy14655          3 ASSKGGVGKSTTTVNLATAMKICY   26 (261)
Q Consensus         3 ~s~KGGvGKTT~a~~lA~~la~~g   26 (261)
                      +-|-=|+||||++..|+..|...+
T Consensus         7 ieG~dGsGKST~~~~L~~~l~~~~   30 (241)
T d1p5zb_           7 IEGNIAAGKSTFVNILKQLCEDWE   30 (241)
T ss_dssp             EECSTTSSHHHHHTTTGGGCTTEE
T ss_pred             EECCCCCCHHHHHHHHHHHHhcCC
Confidence            345569999999999998885544

>d1tf5a3 c.37.1.19 (A:1-226,A:349-395) Translocation ATPase SecA, nucleotide-binding domains {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: Tandem AAA-ATPase domain
domain: Translocation ATPase SecA, nucleotide-binding domains
species: Bacillus subtilis [TaxId: 1423]

Probab=80.80  E-value=0.72  Score=35.41  Aligned_cols=30  Identities=20%  Similarity=0.179  Sum_probs=25.9

Q ss_pred             CCCCCcHHHHHHHHHHHHHhcCCCCeEEEEec
Q psy14655          5 SKGGVGKSTTTVNLATAMKICYPDKEIGILDA   36 (261)
Q Consensus         5 ~KGGvGKTT~a~~lA~~la~~g~~~~VllvD~   36 (261)
                      -|-|.|||.+++-.|..-|..|  +.|-+|=.
T Consensus       100 m~TGEGKTL~a~l~a~l~al~g--~~vhvvTv  129 (273)
T d1tf5a3         100 MKTGEGKTLTSTLPVYLNALTG--KGVHVVTV  129 (273)
T ss_dssp             CCTTSCHHHHHHHHHHHHHTTS--SCEEEEES
T ss_pred             ecCCCcchhHHHHHHHHHHhcC--CCceEEec
Confidence            4679999999999999999999  99998844

>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=80.76  E-value=0.66  Score=36.56  Aligned_cols=43  Identities=28%  Similarity=0.395  Sum_probs=30.1

Q ss_pred             ccCCCCCcHHHHHHHHHHHHHhcCCCCeEEEEecCCCCC--CcccccCCC
Q psy14655          3 ASSKGGVGKSTTTVNLATAMKICYPDKEIGILDADVFGP--SIPILMNLP   50 (261)
Q Consensus         3 ~s~KGGvGKTT~a~~lA~~la~~g~~~~VllvD~D~~~~--~~~~~~~~~   50 (261)
                      ..+--|||||.+|..||..+   +  .+.+.+|+--...  ....++|..
T Consensus        57 f~Gp~GvGKT~lak~la~~l---~--~~~i~~d~s~~~~~~~~~~l~g~~  101 (315)
T d1r6bx3          57 FAGPTGVGKTEVTVQLSKAL---G--IELLRFDMSEYMERHTVSRLIGAP  101 (315)
T ss_dssp             EECSTTSSHHHHHHHHHHHH---T--CEEEEEEGGGCSSSSCCSSSCCCC
T ss_pred             EECCCcchhHHHHHHHHhhc---c--CCeeEeccccccchhhhhhhcccC
Confidence            34667999999999999986   5  7788888765432  234445443

>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=80.73  E-value=0.36  Score=34.85  Aligned_cols=22  Identities=32%  Similarity=0.362  Sum_probs=18.0

Q ss_pred             cccCCCCCcHHHHHHHHHHHHH
Q psy14655          2 IASSKGGVGKSTTTVNLATAMK   23 (261)
Q Consensus         2 v~s~KGGvGKTT~a~~lA~~la   23 (261)
                      |+++..|+||||++-.|+..+.
T Consensus         5 vl~GpsG~GK~tl~~~L~~~~~   26 (186)
T d1gkya_           5 VISGPSGTGKSTLLKKLFAEYP   26 (186)
T ss_dssp             EEECCTTSSHHHHHHHHHHHCT
T ss_pred             EEECCCCCCHHHHHHHHHHhCC
Confidence            6788999999999988866553

>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=80.69  E-value=0.43  Score=34.96  Aligned_cols=21  Identities=29%  Similarity=0.435  Sum_probs=18.3

Q ss_pred             ccCCCCCcHHHHHHHHHHHHH
Q psy14655          3 ASSKGGVGKSTTTVNLATAMK   23 (261)
Q Consensus         3 ~s~KGGvGKTT~a~~lA~~la   23 (261)
                      +.+--|+||||+|..||..+.
T Consensus         8 I~GppGSGKgT~ak~La~~~g   28 (225)
T d1ckea_           8 IDGPSGAGKGTLCKAMAEALQ   28 (225)
T ss_dssp             EECCTTSSHHHHHHHHHHHHT
T ss_pred             EECCCCCCHHHHHHHHHHHhC
Confidence            457789999999999998884

>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=80.22  E-value=0.46  Score=34.97  Aligned_cols=23  Identities=13%  Similarity=0.219  Sum_probs=19.3

Q ss_pred             cccCCCCCcHHHHHHHHHHHHHh
Q psy14655          2 IASSKGGVGKSTTTVNLATAMKI   24 (261)
Q Consensus         2 v~s~KGGvGKTT~a~~lA~~la~   24 (261)
                      +..+.-|+||||+|..+|..|-.
T Consensus        28 Ll~Gp~G~GKtt~a~~~a~~l~~   50 (207)
T d1a5ta2          28 LIQALPGMGDDALIYALSRYLLC   50 (207)
T ss_dssp             EEECCTTSCHHHHHHHHHHHHTC
T ss_pred             EEECCCCCcHHHHHHHHHHhccc
Confidence            35677899999999999998853

>d1rifa_ c.37.1.23 (A:) DNA helicase UvsW {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: DNA helicase UvsW
domain: DNA helicase UvsW
species: Bacteriophage T4 [TaxId: 10665]

Probab=80.06  E-value=0.77  Score=35.54  Aligned_cols=30  Identities=23%  Similarity=0.165  Sum_probs=22.6

Q ss_pred             CCCCCcHHHHHHHHHHHHHhcCCCCeEEEEe
Q psy14655          5 SKGGVGKSTTTVNLATAMKICYPDKEIGILD   35 (261)
Q Consensus         5 ~KGGvGKTT~a~~lA~~la~~g~~~~VllvD   35 (261)
                      .--|.|||.++..++..+...+ +.|+|+|=
T Consensus       135 ~pTGsGKT~i~~~i~~~~~~~~-~~k~Liiv  164 (282)
T d1rifa_         135 LPTSAGRSLIQALLARYYLENY-EGKILIIV  164 (282)
T ss_dssp             CCTTSCHHHHHHHHHHHHHHHC-SSEEEEEC
T ss_pred             EEcccCccHHHHHHHHHhhhcc-cceEEEEE
Confidence            3459999999999888776554 37888864

>d1gm5a3 c.37.1.19 (A:286-549) RecG helicase 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: Tandem AAA-ATPase domain
domain: RecG helicase domain
species: Thermotoga maritima [TaxId: 2336]

Probab=80.02  E-value=0.68  Score=35.56  Aligned_cols=28  Identities=11%  Similarity=-0.014  Sum_probs=24.5

Q ss_pred             CCCCCcHHHHHHHHHHHHHhcCCCCeEEEE
Q psy14655          5 SKGGVGKSTTTVNLATAMKICYPDKEIGIL   34 (261)
Q Consensus         5 ~KGGvGKTT~a~~lA~~la~~g~~~~Vllv   34 (261)
                      +-=|+|||-++...+......|  +.|+++
T Consensus       111 GdvGSGKT~Va~~a~~~~~~~g--~q~~~m  138 (264)
T d1gm5a3         111 GDVGSGKTVVAQLAILDNYEAG--FQTAFM  138 (264)
T ss_dssp             CCSSSSHHHHHHHHHHHHHHHT--SCEEEE
T ss_pred             ccccccccHHHHHHHHHHHhcc--cceeEE
Confidence            3459999999999999999999  888876