Psyllid ID: psy9646

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Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-------120-------130-------140-------150-------160-------170-------180-------190-------200-------210-
Protein Sequence
MELLNQIDTYIPQPVRDLDKPFYLPVEHTYSIPGRGTVVTGRLERGIVKKGMECEFTGYGRQFKTTVTGIEMFHKILDEAQAGDQLGALVKGMKRDEVNRGLIMAKPVLADKKLAKVKQYADIDNAPEEKARGITINVAHVEYATENRHYSHTDCPGHADYIKNMITGTSQMDGAILVVAATDGAMPQTREHLLLAKQIGVTNIVVFINKF
Secondary Structure (PSIPRED)
ccHHHHHHcccccccccccccccccccEEEEEccccEEEEEEEEEEEEEcccEEEEEEcccEEEEEEEEEHHHHHHHHHHcccccEEEEEEccccccccccEEEEHHHHHHHHccccccccccccccccccccEEEEEEEEEEEcccccEEEccccccHHHHHHHHHcccccccEEEEEEccccccccHHHHHHHHHHccccEEEEEEEcc
Secondary Structure Prediction (SSPRO)
HHHHHHHHHHccccccHHHcccEEEccEEEEEcccEEEEEEEccEcEEEcccEEEEEcccccEEEEEEEEEEccEEEcEEEcccEEEEEEEcccHHHcccccEEEccHHHHHcccccccHHHHHcccEEEEccEEEEcEEEEEEEccEEEEEEEcccHHHHHHHHHHccccccEEEEEEEccccccHHHHHHHHHHHHcccccEEEEEEcc
Coil and Loop (DISEMBL)
mellnqidtyipqpvrdldkpfylpvehtysipgrgtvvtgrlergivkkgmeceftgygrqfkTTVTGIEMFHKILDEAQAGDQLGALVKGMkrdevnrglimakpvladkKLAKVKqyadidnapeekarGITINVAHVEYatenrhyshtdcpghaDYIKNMITGTSQMDGAILVVAATDGAMPQTREHLLLAKQIGVTNIVVFINKF
Flexible Loop (DISEMBL)
MELLNQIDtyipqpvrdlDKPFYLPVehtysipgrgtvvtGRLERGIVKkgmeceftgygrQFKTTVTGIEMFHKILDEAQAGDQLGALVKGMKRDevnrglimakpvladkklAKVKQYAdidnapeekargiTINVAHVEYATENRHYSHTDCPGHADYIKNMITGTSQMDGAILVVAATDGAMPQTREHLLlakqigvtnIVVFINKF
Low Complexity Region (SEG)
MELLNQIDTYIPQPVRDLDKPFYLPVEHTYSIPGRGTVVTGRLERGIVKKGMECEFTGYGRQFKTTVTGIEMFHKILDEAQAGDQLGALVKGMKRDEVNRGLIMAKPVLADKKLAKVKQYADIDNAPEEKARGITINVAHVEYATENRHYSHTDCPGHADYIKNMITGTSQMDGAILVVAATDGAMPQTREHLLLAKQIGVTNIVVFINKF
Disordered region (IsUnstruct)
*****QIDTYIPQPVRDLDKPFYLPVEHTYSIPGRGTVVTGRLERGIVKKGMECEFTGYGRQFKTTVTGIEMFHKILDEAQAGDQLGALVKGMKRDEVNRGLIMAKPVLADKKLAKVKQYADIDNAPEEKARGITINVAHVEYATENRHYSHTDCPGHADYIKNMITGTSQMDGAILVVAATDGAMPQTREHLLLAKQIGVTNIVVFIN**
Disordered Region (DISOPRED)
MELLNQIDTYIPQPVRDLDKPFYLPVEHTYSIPGRGTVVTGRLERGIVKKGMECEFTGYGRQFKTTVTGIEMFHKILDEAQAGDQLGALVKGMKRDEVNRGLIMAKPVLADKKLAKVKQYADIDNAPEEKARGITINVAHVEYATENRHYSHTDCPGHADYIKNMITGTSQMDGAILVVAATDGAMPQTREHLLLAKQIGVTNIVVFINKF
Disordered Region (DISEMBL)
MELLNQIDTYIPQPVRDLDKPFYLPVEHTYSIPGRGTVVTGRLERGIVKKGMECEFTGYGRQFKTTVTGIEMFHKILDEAQAGDQLGALVKGMKRDEVNRGLIMAKPVLADKKLAKVKQYADIDNAPEEKARGITINVAHVEYATENRHYSHTDCPGHADYIKNMITGTSQMDGAILVVAATDGAMPQTREHLLLAKQIGVTNIVVFINKF
Disordered Region (DISPRO)
MELLNQIDTYIPQPVRDLDKPFYLPVEHTYSIPGRGTVVTGRLERGIVKKGMECEFTGYGRQFKTTVTGIEMFHKILDEAQAGDQLGALVKGMKRDEVNRGLIMAKPVLADKKLAKVKQYADIDNAPEEKARGITINVAHVEYATENRHYSHTDCPGHADYIKNMITGTSQMDGAILVVAATDGAMPQTREHLLLAKQIGVTNIVVFINKF
Transmembrane Helix (TMHMM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (MEMSAT_SVM)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhoooo
TM Helix, Signal Peptide (Phobius)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MELLNQIDTYIPQPVRDLDKPFYLPVEHTYSIPGRGTVVTGRLERGIVKKGMECEFTGYGRQFKTTVTGIEMFHKILDEAQAGDQLGALVKGMKRDEVNRGLIMAKPVLADKKLAKVKQYADIDNAPEEKARGITINVAHVEYATENRHYSHTDCPGHADYIKNMITGTSQMDGAILVVAATDGAMPQTREHLLLAKQIGVTNIVVFINKF
Positional Conservation
no confident homologs detected

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Close Homologs for Annotation Transfer

Close Homologs in SWISS-PROT Database Detected by BLAST

Original result of BLAST against SWISS-PROT Database

ID	Length	Definition	RBH(Q2H)	RBH(H2Q)	Q cover	H cover	Identity	E-value
Query	211	2.2.26 [Sep-21-2011]
P22679	397	Elongation factor Tu OS=M	yes	N/A	0.492	0.261	0.759	2e-43
P18668	409	Elongation factor Tu OS=S	yes	N/A	0.488	0.251	0.776	3e-43
P33171	409	Elongation factor Tu OS=S	yes	N/A	0.488	0.251	0.776	3e-43
Q6F0J5	394	Elongation factor Tu OS=M	yes	N/A	0.483	0.258	0.757	8e-43
B9L7I8	399	Elongation factor Tu OS=N	yes	N/A	0.492	0.260	0.75	9e-43
Q4A7K0	402	Elongation factor Tu OS=M	yes	N/A	0.488	0.256	0.759	1e-42
Q600B6	402	Elongation factor Tu OS=M	yes	N/A	0.488	0.256	0.759	1e-42
B3PMU1	397	Elongation factor Tu OS=M	yes	N/A	0.492	0.261	0.740	1e-42
Q4A9G1	402	Elongation factor Tu OS=M	yes	N/A	0.488	0.256	0.75	2e-42
Q03QN5	396	Elongation factor Tu OS=L	yes	N/A	0.483	0.257	0.786	2e-42

>sp|P22679|EFTU_MYCHP Elongation factor Tu OS=Mycoplasma hominis (strain ATCC 23114 / NBRC 14850 / NCTC 10111 / PG21) GN=tuf PE=1 SV=1

 Score =  175 bits (443), Expect = 2e-43,   Method: Compositional matrix adjust.
 Identities = 79/104 (75%), Positives = 90/104 (86%)

Query: 108 VLADKKLAKVKQYADIDNAPEEKARGITINVAHVEYATENRHYSHTDCPGHADYIKNMIT 167
           VLA K LA+ + YA IDNAPEEKARGITIN +H+EY TE RHY+H DCPGHADY+KNMIT
Sbjct: 35  VLAKKGLAEARDYASIDNAPEEKARGITINTSHIEYQTEKRHYAHVDCPGHADYVKNMIT 94

Query: 168 GTSQMDGAILVVAATDGAMPQTREHLLLAKQIGVTNIVVFINKF 211
           G +QMDGAILVVAATDG MPQTREH+LLA+Q+GV  IVVF+NK 
Sbjct: 95  GAAQMDGAILVVAATDGPMPQTREHILLARQVGVPKIVVFLNKI 138

This protein promotes the GTP-dependent binding of aminoacyl-tRNA to the A-site of ribosomes during protein biosynthesis.
Mycoplasma hominis (strain ATCC 23114 / NBRC 14850 / NCTC 10111 / PG21) (taxid: 347256)

>sp|P18668|EFTU_SYNP6 Elongation factor Tu OS=Synechococcus sp. (strain ATCC 27144 / PCC 6301 / SAUG 1402/1) GN=tuf PE=3 SV=1

 Score =  174 bits (442), Expect = 3e-43,   Method: Compositional matrix adjust.
 Identities = 80/103 (77%), Positives = 89/103 (86%)

Query: 108 VLADKKLAKVKQYADIDNAPEEKARGITINVAHVEYATENRHYSHTDCPGHADYIKNMIT 167
           VLA   +AK + YADID APEEKARGITIN AHVEY T NRHY+H DCPGHADY+KNMIT
Sbjct: 35  VLAKAGMAKARAYADIDAAPEEKARGITINTAHVEYETGNRHYAHVDCPGHADYVKNMIT 94

Query: 168 GTSQMDGAILVVAATDGAMPQTREHLLLAKQIGVTNIVVFINK 210
           G +QMDGAILVV+A DG MPQTREH+LLAKQ+GV NIVVF+NK
Sbjct: 95  GAAQMDGAILVVSAADGPMPQTREHILLAKQVGVPNIVVFLNK 137

This protein promotes the GTP-dependent binding of aminoacyl-tRNA to the A-site of ribosomes during protein biosynthesis.

Synechococcus sp. (strain ATCC 27144 / PCC 6301 / SAUG 1402/1) (taxid: 269084)

>sp|P33171|EFTU_SYNE7 Elongation factor Tu OS=Synechococcus elongatus (strain PCC 7942) GN=tuf PE=3 SV=2

 Score =  174 bits (442), Expect = 3e-43,   Method: Compositional matrix adjust.
 Identities = 80/103 (77%), Positives = 89/103 (86%)

Query: 108 VLADKKLAKVKQYADIDNAPEEKARGITINVAHVEYATENRHYSHTDCPGHADYIKNMIT 167
           VLA   +AK + YADID APEEKARGITIN AHVEY T NRHY+H DCPGHADY+KNMIT
Sbjct: 35  VLAKAGMAKARAYADIDAAPEEKARGITINTAHVEYETGNRHYAHVDCPGHADYVKNMIT 94

Query: 168 GTSQMDGAILVVAATDGAMPQTREHLLLAKQIGVTNIVVFINK 210
           G +QMDGAILVV+A DG MPQTREH+LLAKQ+GV NIVVF+NK
Sbjct: 95  GAAQMDGAILVVSAADGPMPQTREHILLAKQVGVPNIVVFLNK 137

This protein promotes the GTP-dependent binding of aminoacyl-tRNA to the A-site of ribosomes during protein biosynthesis.

Synechococcus elongatus (strain PCC 7942) (taxid: 1140)

>sp|Q6F0J5|EFTU_MESFL Elongation factor Tu OS=Mesoplasma florum (strain ATCC 33453 / NBRC 100688 / NCTC 11704 / L1) GN=tuf PE=3 SV=1

 Score =  173 bits (438), Expect = 8e-43,   Method: Compositional matrix adjust.
 Identities = 78/103 (75%), Positives = 90/103 (87%)

Query: 108 VLADKKLAKVKQYADIDNAPEEKARGITINVAHVEYATENRHYSHTDCPGHADYIKNMIT 167
           VLADK  A+ K YA+IDNAPEE+ RGITIN +HVEY TENRHY+H DCPGHADY+KNMIT
Sbjct: 35  VLADKGGAEFKDYANIDNAPEERERGITINTSHVEYKTENRHYAHVDCPGHADYVKNMIT 94

Query: 168 GTSQMDGAILVVAATDGAMPQTREHLLLAKQIGVTNIVVFINK 210
           G +QMDG ILVVAATDG MPQTREH+LL++Q+GV  IVVF+NK
Sbjct: 95  GAAQMDGGILVVAATDGPMPQTREHILLSRQVGVPKIVVFLNK 137

This protein promotes the GTP-dependent binding of aminoacyl-tRNA to the A-site of ribosomes during protein biosynthesis.

Mesoplasma florum (strain ATCC 33453 / NBRC 100688 / NCTC 11704 / L1) (taxid: 265311)

>sp|B9L7I8|EFTU_NAUPA Elongation factor Tu OS=Nautilia profundicola (strain ATCC BAA-1463 / DSM 18972 / AmH) GN=tuf PE=3 SV=1

 Score =  173 bits (438), Expect = 9e-43,   Method: Compositional matrix adjust.
 Identities = 78/104 (75%), Positives = 91/104 (87%)

Query: 108 VLADKKLAKVKQYADIDNAPEEKARGITINVAHVEYATENRHYSHTDCPGHADYIKNMIT 167
           VLA K L+++K Y +IDNAPEEK RGITIN +HVEY TENRHY+H DCPGHADY+KNMIT
Sbjct: 35  VLAQKGLSEMKDYDNIDNAPEEKERGITINTSHVEYETENRHYAHVDCPGHADYVKNMIT 94

Query: 168 GTSQMDGAILVVAATDGAMPQTREHLLLAKQIGVTNIVVFINKF 211
           G +QMDGAILVVAATDG MPQTREH+LL++Q+GV  IVVF+NK 
Sbjct: 95  GAAQMDGAILVVAATDGPMPQTREHILLSRQVGVPAIVVFLNKM 138

This protein promotes the GTP-dependent binding of aminoacyl-tRNA to the A-site of ribosomes during protein biosynthesis.

Nautilia profundicola (strain ATCC BAA-1463 / DSM 18972 / AmH) (taxid: 598659)

>sp|Q4A7K0|EFTU_MYCH7 Elongation factor Tu OS=Mycoplasma hyopneumoniae (strain 7448) GN=tuf PE=3 SV=1

 Score =  173 bits (438), Expect = 1e-42,   Method: Compositional matrix adjust.
 Identities = 79/104 (75%), Positives = 90/104 (86%)

Query: 108 VLADKKLAKVKQYADIDNAPEEKARGITINVAHVEYATENRHYSHTDCPGHADYIKNMIT 167
           VLA K LA+ K YA ID APEEKARGITIN AH+EY+T+ RHY+H DCPGHADYIKNMIT
Sbjct: 41  VLAKKGLAEAKDYASIDAAPEEKARGITINTAHIEYSTDKRHYAHVDCPGHADYIKNMIT 100

Query: 168 GTSQMDGAILVVAATDGAMPQTREHLLLAKQIGVTNIVVFINKF 211
           G +QMDGAILVVAATDG MPQTREH+LL+KQ+GV  +VVF+NK 
Sbjct: 101 GAAQMDGAILVVAATDGPMPQTREHILLSKQVGVPKMVVFLNKI 144

This protein promotes the GTP-dependent binding of aminoacyl-tRNA to the A-site of ribosomes during protein biosynthesis.

Mycoplasma hyopneumoniae (strain 7448) (taxid: 262722)

>sp|Q600B6|EFTU_MYCH2 Elongation factor Tu OS=Mycoplasma hyopneumoniae (strain 232) GN=tuf PE=3 SV=1

 Score =  173 bits (438), Expect = 1e-42,   Method: Compositional matrix adjust.
 Identities = 79/104 (75%), Positives = 90/104 (86%)

Query: 108 VLADKKLAKVKQYADIDNAPEEKARGITINVAHVEYATENRHYSHTDCPGHADYIKNMIT 167
           VLA K LA+ K YA ID APEEKARGITIN AH+EY+T+ RHY+H DCPGHADYIKNMIT
Sbjct: 41  VLAKKGLAEAKDYASIDAAPEEKARGITINTAHIEYSTDKRHYAHVDCPGHADYIKNMIT 100

Query: 168 GTSQMDGAILVVAATDGAMPQTREHLLLAKQIGVTNIVVFINKF 211
           G +QMDGAILVVAATDG MPQTREH+LL+KQ+GV  +VVF+NK 
Sbjct: 101 GAAQMDGAILVVAATDGPMPQTREHILLSKQVGVPKMVVFLNKI 144

This protein promotes the GTP-dependent binding of aminoacyl-tRNA to the A-site of ribosomes during protein biosynthesis.

Mycoplasma hyopneumoniae (strain 232) (taxid: 295358)

>sp|B3PMU1|EFTU_MYCA5 Elongation factor Tu OS=Mycoplasma arthritidis (strain 158L3-1) GN=tuf PE=3 SV=1

 Score =  172 bits (436), Expect = 1e-42,   Method: Compositional matrix adjust.
 Identities = 77/104 (74%), Positives = 90/104 (86%)

Query: 108 VLADKKLAKVKQYADIDNAPEEKARGITINVAHVEYATENRHYSHTDCPGHADYIKNMIT 167
           VL+ K L++ + YA IDNAPEEKARGITIN +H+EY +E RHY+H DCPGHADY+KNMIT
Sbjct: 35  VLSKKGLSEARDYASIDNAPEEKARGITINTSHIEYNSEKRHYAHVDCPGHADYVKNMIT 94

Query: 168 GTSQMDGAILVVAATDGAMPQTREHLLLAKQIGVTNIVVFINKF 211
           G +QMDGAILVVAATDG MPQTREH+LLAKQ+GV  IVVF+NK 
Sbjct: 95  GAAQMDGAILVVAATDGPMPQTREHILLAKQVGVPKIVVFLNKI 138

This protein promotes the GTP-dependent binding of aminoacyl-tRNA to the A-site of ribosomes during protein biosynthesis.

Mycoplasma arthritidis (strain 158L3-1) (taxid: 243272)

>sp|Q4A9G1|EFTU_MYCHJ Elongation factor Tu OS=Mycoplasma hyopneumoniae (strain J / ATCC 25934 / NCTC 10110) GN=tuf PE=3 SV=1

 Score =  172 bits (435), Expect = 2e-42,   Method: Compositional matrix adjust.
 Identities = 78/104 (75%), Positives = 90/104 (86%)

Query: 108 VLADKKLAKVKQYADIDNAPEEKARGITINVAHVEYATENRHYSHTDCPGHADYIKNMIT 167
           VLA + LA+ K YA ID APEEKARGITIN AH+EY+T+ RHY+H DCPGHADYIKNMIT
Sbjct: 41  VLAKRGLAEAKDYASIDAAPEEKARGITINTAHIEYSTDKRHYAHVDCPGHADYIKNMIT 100

Query: 168 GTSQMDGAILVVAATDGAMPQTREHLLLAKQIGVTNIVVFINKF 211
           G +QMDGAILVVAATDG MPQTREH+LL+KQ+GV  +VVF+NK 
Sbjct: 101 GAAQMDGAILVVAATDGPMPQTREHILLSKQVGVPKMVVFLNKI 144

This protein promotes the GTP-dependent binding of aminoacyl-tRNA to the A-site of ribosomes during protein biosynthesis.

Mycoplasma hyopneumoniae (strain J / ATCC 25934 / NCTC 10110) (taxid: 262719)

>sp|Q03QN5|EFTU_LACBA Elongation factor Tu OS=Lactobacillus brevis (strain ATCC 367 / JCM 1170) GN=tuf PE=3 SV=1

 Score =  171 bits (434), Expect = 2e-42,   Method: Compositional matrix adjust.
 Identities = 81/103 (78%), Positives = 89/103 (86%)

Query: 108 VLADKKLAKVKQYADIDNAPEEKARGITINVAHVEYATENRHYSHTDCPGHADYIKNMIT 167
           VLADK LAK + YADID APEE+ RGITIN AHVEY TE RHY+H D PGHADYIKNMIT
Sbjct: 36  VLADKGLAKAEDYADIDAAPEERERGITINTAHVEYETEKRHYAHIDAPGHADYIKNMIT 95

Query: 168 GTSQMDGAILVVAATDGAMPQTREHLLLAKQIGVTNIVVFINK 210
           G +QMDGAILVVAATDG MPQTREH+LLA+Q+GV  IVVF+NK
Sbjct: 96  GAAQMDGAILVVAATDGPMPQTREHILLARQVGVDYIVVFLNK 138

This protein promotes the GTP-dependent binding of aminoacyl-tRNA to the A-site of ribosomes during protein biosynthesis.

Lactobacillus brevis (strain ATCC 367 / JCM 1170) (taxid: 387344)

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	211
403182633	751	AAEL017378-PA [Aedes aegypti]	0.488	0.137	0.902	2e-48
157119079	463	elongation factor tu (ef-tu) [Aedes aegy	0.488	0.222	0.902	4e-48
170047901	462	elongation factor Tu [Culex quinquefasci	0.488	0.222	0.893	1e-47
193665787	482	PREDICTED: elongation factor Tu, mitocho	0.488	0.213	0.883	1e-47
158286472	466	AGAP006996-PA [Anopheles gambiae str. PE	0.488	0.221	0.893	1e-47
312373151	310	hypothetical protein AND_18233 [Anophele	0.488	0.332	0.893	2e-47
215259883	310	elongation factor Tu [Culex tarsalis]	0.488	0.332	0.893	2e-47
289740121	488	mitochondrial translation elongation fac	0.488	0.211	0.883	2e-47
307191010	399	Elongation factor Tu, mitochondrial [Cam	0.492	0.260	0.846	5e-47
195400541	487	GJ19676 [Drosophila virilis] gi|19415622	0.488	0.211	0.873	7e-47

>gi|403182633|gb|EJY57527.1| AAEL017378-PA [Aedes aegypti]

 Score =  197 bits (501), Expect = 2e-48,   Method: Compositional matrix adjust.
 Identities = 93/103 (90%), Positives = 98/103 (95%)

Query: 108 VLADKKLAKVKQYADIDNAPEEKARGITINVAHVEYATENRHYSHTDCPGHADYIKNMIT 167
           VLADK LA+ K+YADIDNAPEEKARGITINVAH+EY TENRHY HTDCPGHADYIKNMIT
Sbjct: 368 VLADKDLAESKKYADIDNAPEEKARGITINVAHIEYQTENRHYGHTDCPGHADYIKNMIT 427

Query: 168 GTSQMDGAILVVAATDGAMPQTREHLLLAKQIGVTNIVVFINK 210
           GT+QMDGAILVVAATDGAMPQTREHLLLAKQIGV +IVVFINK
Sbjct: 428 GTAQMDGAILVVAATDGAMPQTREHLLLAKQIGVNHIVVFINK 470

Source: Aedes aegypti

Species: Aedes aegypti

Genus: Aedes

Family: Culicidae

Order: Diptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|157119079|ref|XP_001659326.1| elongation factor tu (ef-tu) [Aedes aegypti] gi|108875477|gb|EAT39702.1| AAEL008517-PA [Aedes aegypti]

 Score =  196 bits (499), Expect = 4e-48,   Method: Compositional matrix adjust.
 Identities = 93/103 (90%), Positives = 98/103 (95%)

Query: 108 VLADKKLAKVKQYADIDNAPEEKARGITINVAHVEYATENRHYSHTDCPGHADYIKNMIT 167
           VLADK LA+ K+YADIDNAPEEKARGITINVAH+EY TENRHY HTDCPGHADYIKNMIT
Sbjct: 80  VLADKDLAESKKYADIDNAPEEKARGITINVAHIEYQTENRHYGHTDCPGHADYIKNMIT 139

Query: 168 GTSQMDGAILVVAATDGAMPQTREHLLLAKQIGVTNIVVFINK 210
           GT+QMDGAILVVAATDGAMPQTREHLLLAKQIGV +IVVFINK
Sbjct: 140 GTAQMDGAILVVAATDGAMPQTREHLLLAKQIGVNHIVVFINK 182

Source: Aedes aegypti

Species: Aedes aegypti

Genus: Aedes

Family: Culicidae

Order: Diptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|170047901|ref|XP_001851443.1| elongation factor Tu [Culex quinquefasciatus] gi|167870141|gb|EDS33524.1| elongation factor Tu [Culex quinquefasciatus]

 Score =  195 bits (496), Expect = 1e-47,   Method: Compositional matrix adjust.
 Identities = 92/103 (89%), Positives = 98/103 (95%)

Query: 108 VLADKKLAKVKQYADIDNAPEEKARGITINVAHVEYATENRHYSHTDCPGHADYIKNMIT 167
           VLAD+ LA+ K+YADIDNAPEEKARGITINVAH+EY TENRHY HTDCPGHADYIKNMIT
Sbjct: 78  VLADQDLAESKKYADIDNAPEEKARGITINVAHIEYQTENRHYGHTDCPGHADYIKNMIT 137

Query: 168 GTSQMDGAILVVAATDGAMPQTREHLLLAKQIGVTNIVVFINK 210
           GT+QMDGAILVVAATDGAMPQTREHLLLAKQIGV +IVVFINK
Sbjct: 138 GTAQMDGAILVVAATDGAMPQTREHLLLAKQIGVNHIVVFINK 180

Source: Culex quinquefasciatus

Species: Culex quinquefasciatus

Genus: Culex

Family: Culicidae

Order: Diptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|193665787|ref|XP_001948492.1| PREDICTED: elongation factor Tu, mitochondrial-like [Acyrthosiphon pisum]

 Score =  195 bits (495), Expect = 1e-47,   Method: Compositional matrix adjust.
 Identities = 91/103 (88%), Positives = 99/103 (96%)

Query: 108 VLADKKLAKVKQYADIDNAPEEKARGITINVAHVEYATENRHYSHTDCPGHADYIKNMIT 167
           +L+ KK+AK+KQYADIDNAPEEKARGITINVAHVEY TE RHYSHTDCPGHADYIKNMIT
Sbjct: 100 ILSTKKMAKMKQYADIDNAPEEKARGITINVAHVEYETEARHYSHTDCPGHADYIKNMIT 159

Query: 168 GTSQMDGAILVVAATDGAMPQTREHLLLAKQIGVTNIVVFINK 210
           GT+QMDGAILVVAATDGAMPQTREHLLLAKQIG+ +I+VFINK
Sbjct: 160 GTNQMDGAILVVAATDGAMPQTREHLLLAKQIGIGHIIVFINK 202

Source: Acyrthosiphon pisum

Species: Acyrthosiphon pisum

Genus: Acyrthosiphon

Family: Aphididae

Order: Hemiptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|158286472|ref|XP_308774.4| AGAP006996-PA [Anopheles gambiae str. PEST] gi|157020484|gb|EAA04167.4| AGAP006996-PA [Anopheles gambiae str. PEST]

 Score =  194 bits (494), Expect = 1e-47,   Method: Compositional matrix adjust.
 Identities = 92/103 (89%), Positives = 97/103 (94%)

Query: 108 VLADKKLAKVKQYADIDNAPEEKARGITINVAHVEYATENRHYSHTDCPGHADYIKNMIT 167
           VLADK LA+ K+Y DIDNAPEEKARGITINVAH+EY TENRHY HTDCPGHADYIKNMIT
Sbjct: 82  VLADKDLAESKKYTDIDNAPEEKARGITINVAHIEYQTENRHYGHTDCPGHADYIKNMIT 141

Query: 168 GTSQMDGAILVVAATDGAMPQTREHLLLAKQIGVTNIVVFINK 210
           GT+QMDGAILVVAATDGAMPQTREHLLLAKQIGV +IVVFINK
Sbjct: 142 GTAQMDGAILVVAATDGAMPQTREHLLLAKQIGVNHIVVFINK 184

Source: Anopheles gambiae str. PEST

Species: Anopheles gambiae

Genus: Anopheles

Family: Culicidae

Order: Diptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|312373151|gb|EFR20958.1| hypothetical protein AND_18233 [Anopheles darlingi]

 Score =  194 bits (493), Expect = 2e-47,   Method: Compositional matrix adjust.
 Identities = 92/103 (89%), Positives = 97/103 (94%)

Query: 108 VLADKKLAKVKQYADIDNAPEEKARGITINVAHVEYATENRHYSHTDCPGHADYIKNMIT 167
           VLADK LA+ K+Y DIDNAPEEKARGITINVAH+EY TENRHY HTDCPGHADYIKNMIT
Sbjct: 89  VLADKDLAESKKYTDIDNAPEEKARGITINVAHIEYQTENRHYGHTDCPGHADYIKNMIT 148

Query: 168 GTSQMDGAILVVAATDGAMPQTREHLLLAKQIGVTNIVVFINK 210
           GT+QMDGAILVVAATDGAMPQTREHLLLAKQIGV +IVVFINK
Sbjct: 149 GTAQMDGAILVVAATDGAMPQTREHLLLAKQIGVNHIVVFINK 191

Source: Anopheles darlingi

Species: Anopheles darlingi

Genus: Anopheles

Family: Culicidae

Order: Diptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|215259883|gb|ACJ64433.1| elongation factor Tu [Culex tarsalis]

 Score =  194 bits (493), Expect = 2e-47,   Method: Compositional matrix adjust.
 Identities = 92/103 (89%), Positives = 98/103 (95%)

Query: 108 VLADKKLAKVKQYADIDNAPEEKARGITINVAHVEYATENRHYSHTDCPGHADYIKNMIT 167
           VLAD+ LA+ K+YADIDNAPEEKARGITINVAH+EY TENRHY HTDCPGHADYIKNMIT
Sbjct: 56  VLADQDLAESKKYADIDNAPEEKARGITINVAHIEYQTENRHYGHTDCPGHADYIKNMIT 115

Query: 168 GTSQMDGAILVVAATDGAMPQTREHLLLAKQIGVTNIVVFINK 210
           GT+QMDGAILVVAATDGAMPQTREHLLLAKQIGV +IVVFINK
Sbjct: 116 GTAQMDGAILVVAATDGAMPQTREHLLLAKQIGVNHIVVFINK 158

Source: Culex tarsalis

Species: Culex tarsalis

Genus: Culex

Family: Culicidae

Order: Diptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|289740121|gb|ADD18808.1| mitochondrial translation elongation factor Tu [Glossina morsitans morsitans]

 Score =  194 bits (493), Expect = 2e-47,   Method: Compositional matrix adjust.
 Identities = 91/103 (88%), Positives = 98/103 (95%)

Query: 108 VLADKKLAKVKQYADIDNAPEEKARGITINVAHVEYATENRHYSHTDCPGHADYIKNMIT 167
           VLADKKLA+ K+Y +IDNAPEEKARGITINVAHVEY TENRHY HTDCPGHADYIKNMIT
Sbjct: 104 VLADKKLAESKKYNEIDNAPEEKARGITINVAHVEYQTENRHYGHTDCPGHADYIKNMIT 163

Query: 168 GTSQMDGAILVVAATDGAMPQTREHLLLAKQIGVTNIVVFINK 210
           GT+QMDGAILVVAATDGAMPQTREHL+LAKQIG+ +IVVFINK
Sbjct: 164 GTAQMDGAILVVAATDGAMPQTREHLVLAKQIGINHIVVFINK 206

Source: Glossina morsitans morsitans

Species: Glossina morsitans

Genus: Glossina

Family: Glossinidae

Order: Diptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|307191010|gb|EFN74764.1| Elongation factor Tu, mitochondrial [Camponotus floridanus]

 Score =  193 bits (490), Expect = 5e-47,   Method: Compositional matrix adjust.
 Identities = 88/104 (84%), Positives = 98/104 (94%)

Query: 107 PVLADKKLAKVKQYADIDNAPEEKARGITINVAHVEYATENRHYSHTDCPGHADYIKNMI 166
           PVL++K+LA  K+Y+DIDNAPEE+ARGITINVAHVEY TENRHY HTDCPGHADYIKNMI
Sbjct: 12  PVLSEKELATAKKYSDIDNAPEEQARGITINVAHVEYQTENRHYGHTDCPGHADYIKNMI 71

Query: 167 TGTSQMDGAILVVAATDGAMPQTREHLLLAKQIGVTNIVVFINK 210
           TGT+QMDGAILVVAATDG MPQTREHLLLAKQIG+ +I+VFINK
Sbjct: 72  TGTAQMDGAILVVAATDGTMPQTREHLLLAKQIGIQHIIVFINK 115

Source: Camponotus floridanus

Species: Camponotus floridanus

Genus: Camponotus

Family: Formicidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|195400541|ref|XP_002058875.1| GJ19676 [Drosophila virilis] gi|194156226|gb|EDW71410.1| GJ19676 [Drosophila virilis]

 Score =  192 bits (488), Expect = 7e-47,   Method: Compositional matrix adjust.
 Identities = 90/103 (87%), Positives = 98/103 (95%)

Query: 108 VLADKKLAKVKQYADIDNAPEEKARGITINVAHVEYATENRHYSHTDCPGHADYIKNMIT 167
           VLADKKLA+ K+Y +IDNAPEEKARGITINVAHVEY TE+RHY HTDCPGHADYIKNMIT
Sbjct: 103 VLADKKLAESKKYNEIDNAPEEKARGITINVAHVEYQTESRHYGHTDCPGHADYIKNMIT 162

Query: 168 GTSQMDGAILVVAATDGAMPQTREHLLLAKQIGVTNIVVFINK 210
           GT+QMDGAILVVAATDGAMPQTREH+LLAKQIG+ +IVVFINK
Sbjct: 163 GTAQMDGAILVVAATDGAMPQTREHMLLAKQIGIDHIVVFINK 205

Source: Drosophila virilis

Species: Drosophila virilis

Genus: Drosophila

Family: Drosophilidae

Order: Diptera

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	211
FB|FBgn0024556	489	EfTuM "Elongation factor Tu mi	0.488	0.210	0.864	1.5e-44
ZFIN|ZDB-GENE-050320-73	448	tufm "Tu translation elongatio	0.488	0.229	0.786	9.6e-41
UNIPROTKB|F1RFI1	452	TUFM "Elongation factor Tu" [S	0.488	0.227	0.747	1.4e-39
TIGR_CMR|CHY_2327	400	CHY_2327 "translation elongati	0.488	0.257	0.747	6.1e-39
MGI|MGI:1923686	452	Tufm "Tu translation elongatio	0.488	0.227	0.737	9.9e-39
RGD|1305501	452	Tufm "Tu translation elongatio	0.488	0.227	0.737	9.9e-39
UNIPROTKB|P85834	452	Tufm "Elongation factor Tu, mi	0.488	0.227	0.737	9.9e-39
TIGR_CMR|CHY_2312	400	CHY_2312 "translation elongati	0.488	0.257	0.737	1.3e-38
UNIPROTKB|P49410	452	TUFM "Elongation factor Tu, mi	0.488	0.227	0.728	2.1e-38
UNIPROTKB|E2RSU3	452	TUFM "Elongation factor Tu" [C	0.488	0.227	0.728	2.1e-38

FB|FBgn0024556 EfTuM "Elongation factor Tu mitochondrial" [Drosophila melanogaster (taxid:7227)]

 Score = 469 (170.2 bits), Expect = 1.5e-44, P = 1.5e-44
 Identities = 89/103 (86%), Positives = 97/103 (94%)

Query:   108 VLADKKLAKVKQYADIDNAPEEKARGITINVAHVEYATENRHYSHTDCPGHADYIKNMIT 167
             VLADK+LA+ K+Y +IDNAPEEKARGITINVAHVEY TE RHY HTDCPGHADYIKNMIT
Sbjct:   105 VLADKQLAESKKYNEIDNAPEEKARGITINVAHVEYQTETRHYGHTDCPGHADYIKNMIT 164

Query:   168 GTSQMDGAILVVAATDGAMPQTREHLLLAKQIGVTNIVVFINK 210
             GT+QMDGAILVVAATDGAMPQTREH+LLAKQIG+ +IVVFINK
Sbjct:   165 GTAQMDGAILVVAATDGAMPQTREHMLLAKQIGIDHIVVFINK 207

GO:0003746 "translation elongation factor activity" evidence=ISS

GO:0006414 "translational elongation" evidence=ISS

GO:0005739 "mitochondrion" evidence=ISS;IDA

GO:0005525 "GTP binding" evidence=IEA

GO:0003924 "GTPase activity" evidence=IEA

GO:0008283 "cell proliferation" evidence=IMP

GO:0007030 "Golgi organization" evidence=IMP

GO:0000278 "mitotic cell cycle" evidence=IMP

ZFIN|ZDB-GENE-050320-73 tufm "Tu translation elongation factor, mitochondrial" [Danio rerio (taxid:7955)]

 Score = 433 (157.5 bits), Expect = 9.6e-41, P = 9.6e-41
 Identities = 81/103 (78%), Positives = 90/103 (87%)

Query:   108 VLADKKLAKVKQYADIDNAPEEKARGITINVAHVEYATENRHYSHTDCPGHADYIKNMIT 167
             VLA+   A  K Y DIDNAPEEKARGITIN +HVEY T NRHY+HTDCPGHADY+KNMIT
Sbjct:    75 VLAEAGGANYKSYEDIDNAPEEKARGITINASHVEYTTANRHYAHTDCPGHADYVKNMIT 134

Query:   168 GTSQMDGAILVVAATDGAMPQTREHLLLAKQIGVTNIVVFINK 210
             GT+QMDG ILVVAATDG MPQTREHLLLA+QIGV ++VV+INK
Sbjct:   135 GTAQMDGCILVVAATDGQMPQTREHLLLARQIGVQHVVVYINK 177

GO:0003924 "GTPase activity" evidence=IEA

GO:0005525 "GTP binding" evidence=IEA

GO:0006414 "translational elongation" evidence=IEA

GO:0003746 "translation elongation factor activity" evidence=IEA

GO:0005622 "intracellular" evidence=IEA

GO:0000166 "nucleotide binding" evidence=IEA

UNIPROTKB|F1RFI1 TUFM "Elongation factor Tu" [Sus scrofa (taxid:9823)]

 Score = 422 (153.6 bits), Expect = 1.4e-39, P = 1.4e-39
 Identities = 77/103 (74%), Positives = 91/103 (88%)

Query:   108 VLADKKLAKVKQYADIDNAPEEKARGITINVAHVEYATENRHYSHTDCPGHADYIKNMIT 167
             +LA+   AK K+Y +IDNAPEE+ARGITIN AHVEY+T NRHY+HTDCPGHADY+KNMIT
Sbjct:    80 ILAEGGGAKFKKYEEIDNAPEERARGITINAAHVEYSTANRHYAHTDCPGHADYVKNMIT 139

Query:   168 GTSQMDGAILVVAATDGAMPQTREHLLLAKQIGVTNIVVFINK 210
             GT+ +DG ILVVAA DG MPQTREHLLLAKQIGV ++VV++NK
Sbjct:   140 GTAPLDGCILVVAANDGPMPQTREHLLLAKQIGVEHVVVYVNK 182

GO:0042645 "mitochondrial nucleoid" evidence=IEA

GO:0003746 "translation elongation factor activity" evidence=IEA

GO:0005525 "GTP binding" evidence=IEA

GO:0003924 "GTPase activity" evidence=IEA

TIGR_CMR|CHY_2327 CHY_2327 "translation elongation factor Tu" [Carboxydothermus hydrogenoformans Z-2901 (taxid:246194)]

 Score = 416 (151.5 bits), Expect = 6.1e-39, P = 6.1e-39
 Identities = 77/103 (74%), Positives = 89/103 (86%)

Query:   108 VLADKKLAKVKQYADIDNAPEEKARGITINVAHVEYATENRHYSHTDCPGHADYIKNMIT 167
             VLA K LA+ K+Y +IDNAPEE+ RGITIN AHVEY TE RHY+H DCPGHADY+KNMIT
Sbjct:    35 VLAKKGLAQQKRYDEIDNAPEERERGITINTAHVEYETEKRHYAHVDCPGHADYVKNMIT 94

Query:   168 GTSQMDGAILVVAATDGAMPQTREHLLLAKQIGVTNIVVFINK 210
             G +QMDGAILVV+A DG MPQTREH+LLA+Q+GV  IVVF+NK
Sbjct:    95 GAAQMDGAILVVSAADGPMPQTREHILLARQVGVPYIVVFLNK 137

GO:0003746 "translation elongation factor activity" evidence=ISS

GO:0006414 "translational elongation" evidence=ISS

MGI|MGI:1923686 Tufm "Tu translation elongation factor, mitochondrial" [Mus musculus (taxid:10090)]

 Score = 414 (150.8 bits), Expect = 9.9e-39, P = 9.9e-39
 Identities = 76/103 (73%), Positives = 90/103 (87%)

Query:   108 VLADKKLAKVKQYADIDNAPEEKARGITINVAHVEYATENRHYSHTDCPGHADYIKNMIT 167
             +LA+   AK K+Y +IDNAPEE+ARGITIN AHVEY+T  RHY+HTDCPGHADY+KNMIT
Sbjct:    80 ILAEGGGAKFKKYEEIDNAPEERARGITINAAHVEYSTAARHYAHTDCPGHADYVKNMIT 139

Query:   168 GTSQMDGAILVVAATDGAMPQTREHLLLAKQIGVTNIVVFINK 210
             GT+ +DG ILVVAA DG MPQTREHLLLAKQIGV ++VV++NK
Sbjct:   140 GTAPLDGCILVVAANDGPMPQTREHLLLAKQIGVEHVVVYVNK 182

GO:0000166 "nucleotide binding" evidence=IEA

GO:0003746 "translation elongation factor activity" evidence=ISO

GO:0003924 "GTPase activity" evidence=IEA

GO:0005525 "GTP binding" evidence=IEA

GO:0005622 "intracellular" evidence=IEA

GO:0005739 "mitochondrion" evidence=ISO;IDA

GO:0005743 "mitochondrial inner membrane" evidence=IDA

GO:0006412 "translation" evidence=IEA

GO:0006414 "translational elongation" evidence=ISO

GO:0042645 "mitochondrial nucleoid" evidence=ISO

RGD|1305501 Tufm "Tu translation elongation factor, mitochondrial" [Rattus norvegicus (taxid:10116)]

 Score = 414 (150.8 bits), Expect = 9.9e-39, P = 9.9e-39
 Identities = 76/103 (73%), Positives = 90/103 (87%)

Query:   108 VLADKKLAKVKQYADIDNAPEEKARGITINVAHVEYATENRHYSHTDCPGHADYIKNMIT 167
             +LA+   AK K+Y +IDNAPEE+ARGITIN AHVEY+T  RHY+HTDCPGHADY+KNMIT
Sbjct:    80 ILAEGGGAKFKKYEEIDNAPEERARGITINAAHVEYSTAARHYAHTDCPGHADYVKNMIT 139

Query:   168 GTSQMDGAILVVAATDGAMPQTREHLLLAKQIGVTNIVVFINK 210
             GT+ +DG ILVVAA DG MPQTREHLLLAKQIGV ++VV++NK
Sbjct:   140 GTAPLDGCILVVAANDGPMPQTREHLLLAKQIGVEHVVVYVNK 182

GO:0003746 "translation elongation factor activity" evidence=IEA;ISO

GO:0003924 "GTPase activity" evidence=IEA

GO:0005525 "GTP binding" evidence=IEA

GO:0005622 "intracellular" evidence=IEA

GO:0005739 "mitochondrion" evidence=ISO

GO:0005743 "mitochondrial inner membrane" evidence=ISO

GO:0006414 "translational elongation" evidence=ISO

GO:0042645 "mitochondrial nucleoid" evidence=IEA;ISO

UNIPROTKB|P85834 Tufm "Elongation factor Tu, mitochondrial" [Rattus norvegicus (taxid:10116)]

 Score = 414 (150.8 bits), Expect = 9.9e-39, P = 9.9e-39
 Identities = 76/103 (73%), Positives = 90/103 (87%)

Query:   108 VLADKKLAKVKQYADIDNAPEEKARGITINVAHVEYATENRHYSHTDCPGHADYIKNMIT 167
             +LA+   AK K+Y +IDNAPEE+ARGITIN AHVEY+T  RHY+HTDCPGHADY+KNMIT
Sbjct:    80 ILAEGGGAKFKKYEEIDNAPEERARGITINAAHVEYSTAARHYAHTDCPGHADYVKNMIT 139

Query:   168 GTSQMDGAILVVAATDGAMPQTREHLLLAKQIGVTNIVVFINK 210
             GT+ +DG ILVVAA DG MPQTREHLLLAKQIGV ++VV++NK
Sbjct:   140 GTAPLDGCILVVAANDGPMPQTREHLLLAKQIGVEHVVVYVNK 182

GO:0003924 "GTPase activity" evidence=IEA

GO:0005525 "GTP binding" evidence=IEA

TIGR_CMR|CHY_2312 CHY_2312 "translation elongation factor Tu" [Carboxydothermus hydrogenoformans Z-2901 (taxid:246194)]

 Score = 413 (150.4 bits), Expect = 1.3e-38, P = 1.3e-38
 Identities = 76/103 (73%), Positives = 89/103 (86%)

Query:   108 VLADKKLAKVKQYADIDNAPEEKARGITINVAHVEYATENRHYSHTDCPGHADYIKNMIT 167
             VLA + LA+ K+Y +IDNAPEE+ RGITIN AHVEY TE RHY+H DCPGHADY+KNMIT
Sbjct:    35 VLAKRGLAQQKRYDEIDNAPEERERGITINTAHVEYETEKRHYAHVDCPGHADYVKNMIT 94

Query:   168 GTSQMDGAILVVAATDGAMPQTREHLLLAKQIGVTNIVVFINK 210
             G +QMDGAILVV+A DG MPQTREH+LLA+Q+GV  IVVF+NK
Sbjct:    95 GAAQMDGAILVVSAADGPMPQTREHILLARQVGVPYIVVFLNK 137

GO:0003746 "translation elongation factor activity" evidence=ISS

GO:0006414 "translational elongation" evidence=ISS

UNIPROTKB|P49410 TUFM "Elongation factor Tu, mitochondrial" [Bos taurus (taxid:9913)]

 Score = 411 (149.7 bits), Expect = 2.1e-38, P = 2.1e-38
 Identities = 75/103 (72%), Positives = 90/103 (87%)

Query:   108 VLADKKLAKVKQYADIDNAPEEKARGITINVAHVEYATENRHYSHTDCPGHADYIKNMIT 167
             +LA+   AK K+Y +IDNAPEE+ARGITIN AHVEY+T  RHY+HTDCPGHADY+KNMIT
Sbjct:    80 ILAEGGGAKFKKYEEIDNAPEERARGITINAAHVEYSTAARHYAHTDCPGHADYVKNMIT 139

Query:   168 GTSQMDGAILVVAATDGAMPQTREHLLLAKQIGVTNIVVFINK 210
             GT+ +DG ILVVAA DG MPQTREHLLLA+QIGV ++VV++NK
Sbjct:   140 GTAPLDGCILVVAANDGPMPQTREHLLLARQIGVEHVVVYVNK 182

GO:0005743 "mitochondrial inner membrane" evidence=ISS

GO:0005739 "mitochondrion" evidence=ISS;IDA

GO:0006414 "translational elongation" evidence=IDA

GO:0003746 "translation elongation factor activity" evidence=IDA

GO:0042645 "mitochondrial nucleoid" evidence=IEA

GO:0005525 "GTP binding" evidence=IEA

GO:0003924 "GTPase activity" evidence=IEA

UNIPROTKB|E2RSU3 TUFM "Elongation factor Tu" [Canis lupus familiaris (taxid:9615)]

 Score = 411 (149.7 bits), Expect = 2.1e-38, P = 2.1e-38
 Identities = 75/103 (72%), Positives = 90/103 (87%)

Query:   108 VLADKKLAKVKQYADIDNAPEEKARGITINVAHVEYATENRHYSHTDCPGHADYIKNMIT 167
             +LA+   AK K+Y +IDNAPEE+ARGITIN AHVEY+T  RHY+HTDCPGHADY+KNMIT
Sbjct:    80 ILAEGGGAKFKKYEEIDNAPEERARGITINAAHVEYSTAARHYAHTDCPGHADYVKNMIT 139

Query:   168 GTSQMDGAILVVAATDGAMPQTREHLLLAKQIGVTNIVVFINK 210
             GT+ +DG ILVVAA DG MPQTREHLLLA+QIGV ++VV++NK
Sbjct:   140 GTAPLDGCILVVAANDGPMPQTREHLLLARQIGVEHVVVYVNK 182

GO:0042645 "mitochondrial nucleoid" evidence=IEA

GO:0003746 "translation elongation factor activity" evidence=IEA

GO:0005525 "GTP binding" evidence=IEA

GO:0003924 "GTPase activity" 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)
Q7VJ74	EFTU_HELHP	No assigned EC number	0.7281	0.4881	0.2581	yes	N/A
Q2SSW8	EFTU_MYCCT	No assigned EC number	0.7378	0.4834	0.2582	yes	N/A
A5VJ92	EFTU_LACRD	No assigned EC number	0.7766	0.4834	0.2575	yes	N/A
P50064	EFTU_GLOVI	No assigned EC number	0.7549	0.4834	0.2493	yes	N/A
A8YUS2	EFTU_LACH4	No assigned EC number	0.7669	0.4834	0.2575	yes	N/A
P18668	EFTU_SYNP6	No assigned EC number	0.7766	0.4881	0.2518	yes	N/A
Q3A9R3	EFTU1_CARHZ	No assigned EC number	0.7378	0.4834	0.255	yes	N/A
Q11Q98	EFTU_CYTH3	No assigned EC number	0.7378	0.4834	0.2582	yes	N/A
Q6F0J5	EFTU_MESFL	No assigned EC number	0.7572	0.4834	0.2588	yes	N/A
Q039K9	EFTU_LACC3	No assigned EC number	0.7572	0.4834	0.2575	yes	N/A
B1WQY4	EFTU_CYAA5	No assigned EC number	0.7450	0.4834	0.2493	yes	N/A
Q4A597	EFTU_MYCS5	No assigned EC number	0.7378	0.4881	0.2614	yes	N/A
B7K834	EFTU_CYAP7	No assigned EC number	0.7450	0.4786	0.2463	yes	N/A
Q600B6	EFTU_MYCH2	No assigned EC number	0.7596	0.4881	0.2562	yes	N/A
A5IYA9	EFTU_MYCAP	No assigned EC number	0.7572	0.4881	0.2601	yes	N/A
A8Z5T8	EFTU_SULMW	No assigned EC number	0.7475	0.4834	0.2582	yes	N/A
B3PMU1	EFTU_MYCA5	No assigned EC number	0.7403	0.4928	0.2619	yes	N/A
B7JUP5	EFTU_CYAP8	No assigned EC number	0.7352	0.4834	0.2493	yes	N/A
Q4A9G1	EFTU_MYCHJ	No assigned EC number	0.75	0.4881	0.2562	yes	N/A
Q1GAQ0	EFTU_LACDA	No assigned EC number	0.7572	0.4834	0.2575	yes	N/A
Q04B37	EFTU_LACDB	No assigned EC number	0.7572	0.4834	0.2575	yes	N/A
Q38WR7	EFTU_LACSS	No assigned EC number	0.7475	0.4834	0.2575	yes	N/A
B2G6R2	EFTU_LACRJ	No assigned EC number	0.7766	0.4834	0.2575	yes	N/A
B2J5B1	EFTU_NOSP7	No assigned EC number	0.7647	0.4834	0.2493	yes	N/A
Q3A9P8	EFTU2_CARHZ	No assigned EC number	0.7475	0.4834	0.255	yes	N/A
Q4A7K0	EFTU_MYCH7	No assigned EC number	0.7596	0.4881	0.2562	yes	N/A
P33171	EFTU_SYNE7	No assigned EC number	0.7766	0.4881	0.2518	yes	N/A
B3ETZ7	EFTU_AMOA5	No assigned EC number	0.7184	0.4834	0.2582	yes	N/A
B1XI63	EFTU_SYNP2	No assigned EC number	0.7450	0.4834	0.2493	yes	N/A
B3WE38	EFTU_LACCB	No assigned EC number	0.7572	0.4834	0.2575	yes	N/A
Q118Z2	EFTU_TRIEI	No assigned EC number	0.7647	0.4834	0.2493	yes	N/A
P85834	EFTU_RAT	No assigned EC number	0.7378	0.4881	0.2278	yes	N/A
B2GBC2	EFTU_LACF3	No assigned EC number	0.7669	0.4834	0.2575	yes	N/A
Q5FKR8	EFTU_LACAC	No assigned EC number	0.7766	0.4834	0.2575	yes	N/A
P22679	EFTU_MYCHP	No assigned EC number	0.7596	0.4928	0.2619	yes	N/A
Q8DI42	EFTU_THEEB	No assigned EC number	0.7450	0.4834	0.2493	yes	N/A
P49410	EFTU_BOVIN	No assigned EC number	0.7281	0.4881	0.2278	yes	N/A
B9L7I8	EFTU_NAUPA	No assigned EC number	0.75	0.4928	0.2606	yes	N/A
Q03QN5	EFTU_LACBA	No assigned EC number	0.7864	0.4834	0.2575	yes	N/A
P49411	EFTU_HUMAN	No assigned EC number	0.7281	0.4881	0.2278	yes	N/A
Q03F25	EFTU_PEDPA	No assigned EC number	0.7669	0.4834	0.2582	yes	N/A
Q6MU81	EFTU_MYCMS	No assigned EC number	0.7378	0.4834	0.2582	yes	N/A
Q8EX18	EFTU_MYCPE	No assigned EC number	0.7549	0.4834	0.2588	yes	N/A
Q98QG1	EFTU_MYCPU	No assigned EC number	0.7378	0.4834	0.2575	yes	N/A

EC Number Prediction by EFICAz Software

No EC number assignment, probably not an enzyme!

---

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database

ID	Length	Definition	E-value
Query	211
cd01884	195	cd01884, EF_Tu, Elongation Factor Tu (EF-Tu) GTP-b	1e-76
PRK00049	396	PRK00049, PRK00049, elongation factor Tu; Reviewed	2e-71
PRK12735	396	PRK12735, PRK12735, elongation factor Tu; Reviewed	2e-70
PRK12736	394	PRK12736, PRK12736, elongation factor Tu; Reviewed	2e-67
CHL00071	409	CHL00071, tufA, elongation factor Tu	2e-67
COG0050	394	COG0050, TufB, GTPases - translation elongation fa	1e-63
TIGR00485	394	TIGR00485, EF-Tu, translation elongation factor TU	1e-59
PLN03127	447	PLN03127, PLN03127, Elongation factor Tu; Provisio	3e-57
pfam00009	184	pfam00009, GTP_EFTU, Elongation factor Tu GTP bind	9e-51
PRK00049	396	PRK00049, PRK00049, elongation factor Tu; Reviewed	1e-50
PLN03126	478	PLN03126, PLN03126, Elongation factor Tu; Provisio	4e-50
PRK12735	396	PRK12735, PRK12735, elongation factor Tu; Reviewed	9e-50
PRK12736	394	PRK12736, PRK12736, elongation factor Tu; Reviewed	1e-48
cd03697	87	cd03697, EFTU_II, EFTU_II: Elongation factor Tu do	6e-45
COG0050	394	COG0050, TufB, GTPases - translation elongation fa	1e-44
TIGR00485	394	TIGR00485, EF-Tu, translation elongation factor TU	2e-42
PLN03127	447	PLN03127, PLN03127, Elongation factor Tu; Provisio	3e-42
CHL00071	409	CHL00071, tufA, elongation factor Tu	2e-40
cd01883	219	cd01883, EF1_alpha, Elongation Factor 1-alpha (EF1	2e-37
PRK12317	425	PRK12317, PRK12317, elongation factor 1-alpha; Rev	1e-34
PLN03126	478	PLN03126, PLN03126, Elongation factor Tu; Provisio	1e-33
cd00881	183	cd00881, GTP_translation_factor, GTP translation f	2e-33
COG5256	428	COG5256, TEF1, Translation elongation factor EF-1a	4e-30
TIGR00483	426	TIGR00483, EF-1_alpha, translation elongation fact	6e-28
cd04171	170	cd04171, SelB, SelB, the dedicated elongation fact	3e-25
PTZ00141	446	PTZ00141, PTZ00141, elongation factor 1- alpha; Pr	5e-25
cd04166	209	cd04166, CysN_ATPS, CysN, together with protein Cy	4e-22
TIGR00475	581	TIGR00475, selB, selenocysteine-specific elongatio	2e-21
COG3276	447	COG3276, SelB, Selenocysteine-specific translation	1e-20
COG2895	431	COG2895, CysN, GTPases - Sulfate adenylate transfe	2e-20
COG5256	428	COG5256, TEF1, Translation elongation factor EF-1a	1e-19
PRK05506	632	PRK05506, PRK05506, bifunctional sulfate adenylylt	3e-19
TIGR02034	406	TIGR02034, CysN, sulfate adenylyltransferase, larg	2e-18
cd03696	83	cd03696, selB_II, selB_II: this subfamily represen	9e-18
PRK10512	614	PRK10512, PRK10512, selenocysteinyl-tRNA-specific	2e-17
PRK05124	474	PRK05124, cysN, sulfate adenylyltransferase subuni	2e-17
pfam03144	70	pfam03144, GTP_EFTU_D2, Elongation factor Tu domai	5e-17
PLN00043	447	PLN00043, PLN00043, elongation factor 1-alpha; Pro	1e-16
PRK12317	425	PRK12317, PRK12317, elongation factor 1-alpha; Rev	3e-16
cd03693	91	cd03693, EF1_alpha_II, EF1_alpha_II: this family r	3e-16
PTZ00141	446	PTZ00141, PTZ00141, elongation factor 1- alpha; Pr	5e-16
cd01342	83	cd01342, Translation_Factor_II_like, Translation_F	7e-16
TIGR00483	426	TIGR00483, EF-1_alpha, translation elongation fact	9e-16
PRK04000	411	PRK04000, PRK04000, translation initiation factor	3e-15
COG3276	447	COG3276, SelB, Selenocysteine-specific translation	2e-14
cd01888	197	cd01888, eIF2_gamma, Gamma subunit of initiation f	2e-14
TIGR03680	406	TIGR03680, eif2g_arch, translation initiation fact	2e-14
cd01889	192	cd01889, SelB_euk, SelB, the dedicated elongation	2e-14
PLN00043	447	PLN00043, PLN00043, elongation factor 1-alpha; Pro	9e-14
COG5257	415	COG5257, GCD11, Translation initiation factor 2, g	9e-14
cd04168	237	cd04168, TetM_like, Tet(M)-like family includes Te	2e-13
COG0480	697	COG0480, FusA, Translation elongation factors (GTP	8e-13
COG5258	527	COG5258, GTPBP1, GTPase [General function predicti	4e-12
PTZ00327	460	PTZ00327, PTZ00327, eukaryotic translation initiat	9e-12
TIGR00490	720	TIGR00490, aEF-2, translation elongation factor aE	7e-11
cd01887	169	cd01887, IF2_eIF5B, Initiation Factor 2 (IF2)/ euk	1e-10
PRK12740	668	PRK12740, PRK12740, elongation factor G; Reviewed	1e-10
PRK07560	731	PRK07560, PRK07560, elongation factor EF-2; Review	2e-10
cd01891	194	cd01891, TypA_BipA, Tyrosine phosphorylated protei	5e-10
COG1217	603	COG1217, TypA, Predicted membrane GTPase involved	1e-09
TIGR01394	594	TIGR01394, TypA_BipA, GTP-binding protein TypA/Bip	3e-09
TIGR00487	587	TIGR00487, IF-2, translation initiation factor IF-	4e-09
cd04170	268	cd04170, EF-G_bact, Elongation factor G (EF-G) fam	6e-09
TIGR00475	581	TIGR00475, selB, selenocysteine-specific elongatio	1e-08
PRK05306	746	PRK05306, infB, translation initiation factor IF-2	4e-08
cd03694	87	cd03694, GTPBP_II, Domain II of the GP-1 family of	6e-08
COG0532	509	COG0532, InfB, Translation initiation factor 2 (IF	7e-08
cd01885	218	cd01885, EF2, Elongation Factor 2 (EF2) in archaea	1e-07
PRK13351	687	PRK13351, PRK13351, elongation factor G; Reviewed	3e-07
CHL00189	742	CHL00189, infB, translation initiation factor 2; P	5e-07
cd04167	213	cd04167, Snu114p, Snu114p, a spliceosome protein,	1e-06
PRK10218	607	PRK10218, PRK10218, GTP-binding protein; Provision	1e-06
TIGR00484	689	TIGR00484, EF-G, translation elongation factor EF-	4e-06
cd01886	270	cd01886, EF-G, Elongation factor G (EF-G) family i	8e-06
TIGR01394	594	TIGR01394, TypA_BipA, GTP-binding protein TypA/Bip	3e-05
cd01890	179	cd01890, LepA, LepA also known as Elongation Facto	3e-05
COG5257	415	COG5257, GCD11, Translation initiation factor 2, g	9e-05
TIGR03680	406	TIGR03680, eif2g_arch, translation initiation fact	1e-04
COG5258	527	COG5258, GTPBP1, GTPase [General function predicti	2e-04
TIGR00503	527	TIGR00503, prfC, peptide chain release factor 3	2e-04
TIGR01393	595	TIGR01393, lepA, GTP-binding protein LepA	4e-04
COG1217	603	COG1217, TypA, Predicted membrane GTPase involved	7e-04
cd04169	268	cd04169, RF3, Release Factor 3 (RF3) protein invol	8e-04
PTZ00416	836	PTZ00416, PTZ00416, elongation factor 2; Provision	0.001
PRK04000	411	PRK04000, PRK04000, translation initiation factor	0.002
cd03695	81	cd03695, CysN_NodQ_II, CysN_NodQ_II: This subfamil	0.002
COG4108	528	COG4108, PrfC, Peptide chain release factor RF-3 [	0.002
PRK10512	614	PRK10512, PRK10512, selenocysteinyl-tRNA-specific	0.003
TIGR01393	595	TIGR01393, lepA, GTP-binding protein LepA	0.003
COG0481	603	COG0481, LepA, Membrane GTPase LepA [Cell envelope	0.003
PRK12739	691	PRK12739, PRK12739, elongation factor G; Reviewed	0.003
cd03698	83	cd03698, eRF3_II_like, eRF3_II_like: domain simila	0.004

>gnl|CDD|206671 cd01884, EF_Tu, Elongation Factor Tu (EF-Tu) GTP-binding proteins

 Score =  228 bits (583), Expect = 1e-76
 Identities = 81/103 (78%), Positives = 89/103 (86%)

Query: 108 VLADKKLAKVKQYADIDNAPEEKARGITINVAHVEYATENRHYSHTDCPGHADYIKNMIT 167
           VLA K  AK K+Y +ID APEEKARGITIN AHVEY T NRHY+H DCPGHADYIKNMIT
Sbjct: 25  VLAKKGGAKAKKYDEIDKAPEEKARGITINTAHVEYETANRHYAHVDCPGHADYIKNMIT 84

Query: 168 GTSQMDGAILVVAATDGAMPQTREHLLLAKQIGVTNIVVFINK 210
           G +QMDGAILVV+ATDG MPQTREHLLLA+Q+GV  IVVF+NK
Sbjct: 85  GAAQMDGAILVVSATDGPMPQTREHLLLARQVGVPYIVVFLNK 127

EF-Tu subfamily. 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. Length = 195

>gnl|CDD|234596 PRK00049, PRK00049, elongation factor Tu; Reviewed

 Score =  221 bits (567), Expect = 2e-71
 Identities = 77/103 (74%), Positives = 86/103 (83%)

Query: 108 VLADKKLAKVKQYADIDNAPEEKARGITINVAHVEYATENRHYSHTDCPGHADYIKNMIT 167
           VLA K  A+ K Y  ID APEEKARGITIN AHVEY TE RHY+H DCPGHADY+KNMIT
Sbjct: 35  VLAKKGGAEAKAYDQIDKAPEEKARGITINTAHVEYETEKRHYAHVDCPGHADYVKNMIT 94

Query: 168 GTSQMDGAILVVAATDGAMPQTREHLLLAKQIGVTNIVVFINK 210
           G +QMDGAILVV+A DG MPQTREH+LLA+Q+GV  IVVF+NK
Sbjct: 95  GAAQMDGAILVVSAADGPMPQTREHILLARQVGVPYIVVFLNK 137

Length = 396

>gnl|CDD|183708 PRK12735, PRK12735, elongation factor Tu; Reviewed

 Score =  219 bits (560), Expect = 2e-70
 Identities = 76/103 (73%), Positives = 86/103 (83%)

Query: 108 VLADKKLAKVKQYADIDNAPEEKARGITINVAHVEYATENRHYSHTDCPGHADYIKNMIT 167
           VLA K   + K Y  IDNAPEEKARGITIN +HVEY T NRHY+H DCPGHADY+KNMIT
Sbjct: 35  VLAKKGGGEAKAYDQIDNAPEEKARGITINTSHVEYETANRHYAHVDCPGHADYVKNMIT 94

Query: 168 GTSQMDGAILVVAATDGAMPQTREHLLLAKQIGVTNIVVFINK 210
           G +QMDGAILVV+A DG MPQTREH+LLA+Q+GV  IVVF+NK
Sbjct: 95  GAAQMDGAILVVSAADGPMPQTREHILLARQVGVPYIVVFLNK 137

Length = 396

>gnl|CDD|237184 PRK12736, PRK12736, elongation factor Tu; Reviewed

 Score =  211 bits (540), Expect = 2e-67
 Identities = 76/103 (73%), Positives = 87/103 (84%)

Query: 108 VLADKKLAKVKQYADIDNAPEEKARGITINVAHVEYATENRHYSHTDCPGHADYIKNMIT 167
           VLA++ L + K Y  ID APEEK RGITIN AHVEY TE RHY+H DCPGHADY+KNMIT
Sbjct: 35  VLAERGLNQAKDYDSIDAAPEEKERGITINTAHVEYETEKRHYAHVDCPGHADYVKNMIT 94

Query: 168 GTSQMDGAILVVAATDGAMPQTREHLLLAKQIGVTNIVVFINK 210
           G +QMDGAILVVAATDG MPQTREH+LLA+Q+GV  +VVF+NK
Sbjct: 95  GAAQMDGAILVVAATDGPMPQTREHILLARQVGVPYLVVFLNK 137

Length = 394

>gnl|CDD|177010 CHL00071, tufA, elongation factor Tu

 Score =  212 bits (541), Expect = 2e-67
 Identities = 79/103 (76%), Positives = 90/103 (87%)

Query: 108 VLADKKLAKVKQYADIDNAPEEKARGITINVAHVEYATENRHYSHTDCPGHADYIKNMIT 167
            LA K  AK K+Y +ID+APEEKARGITIN AHVEY TENRHY+H DCPGHADY+KNMIT
Sbjct: 35  TLAAKGGAKAKKYDEIDSAPEEKARGITINTAHVEYETENRHYAHVDCPGHADYVKNMIT 94

Query: 168 GTSQMDGAILVVAATDGAMPQTREHLLLAKQIGVTNIVVFINK 210
           G +QMDGAILVV+A DG MPQT+EH+LLAKQ+GV NIVVF+NK
Sbjct: 95  GAAQMDGAILVVSAADGPMPQTKEHILLAKQVGVPNIVVFLNK 137

Length = 409

>gnl|CDD|223128 COG0050, TufB, GTPases - translation elongation factors [Translation, ribosomal structure and biogenesis]

 Score =  201 bits (514), Expect = 1e-63
 Identities = 80/103 (77%), Positives = 88/103 (85%)

Query: 108 VLADKKLAKVKQYADIDNAPEEKARGITINVAHVEYATENRHYSHTDCPGHADYIKNMIT 167
           VLA K  A+ K Y  IDNAPEEKARGITIN AHVEY T NRHY+H DCPGHADY+KNMIT
Sbjct: 35  VLAKKGGAEAKAYDQIDNAPEEKARGITINTAHVEYETANRHYAHVDCPGHADYVKNMIT 94

Query: 168 GTSQMDGAILVVAATDGAMPQTREHLLLAKQIGVTNIVVFINK 210
           G +QMDGAILVVAATDG MPQTREH+LLA+Q+GV  IVVF+NK
Sbjct: 95  GAAQMDGAILVVAATDGPMPQTREHILLARQVGVPYIVVFLNK 137

Length = 394

>gnl|CDD|129576 TIGR00485, EF-Tu, translation elongation factor TU

 Score =  191 bits (487), Expect = 1e-59
 Identities = 78/103 (75%), Positives = 88/103 (85%)

Query: 108 VLADKKLAKVKQYADIDNAPEEKARGITINVAHVEYATENRHYSHTDCPGHADYIKNMIT 167
           VLA +  A  + Y  IDNAPEEKARGITIN AHVEY TENRHY+H DCPGHADY+KNMIT
Sbjct: 35  VLAKEGGAAARAYDQIDNAPEEKARGITINTAHVEYETENRHYAHVDCPGHADYVKNMIT 94

Query: 168 GTSQMDGAILVVAATDGAMPQTREHLLLAKQIGVTNIVVFINK 210
           G +QMDGAILVV+ATDG MPQTREH+LLA+Q+GV  IVVF+NK
Sbjct: 95  GAAQMDGAILVVSATDGPMPQTREHILLARQVGVPYIVVFLNK 137

This model 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 [Protein synthesis, Translation factors]. Length = 394

>gnl|CDD|178673 PLN03127, PLN03127, Elongation factor Tu; Provisional

 Score =  186 bits (474), Expect = 3e-57
 Identities = 70/103 (67%), Positives = 85/103 (82%)

Query: 108 VLADKKLAKVKQYADIDNAPEEKARGITINVAHVEYATENRHYSHTDCPGHADYIKNMIT 167
           VLA++  AK   + +ID APEEKARGITI  AHVEY T  RHY+H DCPGHADY+KNMIT
Sbjct: 84  VLAEEGKAKAVAFDEIDKAPEEKARGITIATAHVEYETAKRHYAHVDCPGHADYVKNMIT 143

Query: 168 GTSQMDGAILVVAATDGAMPQTREHLLLAKQIGVTNIVVFINK 210
           G +QMDG ILVV+A DG MPQT+EH+LLA+Q+GV ++VVF+NK
Sbjct: 144 GAAQMDGGILVVSAPDGPMPQTKEHILLARQVGVPSLVVFLNK 186

Length = 447

>gnl|CDD|215653 pfam00009, GTP_EFTU, Elongation factor Tu GTP binding domain

 Score =  162 bits (412), Expect = 9e-51
 Identities = 54/103 (52%), Positives = 64/103 (62%), Gaps = 1/103 (0%)

Query: 108 VLADKKLAKVKQYADIDNAPEEKARGITINVAHVEYATENRHYSHTDCPGHADYIKNMIT 167
           V         K    +D   EE+ RGITI +A V + T+ R  +  D PGH D+ K MI 
Sbjct: 26  VTGAISKESAKGARVLDKLKEERERGITIKIAAVSFETKKRLINIIDTPGHVDFTKEMIR 85

Query: 168 GTSQMDGAILVVAATDGAMPQTREHLLLAKQIGVTNIVVFINK 210
           G SQ DGAILVV A +G MPQTREHLLLAK +GV  I+VFINK
Sbjct: 86  GASQADGAILVVDAVEGVMPQTREHLLLAKTLGV-PIIVFINK 127

This domain contains a P-loop motif, also found in several other families such as pfam00071, pfam00025 and pfam00063. Elongation factor Tu consists of three structural domains, this plus two C-terminal beta barrel domains. Length = 184

>gnl|CDD|234596 PRK00049, PRK00049, elongation factor Tu; Reviewed

 Score =  168 bits (427), Expect = 1e-50
 Identities = 63/107 (58%), Positives = 84/107 (78%)

Query: 1   MELLNQIDTYIPQPVRDLDKPFYLPVEHTYSIPGRGTVVTGRLERGIVKKGMECEFTGYG 60
           +EL++ +D+YIP P R +DKPF +P+E  +SI GRGTVVTGR+ERGI+K G E E  G  
Sbjct: 192 LELMDAVDSYIPTPERAIDKPFLMPIEDVFSISGRGTVVTGRVERGIIKVGEEVEIVGIR 251

Query: 61  RQFKTTVTGIEMFHKILDEAQAGDQLGALVKGMKRDEVNRGLIMAKP 107
              KTTVTG+EMF K+LDE QAGD +GAL++G+KR++V RG ++AKP
Sbjct: 252 DTQKTTVTGVEMFRKLLDEGQAGDNVGALLRGIKREDVERGQVLAKP 298

Length = 396

>gnl|CDD|215592 PLN03126, PLN03126, Elongation factor Tu; Provisional

 Score =  169 bits (428), Expect = 4e-50
 Identities = 72/103 (69%), Positives = 85/103 (82%)

Query: 108 VLADKKLAKVKQYADIDNAPEEKARGITINVAHVEYATENRHYSHTDCPGHADYIKNMIT 167
            LA    +  K+Y +ID APEE+ARGITIN A VEY TENRHY+H DCPGHADY+KNMIT
Sbjct: 104 ALASMGGSAPKKYDEIDAAPEERARGITINTATVEYETENRHYAHVDCPGHADYVKNMIT 163

Query: 168 GTSQMDGAILVVAATDGAMPQTREHLLLAKQIGVTNIVVFINK 210
           G +QMDGAILVV+  DG MPQT+EH+LLAKQ+GV N+VVF+NK
Sbjct: 164 GAAQMDGAILVVSGADGPMPQTKEHILLAKQVGVPNMVVFLNK 206

Length = 478

>gnl|CDD|183708 PRK12735, PRK12735, elongation factor Tu; Reviewed

 Score =  165 bits (421), Expect = 9e-50
 Identities = 63/107 (58%), Positives = 83/107 (77%)

Query: 1   MELLNQIDTYIPQPVRDLDKPFYLPVEHTYSIPGRGTVVTGRLERGIVKKGMECEFTGYG 60
           +EL++ +D+YIP+P R +DKPF +P+E  +SI GRGTVVTGR+ERGIVK G E E  G  
Sbjct: 192 LELMDAVDSYIPEPERAIDKPFLMPIEDVFSISGRGTVVTGRVERGIVKVGDEVEIVGIK 251

Query: 61  RQFKTTVTGIEMFHKILDEAQAGDQLGALVKGMKRDEVNRGLIMAKP 107
              KTTVTG+EMF K+LDE QAGD +G L++G KR++V RG ++AKP
Sbjct: 252 ETQKTTVTGVEMFRKLLDEGQAGDNVGVLLRGTKREDVERGQVLAKP 298

Length = 396

>gnl|CDD|237184 PRK12736, PRK12736, elongation factor Tu; Reviewed

 Score =  163 bits (414), Expect = 1e-48
 Identities = 64/107 (59%), Positives = 79/107 (73%)

Query: 1   MELLNQIDTYIPQPVRDLDKPFYLPVEHTYSIPGRGTVVTGRLERGIVKKGMECEFTGYG 60
           MEL++ +D YIP P RD DKPF +PVE  ++I GRGTVVTGR+ERG VK G E E  G  
Sbjct: 190 MELMDAVDEYIPTPERDTDKPFLMPVEDVFTITGRGTVVTGRVERGTVKVGDEVEIVGIK 249

Query: 61  RQFKTTVTGIEMFHKILDEAQAGDQLGALVKGMKRDEVNRGLIMAKP 107
              KT VTG+EMF K+LDE QAGD +G L++G+ RDEV RG ++AKP
Sbjct: 250 ETQKTVVTGVEMFRKLLDEGQAGDNVGVLLRGVDRDEVERGQVLAKP 296

Length = 394

>gnl|CDD|239668 cd03697, EFTU_II, EFTU_II: Elongation factor Tu domain II

 Score =  144 bits (365), Expect = 6e-45
 Identities = 53/86 (61%), Positives = 69/86 (80%)

Query: 22  FYLPVEHTYSIPGRGTVVTGRLERGIVKKGMECEFTGYGRQFKTTVTGIEMFHKILDEAQ 81
           F +P+E  +SIPGRGTVVTGR+ERG +K G E E  G+G   KTTVTGIEMF K LDEA+
Sbjct: 1   FLMPIEDVFSIPGRGTVVTGRIERGTIKVGDEVEIVGFGETLKTTVTGIEMFRKTLDEAE 60

Query: 82  AGDQLGALVKGMKRDEVNRGLIMAKP 107
           AGD +G L++G+KR++V RG+++AKP
Sbjct: 61  AGDNVGVLLRGVKREDVERGMVLAKP 86

Elongation factors Tu (EF-Tu) are three-domain GTPases with an essential function in the elongation phase of mRNA translation. The GTPase center of EF-Tu is in the N-terminal domain (domain I), also known as the catalytic or G-domain. The G-domain is composed of about 200 amino acid residues, arranged into a predominantly parallel six-stranded beta-sheet core surrounded by seven a-helices. Non-catalytic domains II and III are beta-barrels of seven and six, respectively, antiparallel beta-strands that share an extended interface. Either non-catalytic domain is composed of about 100 amino acid residues. EF-Tu proteins exist in two principal conformations: in a compact one, EF-Tu*GTP, with tight interfaces between all three domains and a high affinity for aminoacyl-tRNA, and in an open one, EF-Tu*GDP, with essentially no G-domain-domain II interactions and a low affinity for aminoacyl-tRNA. EF-Tu has approximately a 100-fold higher affinity for GDP than for GTP. Length = 87

>gnl|CDD|223128 COG0050, TufB, GTPases - translation elongation factors [Translation, ribosomal structure and biogenesis]

 Score =  152 bits (387), Expect = 1e-44
 Identities = 64/107 (59%), Positives = 83/107 (77%)

Query: 1   MELLNQIDTYIPQPVRDLDKPFYLPVEHTYSIPGRGTVVTGRLERGIVKKGMECEFTGYG 60
            EL++ +D+YIP P RD+DKPF +PVE  +SI GRGTVVTGR+ERGI+K G E E  G  
Sbjct: 190 EELMDAVDSYIPTPERDIDKPFLMPVEDVFSISGRGTVVTGRVERGILKVGEEVEIVGIK 249

Query: 61  RQFKTTVTGIEMFHKILDEAQAGDQLGALVKGMKRDEVNRGLIMAKP 107
              KTTVTG+EMF K+LDE QAGD +G L++G+KR++V RG ++AKP
Sbjct: 250 ETQKTTVTGVEMFRKLLDEGQAGDNVGVLLRGVKREDVERGQVLAKP 296

Length = 394

>gnl|CDD|129576 TIGR00485, EF-Tu, translation elongation factor TU

 Score =  147 bits (372), Expect = 2e-42
 Identities = 62/107 (57%), Positives = 82/107 (76%)

Query: 1   MELLNQIDTYIPQPVRDLDKPFYLPVEHTYSIPGRGTVVTGRLERGIVKKGMECEFTGYG 60
           +EL++ +D YIP P R+ DKPF +P+E  +SI GRGTVVTGR+ERGIVK G E E  G  
Sbjct: 190 LELMDAVDEYIPTPERETDKPFLMPIEDVFSITGRGTVVTGRVERGIVKVGEEVEIVGLK 249

Query: 61  RQFKTTVTGIEMFHKILDEAQAGDQLGALVKGMKRDEVNRGLIMAKP 107
              KTTVTG+EMF K LDE +AGD +G L++G+KR+E+ RG+++AKP
Sbjct: 250 DTRKTTVTGVEMFRKELDEGRAGDNVGLLLRGIKREEIERGMVLAKP 296

This model 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 [Protein synthesis, Translation factors]. Length = 394

>gnl|CDD|178673 PLN03127, PLN03127, Elongation factor Tu; Provisional

 Score =  147 bits (373), Expect = 3e-42
 Identities = 60/109 (55%), Positives = 82/109 (75%), Gaps = 2/109 (1%)

Query: 1   MELLNQIDTYIPQPVRDLDKPFYLPVEHTYSIPGRGTVVTGRLERGIVKKGMECEFTGY- 59
           ++L++ +D YIP+PVR LDKPF +P+E  +SI GRGTV TGR+E+G +K G E E  G  
Sbjct: 241 LKLMDAVDEYIPEPVRVLDKPFLMPIEDVFSIQGRGTVATGRVEQGTIKVGEEVEIVGLR 300

Query: 60  -GRQFKTTVTGIEMFHKILDEAQAGDQLGALVKGMKRDEVNRGLIMAKP 107
            G   KTTVTG+EMF KILD+ QAGD +G L++G+KR++V RG ++ KP
Sbjct: 301 PGGPLKTTVTGVEMFKKILDQGQAGDNVGLLLRGLKREDVQRGQVICKP 349

Length = 447

>gnl|CDD|177010 CHL00071, tufA, elongation factor Tu

 Score =  142 bits (359), Expect = 2e-40
 Identities = 54/106 (50%), Positives = 75/106 (70%)

Query: 2   ELLNQIDTYIPQPVRDLDKPFYLPVEHTYSIPGRGTVVTGRLERGIVKKGMECEFTGYGR 61
            L++ +D+YIP P RD DKPF + +E  +SI GRGTV TGR+ERG VK G   E  G   
Sbjct: 201 NLMDAVDSYIPTPERDTDKPFLMAIEDVFSITGRGTVATGRIERGTVKVGDTVEIVGLRE 260

Query: 62  QFKTTVTGIEMFHKILDEAQAGDQLGALVKGMKRDEVNRGLIMAKP 107
              TTVTG+EMF K LDE  AGD +G L++G++++++ RG+++AKP
Sbjct: 261 TKTTTVTGLEMFQKTLDEGLAGDNVGILLRGIQKEDIERGMVLAKP 306

Length = 409

>gnl|CDD|206670 cd01883, EF1_alpha, Elongation Factor 1-alpha (EF1-alpha) protein family

 Score =  129 bits (326), Expect = 2e-37
 Identities = 43/94 (45%), Positives = 59/94 (62%), Gaps = 7/94 (7%)

Query: 124 DNAPEEKARGITINVAHVEYATENRHYSHTDCPGHADYIKNMITGTSQMDGAILVVAATD 183
           D   EE+ RG+TI+V   ++ TE   ++  D PGH D++KNMITG SQ D A+LVV+A  
Sbjct: 53  DKLKEERERGVTIDVGLAKFETEKYRFTIIDAPGHRDFVKNMITGASQADVAVLVVSARK 112

Query: 184 GA-------MPQTREHLLLAKQIGVTNIVVFINK 210
           G          QTREH LLA+ +GV  ++V +NK
Sbjct: 113 GEFEAGFEKGGQTREHALLARTLGVKQLIVAVNK 146

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 yeast, and to associate with Dom34. It has been speculated that yeast Hbs1 and Dom34 proteins may function as part of a complex with a role in gene expression. Length = 219

>gnl|CDD|237055 PRK12317, PRK12317, elongation factor 1-alpha; Reviewed

 Score =  126 bits (320), Expect = 1e-34
 Identities = 47/89 (52%), Positives = 66/89 (74%), Gaps = 2/89 (2%)

Query: 124 DNAPEEKARGITINVAHVEYATENRHYSHTDCPGHADYIKNMITGTSQMDGAILVVAATD 183
           D   EE+ RG+TI++AH ++ T+  +++  DCPGH D++KNMITG SQ D A+LVVAA D
Sbjct: 60  DRLKEERERGVTIDLAHKKFETDKYYFTIVDCPGHRDFVKNMITGASQADAAVLVVAADD 119

Query: 184 --GAMPQTREHLLLAKQIGVTNIVVFINK 210
             G MPQTREH+ LA+ +G+  ++V INK
Sbjct: 120 AGGVMPQTREHVFLARTLGINQLIVAINK 148

Length = 425

>gnl|CDD|215592 PLN03126, PLN03126, Elongation factor Tu; Provisional

 Score =  125 bits (314), Expect = 1e-33
 Identities = 56/106 (52%), Positives = 75/106 (70%)

Query: 2   ELLNQIDTYIPQPVRDLDKPFYLPVEHTYSIPGRGTVVTGRLERGIVKKGMECEFTGYGR 61
           EL++ +D+YIP P R  D PF L VE  +SI GRGTV TGR+ERG VK G   +  G   
Sbjct: 270 ELMDAVDSYIPIPQRQTDLPFLLAVEDVFSITGRGTVATGRVERGTVKVGETVDIVGLRE 329

Query: 62  QFKTTVTGIEMFHKILDEAQAGDQLGALVKGMKRDEVNRGLIMAKP 107
              TTVTG+EMF KILDEA AGD +G L++G+++ ++ RG+++AKP
Sbjct: 330 TRSTTVTGVEMFQKILDEALAGDNVGLLLRGIQKADIQRGMVLAKP 375

Length = 478

>gnl|CDD|206647 cd00881, GTP_translation_factor, GTP translation factor family primarily contains translation initiation, elongation and release factors

 Score =  117 bits (296), Expect = 2e-33
 Identities = 40/103 (38%), Positives = 54/103 (52%), Gaps = 1/103 (0%)

Query: 108 VLADKKLAKVKQYADIDNAPEEKARGITINVAHVEYATENRHYSHTDCPGHADYIKNMIT 167
                     ++   +D   EE+ RGITI    VE+    R  +  D PGH D+ K  + 
Sbjct: 22  QTGAIDRRGTRKETFLDTLKEERERGITIKTGVVEFEWPKRRINFIDTPGHEDFSKETVR 81

Query: 168 GTSQMDGAILVVAATDGAMPQTREHLLLAKQIGVTNIVVFINK 210
           G +Q DGA+LVV A +G  PQTREHL +A   G   I+V +NK
Sbjct: 82  GLAQADGALLVVDANEGVEPQTREHLNIALA-GGLPIIVAVNK 123

The GTP translation factor 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. Length = 183

>gnl|CDD|227581 COG5256, TEF1, Translation elongation factor EF-1alpha (GTPase) [Translation, ribosomal structure and biogenesis]

 Score =  114 bits (288), Expect = 4e-30
 Identities = 43/94 (45%), Positives = 61/94 (64%), Gaps = 7/94 (7%)

Query: 124 DNAPEEKARGITINVAHVEYATENRHYSHTDCPGHADYIKNMITGTSQMDGAILVVAATD 183
           D   EE+ RG+TI+VAH ++ T+  +++  D PGH D++KNMITG SQ D A+LVV A D
Sbjct: 61  DKTKEERERGVTIDVAHSKFETDKYNFTIIDAPGHRDFVKNMITGASQADVAVLVVDARD 120

Query: 184 GA-------MPQTREHLLLAKQIGVTNIVVFINK 210
           G          QTREH  LA+ +G+  ++V +NK
Sbjct: 121 GEFEAGFGVGGQTREHAFLARTLGIKQLIVAVNK 154

Length = 428

>gnl|CDD|129574 TIGR00483, EF-1_alpha, translation elongation factor EF-1 alpha

 Score =  108 bits (272), Expect = 6e-28
 Identities = 47/91 (51%), Positives = 62/91 (68%), Gaps = 3/91 (3%)

Query: 123 IDNAPEEKARGITINVAHVEYATENRHYSHTDCPGHADYIKNMITGTSQMDGAILVVAAT 182
           +D   EE+ RG+TI+VAH ++ T+    +  DCPGH D+IKNMITG SQ D A+LVVA  
Sbjct: 60  MDRLKEERERGVTIDVAHWKFETDKYEVTIVDCPGHRDFIKNMITGASQADAAVLVVAVG 119

Query: 183 DGA---MPQTREHLLLAKQIGVTNIVVFINK 210
           DG     PQTREH  LA+ +G+  ++V INK
Sbjct: 120 DGEFEVQPQTREHAFLARTLGINQLIVAINK 150

This model represents the counterpart of bacterial EF-Tu for the Archaea (aEF-1 alpha) and Eukaryotes (eEF-1 alpha). The trusted cutoff is set fairly high so that incomplete sequences will score between suggested and trusted cutoff levels [Protein synthesis, Translation factors]. Length = 426

>gnl|CDD|206734 cd04171, SelB, SelB, the dedicated elongation factor for delivery of selenocysteinyl-tRNA to the ribosome

 Score = 96.5 bits (241), Expect = 3e-25
 Identities = 37/91 (40%), Positives = 57/91 (62%), Gaps = 3/91 (3%)

Query: 122 DIDNAPEEKARGITINV--AHVEYATENRHYSHTDCPGHADYIKNMITGTSQMDGAILVV 179
           + D  PEEK RGITI++  A+++   + +     D PGH  ++KNM+ G   +D  +LVV
Sbjct: 23  ETDRLPEEKKRGITIDLGFAYLDLP-DGKRLGFIDVPGHEKFVKNMLAGAGGIDAVLLVV 81

Query: 180 AATDGAMPQTREHLLLAKQIGVTNIVVFINK 210
           AA +G MPQTREHL + + +G+   +V + K
Sbjct: 82  AADEGIMPQTREHLEILELLGIKKGLVVLTK 112

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 eukaryotes, they do share a common feature. Unlike in E. coli, these SECIS elements are located in the 3' UTRs. This group contains bacterial SelBs, as well as, one from archaea. Length = 170

>gnl|CDD|185474 PTZ00141, PTZ00141, elongation factor 1- alpha; Provisional

 Score =  100 bits (252), Expect = 5e-25
 Identities = 47/96 (48%), Positives = 61/96 (63%), Gaps = 7/96 (7%)

Query: 123 IDNAPEEKARGITINVAHVEYATENRHYSHTDCPGHADYIKNMITGTSQMDGAILVVAAT 182
           +D    E+ RGITI++A  ++ T   +++  D PGH D+IKNMITGTSQ D AILVVA+T
Sbjct: 60  LDKLKAERERGITIDIALWKFETPKYYFTIIDAPGHRDFIKNMITGTSQADVAILVVAST 119

Query: 183 DGAMP-------QTREHLLLAKQIGVTNIVVFINKF 211
            G          QTREH LLA  +GV  ++V INK 
Sbjct: 120 AGEFEAGISKDGQTREHALLAFTLGVKQMIVCINKM 155

Length = 446

>gnl|CDD|206729 cd04166, CysN_ATPS, CysN, together with protein CysD, forms the ATP sulfurylase (ATPS) complex

 Score = 89.2 bits (222), Expect = 4e-22
 Identities = 36/83 (43%), Positives = 53/83 (63%)

Query: 128 EEKARGITINVAHVEYATENRHYSHTDCPGHADYIKNMITGTSQMDGAILVVAATDGAMP 187
            E+ +GITI+VA+  ++T  R +   D PGH  Y +NM+TG S  D AIL+V A  G + 
Sbjct: 58  AEREQGITIDVAYRYFSTPKRKFIIADTPGHEQYTRNMVTGASTADLAILLVDARKGVLE 117

Query: 188 QTREHLLLAKQIGVTNIVVFINK 210
           QTR H  +A  +G+ ++VV +NK
Sbjct: 118 QTRRHSYIASLLGIRHVVVAVNK 140

CysN_ATPS subfamily. 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. Length = 209

>gnl|CDD|129567 TIGR00475, selB, selenocysteine-specific elongation factor SelB

 Score = 91.5 bits (227), Expect = 2e-21
 Identities = 36/97 (37%), Positives = 50/97 (51%)

Query: 114 LAKVKQYADIDNAPEEKARGITINVAHVEYATENRHYSHTDCPGHADYIKNMITGTSQMD 173
           L K       D  PEEK RG+TI++    +   +      D PGH  +I N I G   +D
Sbjct: 16  LLKALTGIAADRLPEEKKRGMTIDLGFAYFPLPDYRLGFIDVPGHEKFISNAIAGGGGID 75

Query: 174 GAILVVAATDGAMPQTREHLLLAKQIGVTNIVVFINK 210
            A+LVV A +G M QT EHL +   +G+ + +V I K
Sbjct: 76  AALLVVDADEGVMTQTGEHLAVLDLLGIPHTIVVITK 112

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 [Protein synthesis, Translation factors]. Length = 581

>gnl|CDD|225815 COG3276, SelB, Selenocysteine-specific translation elongation factor [Translation, ribosomal structure and biogenesis]

 Score = 88.6 bits (220), Expect = 1e-20
 Identities = 39/97 (40%), Positives = 54/97 (55%)

Query: 114 LAKVKQYADIDNAPEEKARGITINVAHVEYATENRHYSHTDCPGHADYIKNMITGTSQMD 173
           L K       D  PEEK RGITI++       E+      D PGH D+I N++ G   +D
Sbjct: 16  LLKALTGGVTDRLPEEKKRGITIDLGFYYRKLEDGVMGFIDVPGHPDFISNLLAGLGGID 75

Query: 174 GAILVVAATDGAMPQTREHLLLAKQIGVTNIVVFINK 210
            A+LVVAA +G M QT EHLL+   +G+ N ++ + K
Sbjct: 76  YALLVVAADEGLMAQTGEHLLILDLLGIKNGIIVLTK 112

Length = 447

>gnl|CDD|225448 COG2895, CysN, GTPases - Sulfate adenylate transferase subunit 1 [Inorganic ion transport and metabolism]

 Score = 87.7 bits (218), Expect = 2e-20
 Identities = 37/83 (44%), Positives = 53/83 (63%)

Query: 128 EEKARGITINVAHVEYATENRHYSHTDCPGHADYIKNMITGTSQMDGAILVVAATDGAMP 187
            E+ +GITI+VA+  ++TE R +   D PGH  Y +NM TG S  D AIL+V A  G + 
Sbjct: 66  AEREQGITIDVAYRYFSTEKRKFIIADTPGHEQYTRNMATGASTADLAILLVDARKGVLE 125

Query: 188 QTREHLLLAKQIGVTNIVVFINK 210
           QTR H  +A  +G+ ++VV +NK
Sbjct: 126 QTRRHSFIASLLGIRHVVVAVNK 148

Length = 431

>gnl|CDD|227581 COG5256, TEF1, Translation elongation factor EF-1alpha (GTPase) [Translation, ribosomal structure and biogenesis]

 Score = 85.4 bits (212), Expect = 1e-19
 Identities = 38/105 (36%), Positives = 60/105 (57%), Gaps = 3/105 (2%)

Query: 3   LLNQIDTYIPQPVRDLDKPFYLPVEHTYSIPGRGTVVTGRLERGIVKKGMECEFTGYGRQ 62
           LL  +D  +  P R LDKP  LP++  YSI G GTV  GR+E G++K G +  F      
Sbjct: 214 LLEALD-QLEPPERPLDKPLRLPIQDVYSISGIGTVPVGRVESGVIKPGQKVTF--MPAG 270

Query: 63  FKTTVTGIEMFHKILDEAQAGDQLGALVKGMKRDEVNRGLIMAKP 107
               V  IEM H+ + +A+ GD +G  V+G++++++ RG ++   
Sbjct: 271 VVGEVKSIEMHHEEISQAEPGDNVGFNVRGVEKNDIRRGDVIGHS 315

Length = 428

>gnl|CDD|180120 PRK05506, PRK05506, bifunctional sulfate adenylyltransferase subunit 1/adenylylsulfate kinase protein; Provisional

 Score = 84.6 bits (210), Expect = 3e-19
 Identities = 47/133 (35%), Positives = 67/133 (50%), Gaps = 26/133 (19%)

Query: 84  DQLGALVKGMKRDEVNRGLIMAKPVLADKKLAKVKQYADIDNA------PEEKARGITIN 137
           DQL AL    +RD    G                 Q  +ID A        E+ +GITI+
Sbjct: 54  DQLAAL----ERDSKKVG----------------TQGDEIDLALLVDGLAAEREQGITID 93

Query: 138 VAHVEYATENRHYSHTDCPGHADYIKNMITGTSQMDGAILVVAATDGAMPQTREHLLLAK 197
           VA+  +AT  R +   D PGH  Y +NM+TG S  D AI++V A  G + QTR H  +A 
Sbjct: 94  VAYRYFATPKRKFIVADTPGHEQYTRNMVTGASTADLAIILVDARKGVLTQTRRHSFIAS 153

Query: 198 QIGVTNIVVFINK 210
            +G+ ++V+ +NK
Sbjct: 154 LLGIRHVVLAVNK 166

Length = 632

>gnl|CDD|213679 TIGR02034, CysN, sulfate adenylyltransferase, large subunit

 Score = 81.6 bits (202), Expect = 2e-18
 Identities = 35/88 (39%), Positives = 55/88 (62%)

Query: 123 IDNAPEEKARGITINVAHVEYATENRHYSHTDCPGHADYIKNMITGTSQMDGAILVVAAT 182
           +D    E+ +GITI+VA+  ++T+ R +   D PGH  Y +NM TG S  D A+L+V A 
Sbjct: 55  VDGLQAEREQGITIDVAYRYFSTDKRKFIVADTPGHEQYTRNMATGASTADLAVLLVDAR 114

Query: 183 DGAMPQTREHLLLAKQIGVTNIVVFINK 210
            G + QTR H  +A  +G+ ++V+ +NK
Sbjct: 115 KGVLEQTRRHSYIASLLGIRHVVLAVNK 142

Metabolic assimilation of sulfur from inorganic sulfate, requires sulfate activation by coupling to a nucleoside, for the production of high-energy nucleoside phosphosulfates. This pathway appears to be similar in all prokaryotic organisms. Activation is first achieved through sulfation of sulfate with ATP by sulfate adenylyltransferase (ATP sulfurylase) to produce 5'-phosphosulfate (APS), coupled by GTP hydrolysis. Subsequently, APS is phosphorylated by an APS kinase to produce 3'-phosphoadenosine-5'-phosphosulfate (PAPS). In Escherichia coli, ATP sulfurylase is a heterodimer composed of two subunits encoded by cysD and cysN, with APS kinase encoded by cysC. These genes are located in a unidirectionally transcribed gene cluster, and have been shown to be required for the synthesis of sulfur-containing amino acids. Homologous to this E.coli activation pathway are nodPQH gene products found among members of the Rhizobiaceae family. These gene products have been shown to exhibit ATP sulfurase and APS kinase activity, yet are involved in Nod factor sulfation, and sulfation of other macromolecules. With members of the Rhizobiaceae family, nodQ often appears as a fusion of cysN (large subunit of ATP sulfurase) and cysC (APS kinase) [Central intermediary metabolism, Sulfur metabolism]. Length = 406

>gnl|CDD|239667 cd03696, selB_II, selB_II: this subfamily represents the domain of elongation factor SelB, homologous to domain II of EF-Tu

 Score = 74.1 bits (183), Expect = 9e-18
 Identities = 27/85 (31%), Positives = 51/85 (60%), Gaps = 2/85 (2%)

Query: 22  FYLPVEHTYSIPGRGTVVTGRLERGIVKKGMECEFTGYGRQFKTTVTGIEMFHKILDEAQ 81
           F LP++  +++ G+GTVVTG +  G VK G + E    G + +  V  I++  K ++EA+
Sbjct: 1   FRLPIDRVFTVKGQGTVVTGTVLSGSVKVGDKVEILPLGEETR--VRSIQVHGKDVEEAK 58

Query: 82  AGDQLGALVKGMKRDEVNRGLIMAK 106
           AGD++   + G+   ++ RG +++ 
Sbjct: 59  AGDRVALNLTGVDAKDLERGDVLSS 83

SelB may function by replacing EF-Tu. 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' or 5' non-coding elements of mRNA have been found as probable structures for directing selenocysteine incorporation. Length = 83

>gnl|CDD|182508 PRK10512, PRK10512, selenocysteinyl-tRNA-specific translation factor; Provisional

 Score = 79.7 bits (197), Expect = 2e-17
 Identities = 37/93 (39%), Positives = 51/93 (54%), Gaps = 7/93 (7%)

Query: 122 DIDNAPEEKARGITINVAHVEYA----TENRHYSHTDCPGHADYIKNMITGTSQMDGAIL 177
           + D  PEEK RG+TI++    YA     + R     D PGH  ++ NM+ G   +D A+L
Sbjct: 24  NADRLPEEKKRGMTIDLG---YAYWPQPDGRVLGFIDVPGHEKFLSNMLAGVGGIDHALL 80

Query: 178 VVAATDGAMPQTREHLLLAKQIGVTNIVVFINK 210
           VVA  DG M QTREHL + +  G   + V + K
Sbjct: 81  VVACDDGVMAQTREHLAILQLTGNPMLTVALTK 113

Length = 614

>gnl|CDD|235349 PRK05124, cysN, sulfate adenylyltransferase subunit 1; Provisional

 Score = 79.6 bits (197), Expect = 2e-17
 Identities = 36/82 (43%), Positives = 53/82 (64%)

Query: 129 EKARGITINVAHVEYATENRHYSHTDCPGHADYIKNMITGTSQMDGAILVVAATDGAMPQ 188
           E+ +GITI+VA+  ++TE R +   D PGH  Y +NM TG S  D AIL++ A  G + Q
Sbjct: 88  EREQGITIDVAYRYFSTEKRKFIIADTPGHEQYTRNMATGASTCDLAILLIDARKGVLDQ 147

Query: 189 TREHLLLAKQIGVTNIVVFINK 210
           TR H  +A  +G+ ++VV +NK
Sbjct: 148 TRRHSFIATLLGIKHLVVAVNK 169

Length = 474

>gnl|CDD|217388 pfam03144, GTP_EFTU_D2, Elongation factor Tu domain 2

 Score = 71.9 bits (177), Expect = 5e-17
 Identities = 28/66 (42%), Positives = 37/66 (56%)

Query: 36  GTVVTGRLERGIVKKGMECEFTGYGRQFKTTVTGIEMFHKILDEAQAGDQLGALVKGMKR 95
           GTV TGR+E G +KKG +      G   K  VT +EMFH  L EA AG   G ++ G+  
Sbjct: 1   GTVATGRVESGTLKKGDKVVIGPNGTGKKGRVTSLEMFHGDLREAVAGANAGIILAGIGL 60

Query: 96  DEVNRG 101
            ++ RG
Sbjct: 61  KDIKRG 66

Elongation factor Tu consists of three structural domains, this is the second domain. This domain adopts a beta barrel structure. This the second domain is involved in binding to charged tRNA. This domain is also found in other proteins such as elongation factor G and translation initiation factor IF-2. This domain is structurally related to pfam03143, and in fact has weak sequence matches to this domain. Length = 70

>gnl|CDD|165621 PLN00043, PLN00043, elongation factor 1-alpha; Provisional

 Score = 77.1 bits (189), Expect = 1e-16
 Identities = 41/95 (43%), Positives = 57/95 (60%), Gaps = 7/95 (7%)

Query: 123 IDNAPEEKARGITINVAHVEYATENRHYSHTDCPGHADYIKNMITGTSQMDGAILVVAAT 182
           +D    E+ RGITI++A  ++ T   + +  D PGH D+IKNMITGTSQ D A+L++ +T
Sbjct: 60  LDKLKAERERGITIDIALWKFETTKYYCTVIDAPGHRDFIKNMITGTSQADCAVLIIDST 119

Query: 183 DGAMP-------QTREHLLLAKQIGVTNIVVFINK 210
            G          QTREH LLA  +GV  ++   NK
Sbjct: 120 TGGFEAGISKDGQTREHALLAFTLGVKQMICCCNK 154

Length = 447

>gnl|CDD|237055 PRK12317, PRK12317, elongation factor 1-alpha; Reviewed

 Score = 75.7 bits (187), Expect = 3e-16
 Identities = 36/103 (34%), Positives = 58/103 (56%), Gaps = 10/103 (9%)

Query: 1   MELLNQIDTYIPQPVRDLDKPFYLPVEHTYSIPGRGTVVTGRLERGIVKKGMECEF--TG 58
           +E L+ +      P +  DKP  +P++  YSI G GTV  GR+E G++K G +  F   G
Sbjct: 209 LEALDNL----KPPEKPTDKPLRIPIQDVYSISGVGTVPVGRVETGVLKVGDKVVFMPAG 264

Query: 59  YGRQFKTTVTGIEMFHKILDEAQAGDQLGALVKGMKRDEVNRG 101
              + K+    IEM H+ L +A+ GD +G  V+G+ + ++ RG
Sbjct: 265 VVGEVKS----IEMHHEELPQAEPGDNIGFNVRGVGKKDIKRG 303

Length = 425

>gnl|CDD|239664 cd03693, EF1_alpha_II, EF1_alpha_II: this family represents the domain II of elongation factor 1-alpha (EF-1a) that is found in archaea and all eukaryotic lineages

 Score = 70.7 bits (174), Expect = 3e-16
 Identities = 34/86 (39%), Positives = 49/86 (56%), Gaps = 2/86 (2%)

Query: 19  DKPFYLPVEHTYSIPGRGTVVTGRLERGIVKKGMECEFTGYGRQFKTTVTGIEMFHKILD 78
           DKP  LP++  Y I G GTV  GR+E G++K GM   F   G   +  V  +EM H+ L+
Sbjct: 2   DKPLRLPIQDVYKIGGIGTVPVGRVETGVLKPGMVVTFAPAGVTGE--VKSVEMHHEPLE 59

Query: 79  EAQAGDQLGALVKGMKRDEVNRGLIM 104
           EA  GD +G  VK + + ++ RG + 
Sbjct: 60  EALPGDNVGFNVKNVSKKDIKRGDVA 85

EF-1A is very abundant in the cytosol, where it is involved in the GTP-dependent binding of aminoacyl-tRNAs to the A site of the ribosomes in the second step of translation from mRNAs to proteins. Both domain II of EF1A and domain IV of IF2/eIF5B have been implicated in recognition of the 3'-ends of tRNA. More than 61% of eukaryotic elongation factor 1A (eEF-1A) in cells is estimated to be associated with actin cytoskeleton. The binding of eEF1A to actin is a noncanonical function that may link two distinct cellular processes, cytoskeleton organization and gene expression. Length = 91

>gnl|CDD|185474 PTZ00141, PTZ00141, elongation factor 1- alpha; Provisional

 Score = 75.2 bits (185), Expect = 5e-16
 Identities = 43/99 (43%), Positives = 55/99 (55%), Gaps = 3/99 (3%)

Query: 3   LLNQIDTYIPQPVRDLDKPFYLPVEHTYSIPGRGTVVTGRLERGIVKKGMECEFTGYGRQ 62
           LL  +DT  P P R +DKP  LP++  Y I G GTV  GR+E GI+K GM   F   G  
Sbjct: 216 LLEALDTLEP-PKRPVDKPLRLPLQDVYKIGGIGTVPVGRVETGILKPGMVVTFAPSG-- 272

Query: 63  FKTTVTGIEMFHKILDEAQAGDQLGALVKGMKRDEVNRG 101
             T V  +EM H+ L EA  GD +G  VK +   ++ RG
Sbjct: 273 VTTEVKSVEMHHEQLAEAVPGDNVGFNVKNVSVKDIKRG 311

Length = 446

>gnl|CDD|238652 cd01342, Translation_Factor_II_like, Translation_Factor_II_like: Elongation factor Tu (EF-Tu) domain II-like proteins

 Score = 69.3 bits (170), Expect = 7e-16
 Identities = 28/85 (32%), Positives = 42/85 (49%), Gaps = 2/85 (2%)

Query: 22  FYLPVEHTYSIPGRGTVVTGRLERGIVKKGMECEFTGYGRQFKTTVTGIEMFHKILDEAQ 81
               V   +   GRGTV TGR+E G +KKG +      G   K  V  ++ F   +DEA 
Sbjct: 1   LRALVFKVFKDKGRGTVATGRVESGTLKKGDKVRVGPGGGGVKGKVKSLKRFKGEVDEAV 60

Query: 82  AGDQLGALVKGMKRDEVNRGLIMAK 106
           AGD +G ++K   +D++  G  +  
Sbjct: 61  AGDIVGIVLKD--KDDIKIGDTLTD 83

Elongation factor Tu consists of three structural domains, this family represents the second domain. Domain II adopts a beta barrel structure and is involved in binding to charged tRNA. Domain II is found in other proteins such as elongation factor G and translation initiation factor IF-2. This group also includes the C2 subdomain of domain IV of IF-2 that has the same fold as domain II of (EF-Tu). Like IF-2 from certain prokaryotes such as Thermus thermophilus, mitochondrial IF-2 lacks domain II, which is thought to be involved in binding of E.coli IF-2 to 30S subunits. Length = 83

>gnl|CDD|129574 TIGR00483, EF-1_alpha, translation elongation factor EF-1 alpha

 Score = 74.5 bits (183), Expect = 9e-16
 Identities = 37/105 (35%), Positives = 59/105 (56%), Gaps = 3/105 (2%)

Query: 3   LLNQIDTYIPQPVRDLDKPFYLPVEHTYSIPGRGTVVTGRLERGIVKKGMECEFTGYGRQ 62
           LL  +D  +  P +  DKP  +P++  YSI G GTV  GR+E G++K G +  F   G  
Sbjct: 210 LLEALDA-LEPPEKPTDKPLRIPIQDVYSITGVGTVPVGRVETGVLKPGDKVVFEPAG-- 266

Query: 63  FKTTVTGIEMFHKILDEAQAGDQLGALVKGMKRDEVNRGLIMAKP 107
               V  IEM H+ +++A+ GD +G  V+G+ + ++ RG +   P
Sbjct: 267 VSGEVKSIEMHHEQIEQAEPGDNIGFNVRGVSKKDIRRGDVCGHP 311

This model represents the counterpart of bacterial EF-Tu for the Archaea (aEF-1 alpha) and Eukaryotes (eEF-1 alpha). The trusted cutoff is set fairly high so that incomplete sequences will score between suggested and trusted cutoff levels [Protein synthesis, Translation factors]. Length = 426

>gnl|CDD|235194 PRK04000, PRK04000, translation initiation factor IF-2 subunit gamma; Validated

 Score = 73.0 bits (180), Expect = 3e-15
 Identities = 40/110 (36%), Positives = 53/110 (48%), Gaps = 27/110 (24%)

Query: 128 EEKARGITINVAHVE--------------YATEN------------RHYSHTDCPGHADY 161
           EE  RGITI + + +              Y TE             R  S  D PGH   
Sbjct: 39  EELKRGITIRLGYADATIRKCPDCEEPEAYTTEPKCPNCGSETELLRRVSFVDAPGHETL 98

Query: 162 IKNMITGTSQMDGAILVVAATDGA-MPQTREHLLLAKQIGVTNIVVFINK 210
           +  M++G + MDGAILV+AA +    PQT+EHL+    IG+ NIV+  NK
Sbjct: 99  MATMLSGAALMDGAILVIAANEPCPQPQTKEHLMALDIIGIKNIVIVQNK 148

Length = 411

>gnl|CDD|225815 COG3276, SelB, Selenocysteine-specific translation elongation factor [Translation, ribosomal structure and biogenesis]

 Score = 70.5 bits (173), Expect = 2e-14
 Identities = 33/108 (30%), Positives = 62/108 (57%), Gaps = 2/108 (1%)

Query: 2   ELLNQIDTYIPQPVRDLDKPFYLPVEHTYSIPGRGTVVTGRLERGIVKKGMECEFTGYGR 61
           EL N++   + +  RD  KPF + ++  +++ G GTVVTG +  G VK G +   +   +
Sbjct: 152 ELKNELIDLLEEIERDEQKPFRIAIDRAFTVKGVGTVVTGTVLSGEVKVGDKLYLSPINK 211

Query: 62  QFKTTVTGIEMFHKILDEAQAGDQLGALVKGMKRDEVNRGLIMAKPVL 109
           + +  V  I+     ++EA+AG ++G  +KG++++E+ RG  + KP  
Sbjct: 212 EVR--VRSIQAHDVDVEEAKAGQRVGLALKGVEKEEIERGDWLLKPEP 257

Length = 447

>gnl|CDD|206675 cd01888, eIF2_gamma, Gamma subunit of initiation factor 2 (eIF2 gamma)

 Score = 68.8 bits (169), Expect = 2e-14
 Identities = 27/64 (42%), Positives = 41/64 (64%), Gaps = 1/64 (1%)

Query: 148 RHYSHTDCPGHADYIKNMITGTSQMDGAILVVAATDGA-MPQTREHLLLAKQIGVTNIVV 206
           RH S  DCPGH   +  M++G + MDGA+L++AA +    PQT EHL   + +G+ +I++
Sbjct: 77  RHVSFVDCPGHEILMATMLSGAAVMDGALLLIAANEPCPQPQTSEHLAALEIMGLKHIII 136

Query: 207 FINK 210
             NK
Sbjct: 137 LQNK 140

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 selenocysteine-specific elongation factor from eubacteria. The translational factor components of the ternary complex, IF2 in eubacteria and eIF2 in eukaryotes are not the same protein (despite their unfortunately similar names). Both factors are GTPases; however, eubacterial IF-2 is a single polypeptide, while eIF2 is heterotrimeric. eIF2-gamma is a member of the same family as eubacterial IF2, but the two proteins are only distantly related. This family includes translation initiation, elongation, and release factors. Length = 197

>gnl|CDD|211860 TIGR03680, eif2g_arch, translation initiation factor 2 subunit gamma

 Score = 70.9 bits (174), Expect = 2e-14
 Identities = 40/114 (35%), Positives = 55/114 (48%), Gaps = 27/114 (23%)

Query: 124 DNAPEEKARGITINVAHVE--------------YATEN------------RHYSHTDCPG 157
           D   EE  RGI+I + + +              Y TE             R  S  D PG
Sbjct: 30  DTHSEELKRGISIRLGYADAEIYKCPECDGPECYTTEPVCPNCGSETELLRRVSFVDAPG 89

Query: 158 HADYIKNMITGTSQMDGAILVVAATDGA-MPQTREHLLLAKQIGVTNIVVFINK 210
           H   +  M++G + MDGA+LV+AA +    PQTREHL+  + IG+ NIV+  NK
Sbjct: 90  HETLMATMLSGAALMDGALLVIAANEPCPQPQTREHLMALEIIGIKNIVIVQNK 143

This model represents the archaeal translation initiation factor 2 subunit gamma and is found in all known archaea. eIF-2 functions in the early steps of protein synthesis by forming a ternary complex with GTP and initiator tRNA. Length = 406

>gnl|CDD|206676 cd01889, SelB_euk, SelB, the dedicated elongation factor for delivery of selenocysteinyl-tRNA to the ribosome

 Score = 68.5 bits (168), Expect = 2e-14
 Identities = 36/119 (30%), Positives = 58/119 (48%), Gaps = 16/119 (13%)

Query: 106 KPVLADKKLAKVKQYADIDNAPEEKARGITIN-------VAHVEYATENRHYSHT----- 153
           K  LA K L+++   A  D  P+ + RGIT++       V   ++  +N +         
Sbjct: 13  KTSLA-KALSEIASTAAFDKNPQSQERGITLDLGFSSFEVDKPKHLEDNENPQIENYQIT 71

Query: 154 --DCPGHADYIKNMITGTSQMDGAILVVAATDGAMPQTREHLLLAKQIGVTNIVVFINK 210
             DCPGHA  I+ +I G   +D  +LVV A  G   QT E L++  ++    ++V +NK
Sbjct: 72  LVDCPGHASLIRTIIGGAQIIDLMLLVVDAKKGIQTQTAECLVIG-ELLCKPLIVVLNK 129

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 eukaryotes, they do share a common feature. Unlike in E. coli, these SECIS elements are located in the 3' UTRs. This group contains eukaryotic SelBs and some from archaea. Length = 192

>gnl|CDD|165621 PLN00043, PLN00043, elongation factor 1-alpha; Provisional

 Score = 69.0 bits (168), Expect = 9e-14
 Identities = 41/103 (39%), Positives = 56/103 (54%), Gaps = 3/103 (2%)

Query: 3   LLNQIDTYIPQPVRDLDKPFYLPVEHTYSIPGRGTVVTGRLERGIVKKGMECEFTGYGRQ 62
           LL  +D  I +P R  DKP  LP++  Y I G GTV  GR+E G++K GM   F   G  
Sbjct: 216 LLEALDQ-INEPKRPSDKPLRLPLQDVYKIGGIGTVPVGRVETGVIKPGMVVTFGPTG-- 272

Query: 63  FKTTVTGIEMFHKILDEAQAGDQLGALVKGMKRDEVNRGLIMA 105
             T V  +EM H+ L EA  GD +G  VK +   ++ RG + +
Sbjct: 273 LTTEVKSVEMHHESLQEALPGDNVGFNVKNVAVKDLKRGYVAS 315

Length = 447

>gnl|CDD|227582 COG5257, GCD11, Translation initiation factor 2, gamma subunit (eIF-2gamma; GTPase) [Translation, ribosomal structure and biogenesis]

 Score = 68.9 bits (169), Expect = 9e-14
 Identities = 29/64 (45%), Positives = 41/64 (64%), Gaps = 1/64 (1%)

Query: 148 RHYSHTDCPGHADYIKNMITGTSQMDGAILVVAATDGA-MPQTREHLLLAKQIGVTNIVV 206
           R  S  D PGH   +  M++G + MDGA+LV+AA +    PQTREHL+  + IG+ NI++
Sbjct: 86  RRVSFVDAPGHETLMATMLSGAALMDGALLVIAANEPCPQPQTREHLMALEIIGIKNIII 145

Query: 207 FINK 210
             NK
Sbjct: 146 VQNK 149

Length = 415

>gnl|CDD|206731 cd04168, TetM_like, Tet(M)-like family includes Tet(M), Tet(O), Tet(W), and OtrA, containing tetracycline resistant proteins

 Score = 66.1 bits (162), Expect = 2e-13
 Identities = 32/84 (38%), Positives = 45/84 (53%), Gaps = 5/84 (5%)

Query: 129 EKARGITINVAHVEYATENRHYSHTDCPGHADYIKNMITGTSQMDGAILVVAATDGAMPQ 188
           E+ RGITI  A   +  E+   +  D PGH D+I  +    S +DGAILV++A +G   Q
Sbjct: 45  ERQRGITIFSAVASFQWEDTKVNIIDTPGHMDFIAEVERSLSVLDGAILVISAVEGVQAQ 104

Query: 189 TRE--HLLLAKQIGVTNIVVFINK 210
           TR    LL    I     ++F+NK
Sbjct: 105 TRILFRLLRKLNIPT---IIFVNK 125

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. Length = 237

>gnl|CDD|223556 COG0480, FusA, Translation elongation factors (GTPases) [Translation, ribosomal structure and biogenesis]

 Score = 66.1 bits (162), Expect = 8e-13
 Identities = 29/88 (32%), Positives = 44/88 (50%), Gaps = 2/88 (2%)

Query: 124 DNAPEEKARGITINVAHVEYATENRH-YSHTDCPGHADYIKNMITGTSQMDGAILVVAAT 182
           D   +E+ RGITI  A      +  +  +  D PGH D+   +      +DGA++VV A 
Sbjct: 51  DWMEQEQERGITITSAATTLFWKGDYRINLIDTPGHVDFTIEVERSLRVLDGAVVVVDAV 110

Query: 183 DGAMPQTREHLLLAKQIGVTNIVVFINK 210
           +G  PQT      A + GV   ++F+NK
Sbjct: 111 EGVEPQTETVWRQADKYGVP-RILFVNK 137

Length = 697

>gnl|CDD|227583 COG5258, GTPBP1, GTPase [General function prediction only]

 Score = 64.0 bits (156), Expect = 4e-12
 Identities = 34/110 (30%), Positives = 65/110 (59%), Gaps = 3/110 (2%)

Query: 1   MELLNQIDTYIPQPVRDLDK-PFYLPVEHTYSIPGRGTVVTGRLERGIVKKGMECEFTGY 59
           ++LL++    +P+  R  D+ PF + ++  YS+ G GTVV+G ++ GI+  G       +
Sbjct: 327 LDLLDEFFLLLPKRRRWDDEGPFLMYIDKIYSVTGVGTVVSGSVKSGILHVGDTVLLGPF 386

Query: 60  --GRQFKTTVTGIEMFHKILDEAQAGDQLGALVKGMKRDEVNRGLIMAKP 107
             G+  +  V  IEM H  +D A+AG  +G  +KG++++E+ RG++++  
Sbjct: 387 KDGKFREVVVKSIEMHHYRVDSAKAGSIIGIALKGVEKEELERGMVLSAG 436

Length = 527

>gnl|CDD|240362 PTZ00327, PTZ00327, eukaryotic translation initiation factor 2 gamma subunit; Provisional

 Score = 63.1 bits (154), Expect = 9e-12
 Identities = 25/64 (39%), Positives = 38/64 (59%), Gaps = 1/64 (1%)

Query: 148 RHYSHTDCPGHADYIKNMITGTSQMDGAILVVAATDGA-MPQTREHLLLAKQIGVTNIVV 206
           RH S  DCPGH   +  M+ G + MD A+L++AA +    PQT EHL   + + + +I++
Sbjct: 117 RHVSFVDCPGHDILMATMLNGAAVMDAALLLIAANESCPQPQTSEHLAAVEIMKLKHIII 176

Query: 207 FINK 210
             NK
Sbjct: 177 LQNK 180

Length = 460

>gnl|CDD|129581 TIGR00490, aEF-2, translation elongation factor aEF-2

 Score = 60.7 bits (147), Expect = 7e-11
 Identities = 42/112 (37%), Positives = 60/112 (53%), Gaps = 7/112 (6%)

Query: 103 IMAKPVLADKKLAKVKQYADIDNAPEEKARGITINVAHV----EYATENRHYSHTDCPGH 158
           ++A   +  ++LA  + Y D D   +E+ RGITIN A+V    EY       +  D PGH
Sbjct: 39  LLAGAGMISEELAGQQLYLDFDE--QEQERGITINAANVSMVHEYEGNEYLINLIDTPGH 96

Query: 159 ADYIKNMITGTSQMDGAILVVAATDGAMPQTREHLLLAKQIGVTNIVVFINK 210
            D+  ++      +DGAI+VV A +G MPQT   L  A +  V   V+FINK
Sbjct: 97  VDFGGDVTRAMRAVDGAIVVVCAVEGVMPQTETVLRQALKENVKP-VLFINK 147

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 [Protein synthesis, Translation factors]. Length = 720

>gnl|CDD|206674 cd01887, IF2_eIF5B, Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family

 Score = 57.9 bits (141), Expect = 1e-10
 Identities = 37/86 (43%), Positives = 43/86 (50%), Gaps = 5/86 (5%)

Query: 128 EEKARGIT--INVAHVEYATENRHYSHTDCPGHADYIKNMIT-GTSQMDGAILVVAATDG 184
             +A GIT  I    V    +    +  D PGH  +  NM   G S  D AILVVAA DG
Sbjct: 27  AGEAGGITQHIGAYQVPIDVKIPGITFIDTPGHEAF-TNMRARGASVTDIAILVVAADDG 85

Query: 185 AMPQTREHLLLAKQIGVTNIVVFINK 210
            MPQT E +  AK   V  I+V INK
Sbjct: 86  VMPQTIEAINHAKAANVP-IIVAINK 110

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. Length = 169

>gnl|CDD|237186 PRK12740, PRK12740, elongation factor G; Reviewed

 Score = 59.8 bits (146), Expect = 1e-10
 Identities = 31/91 (34%), Positives = 45/91 (49%), Gaps = 9/91 (9%)

Query: 124 DNAPEEKARGITIN--VAHVEYATENRHYSHT--DCPGHADYIKNMITGTSQMDGAILVV 179
           D  PEE+ RGI+I       E+    + +     D PGH D+   +      +DGA++VV
Sbjct: 36  DFMPEERERGISITSAATTCEW----KGHKINLIDTPGHVDFTGEVERALRVLDGAVVVV 91

Query: 180 AATDGAMPQTREHLLLAKQIGVTNIVVFINK 210
            A  G  PQT      A++ GV  I +F+NK
Sbjct: 92  CAVGGVEPQTETVWRQAEKYGVPRI-IFVNK 121

Length = 668

>gnl|CDD|236047 PRK07560, PRK07560, elongation factor EF-2; Reviewed

 Score = 59.1 bits (144), Expect = 2e-10
 Identities = 43/111 (38%), Positives = 58/111 (52%), Gaps = 12/111 (10%)

Query: 104 MAKPVLADKKLAKVKQYADIDNAPEEKARGITINVAHV----EYATENRHYSHTDCPGHA 159
           M    LA ++LA       +D   EE+ARGITI  A+V    EY  +    +  D PGH 
Sbjct: 46  MISEELAGEQLA-------LDFDEEEQARGITIKAANVSMVHEYEGKEYLINLIDTPGHV 98

Query: 160 DYIKNMITGTSQMDGAILVVAATDGAMPQTREHLLLAKQIGVTNIVVFINK 210
           D+  ++      +DGAI+VV A +G MPQT   L  A +  V   V+FINK
Sbjct: 99  DFGGDVTRAMRAVDGAIVVVDAVEGVMPQTETVLRQALRERVKP-VLFINK 148

Length = 731

>gnl|CDD|206678 cd01891, TypA_BipA, Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases

 Score = 56.4 bits (137), Expect = 5e-10
 Identities = 37/97 (38%), Positives = 53/97 (54%), Gaps = 19/97 (19%)

Query: 124 DNAPEEKARGITI---NVAHVEYATENRHYSHTDCPGHADY------IKNMITGTSQMDG 174
           D+   E+ RGITI   N A + Y  ++   +  D PGHAD+      + +M+      DG
Sbjct: 41  DSNDLERERGITILAKNTA-ITY--KDTKINIIDTPGHADFGGEVERVLSMV------DG 91

Query: 175 AILVVAATDGAMPQTREHLLLAKQIGVTNIVVFINKF 211
            +L+V A++G MPQTR  L  A + G+  IVV INK 
Sbjct: 92  VLLLVDASEGPMPQTRFVLKKALEAGLKPIVV-INKI 127

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. coli has been shown to be phosphorylated on a tyrosine residue, while BipA from Salmonella and from E. coli K12 strains is not phosphorylated under the conditions assayed. The phosphorylation apparently modifies the rate of nucleotide hydrolysis, with the phosphorylated form showing greatly increased GTPase activity. Length = 194

>gnl|CDD|224138 COG1217, TypA, Predicted membrane GTPase involved in stress response [Signal transduction mechanisms]

 Score = 56.9 bits (138), Expect = 1e-09
 Identities = 38/85 (44%), Positives = 48/85 (56%), Gaps = 7/85 (8%)

Query: 129 EKARGITI---NVAHVEYATENRHYSHTDCPGHADYIKNMITGTSQMDGAILVVAATDGA 185
           EK RGITI   N A V Y       +  D PGHAD+   +    S +DG +L+V A++G 
Sbjct: 49  EKERGITILAKNTA-VNY--NGTRINIVDTPGHADFGGEVERVLSMVDGVLLLVDASEGP 105

Query: 186 MPQTREHLLLAKQIGVTNIVVFINK 210
           MPQTR  L  A  +G+  IVV INK
Sbjct: 106 MPQTRFVLKKALALGLKPIVV-INK 129

Length = 603

>gnl|CDD|233394 TIGR01394, TypA_BipA, GTP-binding protein TypA/BipA

 Score = 55.8 bits (135), Expect = 3e-09
 Identities = 35/85 (41%), Positives = 48/85 (56%), Gaps = 7/85 (8%)

Query: 129 EKARGITI---NVAHVEYATENRHYSHTDCPGHADYIKNMITGTSQMDGAILVVAATDGA 185
           E+ RGITI   N A + Y       +  D PGHAD+   +      +DG +L+V A++G 
Sbjct: 45  ERERGITILAKNTA-IRY--NGTKINIVDTPGHADFGGEVERVLGMVDGVLLLVDASEGP 101

Query: 186 MPQTREHLLLAKQIGVTNIVVFINK 210
           MPQTR  L  A ++G+  IVV INK
Sbjct: 102 MPQTRFVLKKALELGLKPIVV-INK 125

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 [Regulatory functions, Other, Cellular processes, Adaptations to atypical conditions, Protein synthesis, Translation factors]. Length = 594

>gnl|CDD|232995 TIGR00487, IF-2, translation initiation factor IF-2

 Score = 55.2 bits (133), Expect = 4e-09
 Identities = 34/82 (41%), Positives = 41/82 (50%), Gaps = 4/82 (4%)

Query: 131 ARGIT--INVAHVEYATENRHYSHTDCPGHADYIKNMITGTSQMDGAILVVAATDGAMPQ 188
           A GIT  I   HVE   + +  +  D PGH  +      G    D  +LVVAA DG MPQ
Sbjct: 117 AGGITQHIGAYHVEN-EDGKMITFLDTPGHEAFTSMRARGAKVTDIVVLVVAADDGVMPQ 175

Query: 189 TREHLLLAKQIGVTNIVVFINK 210
           T E +  AK   V  I+V INK
Sbjct: 176 TIEAISHAKAANVP-IIVAINK 196

This model discriminates eubacterial (and mitochondrial) translation initiation factor 2 (IF-2), encoded by the infB gene in bacteria, from similar proteins in the Archaea and Eukaryotes. In the bacteria and in organelles, the initiator tRNA is charged with N-formyl-Met instead of Met. This translation factor acts in delivering the initator tRNA to the ribosome. It is one of a number of GTP-binding translation factors recognized by the pfam model GTP_EFTU [Protein synthesis, Translation factors]. Length = 587

>gnl|CDD|206733 cd04170, EF-G_bact, Elongation factor G (EF-G) family

 Score = 54.1 bits (131), Expect = 6e-09
 Identities = 26/89 (29%), Positives = 43/89 (48%), Gaps = 5/89 (5%)

Query: 124 DNAPEEKARGITIN--VAHVEYATENRHYSHTDCPGHADYIKNMITGTSQMDGAILVVAA 181
           D  PEEK R ++I   VA +E+       +  D PG+AD++   ++    +D A++VV A
Sbjct: 40  DYDPEEKKRKMSIETSVAPLEW--NGHKINLIDTPGYADFVGETLSALRAVDAALIVVEA 97

Query: 182 TDGAMPQTREHLLLAKQIGVTNIVVFINK 210
             G    T +         +   ++FINK
Sbjct: 98  QSGVEVGTEKVWEFLDDAKLP-RIIFINK 125

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 contains only bacterial members. Length = 268

>gnl|CDD|129567 TIGR00475, selB, selenocysteine-specific elongation factor SelB

 Score = 53.7 bits (129), Expect = 1e-08
 Identities = 26/105 (24%), Positives = 48/105 (45%), Gaps = 8/105 (7%)

Query: 3   LLNQIDTYIPQPVRDLDKPFYLPVEHTYSIPGRGTVVTGRLERGIVKKGMECEFTGYGRQ 62
           LL  +D    Q      KP  + ++  + + G GTVVTG    G VK G          +
Sbjct: 164 LLESLDIKRIQ------KPLRMAIDRAFKVKGAGTVVTGTAFSGEVKVGDNLRLLPINHE 217

Query: 63  FKTTVTGIEMFHKILDEAQAGDQLGALVKGMKRDEVNRGLIMAKP 107
            +  V  I+  ++ ++ A AG ++   +  ++ + + RGL++  P
Sbjct: 218 VR--VKAIQAQNQDVEIAYAGQRIALNLMDVEPESLKRGLLILTP 260

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 [Protein synthesis, Translation factors]. Length = 581

>gnl|CDD|235401 PRK05306, infB, translation initiation factor IF-2; Validated

 Score = 52.2 bits (126), Expect = 4e-08
 Identities = 35/90 (38%), Positives = 41/90 (45%), Gaps = 21/90 (23%)

Query: 131 ARGIT--INVAHVEYATENRHYSHTDCPGHADYIKNMITGTSQM--------DGAILVVA 180
           A GIT  I    VE  T     +  D PGH  +        + M        D  +LVVA
Sbjct: 279 AGGITQHIGAYQVE--TNGGKITFLDTPGHEAF--------TAMRARGAQVTDIVVLVVA 328

Query: 181 ATDGAMPQTREHLLLAKQIGVTNIVVFINK 210
           A DG MPQT E +  AK  GV  I+V INK
Sbjct: 329 ADDGVMPQTIEAINHAKAAGVP-IIVAINK 357

Length = 746

>gnl|CDD|239665 cd03694, GTPBP_II, Domain II of the GP-1 family of GTPase

 Score = 48.4 bits (116), Expect = 6e-08
 Identities = 20/82 (24%), Positives = 37/82 (45%), Gaps = 2/82 (2%)

Query: 26  VEHTYSIPGRGTVVTGRLERGIVKKGMECEF--TGYGRQFKTTVTGIEMFHKILDEAQAG 83
           ++  YS+PG GTVV G + +G+++ G          G     TV  I      +   +AG
Sbjct: 5   IDEIYSVPGVGTVVGGTVSKGVIRLGDTLLLGPDQDGSFRPVTVKSIHRNRSPVRVVRAG 64

Query: 84  DQLGALVKGMKRDEVNRGLIMA 105
                 +K + R  + +G+++ 
Sbjct: 65  QSASLALKKIDRSLLRKGMVLV 86

This group includes proteins similar to GTPBP1 and GTPBP2. GTPB1 is structurally, related to elongation factor 1 alpha, a key component of protein biosynthesis machinery. Immunohistochemical analyses on mouse tissues revealed that GTPBP1 is expressed in some neurons and smooth muscle cells of various organs as well as macrophages. Immunofluorescence analyses revealed that GTPBP1 is localized exclusively in cytoplasm and shows a diffuse granular network forming a gradient from the nucleus to the periphery of the cells in smooth muscle cell lines and macrophages. No significant difference was observed in the immune response to protein antigen between mutant mice and wild-type mice, suggesting normal function of antigen-presenting cells of the mutant mice. The absence of an eminent phenotype in GTPBP1-deficient mice may be due to functional compensation by GTPBP2, which is similar to GTPBP1 in structure and tissue distribution. Length = 87

>gnl|CDD|223606 COG0532, InfB, Translation initiation factor 2 (IF-2; GTPase) [Translation, ribosomal structure and biogenesis]

 Score = 51.4 bits (124), Expect = 7e-08
 Identities = 32/58 (55%), Positives = 33/58 (56%), Gaps = 3/58 (5%)

Query: 154 DCPGHADYIKNMIT-GTSQMDGAILVVAATDGAMPQTREHLLLAKQIGVTNIVVFINK 210
           D PGH      M   G S  D AILVVAA DG MPQT E +  AK  GV  IVV INK
Sbjct: 61  DTPGHE-AFTAMRARGASVTDIAILVVAADDGVMPQTIEAINHAKAAGVP-IVVAINK 116

Length = 509

>gnl|CDD|206672 cd01885, EF2, Elongation Factor 2 (EF2) in archaea and eukarya

 Score = 49.9 bits (120), Expect = 1e-07
 Identities = 28/96 (29%), Positives = 41/96 (42%), Gaps = 10/96 (10%)

Query: 124 DNAPEEKARGITI---NVA--HVEYATENRHYSH----TDCPGHADYIKNMITGTSQMDG 174
           D   +E+ RGITI    ++        +     +     D PGH D+   +       DG
Sbjct: 39  DTREDEQERGITIKSSAISLYFEYEEEKMDGNDYLINLIDSPGHVDFSSEVTAALRLTDG 98

Query: 175 AILVVAATDGAMPQTREHLLLAKQIGVTNIVVFINK 210
           A++VV A +G   QT   L  A +  V   V+ INK
Sbjct: 99  ALVVVDAVEGVCVQTETVLRQALEERVK-PVLVINK 133

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. Second, the protein can be post-translationally modified by ADP-ribosylation. Various bacterial toxins perform this reaction after modification of a specific histidine residue to diphthamide, but there is evidence for endogenous ADP ribosylase activity. Similar to the bacterial toxins, it is presumed that modification by the endogenous enzyme also inhibits eEF2 activity. Length = 218

>gnl|CDD|237358 PRK13351, PRK13351, elongation factor G; Reviewed

 Score = 49.9 bits (120), Expect = 3e-07
 Identities = 30/87 (34%), Positives = 43/87 (49%), Gaps = 1/87 (1%)

Query: 124 DNAPEEKARGITINVAHVEYATENRHYSHTDCPGHADYIKNMITGTSQMDGAILVVAATD 183
           D  P+E+ RGITI  A      +N   +  D PGH D+   +      +DGA++V  A  
Sbjct: 49  DWMPQEQERGITIESAATSCDWDNHRINLIDTPGHIDFTGEVERSLRVLDGAVVVFDAVT 108

Query: 184 GAMPQTREHLLLAKQIGVTNIVVFINK 210
           G  PQT      A + G+   ++FINK
Sbjct: 109 GVQPQTETVWRQADRYGIP-RLIFINK 134

Length = 687

>gnl|CDD|177089 CHL00189, infB, translation initiation factor 2; Provisional

 Score = 49.1 bits (117), Expect = 5e-07
 Identities = 32/92 (34%), Positives = 43/92 (46%), Gaps = 9/92 (9%)

Query: 125 NAPEEKARGITINVA----HVEYATENRHYSHTDCPGHADYIKNMITGTSQMDGAILVVA 180
              +++A GIT  +       EY  EN+     D PGH  +      G +  D AIL++A
Sbjct: 268 QIAQKEAGGITQKIGAYEVEFEYKDENQKIVFLDTPGHEAFSSMRSRGANVTDIAILIIA 327

Query: 181 ATDGAMPQTREHLLLAKQIGVTN--IVVFINK 210
           A DG  PQT E +     I   N  I+V INK
Sbjct: 328 ADDGVKPQTIEAI---NYIQAANVPIIVAINK 356

Length = 742

>gnl|CDD|206730 cd04167, Snu114p, Snu114p, a spliceosome protein, is a GTPase

 Score = 47.3 bits (113), Expect = 1e-06
 Identities = 26/93 (27%), Positives = 43/93 (46%), Gaps = 6/93 (6%)

Query: 124 DNAPEEKARGITINVAHVEYATEN-RHYSHT----DCPGHADYIKNMITGTSQMDGAILV 178
           D   +E+ RGI+I    +    E+ +  S+     D PGH +++  +       DG +LV
Sbjct: 42  DTRKDEQERGISIKSNPISLVLEDSKGKSYLINIIDTPGHVNFMDEVAAALRLCDGVVLV 101

Query: 179 VAATDGAMPQTREHLLLAKQIGVTNIVVFINKF 211
           V   +G    T   +  A Q G+  +V+ INK 
Sbjct: 102 VDVVEGLTSVTERLIRHAIQEGLP-MVLVINKI 133

Snu114p subfamily. 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. Length = 213

>gnl|CDD|104396 PRK10218, PRK10218, GTP-binding protein; Provisional

 Score = 47.8 bits (113), Expect = 1e-06
 Identities = 35/88 (39%), Positives = 45/88 (51%), Gaps = 1/88 (1%)

Query: 123 IDNAPEEKARGITINVAHVEYATENRHYSHTDCPGHADYIKNMITGTSQMDGAILVVAAT 182
           +D+   EK RGITI   +      +   +  D PGHAD+   +    S +D  +LVV A 
Sbjct: 43  MDSNDLEKERGITILAKNTAIKWNDYRINIVDTPGHADFGGEVERVMSMVDSVLLVVDAF 102

Query: 183 DGAMPQTREHLLLAKQIGVTNIVVFINK 210
           DG MPQTR     A   G+  IVV INK
Sbjct: 103 DGPMPQTRFVTKKAFAYGLKPIVV-INK 129

Length = 607

>gnl|CDD|129575 TIGR00484, EF-G, translation elongation factor EF-G

 Score = 46.3 bits (110), Expect = 4e-06
 Identities = 29/90 (32%), Positives = 41/90 (45%), Gaps = 1/90 (1%)

Query: 121 ADIDNAPEEKARGITINVAHVEYATENRHYSHTDCPGHADYIKNMITGTSQMDGAILVVA 180
           A +D   +EK RGITI  A      +    +  D PGH D+   +      +DGA+ V+ 
Sbjct: 48  ATMDWMEQEKERGITITSAATTVFWKGHRINIIDTPGHVDFTVEVERSLRVLDGAVAVLD 107

Query: 181 ATDGAMPQTREHLLLAKQIGVTNIVVFINK 210
           A  G  PQ+      A +  V  I  F+NK
Sbjct: 108 AVGGVQPQSETVWRQANRYEVPRI-AFVNK 136

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 [Protein synthesis, Translation factors]. Length = 689

>gnl|CDD|206673 cd01886, EF-G, Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis

 Score = 45.2 bits (108), Expect = 8e-06
 Identities = 30/90 (33%), Positives = 42/90 (46%), Gaps = 1/90 (1%)

Query: 121 ADIDNAPEEKARGITINVAHVEYATENRHYSHTDCPGHADYIKNMITGTSQMDGAILVVA 180
           A +D   +E+ RGITI  A      ++   +  D PGH D+   +      +DGA+ V  
Sbjct: 37  ATMDWMEQERERGITIQSAATTCFWKDHRINIIDTPGHVDFTIEVERSLRVLDGAVAVFD 96

Query: 181 ATDGAMPQTREHLLLAKQIGVTNIVVFINK 210
           A  G  PQT      A + GV  I  F+NK
Sbjct: 97  AVAGVQPQTETVWRQADRYGVPRI-AFVNK 125

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 contains both eukaryotic and bacterial members. Length = 270

>gnl|CDD|233394 TIGR01394, TypA_BipA, GTP-binding protein TypA/BipA

 Score = 43.8 bits (104), Expect = 3e-05
 Identities = 27/88 (30%), Positives = 43/88 (48%), Gaps = 5/88 (5%)

Query: 2   ELLNQIDTYIPQPVRDLDKPFYLPVEHTYSIPGRGTVVTGRLERGIVKKGME---CEFTG 58
            L + I  ++P P  DLD+P  + V +       G +  GR+ RG VKKG +    +  G
Sbjct: 181 PLFDAIVRHVPAPKGDLDEPLQMLVTNLDYDEYLGRIAIGRVHRGTVKKGQQVALMKRDG 240

Query: 59  YGRQFK-TTVTGIEMFHKI-LDEAQAGD 84
                + + + G E   ++ +DEA AGD
Sbjct: 241 TIENGRISKLLGFEGLERVEIDEAGAGD 268

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 [Regulatory functions, Other, Cellular processes, Adaptations to atypical conditions, Protein synthesis, Translation factors]. Length = 594

>gnl|CDD|206677 cd01890, LepA, LepA also known as Elongation Factor 4 (EF4)

 Score = 42.5 bits (101), Expect = 3e-05
 Identities = 29/87 (33%), Positives = 42/87 (48%), Gaps = 6/87 (6%)

Query: 129 EKARGITI--NVAHVEYATENRH---YSHTDCPGHADYIKNMITGTSQMDGAILVVAATD 183
           E+ RGITI      + Y  ++      +  D PGH D+   +    +  +GA+LVV AT 
Sbjct: 43  ERERGITIKAQAVRLFYKAKDGEEYLLNLIDTPGHVDFSYEVSRSLAACEGALLVVDATQ 102

Query: 184 GAMPQTREHLLLAKQIGVTNIVVFINK 210
           G   QT  +  LA +  +  I V INK
Sbjct: 103 GVEAQTLANFYLALENNLEIIPV-INK 128

LepA (also known as elongation factor 4, EF4) belongs to the GTPase family 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. Length = 179

>gnl|CDD|227582 COG5257, GCD11, Translation initiation factor 2, gamma subunit (eIF-2gamma; GTPase) [Translation, ribosomal structure and biogenesis]

 Score = 42.3 bits (100), Expect = 9e-05
 Identities = 29/103 (28%), Positives = 50/103 (48%), Gaps = 18/103 (17%)

Query: 3   LLNQIDTYIPQPVRDLDKPFYLPVEHTYSI--PG------RGTVVTGRLERGIVKKGMEC 54
           L+  I+ YIP P RDLDKP  + V  ++ +  PG      +G V+ G L +G+++ G E 
Sbjct: 193 LIEAIEKYIPTPERDLDKPPRMYVARSFDVNKPGTPPEELKGGVIGGSLVQGVLRVGDEI 252

Query: 55  EF------TGYGRQ----FKTTVTGIEMFHKILDEAQAGDQLG 87
           E          G+       T +  ++   + ++EA+ G  +G
Sbjct: 253 EIRPGIVVEKGGKTVWEPITTEIVSLQAGGEDVEEARPGGLVG 295

Length = 415

>gnl|CDD|211860 TIGR03680, eif2g_arch, translation initiation factor 2 subunit gamma

 Score = 41.6 bits (98), Expect = 1e-04
 Identities = 31/103 (30%), Positives = 48/103 (46%), Gaps = 18/103 (17%)

Query: 3   LLNQIDTYIPQPVRDLDKPFYLPVEHTYSI--PG------RGTVVTGRLERGIVKKGMEC 54
           LL  I+ +IP P RDLDKP  + V  ++ +  PG      +G V+ G L +G +K G E 
Sbjct: 187 LLEAIEKFIPTPERDLDKPPLMYVARSFDVNKPGTPPEKLKGGVIGGSLIQGKLKVGDEI 246

Query: 55  EF------TGYGRQ----FKTTVTGIEMFHKILDEAQAGDQLG 87
           E          G+       T +T +      ++EA+ G  +G
Sbjct: 247 EIRPGIKVEKGGKTKWEPIYTEITSLRAGGYKVEEARPGGLVG 289

This model represents the archaeal translation initiation factor 2 subunit gamma and is found in all known archaea. eIF-2 functions in the early steps of protein synthesis by forming a ternary complex with GTP and initiator tRNA. Length = 406

>gnl|CDD|227583 COG5258, GTPBP1, GTPase [General function prediction only]

 Score = 41.3 bits (97), Expect = 2e-04
 Identities = 22/58 (37%), Positives = 32/58 (55%), Gaps = 2/58 (3%)

Query: 151 SHTDCPGHADYIKNMITG--TSQMDGAILVVAATDGAMPQTREHLLLAKQIGVTNIVV 206
           S  D  GH  +++  I G    ++D  +LVVAA DG    T+EHL +A  + +  IVV
Sbjct: 204 SFVDTVGHEPWLRTTIRGLLGQKVDYGLLVVAADDGVTKMTKEHLGIALAMELPVIVV 261

Length = 527

>gnl|CDD|129594 TIGR00503, prfC, peptide chain release factor 3

 Score = 41.0 bits (96), Expect = 2e-04
 Identities = 25/94 (26%), Positives = 49/94 (52%), Gaps = 1/94 (1%)

Query: 118 KQYADIDNAPEEKARGITINVAHVEYATENRHYSHTDCPGHADYIKNMITGTSQMDGAIL 177
           +++A  D    EK RGI+I  + +++   +   +  D PGH D+ ++     + +D  ++
Sbjct: 50  QRHAKSDWMEMEKQRGISITTSVMQFPYRDCLVNLLDTPGHEDFSEDTYRTLTAVDNCLM 109

Query: 178 VVAATDGAMPQTREHLLLAKQIGVTNIVVFINKF 211
           V+ A  G   +TR+ L+   ++  T I  F+NK 
Sbjct: 110 VIDAAKGVETRTRK-LMEVTRLRDTPIFTFMNKL 142

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 [Protein synthesis, Translation factors]. Length = 527

>gnl|CDD|130460 TIGR01393, lepA, GTP-binding protein LepA

 Score = 40.4 bits (95), Expect = 4e-04
 Identities = 32/117 (27%), Positives = 53/117 (45%), Gaps = 13/117 (11%)

Query: 106 KPVLADKKLAKVKQYAD-------IDNAPEEKARGITI--NVAHVEYATENRH---YSHT 153
           K  LAD+ L      ++       +D+   E+ RGITI      + Y  ++      +  
Sbjct: 16  KSTLADRLLEYTGAISEREMREQVLDSMDLERERGITIKAQAVRLNYKAKDGETYVLNLI 75

Query: 154 DCPGHADYIKNMITGTSQMDGAILVVAATDGAMPQTREHLLLAKQIGVTNIVVFINK 210
           D PGH D+   +    +  +GA+L+V A  G   QT  ++ LA +  +  I+  INK
Sbjct: 76  DTPGHVDFSYEVSRSLAACEGALLLVDAAQGIEAQTLANVYLALENDLE-IIPVINK 131

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 [Unknown function, General]. Length = 595

>gnl|CDD|224138 COG1217, TypA, Predicted membrane GTPase involved in stress response [Signal transduction mechanisms]

 Score = 39.5 bits (93), Expect = 7e-04
 Identities = 24/89 (26%), Positives = 37/89 (41%), Gaps = 5/89 (5%)

Query: 1   MELLNQIDTYIPQPVRDLDKPFYLPVEHTYSIPGRGTVVTGRLERGIVKKGMECEFTGYG 60
             L   I  ++P P  DLD+P  + V         G +  GR+ RG VK   +       
Sbjct: 184 APLFETILDHVPAPKGDLDEPLQMQVTQLDYNSYVGRIGIGRIFRGTVKPNQQVALIKSD 243

Query: 61  ---RQFK-TTVTGIEMFHKI-LDEAQAGD 84
                 + T + G     +I ++EA+AGD
Sbjct: 244 GTTENGRITKLLGFLGLERIEIEEAEAGD 272

Length = 603

>gnl|CDD|206732 cd04169, RF3, Release Factor 3 (RF3) protein involved in the terminal step of translocation in bacteria

 Score = 39.1 bits (92), Expect = 8e-04
 Identities = 28/85 (32%), Positives = 44/85 (51%), Gaps = 5/85 (5%)

Query: 129 EKARGITI--NVAHVEYATENRHYSHTDCPGHADYIKNMITGTSQMDGAILVVAATDGAM 186
           EK RGI++  +V   EY       +  D PGH D+ ++     + +D A++V+ A  G  
Sbjct: 52  EKQRGISVTSSVMQFEYK--GCVINLLDTPGHEDFSEDTYRTLTAVDSAVMVIDAAKGVE 109

Query: 187 PQTREHLLLAKQIGVTNIVVFINKF 211
           PQTR+   + +  G   I+ FINK 
Sbjct: 110 PQTRKLFEVCRLRG-IPIITFINKL 133

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. Length = 268

>gnl|CDD|240409 PTZ00416, PTZ00416, elongation factor 2; Provisional

 Score = 38.5 bits (90), Expect = 0.001
 Identities = 30/97 (30%), Positives = 42/97 (43%), Gaps = 11/97 (11%)

Query: 124 DNAPEEKARGITINVA----HVEYATENRHYSH------TDCPGHADYIKNMITGTSQMD 173
           D   +E+ RGITI       + E+  E+            D PGH D+   +       D
Sbjct: 58  DTRADEQERGITIKSTGISLYYEHDLEDGDDKQPFLINLIDSPGHVDFSSEVTAALRVTD 117

Query: 174 GAILVVAATDGAMPQTREHLLLAKQIGVTNIVVFINK 210
           GA++VV   +G   QT   L  A Q  +   V+FINK
Sbjct: 118 GALVVVDCVEGVCVQTETVLRQALQERIRP-VLFINK 153

Length = 836

>gnl|CDD|235194 PRK04000, PRK04000, translation initiation factor IF-2 subunit gamma; Validated

 Score = 38.3 bits (90), Expect = 0.002
 Identities = 31/116 (26%), Positives = 52/116 (44%), Gaps = 27/116 (23%)

Query: 3   LLNQIDTYIPQPVRDLDKPFYLPVEHTYSI--PG------RGTVVTGRLERGIVKKGMEC 54
           L+  I+  IP P RDLDKP  + V  ++ +  PG      +G V+ G L +G++K G E 
Sbjct: 192 LIEAIEEEIPTPERDLDKPPRMYVARSFDVNKPGTPPEKLKGGVIGGSLIQGVLKVGDEI 251

Query: 55  EFTGYGRQFK-----------TTVTGIEMFHKILDEAQAGDQLG-------ALVKG 92
           E    G + +           T +  +    + ++EA+ G  +G       +L K 
Sbjct: 252 EIRP-GIKVEEGGKTKWEPITTKIVSLRAGGEKVEEARPGGLVGVGTKLDPSLTKA 306

Length = 411

>gnl|CDD|239666 cd03695, CysN_NodQ_II, CysN_NodQ_II: This subfamily represents the domain II of the large subunit of ATP sulfurylase (ATPS): CysN or the N-terminal portion of NodQ, found mainly in proteobacteria and homologous to the domain II of EF-Tu

 Score = 35.6 bits (83), Expect = 0.002
 Identities = 25/90 (27%), Positives = 40/90 (44%), Gaps = 14/90 (15%)

Query: 22  FYLPVEHTYSIPG---RGTVVTGRLERGIVKKGMECEFTGYGRQFKTTVTGIEMFHKILD 78
           F  PV++    P    RG    G +  G ++ G E      G+   + V  IE F   LD
Sbjct: 1   FRFPVQYVIR-PNADFRG--YAGTIASGSIRVGDEVVVLPSGK--TSRVKSIETFDGELD 55

Query: 79  EAQAGDQLGALVKGMKRDEVN--RGLIMAK 106
           EA AG+ +   ++    DE++  RG ++  
Sbjct: 56  EAGAGESVTLTLE----DEIDVSRGDVIVA 81

Escherichia coli ATPS consists of CysN and a smaller subunit CysD and CysN. ATPS produces adenosine-5'-phosphosulfate (APS) from ATP and sulfate, coupled with GTP hydrolysis. In the subsequent reaction APS is phosphorylated by an APS kinase (CysC), to produce 3'-phosphoadenosine-5'-phosphosulfate (PAPS) for use in amino acid (aa) biosynthesis. The Rhizobiaceae group (alpha-proteobacteria) appears to carry out the same chemistry for the sufation of a nodulation factor. In Rhizobium meliloti, a the hererodimeric complex comprised of NodP and NodQ appears to possess both ATPS and APS kinase activities. The N and C termini of NodQ correspond to CysN and CysC, respectively. Other eubacteria, Archaea, and eukaryotes use a different ATP sulfurylase, which shows no aa sequence similarity to CysN or NodQ. CysN and the N-terminal portion of NodQ show similarity to GTPases involved in translation, in particular, EF-Tu and EF-1alpha. Length = 81

>gnl|CDD|226593 COG4108, PrfC, Peptide chain release factor RF-3 [Translation, ribosomal structure and biogenesis]

 Score = 38.0 bits (89), Expect = 0.002
 Identities = 26/84 (30%), Positives = 43/84 (51%), Gaps = 5/84 (5%)

Query: 129 EKARGITI--NVAHVEYATENRHYSHTDCPGHADYIKNMITGTSQMDGAILVVAATDGAM 186
           EK RGI++  +V   +YA  +   +  D PGH D+ ++     + +D A++V+ A  G  
Sbjct: 62  EKQRGISVTSSVMQFDYA--DCLVNLLDTPGHEDFSEDTYRTLTAVDSAVMVIDAAKGIE 119

Query: 187 PQTREHLLLAKQIGVTNIVVFINK 210
           PQT +   + +      I  FINK
Sbjct: 120 PQTLKLFEVCRLRD-IPIFTFINK 142

Length = 528

>gnl|CDD|182508 PRK10512, PRK10512, selenocysteinyl-tRNA-specific translation factor; Provisional

 Score = 37.7 bits (88), Expect = 0.003
 Identities = 25/92 (27%), Positives = 47/92 (51%), Gaps = 3/92 (3%)

Query: 11  IPQPVRDLDKPFYLPVEHTYSIPGRGTVVTGRLERGIVKKGMECEFTGYGRQFKTTVTGI 70
           +P+        F L ++  +++ G G VVTG    G VK G     TG  +  +  V G+
Sbjct: 164 LPEREHAAQHRFRLAIDRAFTVKGAGLVVTGTALSGEVKVGDTLWLTGVNKPMR--VRGL 221

Query: 71  EMFHKILDEAQAGDQLGALVKG-MKRDEVNRG 101
              ++  ++AQAG ++   + G  +++++NRG
Sbjct: 222 HAQNQPTEQAQAGQRIALNIAGDAEKEQINRG 253

Length = 614

>gnl|CDD|130460 TIGR01393, lepA, GTP-binding protein LepA

 Score = 37.7 bits (88), Expect = 0.003
 Identities = 25/94 (26%), Positives = 43/94 (45%), Gaps = 2/94 (2%)

Query: 2   ELLNQIDTYIPQPVRDLDKPFYLPVEHTYSIPGRGTVVTGRLERGIVKKGMECEFTGYGR 61
           E+L  I   +P P  D D P    +  ++    RG V   R+  G +K G +  F   G+
Sbjct: 170 EILEAIVKRVPPPKGDPDAPLKALIFDSHYDNYRGVVALVRVFEGTIKPGDKIRFMSTGK 229

Query: 62  QFKTTVTGIEMFH-KILDEAQAGDQLGALVKGMK 94
           +++    G+        DE  AG+ +G ++ G+K
Sbjct: 230 EYEVDEVGVFTPKLTKTDELSAGE-VGYIIAGIK 262

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 [Unknown function, General]. Length = 595

>gnl|CDD|223557 COG0481, LepA, Membrane GTPase LepA [Cell envelope biogenesis, outer membrane]

 Score = 37.5 bits (88), Expect = 0.003
 Identities = 29/92 (31%), Positives = 45/92 (48%), Gaps = 6/92 (6%)

Query: 124 DNAPEEKARGITI---NVAHVEYATENRHY--SHTDCPGHADYIKNMITGTSQMDGAILV 178
           D+   E+ RGITI    V     A +   Y  +  D PGH D+   +    +  +GA+LV
Sbjct: 47  DSMDIERERGITIKAQAVRLNYKAKDGETYVLNLIDTPGHVDFSYEVSRSLAACEGALLV 106

Query: 179 VAATDGAMPQTREHLLLAKQIGVTNIVVFINK 210
           V A+ G   QT  ++ LA +  +  I+  +NK
Sbjct: 107 VDASQGVEAQTLANVYLALENNLE-IIPVLNK 137

Length = 603

>gnl|CDD|237185 PRK12739, PRK12739, elongation factor G; Reviewed

 Score = 37.5 bits (88), Expect = 0.003
 Identities = 30/87 (34%), Positives = 41/87 (47%), Gaps = 9/87 (10%)

Query: 128 EEKARGITINVAHVEYAT----ENRHYSHTDCPGHADYIKNMITGTSQMDGAILVVAATD 183
           +E+ RGITI  A    AT    +    +  D PGH D+   +      +DGA+ V  A  
Sbjct: 53  QEQERGITITSA----ATTCFWKGHRINIIDTPGHVDFTIEVERSLRVLDGAVAVFDAVS 108

Query: 184 GAMPQTREHLLLAKQIGVTNIVVFINK 210
           G  PQ+      A + GV  I VF+NK
Sbjct: 109 GVEPQSETVWRQADKYGVPRI-VFVNK 134

Length = 691

>gnl|CDD|239669 cd03698, eRF3_II_like, eRF3_II_like: domain similar to domain II of the eukaryotic class II release factor (eRF3)

 Score = 34.8 bits (81), Expect = 0.004
 Identities = 24/83 (28%), Positives = 43/83 (51%), Gaps = 3/83 (3%)

Query: 21  PFYLPVEHTYSIPGRGTVVTGRLERGIVKKGMECEFTGYGRQFKTTVTGIEMFHKILDEA 80
           PF LP+   Y   G GTVV+G++E G ++KG          +    V  I +  + +D A
Sbjct: 1   PFRLPISDKYKDQG-GTVVSGKVESGSIQKGDTL--LVMPSKESVEVKSIYVDDEEVDYA 57

Query: 81  QAGDQLGALVKGMKRDEVNRGLI 103
            AG+ +   +KG+  ++++ G +
Sbjct: 58  VAGENVRLKLKGIDEEDISPGDV 80

In eukaryotes, translation termination is mediated by two interacting release factors, eRF1 and eRF3, which act as class I and II factors, respectively. eRF1 functions as an omnipotent release factor, decoding all three stop codons and triggering the release of the nascent peptide catalyzed by the ribsome. eRF3 is a GTPase, which enhances the termination efficiency by stimulating the eRF1 activity in a GTP-dependent manner. Sequence comparison of class II release factors with elongation factors shows that eRF3 is more similar to eEF1alpha whereas prokaryote RF3 is more similar to EF-G, implying that their precise function may differ. Only eukaryote RF3s are found in this group. Saccharomyces cerevisiae eRF3 (Sup35p) is a translation termination factor which is divided into three regions N, M and a C-terminal eEF1a-like region essential for translation termination. Sup35NM is a non-pathogenic prion-like protein with the property of aggregating into polymer-like fibrils. This group also contains proteins similar to S. cerevisiae Hbs1, a G protein known to be important for efficient growth and protein synthesis under conditions of limiting translation initiation and, to associate with Dom34. It has been speculated that yeast Hbs1 and Dom34 proteins may function as part of a complex with a role in gene expression. Length = 83

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	211
KOG0460|consensus	449		99.93
PLN00043	447	elongation factor 1-alpha; Provisional	99.91
COG5256	428	TEF1 Translation elongation factor EF-1alpha (GTPa	99.91
PRK12735	396	elongation factor Tu; Reviewed	99.9
PRK00049	396	elongation factor Tu; Reviewed	99.9
COG0050	394	TufB GTPases - translation elongation factors [Tra	99.9
PRK12317	425	elongation factor 1-alpha; Reviewed	99.9
PLN03126	478	Elongation factor Tu; Provisional	99.9
PLN03127	447	Elongation factor Tu; Provisional	99.89
TIGR00483	426	EF-1_alpha translation elongation factor EF-1 alph	99.89
PRK12736	394	elongation factor Tu; Reviewed	99.89
PTZ00141	446	elongation factor 1- alpha; Provisional	99.89
cd03693	91	EF1_alpha_II EF1_alpha_II: this family represents	99.89
TIGR00485	394	EF-Tu translation elongation factor TU. This align	99.89
CHL00071	409	tufA elongation factor Tu	99.88
cd03698	83	eRF3_II_like eRF3_II_like: domain similar to domai	99.87
COG5256	428	TEF1 Translation elongation factor EF-1alpha (GTPa	99.87
COG5258	527	GTPBP1 GTPase [General function prediction only]	99.87
cd04089	82	eRF3_II eRF3_II: domain II of the eukaryotic class	99.86
cd03694	87	GTPBP_II Domain II of the GP-1 family of GTPase. T	99.86
PTZ00327	460	eukaryotic translation initiation factor 2 gamma s	99.85
cd03697	87	EFTU_II EFTU_II: Elongation factor Tu domain II. E	99.84
PRK04000	411	translation initiation factor IF-2 subunit gamma;	99.84
cd03696	83	selB_II selB_II: this subfamily represents the dom	99.83
TIGR03680	406	eif2g_arch translation initiation factor 2 subunit	99.83
COG0050	394	TufB GTPases - translation elongation factors [Tra	99.82
cd03695	81	CysN_NodQ_II CysN_NodQ_II: This subfamily represen	99.81
COG3276	447	SelB Selenocysteine-specific translation elongatio	99.81
KOG0460|consensus	449		99.81
PRK10512	614	selenocysteinyl-tRNA-specific translation factor;	99.8
PRK05124	474	cysN sulfate adenylyltransferase subunit 1; Provis	99.79
TIGR02034	406	CysN sulfate adenylyltransferase, large subunit. H	99.79
COG2895	431	CysN GTPases - Sulfate adenylate transferase subun	99.79
PTZ00141	446	elongation factor 1- alpha; Provisional	99.79
cd01884	195	EF_Tu EF-Tu subfamily. This subfamily includes ort	99.78
KOG0459|consensus	501		99.77
TIGR02034	406	CysN sulfate adenylyltransferase, large subunit. H	99.77
COG2895	431	CysN GTPases - Sulfate adenylate transferase subun	99.77
PRK05506	632	bifunctional sulfate adenylyltransferase subunit 1	99.76
PLN00043	447	elongation factor 1-alpha; Provisional	99.76
TIGR00475	581	selB selenocysteine-specific elongation factor Sel	99.75
PLN03127	447	Elongation factor Tu; Provisional	99.74
KOG0458|consensus	603		99.74
PRK05124	474	cysN sulfate adenylyltransferase subunit 1; Provis	99.73
PF00009	188	GTP_EFTU: Elongation factor Tu GTP binding domain;	99.73
KOG0458|consensus	603		99.73
PRK12736	394	elongation factor Tu; Reviewed	99.72
COG0480	697	FusA Translation elongation factors (GTPases) [Tra	99.72
TIGR00485	394	EF-Tu translation elongation factor TU. This align	99.71
CHL00071	409	tufA elongation factor Tu	99.71
PRK00049	396	elongation factor Tu; Reviewed	99.71
PLN03126	478	Elongation factor Tu; Provisional	99.71
PRK12735	396	elongation factor Tu; Reviewed	99.71
COG1217	603	TypA Predicted membrane GTPase involved in stress	99.7
cd01885	222	EF2 EF2 (for archaea and eukarya). Translocation r	99.69
COG4108	528	PrfC Peptide chain release factor RF-3 [Translatio	99.69
cd01886	270	EF-G Elongation factor G (EF-G) subfamily. Translo	99.69
KOG0463|consensus	641		99.67
PRK05506	632	bifunctional sulfate adenylyltransferase subunit 1	99.66
KOG0462|consensus	650		99.66
cd04166	208	CysN_ATPS CysN_ATPS subfamily. CysN, together with	99.66
PTZ00327	460	eukaryotic translation initiation factor 2 gamma s	99.66
PRK12317	425	elongation factor 1-alpha; Reviewed	99.66
KOG0461|consensus	522		99.65
cd01883	219	EF1_alpha Eukaryotic elongation factor 1 (EF1) alp	99.65
PRK10512	614	selenocysteinyl-tRNA-specific translation factor;	99.65
COG3276	447	SelB Selenocysteine-specific translation elongatio	99.64
COG0532	509	InfB Translation initiation factor 2 (IF-2; GTPase	99.64
TIGR01394	594	TypA_BipA GTP-binding protein TypA/BipA. This bact	99.63
cd03688	113	eIF2_gamma_II eIF2_gamma_II: this subfamily repres	99.63
PRK00007	693	elongation factor G; Reviewed	99.62
PRK12739	691	elongation factor G; Reviewed	99.6
TIGR00483	426	EF-1_alpha translation elongation factor EF-1 alph	99.6
cd04168	237	TetM_like Tet(M)-like subfamily. Tet(M), Tet(O), T	99.59
PLN00116	843	translation elongation factor EF-2 subunit; Provis	99.59
PTZ00416	836	elongation factor 2; Provisional	99.59
TIGR00475	581	selB selenocysteine-specific elongation factor Sel	99.58
PRK07560	731	elongation factor EF-2; Reviewed	99.57
KOG1145|consensus	683		99.56
cd04169	267	RF3 RF3 subfamily. Peptide chain release factor 3	99.55
KOG0459|consensus	501		99.55
cd04165	224	GTPBP1_like GTPBP1-like. Mammalian GTP binding pro	99.54
KOG0465|consensus	721		99.54
PRK00741	526	prfC peptide chain release factor 3; Provisional	99.53
COG5257	415	GCD11 Translation initiation factor 2, gamma subun	99.53
TIGR00503	527	prfC peptide chain release factor 3. This translat	99.53
PRK10218	607	GTP-binding protein; Provisional	99.51
TIGR00484	689	EF-G translation elongation factor EF-G. After pep	99.51
COG0481	603	LepA Membrane GTPase LepA [Cell envelope biogenesi	99.5
PRK05306	787	infB translation initiation factor IF-2; Validated	99.5
KOG0467|consensus	887		99.5
TIGR03680	406	eif2g_arch translation initiation factor 2 subunit	99.5
cd01888	203	eIF2_gamma eIF2-gamma (gamma subunit of initiation	99.49
KOG0468|consensus	971		99.49
TIGR01394	594	TypA_BipA GTP-binding protein TypA/BipA. This bact	99.48
TIGR00487	587	IF-2 translation initiation factor IF-2. This mode	99.45
PRK05433	600	GTP-binding protein LepA; Provisional	99.45
COG1217	603	TypA Predicted membrane GTPase involved in stress	99.45
cd03692	84	mtIF2_IVc mtIF2_IVc: this family represents the C2	99.44
PRK10218	607	GTP-binding protein; Provisional	99.44
TIGR00490	720	aEF-2 translation elongation factor aEF-2. This mo	99.43
PRK04000	411	translation initiation factor IF-2 subunit gamma;	99.43
COG1159	298	Era GTPase [General function prediction only]	99.42
cd04167	213	Snu114p Snu114p subfamily. Snu114p is one of sever	99.41
TIGR01393	595	lepA GTP-binding protein LepA. LepA (GUF1 in Sacca	99.41
cd04171	164	SelB SelB subfamily. SelB is an elongation factor	99.41
cd01889	192	SelB_euk SelB subfamily. SelB is an elongation fac	99.4
TIGR01393	595	lepA GTP-binding protein LepA. LepA (GUF1 in Sacca	99.4
KOG0464|consensus	753		99.4
cd04170	268	EF-G_bact Elongation factor G (EF-G) subfamily. Tr	99.39
KOG1143|consensus	591		99.38
CHL00189	742	infB translation initiation factor 2; Provisional	99.37
PRK05433	600	GTP-binding protein LepA; Provisional	99.34
PRK12740	668	elongation factor G; Reviewed	99.34
PRK13351	687	elongation factor G; Reviewed	99.32
cd01891	194	TypA_BipA TypA (tyrosine phosphorylated protein A)	99.32
KOG0469|consensus	842		99.31
cd01890	179	LepA LepA subfamily. LepA belongs to the GTPase fa	99.28
KOG0461|consensus	522		99.28
KOG0052|consensus	391		99.25
cd01342	83	Translation_Factor_II_like Translation_Factor_II_l	99.21
TIGR00491	590	aIF-2 translation initiation factor aIF-2/yIF-2. T	99.19
PRK04004	586	translation initiation factor IF-2; Validated	99.18
cd01887	168	IF2_eIF5B IF2/eIF5B (initiation factors 2/ eukaryo	99.18
COG1160	444	Predicted GTPases [General function prediction onl	99.17
PF03144	74	GTP_EFTU_D2: Elongation factor Tu domain 2; InterP	99.17
KOG1144|consensus	1064		99.16
PRK14845	1049	translation initiation factor IF-2; Provisional	99.15
COG5257	415	GCD11 Translation initiation factor 2, gamma subun	99.14
cd00881	189	GTP_translation_factor GTP translation factor fami	99.12
KOG0462|consensus	650		99.09
PF14578	81	GTP_EFTU_D4: Elongation factor Tu domain 4; PDB: 1	99.07
cd01894	157	EngA1 EngA1 subfamily. This CD represents the firs	99.06
PRK15494	339	era GTPase Era; Provisional	98.99
COG0481	603	LepA Membrane GTPase LepA [Cell envelope biogenesi	98.98
TIGR03594	429	GTPase_EngA ribosome-associated GTPase EngA. EngA	98.96
TIGR00436	270	era GTP-binding protein Era. Era is an essential G	98.94
COG5258	527	GTPBP1 GTPase [General function prediction only]	98.93
PRK00093	435	GTP-binding protein Der; Reviewed	98.92
COG2229	187	Predicted GTPase [General function prediction only	98.91
cd01879	158	FeoB Ferrous iron transport protein B (FeoB) subfa	98.9
PRK00093	435	GTP-binding protein Der; Reviewed	98.88
PRK00089	292	era GTPase Era; Reviewed	98.86
TIGR03594	429	GTPase_EngA ribosome-associated GTPase EngA. EngA	98.86
PF01926	116	MMR_HSR1: 50S ribosome-binding GTPase; InterPro: I	98.85
PF02421	156	FeoB_N: Ferrous iron transport protein B; InterPro	98.85
cd03690	85	Tet_II Tet_II: This subfamily represents domain II	98.85
PRK03003	472	GTP-binding protein Der; Reviewed	98.84
KOG0466|consensus	466		98.84
PRK12298	390	obgE GTPase CgtA; Reviewed	98.83
PRK09518	712	bifunctional cytidylate kinase/GTPase Der; Reviewe	98.8
cd01895	174	EngA2 EngA2 subfamily. This CD represents the seco	98.78
TIGR00487	587	IF-2 translation initiation factor IF-2. This mode	98.77
PRK09866	741	hypothetical protein; Provisional	98.76
cd03691	86	BipA_TypA_II BipA_TypA_II: domain II of BipA (also	98.76
TIGR00490	720	aEF-2 translation elongation factor aEF-2. This mo	98.74
cd04092	83	mtEFG2_II_like mtEFG2_C: C-terminus of mitochondri	98.73
PRK07560	731	elongation factor EF-2; Reviewed	98.72
COG1160	444	Predicted GTPases [General function prediction onl	98.71
cd04088	83	EFG_mtEFG_II EFG_mtEFG_II: this subfamily represen	98.69
cd03699	86	lepA_II lepA_II: This subfamily represents the dom	98.68
cd04164	157	trmE TrmE (MnmE, ThdF, MSS1) is a 3-domain protein	98.67
PRK12740	668	elongation factor G; Reviewed	98.65
cd01882	225	BMS1 Bms1. Bms1 is an essential, evolutionarily co	98.64
PRK03003	472	GTP-binding protein Der; Reviewed	98.64
PRK13351	687	elongation factor G; Reviewed	98.64
KOG1143|consensus	591		98.62
cd01864	165	Rab19 Rab19 subfamily. Rab19 proteins are associat	98.6
TIGR03598	179	GTPase_YsxC ribosome biogenesis GTP-binding protei	98.6
cd04160	167	Arfrp1 Arfrp1 subfamily. Arfrp1 (Arf-related prote	98.58
PRK12299	335	obgE GTPase CgtA; Reviewed	98.57
TIGR00450	442	mnmE_trmE_thdF tRNA modification GTPase TrmE. TrmE	98.57
PRK09518	712	bifunctional cytidylate kinase/GTPase Der; Reviewe	98.54
TIGR00231	161	small_GTP small GTP-binding protein domain. This m	98.53
cd01881	176	Obg_like The Obg-like subfamily consists of five w	98.53
PRK05306	787	infB translation initiation factor IF-2; Validated	98.53
TIGR02729	329	Obg_CgtA Obg family GTPase CgtA. This model descri	98.52
cd03689	85	RF3_II RF3_II: this subfamily represents the domai	98.52
cd01897	168	NOG NOG1 is a nucleolar GTP-binding protein presen	98.52
PRK12297	424	obgE GTPase CgtA; Reviewed	98.52
cd01898	170	Obg Obg subfamily. The Obg nucleotide binding prot	98.51
TIGR00437	591	feoB ferrous iron transporter FeoB. FeoB (773 amin	98.5
PRK05291	449	trmE tRNA modification GTPase TrmE; Reviewed	98.5
cd01861	161	Rab6 Rab6 subfamily. Rab6 is involved in microtubu	98.5
cd00880	163	Era_like Era (E. coli Ras-like protein)-like. This	98.49
cd04124	161	RabL2 RabL2 subfamily. RabL2 (Rab-like2) subfamily	98.48
smart00175	164	RAB Rab subfamily of small GTPases. Rab GTPases ar	98.47
cd04091	81	mtEFG1_II_like mtEFG1_C: C-terminus of mitochondri	98.46
PRK09554	772	feoB ferrous iron transport protein B; Reviewed	98.44
cd00154	159	Rab Rab family. Rab GTPases form the largest famil	98.42
COG0486	454	ThdF Predicted GTPase [General function prediction	98.39
PRK00741	526	prfC peptide chain release factor 3; Provisional	98.39
cd04151	158	Arl1 Arl1 subfamily. Arl1 (Arf-like 1) localizes t	98.39
PRK00007	693	elongation factor G; Reviewed	98.38
KOG0463|consensus	641		98.38
COG0218	200	Predicted GTPase [General function prediction only	98.38
cd04163	168	Era Era subfamily. Era (E. coli Ras-like protein)	98.38
KOG1423|consensus	379		98.37
cd00878	158	Arf_Arl Arf (ADP-ribosylation factor)/Arl (Arf-lik	98.37
cd01893	166	Miro1 Miro1 subfamily. Miro (mitochondrial Rho) pr	98.37
cd01878	204	HflX HflX subfamily. A distinct conserved domain w	98.36
cd04113	161	Rab4 Rab4 subfamily. Rab4 has been implicated in n	98.36
TIGR00484	689	EF-G translation elongation factor EF-G. After pep	98.36
PRK12739	691	elongation factor G; Reviewed	98.36
cd01860	163	Rab5_related Rab5-related subfamily. This subfamil	98.36
cd04157	162	Arl6 Arl6 subfamily. Arl6 (Arf-like 6) forms a sub	98.34
PRK12296	500	obgE GTPase CgtA; Reviewed	98.34
TIGR00503	527	prfC peptide chain release factor 3. This translat	98.34
cd04153	174	Arl5_Arl8 Arl5/Arl8 subfamily. Arl5 (Arf-like 5) a	98.33
PRK04004	586	translation initiation factor IF-2; Validated	98.33
cd04105	203	SR_beta Signal recognition particle receptor, beta	98.31
cd04145	164	M_R_Ras_like M-Ras/R-Ras-like subfamily. This subf	98.31
PRK04213	201	GTP-binding protein; Provisional	98.3
cd04114	169	Rab30 Rab30 subfamily. Rab30 appears to be associa	98.29
cd01866	168	Rab2 Rab2 subfamily. Rab2 is localized on cis-Golg	98.28
cd04106	162	Rab23_lke Rab23-like subfamily. Rab23 is a member	98.28
cd04161	167	Arl2l1_Arl13_like Arl2l1/Arl13 subfamily. Arl2l1 (	98.28
cd04115	170	Rab33B_Rab33A Rab33B/Rab33A subfamily. Rab33B is u	98.26
cd04147	198	Ras_dva Ras-dva subfamily. Ras-dva (Ras - dorsal-v	98.26
cd01862	172	Rab7 Rab7 subfamily. Rab7 is a small Rab GTPase th	98.26
TIGR03156	351	GTP_HflX GTP-binding protein HflX. This protein fa	98.26
cd01869	166	Rab1_Ypt1 Rab1/Ypt1 subfamily. Rab1 is found in ev	98.25
cd04154	173	Arl2 Arl2 subfamily. Arl2 (Arf-like 2) GTPases are	98.23
PRK11058	426	GTPase HflX; Provisional	98.23
smart00178	184	SAR Sar1p-like members of the Ras-family of small	98.22
PRK00454	196	engB GTP-binding protein YsxC; Reviewed	98.21
TIGR00491	590	aIF-2 translation initiation factor aIF-2/yIF-2. T	98.2
cd04152	183	Arl4_Arl7 Arl4/Arl7 subfamily. Arl4 (Arf-like 4) i	98.19
cd01863	161	Rab18 Rab18 subfamily. Mammalian Rab18 is implicat	98.19
cd04158	169	ARD1 ARD1 subfamily. ARD1 (ADP-ribosylation factor	98.17
cd04112	191	Rab26 Rab26 subfamily. First identified in rat pan	98.17
cd03700	93	eEF2_snRNP_like_II EF2_snRNP_like_II: this subfami	98.16
cd01852	196	AIG1 AIG1 (avrRpt2-induced gene 1). This represent	98.16
cd04159	159	Arl10_like Arl10-like subfamily. Arl9/Arl10 was id	98.16
cd01867	167	Rab8_Rab10_Rab13_like Rab8/Sec4/Ypt2. Rab8/Sec4/Yp	98.15
COG0480	697	FusA Translation elongation factors (GTPases) [Tra	98.13
PRK15467	158	ethanolamine utilization protein EutP; Provisional	98.12
cd01868	165	Rab11_like Rab11-like. Rab11a, Rab11b, and Rab25 a	98.11
cd04162	164	Arl9_Arfrp2_like Arl9/Arfrp2-like subfamily. Arl9	98.1
cd04149	168	Arf6 Arf6 subfamily. Arf6 (ADP ribosylation factor	98.1
cd04119	168	RJL RJL (RabJ-Like) subfamily. RJLs are found in m	98.09
cd04108	170	Rab36_Rab34 Rab34/Rab36 subfamily. Rab34, found pr	98.08
CHL00189	742	infB translation initiation factor 2; Provisional	98.07
cd04101	164	RabL4 RabL4 (Rab-like4) subfamily. RabL4s are nove	98.07
cd04150	159	Arf1_5_like Arf1-Arf5-like subfamily. This subfami	98.07
cd01876	170	YihA_EngB The YihA (EngB) subfamily. This subfamil	98.05
PRK14845	1049	translation initiation factor IF-2; Provisional	98.05
cd04156	160	ARLTS1 ARLTS1 subfamily. ARLTS1 (Arf-like tumor su	98.04
smart00176	200	RAN Ran (Ras-related nuclear proteins) /TC4 subfam	98.04
cd04120	202	Rab12 Rab12 subfamily. Rab12 was first identified	98.04
smart00177	175	ARF ARF-like small GTPases; ARF, ADP-ribosylation	98.04
cd00882	157	Ras_like_GTPase Ras-like GTPase superfamily. The R	98.03
PTZ00099	176	rab6; Provisional	98.03
TIGR02528	142	EutP ethanolamine utilization protein, EutP. This	98.02
PF00350	168	Dynamin_N: Dynamin family; InterPro: IPR001401 Mem	98.01
cd01865	165	Rab3 Rab3 subfamily. The Rab3 subfamily contains R	98.01
cd04107	201	Rab32_Rab38 Rab38/Rab32 subfamily. Rab32 and Rab38	98.01
cd04110	199	Rab35 Rab35 subfamily. Rab35 is one of several Rab	98.01
cd04123	162	Rab21 Rab21 subfamily. The localization and functi	98.0
cd04140	165	ARHI_like ARHI subfamily. ARHI (A Ras homolog memb	98.0
cd00879	190	Sar1 Sar1 subfamily. Sar1 is an essential componen	97.99
cd00877	166	Ran Ran (Ras-related nuclear proteins) /TC4 subfam	97.99
PTZ00133	182	ADP-ribosylation factor; Provisional	97.99
cd04141	172	Rit_Rin_Ric Rit/Rin/Ric subfamily. Rit (Ras-like p	97.99
COG1084	346	Predicted GTPase [General function prediction only	97.98
PTZ00369	189	Ras-like protein; Provisional	97.98
PF09439	181	SRPRB: Signal recognition particle receptor beta s	97.98
PLN00223	181	ADP-ribosylation factor; Provisional	97.97
cd04090	94	eEF2_II_snRNP Loc2 eEF2_C_snRNP, cd01514/C termina	97.97
cd01850	276	CDC_Septin CDC/Septin. Septins are a conserved fam	97.97
cd04116	170	Rab9 Rab9 subfamily. Rab9 is found in late endosom	97.96
cd04122	166	Rab14 Rab14 subfamily. Rab14 GTPases are localized	97.96
cd04142	198	RRP22 RRP22 subfamily. RRP22 (Ras-related protein	97.95
cd04127	180	Rab27A Rab27a subfamily. The Rab27a subfamily cons	97.95
cd04139	164	RalA_RalB RalA/RalB subfamily. The Ral (Ras-like)	97.94
cd04137	180	RheB Rheb (Ras Homolog Enriched in Brain) subfamil	97.94
PLN03118	211	Rab family protein; Provisional	97.93
cd00157	171	Rho Rho (Ras homology) family. Members of the Rho	97.92
cd04146	165	RERG_RasL11_like RERG/RasL11-like subfamily. RERG	97.92
cd04121	189	Rab40 Rab40 subfamily. This subfamily contains Rab	97.9
cd01874	175	Cdc42 Cdc42 subfamily. Cdc42 is an essential GTPas	97.89
smart00053	240	DYNc Dynamin, GTPase. Large GTPases that mediate v	97.88
cd04136	163	Rap_like Rap-like subfamily. The Rap subfamily con	97.88
smart00174	174	RHO Rho (Ras homology) subfamily of Ras-like small	97.87
PLN03110	216	Rab GTPase; Provisional	97.87
cd04176	163	Rap2 Rap2 subgroup. The Rap2 subgroup is part of t	97.86
cd04118	193	Rab24 Rab24 subfamily. Rab24 is distinct from othe	97.86
cd04175	164	Rap1 Rap1 subgroup. The Rap1 subgroup is part of t	97.85
cd04132	187	Rho4_like Rho4-like subfamily. Rho4 is a GTPase th	97.85
smart00173	164	RAS Ras subfamily of RAS small GTPases. Similar in	97.84
cd00876	160	Ras Ras family. The Ras family of the Ras superfam	97.83
KOG1191|consensus	531		97.83
cd04138	162	H_N_K_Ras_like H-Ras/N-Ras/K-Ras subfamily. H-Ras,	97.83
cd04109	215	Rab28 Rab28 subfamily. First identified in maize,	97.8
cd04144	190	Ras2 Ras2 subfamily. The Ras2 subfamily, found exc	97.8
cd01857	141	HSR1_MMR1 HSR1/MMR1. Human HSR1, is localized to t	97.79
cd04155	173	Arl3 Arl3 subfamily. Arl3 (Arf-like 3) is an Arf f	97.76
cd01871	174	Rac1_like Rac1-like subfamily. The Rac1-like subfa	97.76
cd04125	188	RabA_like RabA-like subfamily. RabA was first iden	97.75
cd04126	220	Rab20 Rab20 subfamily. Rab20 is one of several Rab	97.75
PLN03071	219	GTP-binding nuclear protein Ran; Provisional	97.74
cd04177	168	RSR1 RSR1 subgroup. RSR1/Bud1p is a member of the	97.73
cd01892	169	Miro2 Miro2 subfamily. Miro (mitochondrial Rho) pr	97.73
cd04111	211	Rab39 Rab39 subfamily. Found in eukaryotes, Rab39	97.73
cd04130	173	Wrch_1 Wrch-1 subfamily. Wrch-1 (Wnt-1 responsive	97.72
cd04135	174	Tc10 TC10 subfamily. TC10 is a Rho family protein	97.71
cd04143	247	Rhes_like Rhes_like subfamily. This subfamily incl	97.7
KOG0466|consensus	466		97.69
cd01870	175	RhoA_like RhoA-like subfamily. The RhoA subfamily	97.62
PLN03108	210	Rab family protein; Provisional	97.59
cd04148	221	RGK RGK subfamily. The RGK (Rem, Rem2, Rad, Gem/Ki	97.57
PF08477	119	Miro: Miro-like protein; InterPro: IPR013684 Mitoc	97.56
cd04128	182	Spg1 Spg1p. Spg1p (septum-promoting GTPase) was fi	97.54
PRK13768	253	GTPase; Provisional	97.52
cd04133	176	Rop_like Rop subfamily. The Rop (Rho-related prote	97.5
cd04117	161	Rab15 Rab15 subfamily. Rab15 colocalizes with the	97.48
cd04134	189	Rho3 Rho3 subfamily. Rho3 is a member of the Rho f	97.47
PF10662	143	PduV-EutP: Ethanolamine utilisation - propanediol	97.47
cd04131	178	Rnd Rnd subfamily. The Rnd subfamily contains Rnd1	97.45
cd03110	179	Fer4_NifH_child This protein family's function is	97.42
COG0532	509	InfB Translation initiation factor 2 (IF-2; GTPase	97.37
cd01875	191	RhoG RhoG subfamily. RhoG is a GTPase with high se	97.35
cd03702	95	IF2_mtIF2_II This family represents the domain II	97.33
cd04173	222	Rnd2_Rho7 Rnd2/Rho7 subfamily. Rnd2/Rho7 is a memb	97.31
cd04172	182	Rnd3_RhoE_Rho8 Rnd3/RhoE/Rho8 subfamily. Rnd3/RhoE	97.3
PRK09563	287	rbgA GTPase YlqF; Reviewed	97.3
cd04174	232	Rnd1_Rho6 Rnd1/Rho6 subfamily. Rnd1/Rho6 is a memb	97.3
cd04102	202	RabL3 RabL3 (Rab-like3) subfamily. RabL3s are nove	97.29
PLN00116	843	translation elongation factor EF-2 subunit; Provis	97.28
cd04104	197	p47_IIGP_like p47 (47-kDa) family. The p47 GTPase	97.28
COG0370	653	FeoB Fe2+ transport system protein B [Inorganic io	97.26
cd01853	249	Toc34_like Toc34-like (Translocon at the Outer-env	97.18
PLN00023	334	GTP-binding protein; Provisional	97.12
PF00025	175	Arf: ADP-ribosylation factor family The prints ent	97.1
cd01896	233	DRG The developmentally regulated GTP-binding prot	97.09
PTZ00416	836	elongation factor 2; Provisional	97.02
COG1100	219	GTPase SAR1 and related small G proteins [General	97.02
KOG0090|consensus	238		97.01
COG4108	528	PrfC Peptide chain release factor RF-3 [Translatio	96.84
PTZ00132	215	GTP-binding nuclear protein Ran; Provisional	96.83
COG3640	255	CooC CO dehydrogenase maturation factor [Cell divi	96.82
PF00071	162	Ras: Ras family; InterPro: IPR001806 Small GTPases	96.79
cd03111	106	CpaE_like This protein family consists of proteins	96.7
cd04129	187	Rho2 Rho2 subfamily. Rho2 is a fungal GTPase that	96.69
cd03701	95	IF2_IF5B_II IF2_IF5B_II: This family represents th	96.65
cd03703	110	aeIF5B_II aeIF5B_II: This family represents the do	96.59
TIGR02836	492	spore_IV_A stage IV sporulation protein A. A compa	96.58
TIGR00991	313	3a0901s02IAP34 GTP-binding protein (Chloroplast En	96.56
KOG0465|consensus	721		96.53
cd01873	195	RhoBTB RhoBTB subfamily. Members of the RhoBTB sub	96.52
cd00066	317	G-alpha G protein alpha subunit. The alpha subunit	96.45
COG2262	411	HflX GTPases [General function prediction only]	96.43
cd02036	179	MinD Bacterial cell division requires the formatio	96.38
KOG0052|consensus	391		96.29
smart00275	342	G_alpha G protein alpha subunit. Subunit of G prot	96.24
PF04670	232	Gtr1_RagA: Gtr1/RagA G protein conserved region; I	96.24
COG3596	296	Predicted GTPase [General function prediction only	96.21
KOG1954|consensus	532		96.19
KOG0078|consensus	207		96.18
cd02037	169	MRP-like MRP (Multiple Resistance and pH adaptatio	96.14
KOG0092|consensus	200		96.12
KOG0084|consensus	205		96.0
KOG0073|consensus	185		95.99
cd01855	190	YqeH YqeH. YqeH is an essential GTP-binding protei	95.99
COG1149	284	MinD superfamily P-loop ATPase containing an inser	95.94
PF06858	58	NOG1: Nucleolar GTP-binding protein 1 (NOG1); Inte	95.88
KOG0075|consensus	186		95.8
PF03029	238	ATP_bind_1: Conserved hypothetical ATP binding pro	95.74
cd02038	139	FleN-like FleN is a member of the Fer4_NifH superf	95.72
PF04548	212	AIG1: AIG1 family; InterPro: IPR006703 This entry	95.71
TIGR01007	204	eps_fam capsular exopolysaccharide family. This mo	95.69
KOG1144|consensus	1064		95.69
PTZ00258	390	GTP-binding protein; Provisional	95.46
KOG0094|consensus	221		95.4
TIGR01969	251	minD_arch cell division ATPase MinD, archaeal. Thi	95.37
cd04103	158	Centaurin_gamma Centaurin gamma. The centaurins (a	95.3
COG5192	1077	BMS1 GTP-binding protein required for 40S ribosome	95.26
PHA02518	211	ParA-like protein; Provisional	95.23
COG1163	365	DRG Predicted GTPase [General function prediction	95.23
cd03112	158	CobW_like The function of this protein family is u	95.22
KOG0469|consensus	842		95.16
TIGR01968	261	minD_bact septum site-determining protein MinD. Th	95.13
cd01900	274	YchF YchF subfamily. YchF is a member of the Obg f	95.12
KOG1489|consensus	366		95.07
cd02035	217	ArsA ArsA ATPase functionas as an efflux pump loca	94.99
CHL00175	281	minD septum-site determining protein; Validated	94.98
KOG0087|consensus	222		94.98
PRK09601	364	GTP-binding protein YchF; Reviewed	94.91
cd03115	173	SRP The signal recognition particle (SRP) mediates	94.82
cd01856	171	YlqF YlqF. Proteins of the YlqF family contain all	94.78
KOG0070|consensus	181		94.69
PRK01889	356	GTPase RsgA; Reviewed	94.43
KOG0093|consensus	193		94.39
KOG2484|consensus	435		94.33
KOG1486|consensus	364		94.26
PRK12289	352	GTPase RsgA; Reviewed	94.18
cd03114	148	ArgK-like The function of this protein family is u	94.16
KOG1532|consensus	366		94.1
COG4917	148	EutP Ethanolamine utilization protein [Amino acid	94.09
KOG0098|consensus	216		94.09
KOG0395|consensus	196		94.03
KOG0076|consensus	197		93.99
TIGR01425	429	SRP54_euk signal recognition particle protein SRP5	93.78
TIGR00064	272	ftsY signal recognition particle-docking protein F	93.76
PF01656	195	CbiA: CobQ/CobB/MinD/ParA nucleotide binding domai	93.76
cd01854	287	YjeQ_engC YjeQ/EngC. YjeQ (YloQ in Bacillus subtil	93.68
PRK00098	298	GTPase RsgA; Reviewed	93.61
PRK13849	231	putative crown gall tumor protein VirC1; Provision	93.6
cd01859	156	MJ1464 MJ1464. This family represents archaeal GTP	93.11
cd02032	267	Bchl_like This family of proteins contains bchL an	93.07
KOG2486|consensus	320		93.01
KOG0082|consensus	354		92.68
KOG0095|consensus	213		92.41
TIGR03596	276	GTPase_YlqF ribosome biogenesis GTP-binding protei	92.06
PRK09435	332	membrane ATPase/protein kinase; Provisional	92.0
smart00785	83	AARP2CN AARP2CN (NUC121) domain. This domain is th	91.96
PRK10416	318	signal recognition particle-docking protein FtsY;	91.81
PF08142	85	AARP2CN: AARP2CN (NUC121) domain; InterPro: IPR012	91.65
PF00448	196	SRP54: SRP54-type protein, GTPase domain; InterPro	91.61
KOG0394|consensus	210		91.56
TIGR00157	245	ribosome small subunit-dependent GTPase A. The Aqu	91.42
TIGR03815	322	CpaE_hom_Actino helicase/secretion neighborhood Cp	91.39
TIGR00750	300	lao LAO/AO transport system ATPase. Mutations have	91.38
KOG0080|consensus	209		90.99
KOG1424|consensus	562		90.86
TIGR03029	274	EpsG chain length determinant protein tyrosine kin	90.8
KOG0077|consensus	193		90.78
cd02042	104	ParA ParA and ParB of Caulobacter crescentus belon	90.74
TIGR03597	360	GTPase_YqeH ribosome biogenesis GTPase YqeH. This	90.28
PRK10818	270	cell division inhibitor MinD; Provisional	90.23
KOG2423|consensus	572		90.22
PRK13185	270	chlL protochlorophyllide reductase iron-sulfur ATP	90.14
PRK00771	437	signal recognition particle protein Srp54; Provisi	90.11
cd01899	318	Ygr210 Ygr210 subfamily. Ygr210 is a member of Obg	90.02
PRK14722	374	flhF flagellar biosynthesis regulator FlhF; Provis	90.01
KOG0448|consensus	749		89.95
KOG0079|consensus	198		89.82
KOG1490|consensus	620		89.75
PRK14974	336	cell division protein FtsY; Provisional	89.72
TIGR00993	763	3a0901s04IAP86 chloroplast protein import componen	89.7
CHL00072	290	chlL photochlorophyllide reductase subunit L	89.5
KOG1145|consensus	683		89.43
PRK09602	396	translation-associated GTPase; Reviewed	89.34
COG1161	322	Predicted GTPases [General function prediction onl	89.28
PRK10037	250	cell division protein; Provisional	89.24
TIGR01281	268	DPOR_bchL light-independent protochlorophyllide re	89.23
cd02117	212	NifH_like This family contains the NifH (iron prot	89.02
PF00503	389	G-alpha: G-protein alpha subunit; InterPro: IPR001	88.98
COG0455	262	flhG Antiactivator of flagellar biosynthesis FleN,	88.46
PRK13796	365	GTPase YqeH; Provisional	87.91
PRK11670	369	antiporter inner membrane protein; Provisional	87.79
TIGR01005	754	eps_transp_fam exopolysaccharide transport protein	87.07
KOG0083|consensus	192		86.2
TIGR03371	246	cellulose_yhjQ cellulose synthase operon protein Y	85.87
PF10609	81	ParA: ParA/MinD ATPase like; InterPro: IPR019591 T	85.86
COG0536	369	Obg Predicted GTPase [General function prediction	85.29
PF00735	281	Septin: Septin; InterPro: IPR000038 Septins consti	85.24
KOG0086|consensus	214		84.74
PRK09841	726	cryptic autophosphorylating protein tyrosine kinas	84.43
TIGR00959	428	ffh signal recognition particle protein. This mode	84.4
cd02040	270	NifH NifH gene encodes component II (iron protein)	84.25
PRK10867	433	signal recognition particle protein; Provisional	84.0
PRK00090	222	bioD dithiobiotin synthetase; Reviewed	83.55
TIGR00347	166	bioD dethiobiotin synthase. Dethiobiotin synthase	82.96
PRK12727	559	flagellar biosynthesis regulator FlhF; Provisional	82.92
KOG2485|consensus	335		82.64
cd00550	254	ArsA_ATPase Oxyanion-translocating ATPase (ArsA).	82.08
KOG0088|consensus	218		81.93
KOG0074|consensus	185		81.88
PRK11519	719	tyrosine kinase; Provisional	80.79
TIGR03018	207	pepcterm_TyrKin exopolysaccharide/PEPCTERM locus t	80.68
PRK12726	407	flagellar biosynthesis regulator FlhF; Provisional	80.65

>KOG0460|consensus

Probab=99.93  E-value=1.2e-26  Score=186.00  Aligned_cols=133  Identities=58%  Similarity=0.917  Sum_probs=119.3

Q ss_pred             hHHHHHhhhCCCCCCCCCCCeeEEEeeEEeecCCcEEEEEEEEEEEEecCCEEEEeecCceeeEEEEEEEecceecceec
Q psy9646           2 ELLNQIDTYIPQPVRDLDKPFYLPVEHTYSIPGRGTVVTGRLERGIVKKGMECEFTGYGRQFKTTVTGIEMFHKILDEAQ   81 (211)
Q Consensus         2 ~ll~~l~~~i~~p~~~~~~p~~~~v~~~~~~~~~G~v~~G~v~~G~i~~g~~v~i~p~~~~~~~~v~~i~~~~~~~~~a~   81 (211)
                      .|||++|+++|.|.|+.+.||.|||.++|.++|+|||++|+++.|.+|+||++.+...++..+..|+.||+|++.+++|.
T Consensus       235 kLldavDsyip~P~R~~~~pFl~pie~vfsI~GRGTVvtGrlERG~lKkG~e~eivG~~~~lkttvtgiemF~K~ld~a~  314 (449)
T KOG0460|consen  235 KLLDAVDSYIPTPERDLDKPFLLPIEDVFSIPGRGTVVTGRLERGVLKKGDEVEIVGHNKTLKTTVTGIEMFRKSLDEAQ  314 (449)
T ss_pred             HHHHHHhccCCCcccccCCCceeehhheeeecCCceEEEEEEeecccccCCEEEEeccCcceeeEeehHHHHHHHHHhcc
Confidence            69999999999999999999999999999999999999999999999999999998888778999999999999999999


Q ss_pred             ccCceehhccCCCcccccccccccccchhhhhhhhcccccccccchhhcccceEE
Q psy9646          82 AGDQLGALVKGMKRDEVNRGLIMAKPVLADKKLAKVKQYADIDNAPEEKARGITI  136 (211)
Q Consensus        82 ~G~~v~~~l~~~~~~~v~~G~ii~~~~~~~~~~~~f~~~i~~~~~~~e~~rg~tv  136 (211)
                      |||++++++++++.++++||++++.+.. .....+|++.+++.+ +.|-+|...+
T Consensus       315 AGDn~G~LlRGik~~dvkRGmvl~~pGs-vk~~~k~ea~~YiLs-k~EGGR~~pf  367 (449)
T KOG0460|consen  315 AGDNLGALLRGIKREDVKRGMVLAKPGS-VKPHNKFEAQLYILS-KEEGGRHKPF  367 (449)
T ss_pred             cccceehhhhcCCHHHHhcccEEecCCc-ccccceeeEEEEEEE-hhhCCCccch
Confidence            9999999999999999999999998875 555677887775543 4556665443

>PLN00043 elongation factor 1-alpha; Provisional

Probab=99.91  E-value=5.4e-24  Score=182.71  Aligned_cols=140  Identities=34%  Similarity=0.503  Sum_probs=126.8

Q ss_pred             hHHHHHhhhCCCCCCCCCCCeeEEEeeEEeecCCcEEEEEEEEEEEEecCCEEEEeecCceeeEEEEEEEecceecceec
Q psy9646           2 ELLNQIDTYIPQPVRDLDKPFYLPVEHTYSIPGRGTVVTGRLERGIVKKGMECEFTGYGRQFKTTVTGIEMFHKILDEAQ   81 (211)
Q Consensus         2 ~ll~~l~~~i~~p~~~~~~p~~~~v~~~~~~~~~G~v~~G~v~~G~i~~g~~v~i~p~~~~~~~~v~~i~~~~~~~~~a~   81 (211)
                      +|+++|++ +++|.+..++||||||+++|++++.|++++|+|++|.+++||+|.++|++.  .++|++|+++++++++|.
T Consensus       215 tLl~~l~~-i~~p~~~~~~plr~~I~~v~~~~g~G~vv~G~V~~G~l~~Gd~v~~~P~~~--~~~VksI~~~~~~v~~a~  291 (447)
T PLN00043        215 TLLEALDQ-INEPKRPSDKPLRLPLQDVYKIGGIGTVPVGRVETGVIKPGMVVTFGPTGL--TTEVKSVEMHHESLQEAL  291 (447)
T ss_pred             HHHHHHhh-cCCCccccCCCcEEEEEEEEEeCCcEEEEEEEEECCEEeeCCEEEEcCCCC--EEEEEEEEECCeEeCEec
Confidence            58999998 778889999999999999999999999999999999999999999999975  899999999999999999


Q ss_pred             ccCceehhccCCCccccccccccccc-chhhhhhhhcccccccccchhhcccceEEeEeEEEee
Q psy9646          82 AGDQLGALVKGMKRDEVNRGLIMAKP-VLADKKLAKVKQYADIDNAPEEKARGITINVAHVEYA  144 (211)
Q Consensus        82 ~G~~v~~~l~~~~~~~v~~G~ii~~~-~~~~~~~~~f~~~i~~~~~~~e~~rg~tv~~~~~~~~  144 (211)
                      |||+|+++|++++..+++||+++++. ..++.....|.+.+....++....+||+..+++++..
T Consensus       292 aGd~v~i~l~~~~~~~i~rG~vl~~~~~~p~~~~~~F~A~i~~l~~~~~i~~gy~~~~~~~t~~  355 (447)
T PLN00043        292 PGDNVGFNVKNVAVKDLKRGYVASNSKDDPAKEAANFTSQVIIMNHPGQIGNGYAPVLDCHTSH  355 (447)
T ss_pred             CCCeEEEEECCCCHhhCCCccEEccCCCCCCccccEEEEEEEEECCCCCCCCCCeEEEEEccCE
Confidence            99999999999988999999999986 4555678889999987788999999998776655544

>COG5256 TEF1 Translation elongation factor EF-1alpha (GTPase) [Translation, ribosomal structure and biogenesis]

Probab=99.91  E-value=4.8e-24  Score=175.58  Aligned_cols=180  Identities=27%  Similarity=0.390  Sum_probs=148.8

Q ss_pred             hHHHHHhhhCCCCCCCCCCCeeEEEeeEEeecCCcEEEEEEEEEEEEecCCEEEEeecCceeeEEEEEEEecceecceec
Q psy9646           2 ELLNQIDTYIPQPVRDLDKPFYLPVEHTYSIPGRGTVVTGRLERGIVKKGMECEFTGYGRQFKTTVTGIEMFHKILDEAQ   81 (211)
Q Consensus         2 ~ll~~l~~~i~~p~~~~~~p~~~~v~~~~~~~~~G~v~~G~v~~G~i~~g~~v~i~p~~~~~~~~v~~i~~~~~~~~~a~   81 (211)
                      +||++||. +++|.+..|+||||||+++|.+.+.|++..|||++|.+++||+|.++|++.  ...|+||++++++.++|.
T Consensus       213 TLleaLd~-~~~p~~~~d~Plr~pI~~v~~i~~~gtv~vGrVEsG~i~~g~~v~~~p~~~--~~evksie~~~~~~~~a~  289 (428)
T COG5256         213 TLLEALDQ-LEPPERPLDKPLRLPIQDVYSISGIGTVPVGRVESGVIKPGQKVTFMPAGV--VGEVKSIEMHHEEISQAE  289 (428)
T ss_pred             hHHHHHhc-cCCCCCCCCCCeEeEeeeEEEecCCceEEEEEEeeeeeccCCEEEEecCcc--eEEEeeeeecccccccCC
Confidence            69999997 788999999999999999999999999999999999999999999999974  899999999999999999


Q ss_pred             ccCceehhccCCCcccccccccccccchhhhhhhhcccccccccchhhcccceEEeEeEEEeeeCCc---eeEeecCCcc
Q psy9646          82 AGDQLGALVKGMKRDEVNRGLIMAKPVLADKKLAKVKQYADIDNAPEEKARGITINVAHVEYATENR---HYSHTDCPGH  158 (211)
Q Consensus        82 ~G~~v~~~l~~~~~~~v~~G~ii~~~~~~~~~~~~f~~~i~~~~~~~e~~rg~tv~~~~~~~~~~~~---~~~~iDtPG~  158 (211)
                      +||++++++++++.+|+++|+++.+...++..+..|.+.+....++.....|||..++.++....-.   -+.++|. +-
T Consensus       290 ~GD~i~~~vrgv~~~dI~~Gdv~~~~~n~~t~s~~f~a~i~vl~~p~~i~~Gyt~vlh~hta~~a~~~~~l~~k~d~-~t  368 (428)
T COG5256         290 PGDNVGFNVRGVEKNDIRRGDVIGHSDNPPTVSPEFTAQIIVLWHPGIITSGYTPVLHAHTAQVACRIAELLSKLDP-RT  368 (428)
T ss_pred             CCCeEEEEecCCchhccCCccEeccCCCCcccccceEEEEEEEecCccccCCCccEEEecccceeeeHHHHHHhhCc-cc
Confidence            9999999999999999999999999888888778999999999999999999999988776554321   1223443 11


Q ss_pred             cccHhHHhhhccccceEEEEEeccCCC
Q psy9646         159 ADYIKNMITGTSQMDGAILVVAATDGA  185 (211)
Q Consensus       159 ~~~~~~~~~~~~~~d~~~~vvd~~~~~  185 (211)
                      .+-..+--.-+...|.++..+.....+
T Consensus       369 ~k~~~~~p~f~k~g~~~iv~i~~~kP~  395 (428)
T COG5256         369 GKKLEENPQFLKRGDAAIVKIEPEKPL  395 (428)
T ss_pred             ccccccChhhhhcCceEEEEEEecCce
Confidence            111112223345567777777765444

>PRK12735 elongation factor Tu; Reviewed

Probab=99.90  E-value=2.6e-23  Score=176.58  Aligned_cols=143  Identities=46%  Similarity=0.732  Sum_probs=124.1

Q ss_pred             hHHHHHhhhCCCCCCCCCCCeeEEEeeEEeecCCcEEEEEEEEEEEEecCCEEEEeecCceeeEEEEEEEecceecceec
Q psy9646           2 ELLNQIDTYIPQPVRDLDKPFYLPVEHTYSIPGRGTVVTGRLERGIVKKGMECEFTGYGRQFKTTVTGIEMFHKILDEAQ   81 (211)
Q Consensus         2 ~ll~~l~~~i~~p~~~~~~p~~~~v~~~~~~~~~G~v~~G~v~~G~i~~g~~v~i~p~~~~~~~~v~~i~~~~~~~~~a~   81 (211)
                      +|+++|++.+|+|.+..++||||+|+++|++++.|++++|+|++|.+++||++.++|.+.+.+++|++|+++++++++|.
T Consensus       193 ~Ll~~l~~~~~~p~~~~~~p~r~~I~~~f~v~g~Gtvv~G~v~~G~i~~gd~v~i~p~~~~~~~~VksI~~~~~~v~~a~  272 (396)
T PRK12735        193 ELMDAVDSYIPEPERAIDKPFLMPIEDVFSISGRGTVVTGRVERGIVKVGDEVEIVGIKETQKTTVTGVEMFRKLLDEGQ  272 (396)
T ss_pred             HHHHHHHhcCCCCCccCCCCeEEEEEEEEecCCceEEEEEEEEecEEeCCCEEEEecCCCCeEEEEEEEEECCeEeCEEC
Confidence            68999999888788889999999999999999999999999999999999999999975446899999999999999999


Q ss_pred             ccCceehhccCCCcccccccccccccchhhhhhhhcccccccccc-----hhhcccceEEeEeEEEeee
Q psy9646          82 AGDQLGALVKGMKRDEVNRGLIMAKPVLADKKLAKVKQYADIDNA-----PEEKARGITINVAHVEYAT  145 (211)
Q Consensus        82 ~G~~v~~~l~~~~~~~v~~G~ii~~~~~~~~~~~~f~~~i~~~~~-----~~e~~rg~tv~~~~~~~~~  145 (211)
                      |||+++++|++++..++++|++++++.. ......|.+.+....+     +....+|++..+++++...
T Consensus       273 aGd~v~l~L~~i~~~~i~rG~vl~~~~~-~~~~~~f~a~i~vl~~~~~~~~~~i~~g~~~~l~~~t~~~  340 (396)
T PRK12735        273 AGDNVGVLLRGTKREDVERGQVLAKPGS-IKPHTKFEAEVYVLSKEEGGRHTPFFNGYRPQFYFRTTDV  340 (396)
T ss_pred             CCCEEEEEeCCCcHHHCCcceEEEcCCC-CCcceEEEEEEEEEecccCCCCCcccCCCeeEEEeccceE
Confidence            9999999999999999999999998753 3446778888876655     3456678888777666653

>PRK00049 elongation factor Tu; Reviewed

Probab=99.90  E-value=4.3e-23  Score=175.17  Aligned_cols=143  Identities=45%  Similarity=0.733  Sum_probs=123.8

Q ss_pred             hHHHHHhhhCCCCCCCCCCCeeEEEeeEEeecCCcEEEEEEEEEEEEecCCEEEEeecCceeeEEEEEEEecceecceec
Q psy9646           2 ELLNQIDTYIPQPVRDLDKPFYLPVEHTYSIPGRGTVVTGRLERGIVKKGMECEFTGYGRQFKTTVTGIEMFHKILDEAQ   81 (211)
Q Consensus         2 ~ll~~l~~~i~~p~~~~~~p~~~~v~~~~~~~~~G~v~~G~v~~G~i~~g~~v~i~p~~~~~~~~v~~i~~~~~~~~~a~   81 (211)
                      +|+++|++.++.|.+..++||||+|+++|++++.|++++|+|++|.+++||++.++|.+.+..++|+||+++++++++|.
T Consensus       193 ~ll~~l~~~~~~p~~~~~~p~r~~I~~~f~v~g~G~Vv~G~v~~G~i~~gd~v~i~p~~~~~~~~VksI~~~~~~~~~a~  272 (396)
T PRK00049        193 ELMDAVDSYIPTPERAIDKPFLMPIEDVFSISGRGTVVTGRVERGIIKVGEEVEIVGIRDTQKTTVTGVEMFRKLLDEGQ  272 (396)
T ss_pred             HHHHHHHhcCCCCCCCCCCCeEEEEEEEEeeCCceEEEEEEEeeeEEecCCEEEEeecCCCceEEEEEEEECCcEeCEEc
Confidence            68999999888788889999999999999999999999999999999999999999874345899999999999999999


Q ss_pred             ccCceehhccCCCcccccccccccccchhhhhhhhcccccccccc-----hhhcccceEEeEeEEEeee
Q psy9646          82 AGDQLGALVKGMKRDEVNRGLIMAKPVLADKKLAKVKQYADIDNA-----PEEKARGITINVAHVEYAT  145 (211)
Q Consensus        82 ~G~~v~~~l~~~~~~~v~~G~ii~~~~~~~~~~~~f~~~i~~~~~-----~~e~~rg~tv~~~~~~~~~  145 (211)
                      +||+|+++|++++..++++|++++++.. ......|.+.+....+     +.....|++..+++++...
T Consensus       273 ~Gd~v~l~l~~i~~~~i~~G~vl~~~~~-~~~~~~f~a~i~vl~~~~~g~~~~i~~g~~~~~~~~t~~~  340 (396)
T PRK00049        273 AGDNVGALLRGIKREDVERGQVLAKPGS-ITPHTKFEAEVYVLSKEEGGRHTPFFNGYRPQFYFRTTDV  340 (396)
T ss_pred             CCCEEEEEeCCCCHHHCCcceEEecCCC-CCcceEEEEEEEEEecCcCCCCCcccCCCEEEEEEecCcE
Confidence            9999999999998899999999998753 3345778888776655     4566778888777666553

>COG0050 TufB GTPases - translation elongation factors [Translation, ribosomal structure and biogenesis]

Probab=99.90  E-value=3.2e-24  Score=169.30  Aligned_cols=134  Identities=51%  Similarity=0.839  Sum_probs=115.4

Q ss_pred             ChHHHHHhhhCCCCCCCCCCCeeEEEeeEEeecCCcEEEEEEEEEEEEecCCEEEEeecCceeeEEEEEEEecceeccee
Q psy9646           1 MELLNQIDTYIPQPVRDLDKPFYLPVEHTYSIPGRGTVVTGRLERGIVKKGMECEFTGYGRQFKTTVTGIEMFHKILDEA   80 (211)
Q Consensus         1 ~~ll~~l~~~i~~p~~~~~~p~~~~v~~~~~~~~~G~v~~G~v~~G~i~~g~~v~i~p~~~~~~~~v~~i~~~~~~~~~a   80 (211)
                      .+|++++++++|.|.|+.++||+|||.++|++.++|++++|+|+.|.+++|+.+.+...++..++.+.+++++++..+++
T Consensus       190 ~eLm~avd~yip~Per~~dkPflmpvEdvfsIsgrgtvvtGrVeRG~lkvg~eveivG~~~~~kttvtgvemfrk~ld~~  269 (394)
T COG0050         190 EELMDAVDSYIPTPERDIDKPFLMPVEDVFSISGRGTVVTGRVERGILKVGEEVEIVGIKETQKTTVTGVEMFRKLLDEG  269 (394)
T ss_pred             HHHHHHHHhcCCCCCCcccccccccceeeEEEcCceeEEEEEEeeeeeccCCEEEEecccccceeEEEhHHHHHHHHhcc
Confidence            37999999999999999999999999999999999999999999999999999999766555688999999999999999


Q ss_pred             cccCceehhccCCCcccccccccccccchhhhhhhhcccccccccchhhcccceEE
Q psy9646          81 QAGDQLGALVKGMKRDEVNRGLIMAKPVLADKKLAKVKQYADIDNAPEEKARGITI  136 (211)
Q Consensus        81 ~~G~~v~~~l~~~~~~~v~~G~ii~~~~~~~~~~~~f~~~i~~~~~~~e~~rg~tv  136 (211)
                      .|||++++.|++..+.++.||++++.+.. ....++|.+.++.. .+.|.+|...+
T Consensus       270 ~AGdnvg~llRg~~r~~veRGqvLakpgs-i~ph~kfeaevyvL-~keeggrhtpf  323 (394)
T COG0050         270 QAGDNVGVLLRGVKREDVERGQVLAKPGS-IKPHTKFEAEVYVL-SKEEGGRHTPF  323 (394)
T ss_pred             ccCCCcceEEEeccccceecceEeecCCc-ccccceeeEEEEEE-ecccCCCCCCc
Confidence            99999999999999999999999998753 33346677766543 34555555433

>PRK12317 elongation factor 1-alpha; Reviewed

Probab=99.90  E-value=3.9e-23  Score=177.21  Aligned_cols=141  Identities=29%  Similarity=0.467  Sum_probs=126.0

Q ss_pred             hHHHHHhhhCCCCCCCCCCCeeEEEeeEEeecCCcEEEEEEEEEEEEecCCEEEEeecCceeeEEEEEEEecceecceec
Q psy9646           2 ELLNQIDTYIPQPVRDLDKPFYLPVEHTYSIPGRGTVVTGRLERGIVKKGMECEFTGYGRQFKTTVTGIEMFHKILDEAQ   81 (211)
Q Consensus         2 ~ll~~l~~~i~~p~~~~~~p~~~~v~~~~~~~~~G~v~~G~v~~G~i~~g~~v~i~p~~~~~~~~v~~i~~~~~~~~~a~   81 (211)
                      +|+++|++ +++|.+..++||||+|+++|++++.|++++|+|++|.+++||+|.++|++.  .++|++|+.+++++++|.
T Consensus       207 ~L~~~l~~-~~~~~~~~~~p~r~~i~~~~~~~g~G~vv~G~v~~G~v~~Gd~v~i~P~~~--~~~VksI~~~~~~~~~a~  283 (425)
T PRK12317        207 TLLEALDN-LKPPEKPTDKPLRIPIQDVYSISGVGTVPVGRVETGVLKVGDKVVFMPAGV--VGEVKSIEMHHEELPQAE  283 (425)
T ss_pred             HHHHHHhc-CCCCccccCCCcEEEEEEEEeeCCCeEEEEEEEeeccEecCCEEEECCCCC--eEEEEEEEECCcccCEEC
Confidence            58999988 788888889999999999999999999999999999999999999999975  899999999999999999


Q ss_pred             ccCceehhccCCCcccccccccccccchhhhhhhhcccccccccchhhcccceEEeEeEEEeee
Q psy9646          82 AGDQLGALVKGMKRDEVNRGLIMAKPVLADKKLAKVKQYADIDNAPEEKARGITINVAHVEYAT  145 (211)
Q Consensus        82 ~G~~v~~~l~~~~~~~v~~G~ii~~~~~~~~~~~~f~~~i~~~~~~~e~~rg~tv~~~~~~~~~  145 (211)
                      |||+|+++|++++..++++|++++.+..++..+..|.+.+....++.....|++..++.++...
T Consensus       284 aG~~v~i~l~~~~~~~i~rG~vl~~~~~~~~~~~~f~a~v~~l~~~~~i~~G~~~~~~~~t~~~  347 (425)
T PRK12317        284 PGDNIGFNVRGVGKKDIKRGDVCGHPDNPPTVAEEFTAQIVVLQHPSAITVGYTPVFHAHTAQV  347 (425)
T ss_pred             CCCeEEEEECCCCHHHccCccEecCCCCCCCcccEEEEEEEEECCCCcCCCCCeEEEEEcCcEE
Confidence            9999999999999999999999998776666778899888777777777888887776655443

>PLN03126 Elongation factor Tu; Provisional

Probab=99.90  E-value=6.3e-23  Score=176.97  Aligned_cols=152  Identities=38%  Similarity=0.598  Sum_probs=128.9

Q ss_pred             hHHHHHhhhCCCCCCCCCCCeeEEEeeEEeecCCcEEEEEEEEEEEEecCCEEEEeecCceeeEEEEEEEecceecceec
Q psy9646           2 ELLNQIDTYIPQPVRDLDKPFYLPVEHTYSIPGRGTVVTGRLERGIVKKGMECEFTGYGRQFKTTVTGIEMFHKILDEAQ   81 (211)
Q Consensus         2 ~ll~~l~~~i~~p~~~~~~p~~~~v~~~~~~~~~G~v~~G~v~~G~i~~g~~v~i~p~~~~~~~~v~~i~~~~~~~~~a~   81 (211)
                      +|+++|++++++|.|+.++||||+|+++|+++|.|+|++|+|++|.+++||+|.++|.+++..++|++|+.+++++++|.
T Consensus       270 ~Ll~~l~~~~~~p~r~~~~p~r~~I~~vf~v~g~GtVv~G~V~sG~i~~Gd~v~i~p~~~~~~~~VksI~~~~~~v~~A~  349 (478)
T PLN03126        270 ELMDAVDSYIPIPQRQTDLPFLLAVEDVFSITGRGTVATGRVERGTVKVGETVDIVGLRETRSTTVTGVEMFQKILDEAL  349 (478)
T ss_pred             HHHHHHHHhCCCCCCccccceeeEEEEEEEeCCceEEEEEEEEcCeEecCCEEEEecCCCceEEEEEEEEECCeECCEEe
Confidence            58999999777788889999999999999999999999999999999999999999987556799999999999999999


Q ss_pred             ccCceehhccCCCcccccccccccccchhhhhhhhcccccccccch-----hhcccceEEeEeEEEeeeCCceeEeecC
Q psy9646          82 AGDQLGALVKGMKRDEVNRGLIMAKPVLADKKLAKVKQYADIDNAP-----EEKARGITINVAHVEYATENRHYSHTDC  155 (211)
Q Consensus        82 ~G~~v~~~l~~~~~~~v~~G~ii~~~~~~~~~~~~f~~~i~~~~~~-----~e~~rg~tv~~~~~~~~~~~~~~~~iDt  155 (211)
                      +||+|+++|++++..++++|++++.+.. ......|.+.+....++     .....|+...+++++.... .++..++.
T Consensus       350 aG~~v~l~L~~i~~~di~rG~VL~~~~~-~~~~~~F~A~i~vL~~~~gg~~~~I~~G~~~~lhigt~~~~-~~I~~i~~  426 (478)
T PLN03126        350 AGDNVGLLLRGIQKADIQRGMVLAKPGS-ITPHTKFEAIVYVLKKEEGGRHSPFFAGYRPQFYMRTTDVT-GKVTSIMN  426 (478)
T ss_pred             CCceeeeeccCCcHHHcCCccEEecCCC-CCceEEEEEEEEEecccccCCcccccCCcEEEEEEEecEEE-EEEEEEec
Confidence            9999999999999999999999998753 34467788888766553     4567788887777765543 45665553

>PLN03127 Elongation factor Tu; Provisional

Probab=99.89  E-value=8.7e-23  Score=175.15  Aligned_cols=142  Identities=43%  Similarity=0.706  Sum_probs=122.3

Q ss_pred             hHHHHHhhhCCCCCCCCCCCeeEEEeeEEeecCCcEEEEEEEEEEEEecCCEEEEeecCc--eeeEEEEEEEecceecce
Q psy9646           2 ELLNQIDTYIPQPVRDLDKPFYLPVEHTYSIPGRGTVVTGRLERGIVKKGMECEFTGYGR--QFKTTVTGIEMFHKILDE   79 (211)
Q Consensus         2 ~ll~~l~~~i~~p~~~~~~p~~~~v~~~~~~~~~G~v~~G~v~~G~i~~g~~v~i~p~~~--~~~~~v~~i~~~~~~~~~   79 (211)
                      +|+++|++.+|.|.+..++||||+|+++|++++.|+|++|+|++|.+++||++.++|.+.  +.+++|++|+++++++++
T Consensus       242 ~Ll~~l~~~lp~p~r~~~~pfr~~I~~vf~v~g~GtVvtG~v~~G~i~~Gd~v~i~p~~~~g~~~~~VksI~~~~~~v~~  321 (447)
T PLN03127        242 KLMDAVDEYIPEPVRVLDKPFLMPIEDVFSIQGRGTVATGRVEQGTIKVGEEVEIVGLRPGGPLKTTVTGVEMFKKILDQ  321 (447)
T ss_pred             HHHHHHHHhCCCCCcccccceEeeEEEEEEcCCceEEEEEEEEccEEecCCEEEEcccCCCCcEEEEEEEEEEECcEeCE
Confidence            689999998888888999999999999999999999999999999999999999987532  358999999999999999


Q ss_pred             ecccCceehhccCCCcccccccccccccchhhhhhhhcccccccccch-----hhcccceEEeEeEEEee
Q psy9646          80 AQAGDQLGALVKGMKRDEVNRGLIMAKPVLADKKLAKVKQYADIDNAP-----EEKARGITINVAHVEYA  144 (211)
Q Consensus        80 a~~G~~v~~~l~~~~~~~v~~G~ii~~~~~~~~~~~~f~~~i~~~~~~-----~e~~rg~tv~~~~~~~~  144 (211)
                      |.|||+++++|++++..++++|++++++. .......|.+.+....++     .....|++..+++++..
T Consensus       322 a~aGd~v~l~L~~i~~~~i~rG~Vl~~~~-~~~~~~~F~A~i~vl~~~~gg~~~~i~~g~~~~~~~~t~~  390 (447)
T PLN03127        322 GQAGDNVGLLLRGLKREDVQRGQVICKPG-SIKTYKKFEAEIYVLTKDEGGRHTPFFSNYRPQFYLRTAD  390 (447)
T ss_pred             EcCCCEEEEEeCCCCHHHCCCccEEecCC-CCceeEEEEEEEEEEcccccccCcccccCceeEEEeeecc
Confidence            99999999999999999999999999874 345678898888765553     44566777776666554

>TIGR00483 EF-1_alpha translation elongation factor EF-1 alpha

Probab=99.89  E-value=4.4e-23  Score=176.96  Aligned_cols=141  Identities=29%  Similarity=0.485  Sum_probs=125.3

Q ss_pred             hHHHHHhhhCCCCCCCCCCCeeEEEeeEEeecCCcEEEEEEEEEEEEecCCEEEEeecCceeeEEEEEEEecceecceec
Q psy9646           2 ELLNQIDTYIPQPVRDLDKPFYLPVEHTYSIPGRGTVVTGRLERGIVKKGMECEFTGYGRQFKTTVTGIEMFHKILDEAQ   81 (211)
Q Consensus         2 ~ll~~l~~~i~~p~~~~~~p~~~~v~~~~~~~~~G~v~~G~v~~G~i~~g~~v~i~p~~~~~~~~v~~i~~~~~~~~~a~   81 (211)
                      +|+++|++ +++|.+..++||||+|+++|+++|.|++++|+|++|.+++||+|.+.|.+.  .++|++|+++++++++|.
T Consensus       209 ~l~~~l~~-~~~~~~~~~~p~r~~i~~v~~~~g~G~vv~G~v~~G~i~~gd~v~i~P~~~--~~~VksI~~~~~~~~~a~  285 (426)
T TIGR00483       209 TLLEALDA-LEPPEKPTDKPLRIPIQDVYSITGVGTVPVGRVETGVLKPGDKVVFEPAGV--SGEVKSIEMHHEQIEQAE  285 (426)
T ss_pred             HHHHHHhc-CCCCCCccCCCcEEEEEEEEecCCCeEEEEEEEccceeecCCEEEECCCCc--EEEEEEEEECCcccCEEc
Confidence            69999988 777888889999999999999999999999999999999999999999974  899999999999999999


Q ss_pred             ccCceehhccCCCcccccccccccccchhhhhhhhcccccccccchhhcccceEEeEeEEEeee
Q psy9646          82 AGDQLGALVKGMKRDEVNRGLIMAKPVLADKKLAKVKQYADIDNAPEEKARGITINVAHVEYAT  145 (211)
Q Consensus        82 ~G~~v~~~l~~~~~~~v~~G~ii~~~~~~~~~~~~f~~~i~~~~~~~e~~rg~tv~~~~~~~~~  145 (211)
                      |||+|+++|++++..++++|++++.+..+++....|.+.+....++.....|++.-+++++...
T Consensus       286 aG~~v~i~l~~i~~~~i~rG~vl~~~~~~~~~~~~f~a~v~~l~~~~~i~~g~~~~~~~~t~~~  349 (426)
T TIGR00483       286 PGDNIGFNVRGVSKKDIRRGDVCGHPDNPPKVAKEFTAQIVVLQHPGAITVGYTPVFHCHTAQI  349 (426)
T ss_pred             CCCEEEEEECCCChhhcccceEEecCCCCCceeeEEEEEEEEECCCCccCCCCeEEEEecCcEE
Confidence            9999999999999999999999998766666677899988777777777888777666655543

This model represents the counterpart of bacterial EF-Tu for the Archaea (aEF-1 alpha) and Eukaryotes (eEF-1 alpha). The trusted cutoff is set fairly high so that incomplete sequences will score between suggested and trusted cutoff levels.

>PRK12736 elongation factor Tu; Reviewed

Probab=99.89  E-value=9e-23  Score=173.20  Aligned_cols=143  Identities=47%  Similarity=0.712  Sum_probs=123.3

Q ss_pred             hHHHHHhhhCCCCCCCCCCCeeEEEeeEEeecCCcEEEEEEEEEEEEecCCEEEEeecCceeeEEEEEEEecceecceec
Q psy9646           2 ELLNQIDTYIPQPVRDLDKPFYLPVEHTYSIPGRGTVVTGRLERGIVKKGMECEFTGYGRQFKTTVTGIEMFHKILDEAQ   81 (211)
Q Consensus         2 ~ll~~l~~~i~~p~~~~~~p~~~~v~~~~~~~~~G~v~~G~v~~G~i~~g~~v~i~p~~~~~~~~v~~i~~~~~~~~~a~   81 (211)
                      +|+++|++++|+|.++.++||||+|+++|++++.|++++|+|++|.+++||++.++|.+.+.+++|++|+++++++++|.
T Consensus       191 ~Ll~~l~~~lp~~~~~~~~p~r~~I~~~~~~~g~G~Vv~G~v~~G~l~~gd~v~i~p~~~~~~~~V~sI~~~~~~~~~a~  270 (394)
T PRK12736        191 ELMDAVDEYIPTPERDTDKPFLMPVEDVFTITGRGTVVTGRVERGTVKVGDEVEIVGIKETQKTVVTGVEMFRKLLDEGQ  270 (394)
T ss_pred             HHHHHHHHhCCCCCCCCCCCeEEEEEEEEecCCcEEEEEEEEeecEEecCCEEEEecCCCCeEEEEEEEEECCEEccEEC
Confidence            68999999888888999999999999999999999999999999999999999999974345799999999999999999


Q ss_pred             ccCceehhccCCCcccccccccccccchhhhhhhhcccccccccc-----hhhcccceEEeEeEEEeee
Q psy9646          82 AGDQLGALVKGMKRDEVNRGLIMAKPVLADKKLAKVKQYADIDNA-----PEEKARGITINVAHVEYAT  145 (211)
Q Consensus        82 ~G~~v~~~l~~~~~~~v~~G~ii~~~~~~~~~~~~f~~~i~~~~~-----~~e~~rg~tv~~~~~~~~~  145 (211)
                      |||+++++|++++..++++|++++.+... .....|.+.+....+     +.....|++..+++++...
T Consensus       271 aGd~v~l~l~~i~~~~i~~G~vl~~~~~~-~~~~~f~a~i~vl~~~~~~~~~~i~~g~~~~l~~~t~~~  338 (394)
T PRK12736        271 AGDNVGVLLRGVDRDEVERGQVLAKPGSI-KPHTKFKAEVYILTKEEGGRHTPFFNNYRPQFYFRTTDV  338 (394)
T ss_pred             CCCEEEEEECCCcHHhCCcceEEecCCCC-CcceEEEEEEEEEecccCCCCCcccCCceEEEEEccCeE
Confidence            99999999999988999999999987533 345778888876654     3456678888777666543

>PTZ00141 elongation factor 1- alpha; Provisional

Probab=99.89  E-value=1.2e-22  Score=174.56  Aligned_cols=141  Identities=34%  Similarity=0.509  Sum_probs=124.2

Q ss_pred             hHHHHHhhhCCCCCCCCCCCeeEEEeeEEeecCCcEEEEEEEEEEEEecCCEEEEeecCceeeEEEEEEEecceecceec
Q psy9646           2 ELLNQIDTYIPQPVRDLDKPFYLPVEHTYSIPGRGTVVTGRLERGIVKKGMECEFTGYGRQFKTTVTGIEMFHKILDEAQ   81 (211)
Q Consensus         2 ~ll~~l~~~i~~p~~~~~~p~~~~v~~~~~~~~~G~v~~G~v~~G~i~~g~~v~i~p~~~~~~~~v~~i~~~~~~~~~a~   81 (211)
                      +|+++|++ +++|.+..++||||+|+++|++++.|++++|+|++|.+++||+|.++|++.  .++|++|+++++++++|.
T Consensus       215 tL~~~l~~-~~~~~~~~~~p~r~~I~~v~~v~g~Gtvv~G~V~~G~l~~Gd~v~i~P~~~--~~~VksI~~~~~~~~~a~  291 (446)
T PTZ00141        215 TLLEALDT-LEPPKRPVDKPLRLPLQDVYKIGGIGTVPVGRVETGILKPGMVVTFAPSGV--TTEVKSVEMHHEQLAEAV  291 (446)
T ss_pred             HHHHHHhC-CCCCCcCCCCCeEEEEEEEEecCCceEEEEEEEEcceEecCCEEEEccCCc--EEEEEEEEecCcccCEEC
Confidence            59999998 677888889999999999999999999999999999999999999999974  899999999999999999


Q ss_pred             ccCceehhccCCCcccccccccccccc-hhhhhhhhcccccccccchhhcccceEEeEeEEEeee
Q psy9646          82 AGDQLGALVKGMKRDEVNRGLIMAKPV-LADKKLAKVKQYADIDNAPEEKARGITINVAHVEYAT  145 (211)
Q Consensus        82 ~G~~v~~~l~~~~~~~v~~G~ii~~~~-~~~~~~~~f~~~i~~~~~~~e~~rg~tv~~~~~~~~~  145 (211)
                      |||+|+++|++++..+++||++++.+. .+......|.+.+....++....+|++..+++++...
T Consensus       292 aG~~v~i~L~~i~~~~v~rG~vl~~~~~~p~~~~~~f~a~i~~l~~~~~i~~G~~~vl~~~t~~~  356 (446)
T PTZ00141        292 PGDNVGFNVKNVSVKDIKRGYVASDSKNDPAKECADFTAQVIVLNHPGQIKNGYTPVLDCHTAHI  356 (446)
T ss_pred             CCCEEEEEECCCCHHHcCCceEEecCCCCCCccceEEEEEEEEECCCCccCCCCeEEEEEeceEE
Confidence            999999999999999999999999864 4445677899988777777777888877766665543

>cd03693 EF1_alpha_II EF1_alpha_II: this family represents the domain II of elongation factor 1-alpha (EF-1a) that is found in archaea and all eukaryotic lineages

Probab=99.89  E-value=8.6e-23  Score=138.63  Aligned_cols=88  Identities=39%  Similarity=0.676  Sum_probs=83.7

Q ss_pred             CCCeeEEEeeEEeecCCcEEEEEEEEEEEEecCCEEEEeecCceeeEEEEEEEecceecceecccCceehhccCCCcccc
Q psy9646          19 DKPFYLPVEHTYSIPGRGTVVTGRLERGIVKKGMECEFTGYGRQFKTTVTGIEMFHKILDEAQAGDQLGALVKGMKRDEV   98 (211)
Q Consensus        19 ~~p~~~~v~~~~~~~~~G~v~~G~v~~G~i~~g~~v~i~p~~~~~~~~v~~i~~~~~~~~~a~~G~~v~~~l~~~~~~~v   98 (211)
                      ++||||||+++|++++.|++++|+|++|.+++||++.++|++.  .++|++|+++++++++|.+||+++++|++++..++
T Consensus         2 ~~p~r~~V~~vf~~~g~g~vv~G~v~~G~i~~gd~v~i~P~~~--~~~V~sI~~~~~~~~~a~aG~~v~i~l~~i~~~~v   79 (91)
T cd03693           2 DKPLRLPIQDVYKIGGIGTVPVGRVETGVLKPGMVVTFAPAGV--TGEVKSVEMHHEPLEEALPGDNVGFNVKNVSKKDI   79 (91)
T ss_pred             CCCeEEEEEEEEEeCCceEEEEEEEecceeecCCEEEECCCCc--EEEEEEEEECCcCcCEECCCCEEEEEECCCCHHHc
Confidence            5799999999999999999999999999999999999999974  89999999999999999999999999999999999


Q ss_pred             cccccccccc
Q psy9646          99 NRGLIMAKPV  108 (211)
Q Consensus        99 ~~G~ii~~~~  108 (211)
                      ++|++++++.
T Consensus        80 ~~G~vl~~~~   89 (91)
T cd03693          80 KRGDVAGDSK   89 (91)
T ss_pred             CCcCEEccCC
Confidence            9999999764

EF-1A is very abundant in the cytosol, where it is involved in the GTP-dependent binding of aminoacyl-tRNAs to the A site of the ribosomes in the second step of translation from mRNAs to proteins. Both domain II of EF1A and domain IV of IF2/eIF5B have been implicated in recognition of the 3'-ends of tRNA. More than 61% of eukaryotic elongation factor 1A (eEF-1A) in cells is estimated to be associated with actin cytoskeleton. The binding of eEF1A to actin is a noncanonical function that may link two distinct cellular processes, cytoskeleton organization and gene expression.

>TIGR00485 EF-Tu translation elongation factor TU

Probab=99.89  E-value=3.2e-22  Score=169.90  Aligned_cols=151  Identities=43%  Similarity=0.683  Sum_probs=123.5

Q ss_pred             hHHHHHhhhCCCCCCCCCCCeeEEEeeEEeecCCcEEEEEEEEEEEEecCCEEEEeecCceeeEEEEEEEecceecceec
Q psy9646           2 ELLNQIDTYIPQPVRDLDKPFYLPVEHTYSIPGRGTVVTGRLERGIVKKGMECEFTGYGRQFKTTVTGIEMFHKILDEAQ   81 (211)
Q Consensus         2 ~ll~~l~~~i~~p~~~~~~p~~~~v~~~~~~~~~G~v~~G~v~~G~i~~g~~v~i~p~~~~~~~~v~~i~~~~~~~~~a~   81 (211)
                      +||++|++.+|+|.++.++||||+|+++|+++|.|++++|+|++|.+++||+|.++|.+...+++|++|+++++++++|.
T Consensus       191 ~ll~~l~~~~~~~~~~~~~p~r~~V~~vf~~~g~G~Vv~G~v~~G~l~~gd~v~i~p~~~~~~~~VksI~~~~~~~~~a~  270 (394)
T TIGR00485       191 ELMDAVDEYIPTPERETDKPFLMPIEDVFSITGRGTVVTGRVERGIVKVGEEVEIVGLKDTRKTTVTGVEMFRKELDEGR  270 (394)
T ss_pred             HHHHHHHhcCCCCCCCCCCCeEEEEEEEEeeCCceEEEEEEEEeeEEeCCCEEEEecCCCCcEEEEEEEEECCeEEEEEC
Confidence            68899999777788889999999999999999999999999999999999999999853335789999999999999999


Q ss_pred             ccCceehhccCCCcccccccccccccchhhhhhhhcccccccccc-----hhhcccceEEeEeEEEeeeCCceeEeec
Q psy9646          82 AGDQLGALVKGMKRDEVNRGLIMAKPVLADKKLAKVKQYADIDNA-----PEEKARGITINVAHVEYATENRHYSHTD  154 (211)
Q Consensus        82 ~G~~v~~~l~~~~~~~v~~G~ii~~~~~~~~~~~~f~~~i~~~~~-----~~e~~rg~tv~~~~~~~~~~~~~~~~iD  154 (211)
                      +||+++++|++++..++++|++++++.. ......|.+.+....+     +....+|++..+++++.... .++.+++
T Consensus       271 aGd~v~l~l~~i~~~~i~rG~vl~~~~~-~~~~~~f~a~i~vl~~~~g~~~~~i~~g~~~~l~~~t~~~~-~~i~~~~  346 (394)
T TIGR00485       271 AGDNVGLLLRGIKREEIERGMVLAKPGS-IKPHTKFEAEVYVLKKEEGGRHTPFFSGYRPQFYFRTTDVT-GSITLPE  346 (394)
T ss_pred             CCCEEEEEeCCccHHHCCccEEEecCCC-CCcceEEEEEEEEEecCCCCCCCccccCceEEEEEecceEE-EEEEecC
Confidence            9999999999988889999999998753 3345778887765554     34556777777666555432 3444433

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.

>CHL00071 tufA elongation factor Tu

Probab=99.88  E-value=3.4e-22  Score=170.44  Aligned_cols=150  Identities=38%  Similarity=0.616  Sum_probs=124.5

Q ss_pred             hHHHHHhhhCCCCCCCCCCCeeEEEeeEEeecCCcEEEEEEEEEEEEecCCEEEEeecCceeeEEEEEEEecceecceec
Q psy9646           2 ELLNQIDTYIPQPVRDLDKPFYLPVEHTYSIPGRGTVVTGRLERGIVKKGMECEFTGYGRQFKTTVTGIEMFHKILDEAQ   81 (211)
Q Consensus         2 ~ll~~l~~~i~~p~~~~~~p~~~~v~~~~~~~~~G~v~~G~v~~G~i~~g~~v~i~p~~~~~~~~v~~i~~~~~~~~~a~   81 (211)
                      +|+++|++.+|+|.++.++||||+|+++|++++.|++++|+|++|.+++||+|.++|.+....++|++|+++++++++|.
T Consensus       201 ~ll~~l~~~~~~p~~~~~~p~r~~I~~v~~~~g~G~Vv~G~V~sG~l~~Gd~v~i~p~~~~~~~~VksI~~~~~~v~~a~  280 (409)
T CHL00071        201 NLMDAVDSYIPTPERDTDKPFLMAIEDVFSITGRGTVATGRIERGTVKVGDTVEIVGLRETKTTTVTGLEMFQKTLDEGL  280 (409)
T ss_pred             HHHHHHHhhCCCCCCCCCCCEEEEEEEEEEeCCCeEEEEEEEecCEEeeCCEEEEeeCCCCcEEEEEEEEEcCcCCCEEC
Confidence            68999999887788889999999999999999999999999999999999999998753335789999999999999999


Q ss_pred             ccCceehhccCCCcccccccccccccchhhhhhhhcccccccccc-----hhhcccceEEeEeEEEeeeCCceeEee
Q psy9646          82 AGDQLGALVKGMKRDEVNRGLIMAKPVLADKKLAKVKQYADIDNA-----PEEKARGITINVAHVEYATENRHYSHT  153 (211)
Q Consensus        82 ~G~~v~~~l~~~~~~~v~~G~ii~~~~~~~~~~~~f~~~i~~~~~-----~~e~~rg~tv~~~~~~~~~~~~~~~~i  153 (211)
                      |||+|+++|++++..++++|++++++.. ......|.+.+....+     +.....|++..+++++.... .++..+
T Consensus       281 aGd~v~i~l~~i~~~~i~~G~vl~~~~~-~~~~~~f~a~i~~l~~~~~~~~~~i~~g~~~~~~~gt~~~~-~~i~~i  355 (409)
T CHL00071        281 AGDNVGILLRGIQKEDIERGMVLAKPGT-ITPHTKFEAQVYILTKEEGGRHTPFFPGYRPQFYVRTTDVT-GKIESF  355 (409)
T ss_pred             CCceeEEEEcCCCHHHcCCeEEEecCCC-CCcceEEEEEEEEEecccCCccccccCCceEEEEEcccEEE-EEEEEE
Confidence            9999999999988899999999998753 3456788888865554     34566678777766655543 234433

>cd03698 eRF3_II_like eRF3_II_like: domain similar to domain II of the eukaryotic class II release factor (eRF3)

Probab=99.87  E-value=6.3e-22  Score=132.17  Aligned_cols=83  Identities=28%  Similarity=0.477  Sum_probs=79.1

Q ss_pred             CeeEEEeeEEeecCCcEEEEEEEEEEEEecCCEEEEeecCceeeEEEEEEEecceecceecccCceehhccCCCcccccc
Q psy9646          21 PFYLPVEHTYSIPGRGTVVTGRLERGIVKKGMECEFTGYGRQFKTTVTGIEMFHKILDEAQAGDQLGALVKGMKRDEVNR  100 (211)
Q Consensus        21 p~~~~v~~~~~~~~~G~v~~G~v~~G~i~~g~~v~i~p~~~~~~~~v~~i~~~~~~~~~a~~G~~v~~~l~~~~~~~v~~  100 (211)
                      ||||||+++|+++ .|++++|+|++|.+++||+|.++|++.  .++|++|+++++++++|.|||+++++|++++..++++
T Consensus         1 p~r~~V~~v~~~~-~g~vv~G~v~~G~i~~Gd~v~i~P~~~--~~~V~si~~~~~~~~~a~aGd~v~~~l~~~~~~~v~~   77 (83)
T cd03698           1 PFRLPISDKYKDQ-GGTVVSGKVESGSIQKGDTLLVMPSKE--SVEVKSIYVDDEEVDYAVAGENVRLKLKGIDEEDISP   77 (83)
T ss_pred             CeEEEEEeEEEcC-CCcEEEEEEeeeEEeCCCEEEEeCCCc--EEEEEEEEECCeECCEECCCCEEEEEECCCCHHHCCC
Confidence            7999999999999 999999999999999999999999974  8999999999999999999999999999999999999


Q ss_pred             cccccc
Q psy9646         101 GLIMAK  106 (211)
Q Consensus       101 G~ii~~  106 (211)
                      |+++++
T Consensus        78 G~vl~~   83 (83)
T cd03698          78 GDVLCS   83 (83)
T ss_pred             CCEEeC
Confidence            999873

In eukaryotes, translation termination is mediated by two interacting release factors, eRF1 and eRF3, which act as class I and II factors, respectively. eRF1 functions as an omnipotent release factor, decoding all three stop codons and triggering the release of the nascent peptide catalyzed by the ribsome. eRF3 is a GTPase, which enhances the termination efficiency by stimulating the eRF1 activity in a GTP-dependent manner. Sequence comparison of class II release factors with elongation factors shows that eRF3 is more similar to eEF1alpha whereas prokaryote RF3 is more similar to EF-G, implying that their precise function may differ. Only eukaryote RF3s are found in this group. Saccharomyces cerevisiae eRF3 (Sup35p) is a translation termination factor which is divided into three regions N, M and a C-terminal eEF1a-like region essential for translation termination. Sup35NM

>COG5256 TEF1 Translation elongation factor EF-1alpha (GTPase) [Translation, ribosomal structure and biogenesis]

Probab=99.87  E-value=4.1e-22  Score=164.25  Aligned_cols=105  Identities=42%  Similarity=0.658  Sum_probs=98.7

Q ss_pred             cchhhhhhhhcccccccccchhhcccceEEeEeEEEeeeCCceeEeecCCcccccHhHHhhhccccceEEEEEeccCC--
Q psy9646         107 PVLADKKLAKVKQYADIDNAPEEKARGITINVAHVEYATENRHYSHTDCPGHADYIKNMITGTSQMDGAILVVAATDG--  184 (211)
Q Consensus       107 ~~~~~~~~~~f~~~i~~~~~~~e~~rg~tv~~~~~~~~~~~~~~~~iDtPG~~~~~~~~~~~~~~~d~~~~vvd~~~~--  184 (211)
                      ..+...++.+|...+.+|+.+.|+.||.|++.++..|+++.+.++++|||||++|+++|+.|+++||+++|||||..+  
T Consensus        44 ~ea~~~gK~sf~fawvlD~tkeERerGvTi~~~~~~fet~k~~~tIiDaPGHrdFvknmItGasqAD~aVLVV~a~~~ef  123 (428)
T COG5256          44 KEAKELGKESFKFAWVLDKTKEERERGVTIDVAHSKFETDKYNFTIIDAPGHRDFVKNMITGASQADVAVLVVDARDGEF  123 (428)
T ss_pred             HHHHhcCCCceEEEEEecCChhHHhcceEEEEEEEEeecCCceEEEeeCCchHHHHHHhhcchhhccEEEEEEECCCCcc
Confidence            344456778888888899999999999999999999999999999999999999999999999999999999999998  


Q ss_pred             -----CCcchHHHHHHHHHcCCCeEEEEEeCC
Q psy9646         185 -----AMPQTREHLLLAKQIGVTNIVVFINKF  211 (211)
Q Consensus       185 -----~~~~~~~~~~~~~~~~~~~~i~~inK~  211 (211)
                           +.+|+++|+.+++.+|+.++|+++|||
T Consensus       124 E~g~~~~gQtrEH~~La~tlGi~~lIVavNKM  155 (428)
T COG5256         124 EAGFGVGGQTREHAFLARTLGIKQLIVAVNKM  155 (428)
T ss_pred             ccccccCCchhHHHHHHHhcCCceEEEEEEcc
Confidence                 789999999999999999999999997

>COG5258 GTPBP1 GTPase [General function prediction only]

Probab=99.87  E-value=2.3e-21  Score=158.09  Aligned_cols=143  Identities=25%  Similarity=0.444  Sum_probs=128.1

Q ss_pred             ChHHHHHhhhCCCC-CCCCCCCeeEEEeeEEeecCCcEEEEEEEEEEEEecCCEEEEeec--CceeeEEEEEEEecceec
Q psy9646           1 MELLNQIDTYIPQP-VRDLDKPFYLPVEHTYSIPGRGTVVTGRLERGIVKKGMECEFTGY--GRQFKTTVTGIEMFHKIL   77 (211)
Q Consensus         1 ~~ll~~l~~~i~~p-~~~~~~p~~~~v~~~~~~~~~G~v~~G~v~~G~i~~g~~v~i~p~--~~~~~~~v~~i~~~~~~~   77 (211)
                      |+||+.+.+++|+. .++.++||+|+|+.+|.+.|.|+|+.|+|.+|.+..||+|++.|.  +++..++|+||++++-.+
T Consensus       327 ldlL~e~f~~Lp~rr~~~d~g~flmYId~iYsVtGVGtVvsGsV~~G~l~~gd~vllGP~~~G~fr~v~vkSIemh~~rv  406 (527)
T COG5258         327 LDLLDEFFLLLPKRRRWDDEGPFLMYIDKIYSVTGVGTVVSGSVKSGILHVGDTVLLGPFKDGKFREVVVKSIEMHHYRV  406 (527)
T ss_pred             HHHHHHHHHhCCcccccCCCCCeEEEEEeeEEEeeeEEEEeeeEEeeeeccCCEEEEccCCCCcEEEEEEEEEEEeeEEe
Confidence            46788887877643 235678999999999999999999999999999999999999775  568899999999999999


Q ss_pred             ceecccCceehhccCCCcccccccccccccchhhhhhhhcccccccccchhhcccceEEeEeEEEee
Q psy9646          78 DEAQAGDQLGALVKGMKRDEVNRGLIMAKPVLADKKLAKVKQYADIDNAPEEKARGITINVAHVEYA  144 (211)
Q Consensus        78 ~~a~~G~~v~~~l~~~~~~~v~~G~ii~~~~~~~~~~~~f~~~i~~~~~~~e~~rg~tv~~~~~~~~  144 (211)
                      ++|.||.++++.++++.+++++||++++.. .+++....|.+.++...||.-+..||.-.+++.+..
T Consensus       407 dsa~aG~iig~Al~gv~~e~lerGMVl~~~-~~pkaVref~AeV~vl~HPT~I~aGye~v~H~etI~  472 (527)
T COG5258         407 DSAKAGSIIGIALKGVEKEELERGMVLSAG-ADPKAVREFDAEVLVLRHPTTIRAGYEPVFHYETIR  472 (527)
T ss_pred             ccccCCcEEEEEecccCHHHHhcceEecCC-CCchhhheecceEEEEeCCcEEecCceeeeEeeEee
Confidence            999999999999999999999999999987 678888999999999999999999998887776554

>cd04089 eRF3_II eRF3_II: domain II of the eukaryotic class II release factor (eRF3)

Probab=99.86  E-value=3.8e-21  Score=128.04  Aligned_cols=82  Identities=26%  Similarity=0.436  Sum_probs=77.3

Q ss_pred             CeeEEEeeEEeecCCcEEEEEEEEEEEEecCCEEEEeecCceeeEEEEEEEecceecceecccCceehhccCCCcccccc
Q psy9646          21 PFYLPVEHTYSIPGRGTVVTGRLERGIVKKGMECEFTGYGRQFKTTVTGIEMFHKILDEAQAGDQLGALVKGMKRDEVNR  100 (211)
Q Consensus        21 p~~~~v~~~~~~~~~G~v~~G~v~~G~i~~g~~v~i~p~~~~~~~~v~~i~~~~~~~~~a~~G~~v~~~l~~~~~~~v~~  100 (211)
                      ||||||+++|+..  |++++|||++|.+++||++.++|++.  .++|++|+++++++++|.+||+++++|++++..++++
T Consensus         1 plr~~I~~v~~~~--g~vv~G~v~~G~i~~G~~v~i~P~~~--~~~V~si~~~~~~~~~a~aGd~v~l~l~~i~~~~v~~   76 (82)
T cd04089           1 PLRLPIIDKYKDM--GTVVLGKVESGTIKKGDKLLVMPNKT--QVEVLSIYNEDVEVRYARPGENVRLRLKGIEEEDISP   76 (82)
T ss_pred             CeEEEEEeEEEcC--CEEEEEEEeeeEEecCCEEEEeCCCc--EEEEEEEEECCEECCEECCCCEEEEEecCCCHHHCCC
Confidence            7999999999864  89999999999999999999999974  8999999999999999999999999999999999999


Q ss_pred             cccccc
Q psy9646         101 GLIMAK  106 (211)
Q Consensus       101 G~ii~~  106 (211)
                      |+++++
T Consensus        77 G~vl~~   82 (82)
T cd04089          77 GFVLCS   82 (82)
T ss_pred             CCEEeC
Confidence            999863

In eukaryotes, translation termination is mediated by two interacting release factors, eRF1 and eRF3, which act as class I and II factors, respectively. eRF1 functions as an omnipotent release factor, decoding all three stop codons and triggering the release of the nascent peptide catalyzed by the ribsome. eRF3 is a GTPase, which enhances the termination efficiency by stimulating the eRF1 activity in a GTP-dependent manner. Sequence comparison of class II release factors with elongation factors shows that eRF3 is more similar to eEF1alpha whereas prokaryote RF3 is more similar to EF-G, implying that their precise function may differ. Only eukaryote RF3s are found in this group. Saccharomyces cerevisiae eRF3 (Sup35p) is a translation termination factor which is divided into three regions N, M and a C-terminal eEF1a-like region essential for translation termination. Sup35NM is a non-pathogenic prion-li

>cd03694 GTPBP_II Domain II of the GP-1 family of GTPase

Probab=99.86  E-value=3.3e-21  Score=129.70  Aligned_cols=85  Identities=24%  Similarity=0.411  Sum_probs=80.0

Q ss_pred             eeEEEeeEEeecCCcEEEEEEEEEEEEecCCEEEEeec--CceeeEEEEEEEecceecceecccCceehhccCCCccccc
Q psy9646          22 FYLPVEHTYSIPGRGTVVTGRLERGIVKKGMECEFTGY--GRQFKTTVTGIEMFHKILDEAQAGDQLGALVKGMKRDEVN   99 (211)
Q Consensus        22 ~~~~v~~~~~~~~~G~v~~G~v~~G~i~~g~~v~i~p~--~~~~~~~v~~i~~~~~~~~~a~~G~~v~~~l~~~~~~~v~   99 (211)
                      |+|||+++|++++.|++++|||++|.+++||++.++|+  +++..++|++|+++++++++|.|||+++++|++++..+++
T Consensus         1 ~~~~I~~vf~v~g~GtVv~G~v~~G~v~~g~~v~~~P~~~g~~~~~~V~sI~~~~~~~~~a~aGd~v~l~l~~i~~~~i~   80 (87)
T cd03694           1 AEFQIDEIYSVPGVGTVVGGTVSKGVIRLGDTLLLGPDQDGSFRPVTVKSIHRNRSPVRVVRAGQSASLALKKIDRSLLR   80 (87)
T ss_pred             CEEEEEeEEEcCCcceEEEEEEecCEEeCCCEEEECCCCCCCEeEEEEEEEEECCeECCEECCCCEEEEEEcCCCHHHcC
Confidence            68999999999999999999999999999999999998  4446899999999999999999999999999999999999


Q ss_pred             ccccccc
Q psy9646         100 RGLIMAK  106 (211)
Q Consensus       100 ~G~ii~~  106 (211)
                      +|+++++
T Consensus        81 ~G~vl~~   87 (87)
T cd03694          81 KGMVLVS   87 (87)
T ss_pred             CccEEeC
Confidence            9999874

This group includes proteins similar to GTPBP1 and GTPBP2. GTPB1 is structurally, related to elongation factor 1 alpha, a key component of protein biosynthesis machinery. Immunohistochemical analyses on mouse tissues revealed that GTPBP1 is expressed in some neurons and smooth muscle cells of various organs as well as macrophages. Immunofluorescence analyses revealed that GTPBP1 is localized exclusively in cytoplasm and shows a diffuse granular network forming a gradient from the nucleus to the periphery of the cells in smooth muscle cell lines and macrophages. No significant difference was observed in the immune response to protein antigen between mutant mice and wild-type mice, suggesting normal function of antigen-presenting cells of the mutant mice. The absence of an eminent phenotype in GTPBP1-deficient mice may be due to functional compensation by GTPBP2, which is similar to GTPBP1 in structure and tissue distribution.

>PTZ00327 eukaryotic translation initiation factor 2 gamma subunit; Provisional

Probab=99.85  E-value=1.9e-20  Score=160.72  Aligned_cols=154  Identities=19%  Similarity=0.204  Sum_probs=125.0

Q ss_pred             hHHHHHhhhCCCCCCCCCCCeeEEEeeEEeecC--------CcEEEEEEEEEEEEecCCEEEEeecCc-------e----
Q psy9646           2 ELLNQIDTYIPQPVRDLDKPFYLPVEHTYSIPG--------RGTVVTGRLERGIVKKGMECEFTGYGR-------Q----   62 (211)
Q Consensus         2 ~ll~~l~~~i~~p~~~~~~p~~~~v~~~~~~~~--------~G~v~~G~v~~G~i~~g~~v~i~p~~~-------~----   62 (211)
                      +|+++|++.+|+|.++.++||||+|+++|.+.+        .|+|++|+|.+|.+++||++.+.|++.       +    
T Consensus       223 ~Ll~~L~~~lp~~~r~~~~p~r~~Idr~F~V~~~g~~~~~~~GtVv~G~v~~G~l~~Gd~v~i~P~~~~~~~~g~~~~~~  302 (460)
T PTZ00327        223 VVLEYICTQIPIPKRDLTSPPRMIVIRSFDVNKPGEDIENLKGGVAGGSILQGVLKVGDEIEIRPGIISKDSGGEFTCRP  302 (460)
T ss_pred             HHHHHHHhhCCCCCCCCCCCcEEEEEEEEeecccCCcccCCceEEEEEEEeeceEecCCEEEEccCcccccccCcccccc
Confidence            588999977888888899999999999998864        799999999999999999999999741       1    


Q ss_pred             eeEEEEEEEecceecceecccCceehhcc---CCCcccccccccccccchhhhhhhhcccccccccc-------------
Q psy9646          63 FKTTVTGIEMFHKILDEAQAGDQLGALVK---GMKRDEVNRGLIMAKPVLADKKLAKVKQYADIDNA-------------  126 (211)
Q Consensus        63 ~~~~v~~i~~~~~~~~~a~~G~~v~~~l~---~~~~~~v~~G~ii~~~~~~~~~~~~f~~~i~~~~~-------------  126 (211)
                      ..++|++|+++++++++|.|||+++++|+   +++..++.||++++.+...++....|.+.+....+             
T Consensus       303 ~~~~VksI~~~~~~v~~a~aG~~vai~l~ld~~v~~~dv~rG~Vl~~~~~~~~~~~~~~a~v~~L~~~~~~~~~~~~~~~  382 (460)
T PTZ00327        303 IRTRIVSLFAENNELQYAVPGGLIGVGTTIDPTLTRADRLVGQVLGYPGKLPEVYAEIEIQYYLLRRLLGVKSQDGKKAT  382 (460)
T ss_pred             ceEEEEEEEECCeECCEEcCCCEEEEEeccCCCcchhhcccccEEEcCCCCCceeEEEEEEEEEeccccccccccccccc
Confidence            35899999999999999999999999987   67788999999999876666656678777754433             


Q ss_pred             -hhhcccceEEeEeEEEeeeCCceeEeecCC
Q psy9646         127 -PEEKARGITINVAHVEYATENRHYSHTDCP  156 (211)
Q Consensus       127 -~~e~~rg~tv~~~~~~~~~~~~~~~~iDtP  156 (211)
                       +.....++.+.+++++.... ..+..+|..
T Consensus       383 ~~~~l~~g~~~~l~~gt~~~~-~~i~~i~~~  412 (460)
T PTZ00327        383 KVAKLKKGESLMINIGSTTTG-GRVVGIKDD  412 (460)
T ss_pred             CCcccCCCCEEEEEecccEEE-EEEEEeCCC
Confidence             14567778888777766644 355555543

>cd03697 EFTU_II EFTU_II: Elongation factor Tu domain II

Probab=99.84  E-value=3.7e-21  Score=129.54  Aligned_cols=86  Identities=62%  Similarity=1.116  Sum_probs=80.1

Q ss_pred             eeEEEeeEEeecCCcEEEEEEEEEEEEecCCEEEEeecCceeeEEEEEEEecceecceecccCceehhccCCCccccccc
Q psy9646          22 FYLPVEHTYSIPGRGTVVTGRLERGIVKKGMECEFTGYGRQFKTTVTGIEMFHKILDEAQAGDQLGALVKGMKRDEVNRG  101 (211)
Q Consensus        22 ~~~~v~~~~~~~~~G~v~~G~v~~G~i~~g~~v~i~p~~~~~~~~v~~i~~~~~~~~~a~~G~~v~~~l~~~~~~~v~~G  101 (211)
                      |||||+++|++++.|++++|+|++|.+++||++.++|.+...+++|++|+++++++++|.|||+|+++|++.+..+++||
T Consensus         1 ~r~~V~~v~~~~g~G~vv~G~v~~G~v~~gd~v~~~p~~~~~~~~V~si~~~~~~~~~a~~G~~v~l~l~~~~~~~v~rG   80 (87)
T cd03697           1 FLMPIEDVFSIPGRGTVVTGRIERGTIKVGDEVEIVGFGETLKTTVTGIEMFRKTLDEAEAGDNVGVLLRGVKREDVERG   80 (87)
T ss_pred             CEeeEEEEEeCCCcEEEEEEEECCCCCccCCEEEEeCCCCCceEEEEEEEECCcCCCEECCCCEEEEEECCCCHHHcCCc
Confidence            79999999999999999999999999999999999986433578999999999999999999999999999999999999


Q ss_pred             cccccc
Q psy9646         102 LIMAKP  107 (211)
Q Consensus       102 ~ii~~~  107 (211)
                      ++++++
T Consensus        81 ~vl~~~   86 (87)
T cd03697          81 MVLAKP   86 (87)
T ss_pred             cEEecC
Confidence            999864

Elongation factors Tu (EF-Tu) are three-domain GTPases with an essential function in the elongation phase of mRNA translation. The GTPase center of EF-Tu is in the N-terminal domain (domain I), also known as the catalytic or G-domain. The G-domain is composed of about 200 amino acid residues, arranged into a predominantly parallel six-stranded beta-sheet core surrounded by seven a-helices. Non-catalytic domains II and III are beta-barrels of seven and six, respectively, antiparallel beta-strands that share an extended interface. Either non-catalytic domain is composed of about 100 amino acid residues. EF-Tu proteins exist in two principal conformations: in a compact one, EF-Tu*GTP, with tight interfaces between all three domains and a high affinity for aminoacyl-tRNA, and in an open one, EF-Tu*GDP, with essentially no G-domain-domain II interactions and a low affinity for aminoacyl-tRNA. EF-Tu has approximately a 100-fold higher

>PRK04000 translation initiation factor IF-2 subunit gamma; Validated

Probab=99.84  E-value=2.2e-20  Score=159.27  Aligned_cols=152  Identities=22%  Similarity=0.303  Sum_probs=123.2

Q ss_pred             hHHHHHhhhCCCCCCCCCCCeeEEEeeEEeecC--------CcEEEEEEEEEEEEecCCEEEEeecCc----------ee
Q psy9646           2 ELLNQIDTYIPQPVRDLDKPFYLPVEHTYSIPG--------RGTVVTGRLERGIVKKGMECEFTGYGR----------QF   63 (211)
Q Consensus         2 ~ll~~l~~~i~~p~~~~~~p~~~~v~~~~~~~~--------~G~v~~G~v~~G~i~~g~~v~i~p~~~----------~~   63 (211)
                      +|++.|.+.++.|.++.++||||+|+++|++++        +|+|++|+|++|.+++||.|.++|+++          ..
T Consensus       191 ~L~~~L~~~l~~~~~~~~~~~r~~I~~~f~v~~~g~~~~~~~G~Vv~G~v~~G~l~~gd~v~i~P~~~~~~~~~~~~~~~  270 (411)
T PRK04000        191 ALIEAIEEEIPTPERDLDKPPRMYVARSFDVNKPGTPPEKLKGGVIGGSLIQGVLKVGDEIEIRPGIKVEEGGKTKWEPI  270 (411)
T ss_pred             HHHHHHHHhCCCCCCCCCCCceEEEEeeeeecCCCccccCCcceEEEEEEEeCEEecCCEEEEcCCcceecccccccccc
Confidence            578899987887888889999999999998765        567999999999999999999999852          12


Q ss_pred             eEEEEEEEecceecceecccCceehhcc---CCCcccccccccccccchhhhhhhhcccccccccc---------hhhcc
Q psy9646          64 KTTVTGIEMFHKILDEAQAGDQLGALVK---GMKRDEVNRGLIMAKPVLADKKLAKVKQYADIDNA---------PEEKA  131 (211)
Q Consensus        64 ~~~v~~i~~~~~~~~~a~~G~~v~~~l~---~~~~~~v~~G~ii~~~~~~~~~~~~f~~~i~~~~~---------~~e~~  131 (211)
                      .++|++|+++++++++|.|||+|+++|+   +++..++++|++++.+..+++....|.+.+....+         +....
T Consensus       271 ~~~VksI~~~~~~~~~a~~G~~v~i~l~~~~~i~~~~i~~G~vl~~~~~~~~~~~~f~a~v~~l~~~~~~~~~~~~~~i~  350 (411)
T PRK04000        271 TTKIVSLRAGGEKVEEARPGGLVGVGTKLDPSLTKADALAGSVAGKPGTLPPVWESLTIEVHLLERVVGTKEELKVEPIK  350 (411)
T ss_pred             eEEEeEEEECCEECCEEcCCCEEEEEeccCCCCCHHHccCccEEEcCCCCCCceEEEEEEEEEEEhhcCccccccCCCCC
Confidence            5799999999999999999999999986   67778999999999987776667788888765444         45677


Q ss_pred             cceEEeEeEEEeeeCCceeEeec
Q psy9646         132 RGITINVAHVEYATENRHYSHTD  154 (211)
Q Consensus       132 rg~tv~~~~~~~~~~~~~~~~iD  154 (211)
                      .|+...+++++..... ++..+|
T Consensus       351 ~g~~~~l~~~t~~~~~-~i~~i~  372 (411)
T PRK04000        351 TGEPLMLNVGTATTVG-VVTSAR  372 (411)
T ss_pred             CCCEEEEEEeccEEEE-EEEEcC
Confidence            7777777666655432 344443

>cd03696 selB_II selB_II: this subfamily represents the domain of elongation factor SelB, homologous to domain II of EF-Tu

Probab=99.83  E-value=2.9e-20  Score=124.14  Aligned_cols=82  Identities=34%  Similarity=0.630  Sum_probs=78.2

Q ss_pred             eeEEEeeEEeecCCcEEEEEEEEEEEEecCCEEEEeecCceeeEEEEEEEecceecceecccCceehhccCCCccccccc
Q psy9646          22 FYLPVEHTYSIPGRGTVVTGRLERGIVKKGMECEFTGYGRQFKTTVTGIEMFHKILDEAQAGDQLGALVKGMKRDEVNRG  101 (211)
Q Consensus        22 ~~~~v~~~~~~~~~G~v~~G~v~~G~i~~g~~v~i~p~~~~~~~~v~~i~~~~~~~~~a~~G~~v~~~l~~~~~~~v~~G  101 (211)
                      |||||+++|++++.|++++|+|++|.+++|+++.++|++.  .++|++|+.+++++++|.|||+++++|++.+..++++|
T Consensus         1 lr~~i~~~~~~~~~g~vv~G~v~sG~i~~g~~v~~~p~~~--~~~V~sI~~~~~~~~~a~aGd~v~i~l~~~~~~~i~~G   78 (83)
T cd03696           1 FRLPIDRVFTVKGQGTVVTGTVLSGSVKVGDKVEILPLGE--ETRVRSIQVHGKDVEEAKAGDRVALNLTGVDAKDLERG   78 (83)
T ss_pred             CEEEEEEEEEcCCcEEEEEEEEeecEEeCCCEEEECCCCc--eEEEEEEEECCcCcCEEcCCCEEEEEEcCCCHHHcCCc
Confidence            7999999999999999999999999999999999999864  89999999999999999999999999999888899999


Q ss_pred             cccc
Q psy9646         102 LIMA  105 (211)
Q Consensus       102 ~ii~  105 (211)
                      ++++
T Consensus        79 ~vl~   82 (83)
T cd03696          79 DVLS   82 (83)
T ss_pred             cEEc
Confidence            9886

SelB may function by replacing EF-Tu. 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' or 5' non-coding elements of mRNA have been found as probable structures for directing selenocysteine incorporation.

>TIGR03680 eif2g_arch translation initiation factor 2 subunit gamma

Probab=99.83  E-value=6.2e-20  Score=156.45  Aligned_cols=144  Identities=24%  Similarity=0.342  Sum_probs=118.0

Q ss_pred             hHHHHHhhhCCCCCCCCCCCeeEEEeeEEeecC--------CcEEEEEEEEEEEEecCCEEEEeecCc----------ee
Q psy9646           2 ELLNQIDTYIPQPVRDLDKPFYLPVEHTYSIPG--------RGTVVTGRLERGIVKKGMECEFTGYGR----------QF   63 (211)
Q Consensus         2 ~ll~~l~~~i~~p~~~~~~p~~~~v~~~~~~~~--------~G~v~~G~v~~G~i~~g~~v~i~p~~~----------~~   63 (211)
                      +|+++|++.++.|.++.++||+|||+++|++++        +|+|++|+|++|.+++||++.++|++.          +.
T Consensus       186 ~L~e~L~~~l~~~~~~~~~~~~~~I~~~f~v~~~g~~~~~~~G~Vv~G~v~~G~i~~gd~v~i~P~~~~~~~g~~~~~~~  265 (406)
T TIGR03680       186 ALLEAIEKFIPTPERDLDKPPLMYVARSFDVNKPGTPPEKLKGGVIGGSLIQGKLKVGDEIEIRPGIKVEKGGKTKWEPI  265 (406)
T ss_pred             HHHHHHHHhCCCCCCCCCCCcEEEEEEEEeecCCCccccCCceeEEEEEEEeCEEeCCCEEEEccCcccccccccccccc
Confidence            578999987787888889999999999998765        577999999999999999999999852          12


Q ss_pred             eEEEEEEEecceecceecccCceehhcc---CCCcccccccccccccchhhhhhhhcccccccccc---------hhhcc
Q psy9646          64 KTTVTGIEMFHKILDEAQAGDQLGALVK---GMKRDEVNRGLIMAKPVLADKKLAKVKQYADIDNA---------PEEKA  131 (211)
Q Consensus        64 ~~~v~~i~~~~~~~~~a~~G~~v~~~l~---~~~~~~v~~G~ii~~~~~~~~~~~~f~~~i~~~~~---------~~e~~  131 (211)
                      .++|++|+++++++++|.+||+|+++|+   +++..++.+|++++.+...+.....|.+.+....+         +....
T Consensus       266 ~~~V~sI~~~~~~~~~a~~G~~v~i~l~~~~~i~~~dv~~G~vl~~~~~~~~~~~~f~a~i~~l~~~~~~~~~~~~~~i~  345 (406)
T TIGR03680       266 YTEITSLRAGGYKVEEARPGGLVGVGTKLDPALTKADALAGQVVGKPGTLPPVWESLELEVHLLERVVGTEEELKVEPIK  345 (406)
T ss_pred             ceEEeEEEECCEECCEEcCCCEEEEeeccCCCCCHHHcccccEEEcCCCCCCceeEEEEEEEEEecccCcccccccccCC
Confidence            5799999999999999999999999884   67789999999999987666666777776654332         35567


Q ss_pred             cceEEeEeEEEeee
Q psy9646         132 RGITINVAHVEYAT  145 (211)
Q Consensus       132 rg~tv~~~~~~~~~  145 (211)
                      .|+...+++++...
T Consensus       346 ~g~~~~l~~gt~~~  359 (406)
T TIGR03680       346 TGEVLMLNVGTATT  359 (406)
T ss_pred             CCCEEEEEEccceE
Confidence            77777776665543

eIF-2 functions in the early steps of protein synthesis by forming a ternary complex with GTP and initiator tRNA.

>COG0050 TufB GTPases - translation elongation factors [Translation, ribosomal structure and biogenesis]

Probab=99.82  E-value=2.3e-20  Score=147.56  Aligned_cols=97  Identities=78%  Similarity=1.220  Sum_probs=91.3

Q ss_pred             hhcccccccccchhhcccceEEeEeEEEeeeCCceeEeecCCcccccHhHHhhhccccceEEEEEeccCCCCcchHHHHH
Q psy9646         115 AKVKQYADIDNAPEEKARGITINVAHVEYATENRHYSHTDCPGHADYIKNMITGTSQMDGAILVVAATDGAMPQTREHLL  194 (211)
Q Consensus       115 ~~f~~~i~~~~~~~e~~rg~tv~~~~~~~~~~~~~~~~iDtPG~~~~~~~~~~~~~~~d~~~~vvd~~~~~~~~~~~~~~  194 (211)
                      ..+..+-..|+.|.|+.||+|++.++..|++.+.++.++|+|||.||+++|+.|.+++|++|+||.|.+|+++||++|+.
T Consensus        42 ~~~~~y~~id~aPeEk~rGITIntahveyet~~rhyahVDcPGHaDYvKNMItgAaqmDgAILVVsA~dGpmPqTrEHiL  121 (394)
T COG0050          42 AEAKAYDQIDNAPEEKARGITINTAHVEYETANRHYAHVDCPGHADYVKNMITGAAQMDGAILVVAATDGPMPQTREHIL  121 (394)
T ss_pred             ccccchhhhccCchHhhcCceeccceeEEecCCceEEeccCCChHHHHHHHhhhHHhcCccEEEEEcCCCCCCcchhhhh
Confidence            34455556889999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHcCCCeEEEEEeCC
Q psy9646         195 LAKQIGVTNIVVFINKF  211 (211)
Q Consensus       195 ~~~~~~~~~~i~~inK~  211 (211)
                      +++..|+|.+++++||+
T Consensus       122 larqvGvp~ivvflnK~  138 (394)
T COG0050         122 LARQVGVPYIVVFLNKV  138 (394)
T ss_pred             hhhhcCCcEEEEEEecc
Confidence            99999999999999996

>cd03695 CysN_NodQ_II CysN_NodQ_II: This subfamily represents the domain II of the large subunit of ATP sulfurylase (ATPS): CysN or the N-terminal portion of NodQ, found mainly in proteobacteria and homologous to the domain II of EF-Tu

Probab=99.81  E-value=1.4e-19  Score=120.03  Aligned_cols=81  Identities=26%  Similarity=0.378  Sum_probs=75.3

Q ss_pred             eeEEEeeEEeecCCcEEEEEEEEEEEEecCCEEEEeecCceeeEEEEEEEecceecceecccCceehhccCCCccccccc
Q psy9646          22 FYLPVEHTYSIPGRGTVVTGRLERGIVKKGMECEFTGYGRQFKTTVTGIEMFHKILDEAQAGDQLGALVKGMKRDEVNRG  101 (211)
Q Consensus        22 ~~~~v~~~~~~~~~G~v~~G~v~~G~i~~g~~v~i~p~~~~~~~~v~~i~~~~~~~~~a~~G~~v~~~l~~~~~~~v~~G  101 (211)
                      |||||+++|+.++.|+.++|||++|.+++||++.++|.+.  .++|++|+++++++++|.|||+++++|+  +..++++|
T Consensus         1 lr~~V~dv~k~~~~~~~v~Gkv~~G~v~~Gd~v~~~P~~~--~~~V~si~~~~~~~~~a~aGd~v~l~l~--~~~~i~~G   76 (81)
T cd03695           1 FRFPVQYVIRPNADFRGYAGTIASGSIRVGDEVVVLPSGK--TSRVKSIETFDGELDEAGAGESVTLTLE--DEIDVSRG   76 (81)
T ss_pred             CEeeEEEEEeeCCCcEEEEEEEccceEECCCEEEEcCCCC--eEEEEEEEECCcEeCEEcCCCEEEEEEC--CccccCCC
Confidence            7999999999888888899999999999999999999974  8999999999999999999999999998  47789999


Q ss_pred             ccccc
Q psy9646         102 LIMAK  106 (211)
Q Consensus       102 ~ii~~  106 (211)
                      +++++
T Consensus        77 ~vl~~   81 (81)
T cd03695          77 DVIVA   81 (81)
T ss_pred             CEEeC
Confidence            99873

Escherichia coli ATPS consists of CysN and a smaller subunit CysD and CysN. ATPS produces adenosine-5'-phosphosulfate (APS) from ATP and sulfate, coupled with GTP hydrolysis. In the subsequent reaction APS is phosphorylated by an APS kinase (CysC), to produce 3'-phosphoadenosine-5'-phosphosulfate (PAPS) for use in amino acid (aa) biosynthesis. The Rhizobiaceae group (alpha-proteobacteria) appears to carry out the same chemistry for the sufation of a nodulation factor. In Rhizobium meliloti, a the hererodimeric complex comprised of NodP and NodQ appears to possess both ATPS and APS kinase activities. The N and C termini of NodQ correspond to CysN and CysC, respectively. Other eubacteria, Archaea, and eukaryotes use a different ATP sulfurylase, which sho

>COG3276 SelB Selenocysteine-specific translation elongation factor [Translation, ribosomal structure and biogenesis]

Probab=99.81  E-value=1.7e-19  Score=149.86  Aligned_cols=106  Identities=30%  Similarity=0.517  Sum_probs=95.6

Q ss_pred             HHHHHhhhCCCCCCCCCCCeeEEEeeEEeecCCcEEEEEEEEEEEEecCCEEEEeecCceeeEEEEEEEecceecceecc
Q psy9646           3 LLNQIDTYIPQPVRDLDKPFYLPVEHTYSIPGRGTVVTGRLERGIVKKGMECEFTGYGRQFKTTVTGIEMFHKILDEAQA   82 (211)
Q Consensus         3 ll~~l~~~i~~p~~~~~~p~~~~v~~~~~~~~~G~v~~G~v~~G~i~~g~~v~i~p~~~~~~~~v~~i~~~~~~~~~a~~   82 (211)
                      |-+.|.+....+.++.++|||++|++.|.++|.|||++|++.+|.+++||++++.|.++  .++|+||+.+++++++|.|
T Consensus       153 Lk~~l~~L~~~~e~d~~~~fri~IDraFtVKGvGTVVtGtv~sG~V~v~D~L~l~p~~k--~v~VRsIq~~d~d~~~a~A  230 (447)
T COG3276         153 LKNELIDLLEEIERDEQKPFRIAIDRAFTVKGVGTVVTGTVLSGEVKVGDKLYLSPINK--EVRVRSIQAHDVDVEEAKA  230 (447)
T ss_pred             HHHHHHHhhhhhhhccCCceEEEEeeEEEeccccEEEEeEEeeeeEEECCEEEEecCCC--eEEEEeeeecCcchhhccc
Confidence            44455552224688999999999999999999999999999999999999999999975  9999999999999999999


Q ss_pred             cCceehhccCCCcccccccccccccchh
Q psy9646          83 GDQLGALVKGMKRDEVNRGLIMAKPVLA  110 (211)
Q Consensus        83 G~~v~~~l~~~~~~~v~~G~ii~~~~~~  110 (211)
                      |++|+++|++++.+++.||++++.+...
T Consensus       231 G~RVgLaL~~v~~eei~RG~~L~~~~~~  258 (447)
T COG3276         231 GQRVGLALKGVEKEEIERGDWLLKPEPL  258 (447)
T ss_pred             cceeeeecCCCCHHHhhcccEeccCCCC
Confidence            9999999999999999999999987644

>KOG0460|consensus

Probab=99.81  E-value=7.8e-20  Score=147.10  Aligned_cols=100  Identities=80%  Similarity=1.202  Sum_probs=93.8

Q ss_pred             hhhhhcccccccccchhhcccceEEeEeEEEeeeCCceeEeecCCcccccHhHHhhhccccceEEEEEeccCCCCcchHH
Q psy9646         112 KKLAKVKQYADIDNAPEEKARGITINVAHVEYATENRHYSHTDCPGHADYIKNMITGTSQMDGAILVVAATDGAMPQTRE  191 (211)
Q Consensus       112 ~~~~~f~~~i~~~~~~~e~~rg~tv~~~~~~~~~~~~~~~~iDtPG~~~~~~~~~~~~~~~d~~~~vvd~~~~~~~~~~~  191 (211)
                      .+..++..+--+|+.|.|+.||+|++..+..|++...++.-+|+|||.||+++|+.|.++.|++++||.|.+|.++||++
T Consensus        81 ~g~A~~~kydeID~APEEkaRGITIn~aHveYeTa~RhYaH~DCPGHADYIKNMItGaaqMDGaILVVaatDG~MPQTrE  160 (449)
T KOG0460|consen   81 KGGAKFKKYDEIDKAPEEKARGITINAAHVEYETAKRHYAHTDCPGHADYIKNMITGAAQMDGAILVVAATDGPMPQTRE  160 (449)
T ss_pred             ccccccccHhhhhcChhhhhccceEeeeeeeeeccccccccCCCCchHHHHHHhhcCccccCceEEEEEcCCCCCcchHH
Confidence            34455666666899999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHcCCCeEEEEEeCC
Q psy9646         192 HLLLAKQIGVTNIVVFINKF  211 (211)
Q Consensus       192 ~~~~~~~~~~~~~i~~inK~  211 (211)
                      |+.+++..|++++++++||+
T Consensus       161 HlLLArQVGV~~ivvfiNKv  180 (449)
T KOG0460|consen  161 HLLLARQVGVKHIVVFINKV  180 (449)
T ss_pred             HHHHHHHcCCceEEEEEecc
Confidence            99999999999999999995

>PRK10512 selenocysteinyl-tRNA-specific translation factor; Provisional

Probab=99.80  E-value=5.4e-19  Score=156.94  Aligned_cols=136  Identities=21%  Similarity=0.337  Sum_probs=108.5

Q ss_pred             hHHHHHhhhCCCCCCCCCCCeeEEEeeEEeecCCcEEEEEEEEEEEEecCCEEEEeecCceeeEEEEEEEecceecceec
Q psy9646           2 ELLNQIDTYIPQPVRDLDKPFYLPVEHTYSIPGRGTVVTGRLERGIVKKGMECEFTGYGRQFKTTVTGIEMFHKILDEAQ   81 (211)
Q Consensus         2 ~ll~~l~~~i~~p~~~~~~p~~~~v~~~~~~~~~G~v~~G~v~~G~i~~g~~v~i~p~~~~~~~~v~~i~~~~~~~~~a~   81 (211)
                      +|+++|.+ ++.|.+..++||||+|+++|.++|.|+|++|+|.+|++++||++.+.|.+.  .++|++|+++++++++|.
T Consensus       156 ~L~~~L~~-~~~~~~~~~~~~rl~Id~vf~v~G~GtVvtGtv~sG~l~~Gd~v~i~p~~~--~~~VrsIq~~~~~v~~a~  232 (614)
T PRK10512        156 ALREHLLQ-LPEREHAAQHRFRLAIDRAFTVKGAGLVVTGTALSGEVKVGDTLWLTGVNK--PMRVRGLHAQNQPTEQAQ  232 (614)
T ss_pred             HHHHHHHH-hhccccCcCCCceEEEEEEeccCCCeEEEEEEEecceEecCCEEEEcCCCC--cEEEEEEecCCcCCCEEe
Confidence            57888888 455666788999999999999999999999999999999999999999864  789999999999999999


Q ss_pred             ccCceehhccC-CCcccccccccccccchhhhhhhhcccccccccchhhcccceEEeEeEEEee
Q psy9646          82 AGDQLGALVKG-MKRDEVNRGLIMAKPVLADKKLAKVKQYADIDNAPEEKARGITINVAHVEYA  144 (211)
Q Consensus        82 ~G~~v~~~l~~-~~~~~v~~G~ii~~~~~~~~~~~~f~~~i~~~~~~~e~~rg~tv~~~~~~~~  144 (211)
                      |||+++++|++ ++..+++||++++.+... .....+   ............+..+.+++++.+
T Consensus       233 aG~rval~l~g~~~~~~i~rGdvl~~~~~~-~~~~~~---~~~l~~~~~l~~~~~~~~~~gt~~  292 (614)
T PRK10512        233 AGQRIALNIAGDAEKEQINRGDWLLADAPP-EPFTRV---IVELQTHTPLTQWQPLHIHHAASH  292 (614)
T ss_pred             CCCeEEEEecCCCChhhCCCcCEEeCCCCC-ccceeE---EEEEcCCccCCCCCEEEEEEcccE
Confidence            99999999997 888999999999976422 222222   122222334455667666655544

>PRK05124 cysN sulfate adenylyltransferase subunit 1; Provisional

Probab=99.79  E-value=7.3e-19  Score=152.19  Aligned_cols=138  Identities=20%  Similarity=0.220  Sum_probs=113.3

Q ss_pred             hHHHHHhhhCCCCCCCCCCCeeEEEeeEEeecCCcEEEEEEEEEEEEecCCEEEEeecCceeeEEEEEEEecceecceec
Q psy9646           2 ELLNQIDTYIPQPVRDLDKPFYLPVEHTYSIPGRGTVVTGRLERGIVKKGMECEFTGYGRQFKTTVTGIEMFHKILDEAQ   81 (211)
Q Consensus         2 ~ll~~l~~~i~~p~~~~~~p~~~~v~~~~~~~~~G~v~~G~v~~G~i~~g~~v~i~p~~~~~~~~v~~i~~~~~~~~~a~   81 (211)
                      +|+++|+. +++|.+..++||||||+++++.......++|+|++|.+++||+|.++|++.  .++|++|++++.++++|.
T Consensus       227 tLl~~L~~-i~~~~~~~~~p~r~~I~~v~~~~~~~~g~~G~V~sG~l~~Gd~v~i~P~~~--~~~VksI~~~~~~v~~A~  303 (474)
T PRK05124        227 TLLEVLET-VDIQRVVDAQPFRFPVQYVNRPNLDFRGYAGTLASGVVKVGDRVKVLPSGK--ESNVARIVTFDGDLEEAF  303 (474)
T ss_pred             hHHHHHhh-cCCCCCCCCCCceeeEEEEEecCCcccceEEEEEeEEEecCCEEEEecCCc--eEEEEEEEEcCccccCcC
Confidence            58898887 777888889999999999987654333378999999999999999999975  899999999999999999


Q ss_pred             ccCceehhccCCCcccccccccccccchhhhhhhhcccccccccchhhcccceEEeEeEEEeee
Q psy9646          82 AGDQLGALVKGMKRDEVNRGLIMAKPVLADKKLAKVKQYADIDNAPEEKARGITINVAHVEYAT  145 (211)
Q Consensus        82 ~G~~v~~~l~~~~~~~v~~G~ii~~~~~~~~~~~~f~~~i~~~~~~~e~~rg~tv~~~~~~~~~  145 (211)
                      +||+|+++|++  ..++++|++++.+..++.....|.+.+.... +.....|+...++.++...
T Consensus       304 aG~~V~l~L~~--~~~i~rG~VL~~~~~~~~~~~~f~a~i~~l~-~~~i~~G~~~~l~~gt~~~  364 (474)
T PRK05124        304 AGEAITLVLED--EIDISRGDLLVAADEALQAVQHASADVVWMA-EQPLQPGQSYDIKIAGKKT  364 (474)
T ss_pred             CCCEEEEEeCC--ccccCCccEEECCCCCCccceEEEEEEEEeC-CcccCCCCeEEEEeCCCEE
Confidence            99999999984  5789999999988766666778888776444 3456667777766555443

>TIGR02034 CysN sulfate adenylyltransferase, large subunit

Probab=99.79  E-value=7.5e-19  Score=149.74  Aligned_cols=139  Identities=19%  Similarity=0.188  Sum_probs=115.5

Q ss_pred             hHHHHHhhhCCCCCCCCCCCeeEEEeeEEeecCCcEEEEEEEEEEEEecCCEEEEeecCceeeEEEEEEEecceecceec
Q psy9646           2 ELLNQIDTYIPQPVRDLDKPFYLPVEHTYSIPGRGTVVTGRLERGIVKKGMECEFTGYGRQFKTTVTGIEMFHKILDEAQ   81 (211)
Q Consensus         2 ~ll~~l~~~i~~p~~~~~~p~~~~v~~~~~~~~~G~v~~G~v~~G~i~~g~~v~i~p~~~~~~~~v~~i~~~~~~~~~a~   81 (211)
                      +|+++|++ +++|.+..++||||||+++|+....+..++|+|++|.+++||+|.++|++.  .++|++|+++++++++|.
T Consensus       199 tL~~~L~~-~~~~~~~~~~p~r~~i~~v~~~~~~~~g~~G~v~~G~l~~gd~v~i~P~~~--~~~VksI~~~~~~~~~a~  275 (406)
T TIGR02034       199 TLLEILET-VEVERDAQDLPLRFPVQYVNRPNLDFRGYAGTIASGSVHVGDEVVVLPSGR--SSRVARIVTFDGDLEQAR  275 (406)
T ss_pred             HHHHHHHh-cCCCCCcCCCCcccceEEEeecCCCcEEEEEEEecceeecCCEEEEeCCCc--EEEEEEEEECCcccCEeC
Confidence            58899998 677888889999999999997654444489999999999999999999874  899999999999999999


Q ss_pred             ccCceehhccCCCcccccccccccccchhhhhhhhcccccccccchhhcccceEEeEeEEEeeeC
Q psy9646          82 AGDQLGALVKGMKRDEVNRGLIMAKPVLADKKLAKVKQYADIDNAPEEKARGITINVAHVEYATE  146 (211)
Q Consensus        82 ~G~~v~~~l~~~~~~~v~~G~ii~~~~~~~~~~~~f~~~i~~~~~~~e~~rg~tv~~~~~~~~~~  146 (211)
                      |||+|+++|++  ..+++||++++.+..++.....|.+.+..... .....|+...++.++.+..
T Consensus       276 ~G~~v~l~l~~--~~~i~rG~vl~~~~~~~~~~~~f~a~i~~l~~-~~i~~g~~~~l~~gt~~~~  337 (406)
T TIGR02034       276 AGQAVTLTLDD--EIDISRGDLLAAADSAPEVADQFAATLVWMAE-EPLLPGRSYDLKLGTRKVR  337 (406)
T ss_pred             CCCEEEEEECC--ccccCCccEEEcCCCCCCcceEEEEEEEEeCh-hhcCCCCEEEEEeCCCEEE
Confidence            99999999984  57899999999987766667888887754443 4567788888776665543

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).

>COG2895 CysN GTPases - Sulfate adenylate transferase subunit 1 [Inorganic ion transport and metabolism]

Probab=99.79  E-value=5.1e-19  Score=143.10  Aligned_cols=136  Identities=20%  Similarity=0.231  Sum_probs=119.9

Q ss_pred             hHHHHHhhhCCCCCCCCCCCeeEEEeeEEeecCCcEEEEEEEEEEEEecCCEEEEeecCceeeEEEEEEEecceecceec
Q psy9646           2 ELLNQIDTYIPQPVRDLDKPFYLPVEHTYSIPGRGTVVTGRLERGIVKKGMECEFTGYGRQFKTTVTGIEMFHKILDEAQ   81 (211)
Q Consensus         2 ~ll~~l~~~i~~p~~~~~~p~~~~v~~~~~~~~~G~v~~G~v~~G~i~~g~~v~i~p~~~~~~~~v~~i~~~~~~~~~a~   81 (211)
                      +||+.|++ ++.......+||||||+++.+.+.-.+.+.|+|.+|.+++||+|.++|+|.  .++|++|..++.++.+|.
T Consensus       205 tLLe~LE~-v~i~~~~~~~~~RfPVQ~V~Rp~~dfRGyaGtiasG~v~~Gd~vvvlPsG~--~s~V~~Ivt~dg~~~~A~  281 (431)
T COG2895         205 TLLEILET-VEIADDRSAKAFRFPVQYVNRPNLDFRGYAGTIASGSVKVGDEVVVLPSGK--TSRVKRIVTFDGELAQAS  281 (431)
T ss_pred             cHHHHHhh-ccccccccccceeeceEEecCCCCcccccceeeeccceecCCeEEEccCCC--eeeEEEEeccCCchhhcc
Confidence            68899998 666555667889999999999876556699999999999999999999986  899999999999999999


Q ss_pred             ccCceehhccCCCcccccccccccccchhhhhhhhccccc-ccccchhhcccceEEeEeEEE
Q psy9646          82 AGDQLGALVKGMKRDEVNRGLIMAKPVLADKKLAKVKQYA-DIDNAPEEKARGITINVAHVE  142 (211)
Q Consensus        82 ~G~~v~~~l~~~~~~~v~~G~ii~~~~~~~~~~~~f~~~i-~~~~~~~e~~rg~tv~~~~~~  142 (211)
                      +|+.|++.|.  ++.+++||++++....++.....|.+.+ |++..+.+.+|.|-++.....
T Consensus       282 aG~aVtl~L~--deidisRGd~i~~~~~~~~~~~~f~A~vvWm~~~pl~pGr~Y~lK~~t~~  341 (431)
T COG2895         282 AGEAVTLVLA--DEIDISRGDLIVAADAPPAVADAFDADVVWMDEEPLLPGRSYDLKIATRT  341 (431)
T ss_pred             CCceEEEEEc--ceeecccCcEEEccCCCcchhhhcceeEEEecCCCCCCCceEEEEecceE
Confidence            9999999998  7899999999999988888777877665 799999999999888876544

>PTZ00141 elongation factor 1- alpha; Provisional

Probab=99.79  E-value=4.5e-19  Score=152.45  Aligned_cols=99  Identities=48%  Similarity=0.665  Sum_probs=91.6

Q ss_pred             hhhhcccccccccchhhcccceEEeEeEEEeeeCCceeEeecCCcccccHhHHhhhccccceEEEEEeccCCCC------
Q psy9646         113 KLAKVKQYADIDNAPEEKARGITINVAHVEYATENRHYSHTDCPGHADYIKNMITGTSQMDGAILVVAATDGAM------  186 (211)
Q Consensus       113 ~~~~f~~~i~~~~~~~e~~rg~tv~~~~~~~~~~~~~~~~iDtPG~~~~~~~~~~~~~~~d~~~~vvd~~~~~~------  186 (211)
                      ++.++.+.+.+|..+.|+.||+|+++++..+++++++++|+|||||.+|+.++..+++.+|++++|||+.+|++      
T Consensus        50 ~~~s~~~a~~~D~~~~Er~rGiTid~~~~~~~~~~~~i~lIDtPGh~~f~~~~~~g~~~aD~ailVVda~~G~~e~~~~~  129 (446)
T PTZ00141         50 GKGSFKYAWVLDKLKAERERGITIDIALWKFETPKYYFTIIDAPGHRDFIKNMITGTSQADVAILVVASTAGEFEAGISK  129 (446)
T ss_pred             CCcchhhhhhhcCChHHHhcCEeEEeeeEEEccCCeEEEEEECCChHHHHHHHHHhhhhcCEEEEEEEcCCCceecccCC
Confidence            33455556679999999999999999999999999999999999999999999999999999999999999984      


Q ss_pred             -cchHHHHHHHHHcCCCeEEEEEeCC
Q psy9646         187 -PQTREHLLLAKQIGVTNIVVFINKF  211 (211)
Q Consensus       187 -~~~~~~~~~~~~~~~~~~i~~inK~  211 (211)
                       +|+++|+.++..+|+|++|+++|||
T Consensus       130 ~~qT~eh~~~~~~~gi~~iiv~vNKm  155 (446)
T PTZ00141        130 DGQTREHALLAFTLGVKQMIVCINKM  155 (446)
T ss_pred             CccHHHHHHHHHHcCCCeEEEEEEcc
Confidence             7999999999999999888999997

>cd01884 EF_Tu EF-Tu subfamily

Probab=99.78  E-value=9e-19  Score=135.16  Aligned_cols=91  Identities=80%  Similarity=1.237  Sum_probs=86.5

Q ss_pred             cccccchhhcccceEEeEeEEEeeeCCceeEeecCCcccccHhHHhhhccccceEEEEEeccCCCCcchHHHHHHHHHcC
Q psy9646         121 ADIDNAPEEKARGITINVAHVEYATENRHYSHTDCPGHADYIKNMITGTSQMDGAILVVAATDGAMPQTREHLLLAKQIG  200 (211)
Q Consensus       121 i~~~~~~~e~~rg~tv~~~~~~~~~~~~~~~~iDtPG~~~~~~~~~~~~~~~d~~~~vvd~~~~~~~~~~~~~~~~~~~~  200 (211)
                      ..+|..+.|+.||+|++.+...+++++.+++|+|||||++|+.++..++..+|++++|+|+.+|+.+++++++..+...+
T Consensus        38 ~~~d~~~~E~~rg~Ti~~~~~~~~~~~~~i~~iDtPG~~~~~~~~~~~~~~~D~~ilVvda~~g~~~~~~~~~~~~~~~~  117 (195)
T cd01884          38 DEIDKAPEEKARGITINTAHVEYETANRHYAHVDCPGHADYIKNMITGAAQMDGAILVVSATDGPMPQTREHLLLARQVG  117 (195)
T ss_pred             ccccCChhhhhcCccEEeeeeEecCCCeEEEEEECcCHHHHHHHHHHHhhhCCEEEEEEECCCCCcHHHHHHHHHHHHcC
Confidence            34789999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             CCeEEEEEeCC
Q psy9646         201 VTNIVVFINKF  211 (211)
Q Consensus       201 ~~~~i~~inK~  211 (211)
                      +|++|+++||+
T Consensus       118 ~~~iIvviNK~  128 (195)
T cd01884         118 VPYIVVFLNKA  128 (195)
T ss_pred             CCcEEEEEeCC
Confidence            98788899997

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.

>KOG0459|consensus

Probab=99.77  E-value=6.9e-19  Score=144.36  Aligned_cols=149  Identities=23%  Similarity=0.289  Sum_probs=131.4

Q ss_pred             hHHHHHhhhCCCCCCCCCCCeeEEEeeEEeecCCcEEEEEEEEEEEEecCCEEEEeecCceeeEEEEEEEecceecceec
Q psy9646           2 ELLNQIDTYIPQPVRDLDKPFYLPVEHTYSIPGRGTVVTGRLERGIVKKGMECEFTGYGRQFKTTVTGIEMFHKILDEAQ   81 (211)
Q Consensus         2 ~ll~~l~~~i~~p~~~~~~p~~~~v~~~~~~~~~G~v~~G~v~~G~i~~g~~v~i~p~~~~~~~~v~~i~~~~~~~~~a~   81 (211)
                      .+|+.|++ +|-.+|..++||+|||.+-|+  ..||++.|++++|.++.|+.+.++|.+.  .+.|.+|...+.+++.+.
T Consensus       289 ~fl~~ld~-l~~~~R~~~GP~~~pI~~Kyk--dmGTvv~GKvEsGsi~kg~~lvvMPnk~--~veV~~I~~ddvE~~~~~  363 (501)
T KOG0459|consen  289 IFLEYLDE-LPHLERILNGPIRCPVANKYK--DMGTVVGGKVESGSIKKGQQLVVMPNKT--NVEVLGIYSDDVETDRVA  363 (501)
T ss_pred             ccceehhc-cCcccccCCCCEEeehhhhcc--ccceEEEEEecccceecCCeEEEccCCc--ceEEEEEecccceeeecc
Confidence            36788888 777889999999999999997  6779999999999999999999999975  889999999988999999


Q ss_pred             ccCceehhccCCCcccccccccccccchhhhhhhhcccccccccchhhcccceEEeEeEEEeeeC--CceeEeecC
Q psy9646          82 AGDQLGALVKGMKRDEVNRGLIMAKPVLADKKLAKVKQYADIDNAPEEKARGITINVAHVEYATE--NRHYSHTDC  155 (211)
Q Consensus        82 ~G~~v~~~l~~~~~~~v~~G~ii~~~~~~~~~~~~f~~~i~~~~~~~e~~rg~tv~~~~~~~~~~--~~~~~~iDt  155 (211)
                      +||++.+.|++++.+++..|.++|++..+.+....|.+.+.+..++.-+..||+--++.++.--+  -.-+..+|.
T Consensus       364 pGenvk~rlkgieeedi~~GfiL~~~~n~~~s~~~F~aqi~IlE~~sIi~~GY~~VlHIht~ieEv~i~li~~idk  439 (501)
T KOG0459|consen  364 PGENVKLRLKGIEEEDISPGFILCSPNNPCKSGRTFDAQIVILEHKSIICAGYSCVLHIHTAVEEVEIKLIHLIDK  439 (501)
T ss_pred             CCcceEEEecccchhhccCceEEecCCCccccccEEEEEEEEEecCceeccCcceEeeeeeehhheeeeeeeeecc
Confidence            99999999999999999999999999999999999999999999999999999988877664311  133445565

>TIGR02034 CysN sulfate adenylyltransferase, large subunit

Probab=99.77  E-value=1.1e-18  Score=148.67  Aligned_cols=96  Identities=36%  Similarity=0.616  Sum_probs=91.8

Q ss_pred             hcccccccccchhhcccceEEeEeEEEeeeCCceeEeecCCcccccHhHHhhhccccceEEEEEeccCCCCcchHHHHHH
Q psy9646         116 KVKQYADIDNAPEEKARGITINVAHVEYATENRHYSHTDCPGHADYIKNMITGTSQMDGAILVVAATDGAMPQTREHLLL  195 (211)
Q Consensus       116 ~f~~~i~~~~~~~e~~rg~tv~~~~~~~~~~~~~~~~iDtPG~~~~~~~~~~~~~~~d~~~~vvd~~~~~~~~~~~~~~~  195 (211)
                      +|.+.+.+|..+.|+.||+|+++++..+++++.+++|+|||||++|.+++..++..+|++++|+|+.+|+.+|+++|+.+
T Consensus        48 ~~~~~~~~D~~~eE~~rgiTid~~~~~~~~~~~~~~liDtPGh~~f~~~~~~~~~~aD~allVVda~~G~~~qt~~~~~~  127 (406)
T TIGR02034        48 EIDLALLVDGLQAEREQGITIDVAYRYFSTDKRKFIVADTPGHEQYTRNMATGASTADLAVLLVDARKGVLEQTRRHSYI  127 (406)
T ss_pred             ceeeeeeccCChHHhcCCcCeEeeeEEEccCCeEEEEEeCCCHHHHHHHHHHHHhhCCEEEEEEECCCCCccccHHHHHH
Confidence            57777889999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHcCCCeEEEEEeCC
Q psy9646         196 AKQIGVTNIVVFINKF  211 (211)
Q Consensus       196 ~~~~~~~~~i~~inK~  211 (211)
                      +...+++++|+++||+
T Consensus       128 ~~~~~~~~iivviNK~  143 (406)
T TIGR02034       128 ASLLGIRHVVLAVNKM  143 (406)
T ss_pred             HHHcCCCcEEEEEEec
Confidence            9999998888999996

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).

>COG2895 CysN GTPases - Sulfate adenylate transferase subunit 1 [Inorganic ion transport and metabolism]

Probab=99.77  E-value=7e-19  Score=142.33  Aligned_cols=95  Identities=40%  Similarity=0.635  Sum_probs=90.5

Q ss_pred             cccccccccchhhcccceEEeEeEEEeeeCCceeEeecCCcccccHhHHhhhccccceEEEEEeccCCCCcchHHHHHHH
Q psy9646         117 VKQYADIDNAPEEKARGITINVAHVEYATENRHYSHTDCPGHADYIKNMITGTSQMDGAILVVAATDGAMPQTREHLLLA  196 (211)
Q Consensus       117 f~~~i~~~~~~~e~~rg~tv~~~~~~~~~~~~~~~~iDtPG~~~~~~~~~~~~~~~d~~~~vvd~~~~~~~~~~~~~~~~  196 (211)
                      +...+..|-+..|+++|+|++++|.+|.++..++++.|||||+.|.++|..|.+-||+++++|||.+|+..|+++|..++
T Consensus        55 ~D~ALLvDGL~AEREQGITIDVAYRyFsT~KRkFIiADTPGHeQYTRNMaTGASTadlAIlLVDAR~Gvl~QTrRHs~I~  134 (431)
T COG2895          55 IDLALLVDGLEAEREQGITIDVAYRYFSTEKRKFIIADTPGHEQYTRNMATGASTADLAILLVDARKGVLEQTRRHSFIA  134 (431)
T ss_pred             cchhhhhhhhHHHHhcCceEEEEeeecccccceEEEecCCcHHHHhhhhhcccccccEEEEEEecchhhHHHhHHHHHHH
Confidence            33445689999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHcCCCeEEEEEeCC
Q psy9646         197 KQIGVTNIVVFINKF  211 (211)
Q Consensus       197 ~~~~~~~~i~~inK~  211 (211)
                      .-+|++++++++|||
T Consensus       135 sLLGIrhvvvAVNKm  149 (431)
T COG2895         135 SLLGIRHVVVAVNKM  149 (431)
T ss_pred             HHhCCcEEEEEEeee
Confidence            999999999999997

>PRK05506 bifunctional sulfate adenylyltransferase subunit 1/adenylylsulfate kinase protein; Provisional

Probab=99.76  E-value=7.7e-18  Score=150.90  Aligned_cols=137  Identities=19%  Similarity=0.165  Sum_probs=112.0

Q ss_pred             hHHHHHhhhCCCCCCCCCCCeeEEEeeEEeecCCcEEEEEEEEEEEEecCCEEEEeecCceeeEEEEEEEecceecceec
Q psy9646           2 ELLNQIDTYIPQPVRDLDKPFYLPVEHTYSIPGRGTVVTGRLERGIVKKGMECEFTGYGRQFKTTVTGIEMFHKILDEAQ   81 (211)
Q Consensus         2 ~ll~~l~~~i~~p~~~~~~p~~~~v~~~~~~~~~G~v~~G~v~~G~i~~g~~v~i~p~~~~~~~~v~~i~~~~~~~~~a~   81 (211)
                      +|+++|++ +++|.+..++||||||+++|+....+..++|+|++|.+++||+|.++|++.  +++|++|+++++++++|.
T Consensus       223 tL~~~l~~-~~~~~~~~~~p~r~~i~~v~~~~~~~~g~~G~v~~G~l~~gd~v~i~P~~~--~~~VksI~~~~~~~~~a~  299 (632)
T PRK05506        223 SLLEHLET-VEIASDRNLKDFRFPVQYVNRPNLDFRGFAGTVASGVVRPGDEVVVLPSGK--TSRVKRIVTPDGDLDEAF  299 (632)
T ss_pred             HHHHHHhc-CCCCCCcCCCCceeeEEEEEecCCCceEEEEEEecceeecCCEEEEcCCCc--eEEEEEEEECCceeCEEc
Confidence            68899998 677777789999999999998543333478999999999999999999974  899999999999999999


Q ss_pred             ccCceehhccCCCcccccccccccccchhhhhhhhcccccccccchhhcccceEEeEeEEEee
Q psy9646          82 AGDQLGALVKGMKRDEVNRGLIMAKPVLADKKLAKVKQYADIDNAPEEKARGITINVAHVEYA  144 (211)
Q Consensus        82 ~G~~v~~~l~~~~~~~v~~G~ii~~~~~~~~~~~~f~~~i~~~~~~~e~~rg~tv~~~~~~~~  144 (211)
                      |||+|+++|++  ..++++|++++++..++.....|.+.+.....+ ....|+++.+++++..
T Consensus       300 aG~~v~i~l~~--~~~i~rG~vL~~~~~~~~~~~~f~a~i~~l~~~-~~~~g~~~~l~~gt~~  359 (632)
T PRK05506        300 AGQAVTLTLAD--EIDISRGDMLARADNRPEVADQFDATVVWMAEE-PLLPGRPYLLKHGTRT  359 (632)
T ss_pred             CCCeEEEEecC--ccccCCccEEecCCCCCcceeEEEEEEEEeccc-ccCCCCeEEEEeCCCE
Confidence            99999999984  568999999999876666677788877654433 3446777776655544

>PLN00043 elongation factor 1-alpha; Provisional

Probab=99.76  E-value=2.4e-18  Score=147.96  Aligned_cols=97  Identities=43%  Similarity=0.632  Sum_probs=90.2

Q ss_pred             hhcccccccccchhhcccceEEeEeEEEeeeCCceeEeecCCcccccHhHHhhhccccceEEEEEeccCCCC-------c
Q psy9646         115 AKVKQYADIDNAPEEKARGITINVAHVEYATENRHYSHTDCPGHADYIKNMITGTSQMDGAILVVAATDGAM-------P  187 (211)
Q Consensus       115 ~~f~~~i~~~~~~~e~~rg~tv~~~~~~~~~~~~~~~~iDtPG~~~~~~~~~~~~~~~d~~~~vvd~~~~~~-------~  187 (211)
                      .+|...+.+|..+.|+.||+|+++++..++++++.++|+|||||++|.++|..+++.+|++++|+|+.+|.+       +
T Consensus        52 ~~~~~a~~~D~~~~Er~rGiTi~~~~~~~~~~~~~i~liDtPGh~df~~~~~~g~~~aD~aIlVVda~~G~~e~g~~~~~  131 (447)
T PLN00043         52 RSFKYAWVLDKLKAERERGITIDIALWKFETTKYYCTVIDAPGHRDFIKNMITGTSQADCAVLIIDSTTGGFEAGISKDG  131 (447)
T ss_pred             cchhhhhhhcCCHhHHhcCceEEEEEEEecCCCEEEEEEECCCHHHHHHHHHhhhhhccEEEEEEEcccCceecccCCCc
Confidence            456666779999999999999999999999999999999999999999999999999999999999998843       7


Q ss_pred             chHHHHHHHHHcCCCeEEEEEeCC
Q psy9646         188 QTREHLLLAKQIGVTNIVVFINKF  211 (211)
Q Consensus       188 ~~~~~~~~~~~~~~~~~i~~inK~  211 (211)
                      |+++|+.++..+|+|++|+++|||
T Consensus       132 qT~eh~~~~~~~gi~~iIV~vNKm  155 (447)
T PLN00043        132 QTREHALLAFTLGVKQMICCCNKM  155 (447)
T ss_pred             hHHHHHHHHHHcCCCcEEEEEEcc
Confidence            999999999999999888999997

>TIGR00475 selB selenocysteine-specific elongation factor SelB

Probab=99.75  E-value=1e-17  Score=148.33  Aligned_cols=88  Identities=25%  Similarity=0.470  Sum_probs=83.0

Q ss_pred             CCCCeeEEEeeEEeecCCcEEEEEEEEEEEEecCCEEEEeecCceeeEEEEEEEecceecceecccCceehhccCCCccc
Q psy9646          18 LDKPFYLPVEHTYSIPGRGTVVTGRLERGIVKKGMECEFTGYGRQFKTTVTGIEMFHKILDEAQAGDQLGALVKGMKRDE   97 (211)
Q Consensus        18 ~~~p~~~~v~~~~~~~~~G~v~~G~v~~G~i~~g~~v~i~p~~~~~~~~v~~i~~~~~~~~~a~~G~~v~~~l~~~~~~~   97 (211)
                      .++||||||+++|.++|.|+|++|+|.+|++++||++.++|++.  .++|++|+.+++++++|.|||+|+++|++++..+
T Consensus       173 ~~~p~r~~Id~~f~v~G~GtVv~G~v~~G~i~~Gd~l~i~P~~~--~~~Vr~iq~~~~~v~~a~aG~rval~L~~i~~~~  250 (581)
T TIGR00475       173 IQKPLRMAIDRAFKVKGAGTVVTGTAFSGEVKVGDNLRLLPINH--EVRVKAIQAQNQDVEIAYAGQRIALNLMDVEPES  250 (581)
T ss_pred             cCCCcEEEEEEEEecCCcEEEEEEEEecceEecCCEEEECCCCc--eEEEeEEEECCccCCEEECCCEEEEEeCCCCHHH
Confidence            67899999999999999999999999999999999999999974  8999999999999999999999999999999999


Q ss_pred             cccccccccc
Q psy9646          98 VNRGLIMAKP  107 (211)
Q Consensus        98 v~~G~ii~~~  107 (211)
                      ++||.+++.+
T Consensus       251 i~rG~~~~~~  260 (581)
T TIGR00475       251 LKRGLLILTP  260 (581)
T ss_pred             cCCceEEcCC
Confidence            9999766654

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.

>PLN03127 Elongation factor Tu; Provisional

Probab=99.74  E-value=6.6e-18  Score=145.12  Aligned_cols=90  Identities=72%  Similarity=1.208  Sum_probs=86.1

Q ss_pred             ccccchhhcccceEEeEeEEEeeeCCceeEeecCCcccccHhHHhhhccccceEEEEEeccCCCCcchHHHHHHHHHcCC
Q psy9646         122 DIDNAPEEKARGITINVAHVEYATENRHYSHTDCPGHADYIKNMITGTSQMDGAILVVAATDGAMPQTREHLLLAKQIGV  201 (211)
Q Consensus       122 ~~~~~~~e~~rg~tv~~~~~~~~~~~~~~~~iDtPG~~~~~~~~~~~~~~~d~~~~vvd~~~~~~~~~~~~~~~~~~~~~  201 (211)
                      .+|..+.|+.||+|+++.+..|++++.+++|+|||||++|+.++..++..+|++++|+|+.+|+++|+++|+.++...++
T Consensus        98 ~~D~~~~E~~rGiTi~~~~~~~~~~~~~i~~iDtPGh~~f~~~~~~g~~~aD~allVVda~~g~~~qt~e~l~~~~~~gi  177 (447)
T PLN03127         98 EIDKAPEEKARGITIATAHVEYETAKRHYAHVDCPGHADYVKNMITGAAQMDGGILVVSAPDGPMPQTKEHILLARQVGV  177 (447)
T ss_pred             cccCChhHhhcCceeeeeEEEEcCCCeEEEEEECCCccchHHHHHHHHhhCCEEEEEEECCCCCchhHHHHHHHHHHcCC
Confidence            47899999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             CeEEEEEeCC
Q psy9646         202 TNIVVFINKF  211 (211)
Q Consensus       202 ~~~i~~inK~  211 (211)
                      |.+|+++||+
T Consensus       178 p~iIvviNKi  187 (447)
T PLN03127        178 PSLVVFLNKV  187 (447)
T ss_pred             CeEEEEEEee
Confidence            9777899996

>KOG0458|consensus

Probab=99.74  E-value=7.5e-18  Score=143.82  Aligned_cols=101  Identities=38%  Similarity=0.612  Sum_probs=95.2

Q ss_pred             hhhhhhcccccccccchhhcccceEEeEeEEEeeeCCceeEeecCCcccccHhHHhhhccccceEEEEEeccCCCC----
Q psy9646         111 DKKLAKVKQYADIDNAPEEKARGITINVAHVEYATENRHYSHTDCPGHADYIKNMITGTSQMDGAILVVAATDGAM----  186 (211)
Q Consensus       111 ~~~~~~f~~~i~~~~~~~e~~rg~tv~~~~~~~~~~~~~~~~iDtPG~~~~~~~~~~~~~~~d~~~~vvd~~~~~~----  186 (211)
                      ..++.+|.+.|.+|..+.|+.||+|.+....+|++..+.++++|+|||.+|+.+|+.|...||+++|||||..+.+    
T Consensus       218 ~~Gk~Sf~yawiLDeT~eERerGvTm~v~~~~fes~~~~~tliDaPGhkdFi~nmi~g~sqaD~avLvvd~s~~~FE~gf  297 (603)
T KOG0458|consen  218 NLGKSSFAYAWILDETKEERERGVTMDVKTTWFESKSKIVTLIDAPGHKDFIPNMISGASQADVAVLVVDASTGEFESGF  297 (603)
T ss_pred             hcCCcceeeeEEeccchhhhhcceeEEeeeEEEecCceeEEEecCCCccccchhhhccccccceEEEEEECCcchhhhcc
Confidence            3466778888999999999999999999999999999999999999999999999999999999999999987765    


Q ss_pred             ---cchHHHHHHHHHcCCCeEEEEEeCC
Q psy9646         187 ---PQTREHLLLAKQIGVTNIVVFINKF  211 (211)
Q Consensus       187 ---~~~~~~~~~~~~~~~~~~i~~inK~  211 (211)
                         +|+++|+.+++.+|+.++|+++|||
T Consensus       298 d~~gQtrEha~llr~Lgi~qlivaiNKm  325 (603)
T KOG0458|consen  298 DPGGQTREHALLLRSLGISQLIVAINKM  325 (603)
T ss_pred             CCCCchHHHHHHHHHcCcceEEEEeecc
Confidence               7999999999999999999999997

>PRK05124 cysN sulfate adenylyltransferase subunit 1; Provisional

Probab=99.73  E-value=8.3e-18  Score=145.67  Aligned_cols=96  Identities=40%  Similarity=0.634  Sum_probs=90.5

Q ss_pred             hcccccccccchhhcccceEEeEeEEEeeeCCceeEeecCCcccccHhHHhhhccccceEEEEEeccCCCCcchHHHHHH
Q psy9646         116 KVKQYADIDNAPEEKARGITINVAHVEYATENRHYSHTDCPGHADYIKNMITGTSQMDGAILVVAATDGAMPQTREHLLL  195 (211)
Q Consensus       116 ~f~~~i~~~~~~~e~~rg~tv~~~~~~~~~~~~~~~~iDtPG~~~~~~~~~~~~~~~d~~~~vvd~~~~~~~~~~~~~~~  195 (211)
                      +|...+.+|..+.|+.||+|+++++..+++++.+++|+|||||++|.+++..++..+|++++|+|+.+|+.+|+++++.+
T Consensus        75 ~~~~a~~~D~~~eEr~rgiTid~~~~~~~~~~~~i~~iDTPGh~~f~~~~~~~l~~aD~allVVDa~~G~~~qt~~~~~l  154 (474)
T PRK05124         75 KLDLALLVDGLQAEREQGITIDVAYRYFSTEKRKFIIADTPGHEQYTRNMATGASTCDLAILLIDARKGVLDQTRRHSFI  154 (474)
T ss_pred             ccchhhhccCChHHhhcCCCeEeeEEEeccCCcEEEEEECCCcHHHHHHHHHHHhhCCEEEEEEECCCCccccchHHHHH
Confidence            46666779999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHcCCCeEEEEEeCC
Q psy9646         196 AKQIGVTNIVVFINKF  211 (211)
Q Consensus       196 ~~~~~~~~~i~~inK~  211 (211)
                      +..++++++|+++||+
T Consensus       155 ~~~lg~~~iIvvvNKi  170 (474)
T PRK05124        155 ATLLGIKHLVVAVNKM  170 (474)
T ss_pred             HHHhCCCceEEEEEee
Confidence            9999988788999996

>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=99.73  E-value=6.8e-18  Score=129.61  Aligned_cols=89  Identities=47%  Similarity=0.810  Sum_probs=84.6

Q ss_pred             ccccchhhcccceEEeEeEEEee--eCCceeEeecCCcccccHhHHhhhccccceEEEEEeccCCCCcchHHHHHHHHHc
Q psy9646         122 DIDNAPEEKARGITINVAHVEYA--TENRHYSHTDCPGHADYIKNMITGTSQMDGAILVVAATDGAMPQTREHLLLAKQI  199 (211)
Q Consensus       122 ~~~~~~~e~~rg~tv~~~~~~~~--~~~~~~~~iDtPG~~~~~~~~~~~~~~~d~~~~vvd~~~~~~~~~~~~~~~~~~~  199 (211)
                      .++..+.|..+++|++++...+.  ...++++|+|||||.+|.+++..++..+|++++|||+.+|+..+++++++.+...
T Consensus        42 ~~~~~~~e~~~~~ti~~~~~~~~~~~~~~~i~~iDtPG~~~f~~~~~~~~~~~D~ailvVda~~g~~~~~~~~l~~~~~~  121 (188)
T PF00009_consen   42 FLDKHPEERERGITIDLSFISFEKNENNRKITLIDTPGHEDFIKEMIRGLRQADIAILVVDANDGIQPQTEEHLKILREL  121 (188)
T ss_dssp             HHHSSHHHHHCTSSSSSEEEEEEBTESSEEEEEEEESSSHHHHHHHHHHHTTSSEEEEEEETTTBSTHHHHHHHHHHHHT
T ss_pred             cccccchhhhcccccccccccccccccccceeecccccccceeecccceecccccceeeeeccccccccccccccccccc
Confidence            37889999999999999999999  9999999999999999999999999999999999999999999999999999999


Q ss_pred             CCCeEEEEEeCC
Q psy9646         200 GVTNIVVFINKF  211 (211)
Q Consensus       200 ~~~~~i~~inK~  211 (211)
                      ++| +|+|+||+
T Consensus       122 ~~p-~ivvlNK~  132 (188)
T PF00009_consen  122 GIP-IIVVLNKM  132 (188)
T ss_dssp             T-S-EEEEEETC
T ss_pred             ccc-eEEeeeec
Confidence            999 88999997

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 ....

>KOG0458|consensus

Probab=99.73  E-value=1.2e-17  Score=142.62  Aligned_cols=143  Identities=22%  Similarity=0.335  Sum_probs=129.2

Q ss_pred             hHHHHHhhhCCCCCCCCCCCeeEEEeeEEeecCCcEEEEEEEEEEEEecCCEEEEeecCceeeEEEEEEEecceecceec
Q psy9646           2 ELLNQIDTYIPQPVRDLDKPFYLPVEHTYSIPGRGTVVTGRLERGIVKKGMECEFTGYGRQFKTTVTGIEMFHKILDEAQ   81 (211)
Q Consensus         2 ~ll~~l~~~i~~p~~~~~~p~~~~v~~~~~~~~~G~v~~G~v~~G~i~~g~~v~i~p~~~~~~~~v~~i~~~~~~~~~a~   81 (211)
                      +||++|++ +.+|.+..++||+|+|.+++..+..|..++|+|++|.+++|+++.++|+.+  .+.|++|.+++++..+|.
T Consensus       387 ~LL~~id~-~~~p~~~~~kPl~ltIsdi~~~~~~~~~i~gkiesG~iq~gqkl~i~~s~e--~~~vk~l~~~~~~~~~a~  463 (603)
T KOG0458|consen  387 TLLSQIDS-FKIPERPIDKPLRLTISDIYPLPSSGVSISGKIESGYIQPGQKLYIMTSRE--DATVKGLTSNDEPKTWAV  463 (603)
T ss_pred             hHHHHHhh-ccCCCCcccCCeEEEhhheeecCCCeeEEEEEEeccccccCCEEEEecCcc--eEEEEeeecCCCcceeEe
Confidence            68999999 677999999999999999999999999999999999999999999999976  899999999999999999


Q ss_pred             ccCceehhccCCCccccccccccc-ccchhhhhhhhcccccccccchhhcccceEEeEeEEEeeeCC
Q psy9646          82 AGDQLGALVKGMKRDEVNRGLIMA-KPVLADKKLAKVKQYADIDNAPEEKARGITINVAHVEYATEN  147 (211)
Q Consensus        82 ~G~~v~~~l~~~~~~~v~~G~ii~-~~~~~~~~~~~f~~~i~~~~~~~e~~rg~tv~~~~~~~~~~~  147 (211)
                      |||+|.+.|.++.++.+..|++++ .+.-+.+....|.+.+.......++.+|+++.++++......
T Consensus       464 AGD~Vsl~L~~i~~n~v~~g~i~~~~~~~~i~~~~~f~~~~~~f~~~~Pi~~g~~l~l~~~~~~~pa  530 (603)
T KOG0458|consen  464 AGDNVSLKLPGILPNLVQVGDIADSGPQFPISKTTRFVARITTFDINLPITKGSPLILHFGSLSEPA  530 (603)
T ss_pred             eCCEEEEecCccChhhcccceeeecCCCccccceeEEEEEEEEeeccccccCCcceEEEeccccchh
Confidence            999999999999999999999999 455555666778888888888889999999999888776543

>PRK12736 elongation factor Tu; Reviewed

Probab=99.72  E-value=1.6e-17  Score=141.17  Aligned_cols=91  Identities=77%  Similarity=1.220  Sum_probs=86.6

Q ss_pred             cccccchhhcccceEEeEeEEEeeeCCceeEeecCCcccccHhHHhhhccccceEEEEEeccCCCCcchHHHHHHHHHcC
Q psy9646         121 ADIDNAPEEKARGITINVAHVEYATENRHYSHTDCPGHADYIKNMITGTSQMDGAILVVAATDGAMPQTREHLLLAKQIG  200 (211)
Q Consensus       121 i~~~~~~~e~~rg~tv~~~~~~~~~~~~~~~~iDtPG~~~~~~~~~~~~~~~d~~~~vvd~~~~~~~~~~~~~~~~~~~~  200 (211)
                      ..+|..+.|+.||+|++++...|++++.+++|+|||||++|+.++..++..+|++++|+|+.+|+.+|+++|+.++...+
T Consensus        48 ~~~d~~~~E~~rg~T~~~~~~~~~~~~~~i~~iDtPGh~~f~~~~~~~~~~~d~~llVvd~~~g~~~~t~~~~~~~~~~g  127 (394)
T PRK12736         48 DSIDAAPEEKERGITINTAHVEYETEKRHYAHVDCPGHADYVKNMITGAAQMDGAILVVAATDGPMPQTREHILLARQVG  127 (394)
T ss_pred             hhhcCCHHHHhcCccEEEEeeEecCCCcEEEEEECCCHHHHHHHHHHHHhhCCEEEEEEECCCCCchhHHHHHHHHHHcC
Confidence            35899999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             CCeEEEEEeCC
Q psy9646         201 VTNIVVFINKF  211 (211)
Q Consensus       201 ~~~~i~~inK~  211 (211)
                      +|++|+++||+
T Consensus       128 ~~~~IvviNK~  138 (394)
T PRK12736        128 VPYLVVFLNKV  138 (394)
T ss_pred             CCEEEEEEEec
Confidence            99778899996

>COG0480 FusA Translation elongation factors (GTPases) [Translation, ribosomal structure and biogenesis]

Probab=99.72  E-value=1.9e-17  Score=147.69  Aligned_cols=89  Identities=33%  Similarity=0.506  Sum_probs=85.9

Q ss_pred             ccccchhhcccceEEeEeEEEeeeCC-ceeEeecCCcccccHhHHhhhccccceEEEEEeccCCCCcchHHHHHHHHHcC
Q psy9646         122 DIDNAPEEKARGITINVAHVEYATEN-RHYSHTDCPGHADYIKNMITGTSQMDGAILVVAATDGAMPQTREHLLLAKQIG  200 (211)
Q Consensus       122 ~~~~~~~e~~rg~tv~~~~~~~~~~~-~~~~~iDtPG~~~~~~~~~~~~~~~d~~~~vvd~~~~~~~~~~~~~~~~~~~~  200 (211)
                      .+|..+.|+.||+|+.++..++.|++ +++++||||||-||..++.++++.+|++++|+||.+|+++|++.+|+++.+.+
T Consensus        49 ~~D~~e~EqeRGITI~saa~s~~~~~~~~iNlIDTPGHVDFt~EV~rslrvlDgavvVvdaveGV~~QTEtv~rqa~~~~  128 (697)
T COG0480          49 TMDWMEQEQERGITITSAATTLFWKGDYRINLIDTPGHVDFTIEVERSLRVLDGAVVVVDAVEGVEPQTETVWRQADKYG  128 (697)
T ss_pred             cCCCcHHHHhcCCEEeeeeeEEEEcCceEEEEeCCCCccccHHHHHHHHHhhcceEEEEECCCCeeecHHHHHHHHhhcC
Confidence            58999999999999999999999995 99999999999999999999999999999999999999999999999999999


Q ss_pred             CCeEEEEEeCC
Q psy9646         201 VTNIVVFINKF  211 (211)
Q Consensus       201 ~~~~i~~inK~  211 (211)
                      +|+ |+++|||
T Consensus       129 vp~-i~fiNKm  138 (697)
T COG0480         129 VPR-ILFVNKM  138 (697)
T ss_pred             CCe-EEEEECc
Confidence            995 5899997

>TIGR00485 EF-Tu translation elongation factor TU

Probab=99.71  E-value=2.9e-17  Score=139.65  Aligned_cols=95  Identities=78%  Similarity=1.236  Sum_probs=87.8

Q ss_pred             cccccccccchhhcccceEEeEeEEEeeeCCceeEeecCCcccccHhHHhhhccccceEEEEEeccCCCCcchHHHHHHH
Q psy9646         117 VKQYADIDNAPEEKARGITINVAHVEYATENRHYSHTDCPGHADYIKNMITGTSQMDGAILVVAATDGAMPQTREHLLLA  196 (211)
Q Consensus       117 f~~~i~~~~~~~e~~rg~tv~~~~~~~~~~~~~~~~iDtPG~~~~~~~~~~~~~~~d~~~~vvd~~~~~~~~~~~~~~~~  196 (211)
                      +.....+|..+.|+.||+|+++++..+++++.+++|+|||||++|+.++..++..+|++++|+|+.+|+.+|+++++..+
T Consensus        44 ~~~~~~~d~~~~E~~rG~Ti~~~~~~~~~~~~~~~liDtpGh~~f~~~~~~~~~~~D~~ilVvda~~g~~~qt~e~l~~~  123 (394)
T TIGR00485        44 ARAYDQIDNAPEEKARGITINTAHVEYETENRHYAHVDCPGHADYVKNMITGAAQMDGAILVVSATDGPMPQTREHILLA  123 (394)
T ss_pred             ccccccccCCHHHHhcCcceeeEEEEEcCCCEEEEEEECCchHHHHHHHHHHHhhCCEEEEEEECCCCCcHHHHHHHHHH
Confidence            33344589999999999999999999998889999999999999999999999999999999999999999999999999


Q ss_pred             HHcCCCeEEEEEeCC
Q psy9646         197 KQIGVTNIVVFINKF  211 (211)
Q Consensus       197 ~~~~~~~~i~~inK~  211 (211)
                      ...++|++|+++||+
T Consensus       124 ~~~gi~~iIvvvNK~  138 (394)
T TIGR00485       124 RQVGVPYIVVFLNKC  138 (394)
T ss_pred             HHcCCCEEEEEEEec
Confidence            999999777789997

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.

>CHL00071 tufA elongation factor Tu

Probab=99.71  E-value=3.4e-17  Score=139.79  Aligned_cols=90  Identities=80%  Similarity=1.259  Sum_probs=86.0

Q ss_pred             ccccchhhcccceEEeEeEEEeeeCCceeEeecCCcccccHhHHhhhccccceEEEEEeccCCCCcchHHHHHHHHHcCC
Q psy9646         122 DIDNAPEEKARGITINVAHVEYATENRHYSHTDCPGHADYIKNMITGTSQMDGAILVVAATDGAMPQTREHLLLAKQIGV  201 (211)
Q Consensus       122 ~~~~~~~e~~rg~tv~~~~~~~~~~~~~~~~iDtPG~~~~~~~~~~~~~~~d~~~~vvd~~~~~~~~~~~~~~~~~~~~~  201 (211)
                      .+|..+.|+.||+|+++....|++++.+++|+|||||++|+++++.++..+|++++|+|+.+|+.+|+++++.++...++
T Consensus        49 ~~d~~~~e~~rg~T~~~~~~~~~~~~~~~~~iDtPGh~~~~~~~~~~~~~~D~~ilVvda~~g~~~qt~~~~~~~~~~g~  128 (409)
T CHL00071         49 EIDSAPEEKARGITINTAHVEYETENRHYAHVDCPGHADYVKNMITGAAQMDGAILVVSAADGPMPQTKEHILLAKQVGV  128 (409)
T ss_pred             cccCChhhhcCCEeEEccEEEEccCCeEEEEEECCChHHHHHHHHHHHHhCCEEEEEEECCCCCcHHHHHHHHHHHHcCC
Confidence            47889999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             CeEEEEEeCC
Q psy9646         202 TNIVVFINKF  211 (211)
Q Consensus       202 ~~~i~~inK~  211 (211)
                      |++|+++||+
T Consensus       129 ~~iIvvvNK~  138 (409)
T CHL00071        129 PNIVVFLNKE  138 (409)
T ss_pred             CEEEEEEEcc
Confidence            9788899996

>PRK00049 elongation factor Tu; Reviewed

Probab=99.71  E-value=4.1e-17  Score=138.69  Aligned_cols=90  Identities=78%  Similarity=1.238  Sum_probs=85.3

Q ss_pred             ccccchhhcccceEEeEeEEEeeeCCceeEeecCCcccccHhHHhhhccccceEEEEEeccCCCCcchHHHHHHHHHcCC
Q psy9646         122 DIDNAPEEKARGITINVAHVEYATENRHYSHTDCPGHADYIKNMITGTSQMDGAILVVAATDGAMPQTREHLLLAKQIGV  201 (211)
Q Consensus       122 ~~~~~~~e~~rg~tv~~~~~~~~~~~~~~~~iDtPG~~~~~~~~~~~~~~~d~~~~vvd~~~~~~~~~~~~~~~~~~~~~  201 (211)
                      .+|..+.|+.||+|+++++..+++++.+++|+|||||++|+.++..++..+|++++|+|+.+|+.+++++++.++...++
T Consensus        49 ~~d~~~~E~~rg~Ti~~~~~~~~~~~~~i~~iDtPG~~~f~~~~~~~~~~aD~~llVVDa~~g~~~qt~~~~~~~~~~g~  128 (396)
T PRK00049         49 QIDKAPEEKARGITINTAHVEYETEKRHYAHVDCPGHADYVKNMITGAAQMDGAILVVSAADGPMPQTREHILLARQVGV  128 (396)
T ss_pred             hccCChHHHhcCeEEeeeEEEEcCCCeEEEEEECCCHHHHHHHHHhhhccCCEEEEEEECCCCCchHHHHHHHHHHHcCC
Confidence            57999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             CeEEEEEeCC
Q psy9646         202 TNIVVFINKF  211 (211)
Q Consensus       202 ~~~i~~inK~  211 (211)
                      |.+|+++||+
T Consensus       129 p~iiVvvNK~  138 (396)
T PRK00049        129 PYIVVFLNKC  138 (396)
T ss_pred             CEEEEEEeec
Confidence            9666789996

>PLN03126 Elongation factor Tu; Provisional

Probab=99.71  E-value=4.1e-17  Score=141.03  Aligned_cols=90  Identities=76%  Similarity=1.221  Sum_probs=86.2

Q ss_pred             ccccchhhcccceEEeEeEEEeeeCCceeEeecCCcccccHhHHhhhccccceEEEEEeccCCCCcchHHHHHHHHHcCC
Q psy9646         122 DIDNAPEEKARGITINVAHVEYATENRHYSHTDCPGHADYIKNMITGTSQMDGAILVVAATDGAMPQTREHLLLAKQIGV  201 (211)
Q Consensus       122 ~~~~~~~e~~rg~tv~~~~~~~~~~~~~~~~iDtPG~~~~~~~~~~~~~~~d~~~~vvd~~~~~~~~~~~~~~~~~~~~~  201 (211)
                      .+|..+.|+.||+|+++.+..+++++.+++|+|||||++|++++..++..+|++++|+|+.+|+.+|+++|+.++..+|+
T Consensus       118 ~~D~~~~Er~rGiTi~~~~~~~~~~~~~i~liDtPGh~~f~~~~~~g~~~aD~ailVVda~~G~~~qt~e~~~~~~~~gi  197 (478)
T PLN03126        118 EIDAAPEERARGITINTATVEYETENRHYAHVDCPGHADYVKNMITGAAQMDGAILVVSGADGPMPQTKEHILLAKQVGV  197 (478)
T ss_pred             cccCChhHHhCCeeEEEEEEEEecCCcEEEEEECCCHHHHHHHHHHHHhhCCEEEEEEECCCCCcHHHHHHHHHHHHcCC
Confidence            47888999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             CeEEEEEeCC
Q psy9646         202 TNIVVFINKF  211 (211)
Q Consensus       202 ~~~i~~inK~  211 (211)
                      |++|+++||+
T Consensus       198 ~~iIvvvNK~  207 (478)
T PLN03126        198 PNMVVFLNKQ  207 (478)
T ss_pred             CeEEEEEecc
Confidence            9888899997

>PRK12735 elongation factor Tu; Reviewed

Probab=99.71  E-value=4.2e-17  Score=138.66  Aligned_cols=91  Identities=77%  Similarity=1.228  Sum_probs=85.7

Q ss_pred             cccccchhhcccceEEeEeEEEeeeCCceeEeecCCcccccHhHHhhhccccceEEEEEeccCCCCcchHHHHHHHHHcC
Q psy9646         121 ADIDNAPEEKARGITINVAHVEYATENRHYSHTDCPGHADYIKNMITGTSQMDGAILVVAATDGAMPQTREHLLLAKQIG  200 (211)
Q Consensus       121 i~~~~~~~e~~rg~tv~~~~~~~~~~~~~~~~iDtPG~~~~~~~~~~~~~~~d~~~~vvd~~~~~~~~~~~~~~~~~~~~  200 (211)
                      ..+|..+.|+.||+|++++...+++++.+++|+|||||++|++++..++..+|++++|+|+.+|+.+|+++++.++...+
T Consensus        48 ~~~d~~~~E~~rGiT~~~~~~~~~~~~~~i~~iDtPGh~~f~~~~~~~~~~aD~~llVvda~~g~~~qt~e~l~~~~~~g  127 (396)
T PRK12735         48 DQIDNAPEEKARGITINTSHVEYETANRHYAHVDCPGHADYVKNMITGAAQMDGAILVVSAADGPMPQTREHILLARQVG  127 (396)
T ss_pred             hhccCChhHHhcCceEEEeeeEEcCCCcEEEEEECCCHHHHHHHHHhhhccCCEEEEEEECCCCCchhHHHHHHHHHHcC
Confidence            35899999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             CCeEEEEEeCC
Q psy9646         201 VTNIVVFINKF  211 (211)
Q Consensus       201 ~~~~i~~inK~  211 (211)
                      +|.+|+++||+
T Consensus       128 i~~iivvvNK~  138 (396)
T PRK12735        128 VPYIVVFLNKC  138 (396)
T ss_pred             CCeEEEEEEec
Confidence            99766789996

>COG1217 TypA Predicted membrane GTPase involved in stress response [Signal transduction mechanisms]

Probab=99.70  E-value=3.3e-17  Score=136.81  Aligned_cols=91  Identities=37%  Similarity=0.485  Sum_probs=86.7

Q ss_pred             ccccccchhhcccceEEeEeEEEeeeCCceeEeecCCcccccHhHHhhhccccceEEEEEeccCCCCcchHHHHHHHHHc
Q psy9646         120 YADIDNAPEEKARGITINVAHVEYATENRHYSHTDCPGHADYIKNMITGTSQMDGAILVVAATDGAMPQTREHLLLAKQI  199 (211)
Q Consensus       120 ~i~~~~~~~e~~rg~tv~~~~~~~~~~~~~~~~iDtPG~~~~~~~~~~~~~~~d~~~~vvd~~~~~~~~~~~~~~~~~~~  199 (211)
                      ...||+...|+.||+|+-.......+++..|+++|||||.+|-.++.+.++.+|.++++|||.+|+++||+.+++.+.++
T Consensus        40 ERvMDSnDlEkERGITILaKnTav~~~~~~INIvDTPGHADFGGEVERvl~MVDgvlLlVDA~EGpMPQTrFVlkKAl~~  119 (603)
T COG1217          40 ERVMDSNDLEKERGITILAKNTAVNYNGTRINIVDTPGHADFGGEVERVLSMVDGVLLLVDASEGPMPQTRFVLKKALAL  119 (603)
T ss_pred             hhhcCccchhhhcCcEEEeccceeecCCeEEEEecCCCcCCccchhhhhhhhcceEEEEEEcccCCCCchhhhHHHHHHc
Confidence            34699999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             CCCeEEEEEeCC
Q psy9646         200 GVTNIVVFINKF  211 (211)
Q Consensus       200 ~~~~~i~~inK~  211 (211)
                      |.++| +|+||+
T Consensus       120 gL~PI-VVvNKi  130 (603)
T COG1217         120 GLKPI-VVINKI  130 (603)
T ss_pred             CCCcE-EEEeCC
Confidence            99965 899997

>cd01885 EF2 EF2 (for archaea and eukarya)

Probab=99.69  E-value=7.7e-17  Score=126.58  Aligned_cols=90  Identities=31%  Similarity=0.428  Sum_probs=82.2

Q ss_pred             cccccchhhcccceEEeEeEEEeeeC----------CceeEeecCCcccccHhHHhhhccccceEEEEEeccCCCCcchH
Q psy9646         121 ADIDNAPEEKARGITINVAHVEYATE----------NRHYSHTDCPGHADYIKNMITGTSQMDGAILVVAATDGAMPQTR  190 (211)
Q Consensus       121 i~~~~~~~e~~rg~tv~~~~~~~~~~----------~~~~~~iDtPG~~~~~~~~~~~~~~~d~~~~vvd~~~~~~~~~~  190 (211)
                      ..+|..+.|+.||+|+..+..++.+.          +.+++|+|||||++|..++..++..+|++++|+|+.+|+..+++
T Consensus        36 ~~~D~~~~E~~RgiTi~~~~~~~~~~~~~~~~~~~~~~~i~iiDTPG~~~f~~~~~~~l~~aD~~ilVvD~~~g~~~~t~  115 (222)
T cd01885          36 RYMDSREDEQERGITMKSSAISLYFEYEEEDKADGNEYLINLIDSPGHVDFSSEVTAALRLCDGALVVVDAVEGVCVQTE  115 (222)
T ss_pred             eeccCCHHHHHhccccccceEEEEEecCcccccCCCceEEEEECCCCccccHHHHHHHHHhcCeeEEEEECCCCCCHHHH
Confidence            45899999999999999887665554          67899999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHcCCCeEEEEEeCC
Q psy9646         191 EHLLLAKQIGVTNIVVFINKF  211 (211)
Q Consensus       191 ~~~~~~~~~~~~~~i~~inK~  211 (211)
                      ++++.+...++| +|+++||+
T Consensus       116 ~~l~~~~~~~~p-~ilviNKi  135 (222)
T cd01885         116 TVLRQALKERVK-PVLVINKI  135 (222)
T ss_pred             HHHHHHHHcCCC-EEEEEECC
Confidence            999999988988 78999997

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

>COG4108 PrfC Peptide chain release factor RF-3 [Translation, ribosomal structure and biogenesis]

Probab=99.69  E-value=4.2e-17  Score=135.26  Aligned_cols=87  Identities=28%  Similarity=0.470  Sum_probs=83.5

Q ss_pred             ccchhhcccceEEeEeEEEeeeCCceeEeecCCcccccHhHHhhhccccceEEEEEeccCCCCcchHHHHHHHHHcCCCe
Q psy9646         124 DNAPEEKARGITINVAHVEYATENRHYSHTDCPGHADYIKNMITGTSQMDGAILVVAATDGAMPQTREHLLLAKQIGVTN  203 (211)
Q Consensus       124 ~~~~~e~~rg~tv~~~~~~~~~~~~~~~~iDtPG~~~~~~~~~~~~~~~d~~~~vvd~~~~~~~~~~~~~~~~~~~~~~~  203 (211)
                      |=...|++||+++.++...|++.++.++++|||||+||...+++.|..+|.+++|+||.+|+.+||.++++.|+..++| 
T Consensus        57 DWM~iEkqRGISVtsSVMqF~Y~~~~iNLLDTPGHeDFSEDTYRtLtAvDsAvMVIDaAKGiE~qT~KLfeVcrlR~iP-  135 (528)
T COG4108          57 DWMEIEKQRGISVTSSVMQFDYADCLVNLLDTPGHEDFSEDTYRTLTAVDSAVMVIDAAKGIEPQTLKLFEVCRLRDIP-  135 (528)
T ss_pred             HHHHHHHhcCceEEeeEEEeccCCeEEeccCCCCccccchhHHHHHHhhheeeEEEecccCccHHHHHHHHHHhhcCCc-
Confidence            4456899999999999999999999999999999999999999999999999999999999999999999999999999 


Q ss_pred             EEEEEeCC
Q psy9646         204 IVVFINKF  211 (211)
Q Consensus       204 ~i~~inK~  211 (211)
                      |+-++||+
T Consensus       136 I~TFiNKl  143 (528)
T COG4108         136 IFTFINKL  143 (528)
T ss_pred             eEEEeecc
Confidence            88899996

>cd01886 EF-G Elongation factor G (EF-G) subfamily

Probab=99.69  E-value=9.7e-17  Score=129.68  Aligned_cols=90  Identities=31%  Similarity=0.456  Sum_probs=85.4

Q ss_pred             cccccchhhcccceEEeEeEEEeeeCCceeEeecCCcccccHhHHhhhccccceEEEEEeccCCCCcchHHHHHHHHHcC
Q psy9646         121 ADIDNAPEEKARGITINVAHVEYATENRHYSHTDCPGHADYIKNMITGTSQMDGAILVVAATDGAMPQTREHLLLAKQIG  200 (211)
Q Consensus       121 i~~~~~~~e~~rg~tv~~~~~~~~~~~~~~~~iDtPG~~~~~~~~~~~~~~~d~~~~vvd~~~~~~~~~~~~~~~~~~~~  200 (211)
                      ..+|..+.|+.||+|++++...+++++++++|+|||||.+|..++..++..+|++++|+|+..|+..+++++++.+...+
T Consensus        37 ~~~D~~~~E~~rgiti~~~~~~~~~~~~~i~liDTPG~~df~~~~~~~l~~aD~ailVVDa~~g~~~~t~~~~~~~~~~~  116 (270)
T cd01886          37 ATMDFMEQERERGITIQSAATTCFWKDHRINIIDTPGHVDFTIEVERSLRVLDGAVAVFDAVAGVEPQTETVWRQADRYN  116 (270)
T ss_pred             cccCCCccccCCCcCeeccEEEEEECCEEEEEEECCCcHHHHHHHHHHHHHcCEEEEEEECCCCCCHHHHHHHHHHHHcC
Confidence            34789999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             CCeEEEEEeCC
Q psy9646         201 VTNIVVFINKF  211 (211)
Q Consensus       201 ~~~~i~~inK~  211 (211)
                      +| +++++||+
T Consensus       117 ~p-~ivviNK~  126 (270)
T cd01886         117 VP-RIAFVNKM  126 (270)
T ss_pred             CC-EEEEEECC
Confidence            99 66899996

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

>KOG0463|consensus

Probab=99.67  E-value=1e-16  Score=130.96  Aligned_cols=157  Identities=18%  Similarity=0.244  Sum_probs=135.1

Q ss_pred             ChHHHHHhhhCCCC-CCCCCCCeeEEEeeEEeecCCcEEEEEEEEEEEEecCCEEEEeec--CceeeEEEEEEEecceec
Q psy9646           1 MELLNQIDTYIPQP-VRDLDKPFYLPVEHTYSIPGRGTVVTGRLERGIVKKGMECEFTGY--GRQFKTTVTGIEMFHKIL   77 (211)
Q Consensus         1 ~~ll~~l~~~i~~p-~~~~~~p~~~~v~~~~~~~~~G~v~~G~v~~G~i~~g~~v~i~p~--~~~~~~~v~~i~~~~~~~   77 (211)
                      |+||..+.+.+++. +...+.|..|.|+++|+++|.|+++.|+..+|.|+.+|.+.+.|+  +.+.+..||||++-+-++
T Consensus       346 L~LLkmFLNlls~R~~~~E~~PAeFQIDD~Y~VpGVGTvvSGT~L~GtIrLND~LlLGPd~~G~F~pI~iKSIHRKRMpV  425 (641)
T KOG0463|consen  346 LPLLKMFLNLLSLRRQLNENDPAEFQIDDIYWVPGVGTVVSGTLLSGTIRLNDILLLGPDSNGDFMPIPIKSIHRKRMPV  425 (641)
T ss_pred             hHHHHHHHhhcCcccccccCCCcceeecceEecCCcceEeecceeeeeEEeccEEEecCCCCCCeeeeehhhhhhccccc
Confidence            57899999966532 234567999999999999999999999999999999999999886  457789999999988899


Q ss_pred             ceecccCceehhccCCCcccccccccccccchhhhhhhhcccccccccchhhcccceEEeEeEEEee-------------
Q psy9646          78 DEAQAGDQLGALVKGMKRDEVNRGLIMAKPVLADKKLAKVKQYADIDNAPEEKARGITINVAHVEYA-------------  144 (211)
Q Consensus        78 ~~a~~G~~v~~~l~~~~~~~v~~G~ii~~~~~~~~~~~~f~~~i~~~~~~~e~~rg~tv~~~~~~~~-------------  144 (211)
                      ..+.+|+.+.+.|+.+++.++++|+++.++...+.+++.|.+.+....+|..+..+|..-++.++..             
T Consensus       426 ~~VrcGQtASFALKKIkr~~vRKGMVmVsp~lkPqAsweFEaEILVLHHPTTIsprYQAMvHcGSiRQTAtivsM~kdcL  505 (641)
T KOG0463|consen  426 GIVRCGQTASFALKKIKRKDVRKGMVMVSPKLKPQASWEFEAEILVLHHPTTISPRYQAMVHCGSIRQTATIVSMGKDCL  505 (641)
T ss_pred             eEEeccchhhhHhhhcchhhhhcceEEecCCCCcceeeEEeeeEEEEecCCccCcchhheeeeccccceeeeeecChhhh
Confidence            9999999999999999999999999999999999999999999999999999988887766654432             


Q ss_pred             -eC---CceeEeecCCc
Q psy9646         145 -TE---NRHYSHTDCPG  157 (211)
Q Consensus       145 -~~---~~~~~~iDtPG  157 (211)
                       +.   .-++.||-+|-
T Consensus       506 RTGDka~V~FrFIkqPE  522 (641)
T KOG0463|consen  506 RTGDKAKVQFRFIKQPE  522 (641)
T ss_pred             hcCCcceEEEEEecCcc
Confidence             11   24688888875

>PRK05506 bifunctional sulfate adenylyltransferase subunit 1/adenylylsulfate kinase protein; Provisional

Probab=99.66  E-value=1.6e-16  Score=142.44  Aligned_cols=97  Identities=37%  Similarity=0.625  Sum_probs=91.1

Q ss_pred             hhcccccccccchhhcccceEEeEeEEEeeeCCceeEeecCCcccccHhHHhhhccccceEEEEEeccCCCCcchHHHHH
Q psy9646         115 AKVKQYADIDNAPEEKARGITINVAHVEYATENRHYSHTDCPGHADYIKNMITGTSQMDGAILVVAATDGAMPQTREHLL  194 (211)
Q Consensus       115 ~~f~~~i~~~~~~~e~~rg~tv~~~~~~~~~~~~~~~~iDtPG~~~~~~~~~~~~~~~d~~~~vvd~~~~~~~~~~~~~~  194 (211)
                      .+|...+.+|..+.|+.||+|+++++..+++++.+++|+|||||++|.+++..+++.+|++++|+|+.+|+.+|+++++.
T Consensus        71 ~~~~~~~~~d~~~~E~~rg~Tid~~~~~~~~~~~~~~liDtPG~~~f~~~~~~~~~~aD~~llVvda~~g~~~~t~e~~~  150 (632)
T PRK05506         71 DEIDLALLVDGLAAEREQGITIDVAYRYFATPKRKFIVADTPGHEQYTRNMVTGASTADLAIILVDARKGVLTQTRRHSF  150 (632)
T ss_pred             CcceeeeeccCCHHHHhCCcCceeeeeEEccCCceEEEEECCChHHHHHHHHHHHHhCCEEEEEEECCCCccccCHHHHH
Confidence            45666677999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHcCCCeEEEEEeCC
Q psy9646         195 LAKQIGVTNIVVFINKF  211 (211)
Q Consensus       195 ~~~~~~~~~~i~~inK~  211 (211)
                      ++...+++++|+++||+
T Consensus       151 ~~~~~~~~~iivvvNK~  167 (632)
T PRK05506        151 IASLLGIRHVVLAVNKM  167 (632)
T ss_pred             HHHHhCCCeEEEEEEec
Confidence            99999988788999996

>KOG0462|consensus

Probab=99.66  E-value=1.4e-16  Score=135.24  Aligned_cols=89  Identities=31%  Similarity=0.482  Sum_probs=84.7

Q ss_pred             ccccchhhcccceEEeEeEEEeeeCC---ceeEeecCCcccccHhHHhhhccccceEEEEEeccCCCCcchHHHHHHHHH
Q psy9646         122 DIDNAPEEKARGITINVAHVEYATEN---RHYSHTDCPGHADYIKNMITGTSQMDGAILVVAATDGAMPQTREHLLLAKQ  198 (211)
Q Consensus       122 ~~~~~~~e~~rg~tv~~~~~~~~~~~---~~~~~iDtPG~~~~~~~~~~~~~~~d~~~~vvd~~~~~~~~~~~~~~~~~~  198 (211)
                      ++|+...|++||+|+.....+..+.+   +.+++||||||.||-.++.++++.+|++++||||.+|++.||...+.++.+
T Consensus        96 ~LDkl~vERERGITIkaQtasify~~~~~ylLNLIDTPGHvDFs~EVsRslaac~G~lLvVDA~qGvqAQT~anf~lAfe  175 (650)
T KOG0462|consen   96 VLDKLQVERERGITIKAQTASIFYKDGQSYLLNLIDTPGHVDFSGEVSRSLAACDGALLVVDASQGVQAQTVANFYLAFE  175 (650)
T ss_pred             hhhhhhhhhhcCcEEEeeeeEEEEEcCCceEEEeecCCCcccccceehehhhhcCceEEEEEcCcCchHHHHHHHHHHHH
Confidence            58999999999999999988888877   889999999999999999999999999999999999999999999999999


Q ss_pred             cCCCeEEEEEeCC
Q psy9646         199 IGVTNIVVFINKF  211 (211)
Q Consensus       199 ~~~~~~i~~inK~  211 (211)
                      .|.. +|.|+|||
T Consensus       176 ~~L~-iIpVlNKI  187 (650)
T KOG0462|consen  176 AGLA-IIPVLNKI  187 (650)
T ss_pred             cCCe-EEEeeecc
Confidence            9998 88999997

>cd04166 CysN_ATPS CysN_ATPS subfamily

Probab=99.66  E-value=3.3e-16  Score=122.15  Aligned_cols=96  Identities=38%  Similarity=0.603  Sum_probs=87.3

Q ss_pred             hcccccccccchhhcccceEEeEeEEEeeeCCceeEeecCCcccccHhHHhhhccccceEEEEEeccCCCCcchHHHHHH
Q psy9646         116 KVKQYADIDNAPEEKARGITINVAHVEYATENRHYSHTDCPGHADYIKNMITGTSQMDGAILVVAATDGAMPQTREHLLL  195 (211)
Q Consensus       116 ~f~~~i~~~~~~~e~~rg~tv~~~~~~~~~~~~~~~~iDtPG~~~~~~~~~~~~~~~d~~~~vvd~~~~~~~~~~~~~~~  195 (211)
                      .+.....+|..+.|+.||+|++.....+++++.++.|+|||||.+|..++..++..+|++++|+|+.+++..++++++..
T Consensus        45 ~~~~~~~~d~~~~e~~rg~T~~~~~~~~~~~~~~~~liDTpG~~~~~~~~~~~~~~ad~~llVvD~~~~~~~~~~~~~~~  124 (208)
T cd04166          45 PLDLALLVDGLQAEREQGITIDVAYRYFSTPKRKFIIADTPGHEQYTRNMVTGASTADLAILLVDARKGVLEQTRRHSYI  124 (208)
T ss_pred             CcceeeeccCChhhhcCCcCeecceeEEecCCceEEEEECCcHHHHHHHHHHhhhhCCEEEEEEECCCCccHhHHHHHHH
Confidence            34455668999999999999999999999999999999999999999999999999999999999999999999888888


Q ss_pred             HHHcCCCeEEEEEeCC
Q psy9646         196 AKQIGVTNIVVFINKF  211 (211)
Q Consensus       196 ~~~~~~~~~i~~inK~  211 (211)
                      +...+.|++|+++||+
T Consensus       125 ~~~~~~~~iIvviNK~  140 (208)
T cd04166         125 LSLLGIRHVVVAVNKM  140 (208)
T ss_pred             HHHcCCCcEEEEEEch
Confidence            8888877787899996

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.

>PTZ00327 eukaryotic translation initiation factor 2 gamma subunit; Provisional

Probab=99.66  E-value=1.1e-16  Score=137.59  Aligned_cols=105  Identities=30%  Similarity=0.459  Sum_probs=87.0

Q ss_pred             cchhhhhhhhccc---ccccccchhhcccceEEeEeEEEeee---------------C------------------Ccee
Q psy9646         107 PVLADKKLAKVKQ---YADIDNAPEEKARGITINVAHVEYAT---------------E------------------NRHY  150 (211)
Q Consensus       107 ~~~~~~~~~~f~~---~i~~~~~~~e~~rg~tv~~~~~~~~~---------------~------------------~~~~  150 (211)
                      .++..++++.+..   ..+.+.++.|..||+|+++.|..+..               +                  ..++
T Consensus        40 ~GHVDhGKTtLv~aLtg~~~~r~~~E~~rGiTi~lGfa~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i  119 (460)
T PTZ00327         40 IGHVAHGKSTVVKALSGVKTVRFKREKVRNITIKLGYANAKIYKCPKCPRPTCYQSYGSSKPDNPPCPGCGHKMTLKRHV  119 (460)
T ss_pred             EccCCCCHHHHHHHHhCCCcccchhhHHhCCchhccccccccccCcccCCcccccccCCCcccccccccccccccccceE
Confidence            3444555555332   33578899999999999998875521               1                  2479


Q ss_pred             EeecCCcccccHhHHhhhccccceEEEEEeccCC-CCcchHHHHHHHHHcCCCeEEEEEeCC
Q psy9646         151 SHTDCPGHADYIKNMITGTSQMDGAILVVAATDG-AMPQTREHLLLAKQIGVTNIVVFINKF  211 (211)
Q Consensus       151 ~~iDtPG~~~~~~~~~~~~~~~d~~~~vvd~~~~-~~~~~~~~~~~~~~~~~~~~i~~inK~  211 (211)
                      +|+|||||++|+++|+.|++.+|++++||||.++ +++|+++|+..+..++++++|+++||+
T Consensus       120 ~~IDtPGH~~fi~~m~~g~~~~D~alLVVda~~g~~~~qT~ehl~i~~~lgi~~iIVvlNKi  181 (460)
T PTZ00327        120 SFVDCPGHDILMATMLNGAAVMDAALLLIAANESCPQPQTSEHLAAVEIMKLKHIIILQNKI  181 (460)
T ss_pred             eeeeCCCHHHHHHHHHHHHhhCCEEEEEEECCCCccchhhHHHHHHHHHcCCCcEEEEEecc
Confidence            9999999999999999999999999999999986 789999999999999999888999997

>PRK12317 elongation factor 1-alpha; Reviewed

Probab=99.66  E-value=3.1e-16  Score=134.69  Aligned_cols=99  Identities=48%  Similarity=0.815  Sum_probs=90.9

Q ss_pred             hhhhcccccccccchhhcccceEEeEeEEEeeeCCceeEeecCCcccccHhHHhhhccccceEEEEEeccC--CCCcchH
Q psy9646         113 KLAKVKQYADIDNAPEEKARGITINVAHVEYATENRHYSHTDCPGHADYIKNMITGTSQMDGAILVVAATD--GAMPQTR  190 (211)
Q Consensus       113 ~~~~f~~~i~~~~~~~e~~rg~tv~~~~~~~~~~~~~~~~iDtPG~~~~~~~~~~~~~~~d~~~~vvd~~~--~~~~~~~  190 (211)
                      ++.++...+.+|..+.|+.||+|+++.+..+++++.++.|+|||||++|.+++..++..+|++++|+|+.+  ++.++++
T Consensus        49 g~~~~~~~~~~D~~~~Er~rG~T~d~~~~~~~~~~~~i~liDtpG~~~~~~~~~~~~~~aD~~ilVvDa~~~~~~~~~~~  128 (425)
T PRK12317         49 GKESFKFAWVMDRLKEERERGVTIDLAHKKFETDKYYFTIVDCPGHRDFVKNMITGASQADAAVLVVAADDAGGVMPQTR  128 (425)
T ss_pred             CCcccchhhhhccCHhHhhcCccceeeeEEEecCCeEEEEEECCCcccchhhHhhchhcCCEEEEEEEcccCCCCCcchH
Confidence            34446666779999999999999999999999999999999999999999999999999999999999998  8999999


Q ss_pred             HHHHHHHHcCCCeEEEEEeCC
Q psy9646         191 EHLLLAKQIGVTNIVVFINKF  211 (211)
Q Consensus       191 ~~~~~~~~~~~~~~i~~inK~  211 (211)
                      +++.++...+++++++++||+
T Consensus       129 ~~~~~~~~~~~~~iivviNK~  149 (425)
T PRK12317        129 EHVFLARTLGINQLIVAINKM  149 (425)
T ss_pred             HHHHHHHHcCCCeEEEEEEcc
Confidence            999999999987788999996

>KOG0461|consensus

Probab=99.65  E-value=1.4e-16  Score=128.76  Aligned_cols=153  Identities=28%  Similarity=0.448  Sum_probs=115.2

Q ss_pred             hHHHHHhhhCCCCCCCCCCCeeEEEeeEEeecCCcEEEEEEEEEEEEecCCEEEEeecCceeeEEEEEEEecceecceec
Q psy9646           2 ELLNQIDTYIPQPVRDLDKPFYLPVEHTYSIPGRGTVVTGRLERGIVKKGMECEFTGYGRQFKTTVTGIEMFHKILDEAQ   81 (211)
Q Consensus         2 ~ll~~l~~~i~~p~~~~~~p~~~~v~~~~~~~~~G~v~~G~v~~G~i~~g~~v~i~p~~~~~~~~v~~i~~~~~~~~~a~   81 (211)
                      +|.++|.+.+-.|.|+.++||.|.|++||.++|.|||.+|+|.+|+++.|+.+.+...++  +.+|||++++++++.+|.
T Consensus       183 eL~e~l~s~if~P~Rd~~gpflm~vDHCF~IKGQGTV~TGTvl~G~~~ln~~iE~PAL~e--~rkVKslqmf~~~vtsa~  260 (522)
T KOG0461|consen  183 ELKEALESRIFEPKRDEEGPFLMAVDHCFAIKGQGTVLTGTVLRGVLRLNTEIEFPALNE--KRKVKSLQMFKQRVTSAA  260 (522)
T ss_pred             HHHHHHHHhhcCCCcCCCCCeEEEeeeeEEeccCceEEeeeEEEeEEecCcEEeecccch--hhhhhhHHHHhhhhhhhh
Confidence            578999999989999999999999999999999999999999999999999999877765  778999999999999999


Q ss_pred             ccCceehhccCCCcccccccccccccchhhhhhh--hcccccccccchhhcccceEEeEeEEEeeeCCceeEeecCCccc
Q psy9646          82 AGDQLGALVKGMKRDEVNRGLIMAKPVLADKKLA--KVKQYADIDNAPEEKARGITINVAHVEYATENRHYSHTDCPGHA  159 (211)
Q Consensus        82 ~G~~v~~~l~~~~~~~v~~G~ii~~~~~~~~~~~--~f~~~i~~~~~~~e~~rg~tv~~~~~~~~~~~~~~~~iDtPG~~  159 (211)
                      +||++++.+..+++.-++||.+.......+....  .+.. +.....+....+.+.+.+.+.++.  ..--.|-||.|..
T Consensus       261 ~GdR~g~cVtqFd~klleRgi~~~pg~Lk~~~avl~~vep-I~yfr~~i~sk~K~Hi~VgheTVM--a~~~ff~d~d~~~  337 (522)
T KOG0461|consen  261 AGDRAGFCVTQFDEKLLERGICGPPGTLKSTKAVLATVEP-IQYFRKSINSKSKIHIAVGHETVM--AECQFFKDTDGTT  337 (522)
T ss_pred             cccceeeeeeccCHHHHhccccCCCcccceeeeeeEeecc-hHHHhhhhhhcceEEEEehhhhhh--hheEEeeccCCcc
Confidence            9999999999999999999976654332221110  1111 112233344444455554444332  2334456888843

>cd01883 EF1_alpha Eukaryotic elongation factor 1 (EF1) alpha subfamily

Probab=99.65  E-value=5.9e-16  Score=121.69  Aligned_cols=96  Identities=44%  Similarity=0.660  Sum_probs=86.3

Q ss_pred             hcccccccccchhhcccceEEeEeEEEeeeCCceeEeecCCcccccHhHHhhhccccceEEEEEeccC-------CCCcc
Q psy9646         116 KVKQYADIDNAPEEKARGITINVAHVEYATENRHYSHTDCPGHADYIKNMITGTSQMDGAILVVAATD-------GAMPQ  188 (211)
Q Consensus       116 ~f~~~i~~~~~~~e~~rg~tv~~~~~~~~~~~~~~~~iDtPG~~~~~~~~~~~~~~~d~~~~vvd~~~-------~~~~~  188 (211)
                      .+.+...+|..+.|+.||+|++.....+++.+..++|+|||||.+|..++..++..+|++++|+|+.+       +...+
T Consensus        45 ~~~~~~~~d~~~~E~~rg~T~d~~~~~~~~~~~~i~liDtpG~~~~~~~~~~~~~~~d~~i~VvDa~~~~~~~~~~~~~~  124 (219)
T cd01883          45 SFKYAWVLDTLKEERERGVTIDVGLAKFETEKYRFTILDAPGHRDFVPNMITGASQADVAVLVVDARKGEFEAGFEKGGQ  124 (219)
T ss_pred             chhHHhhhcCCHHHhhCccCeecceEEEeeCCeEEEEEECCChHHHHHHHHHHhhhCCEEEEEEECCCCccccccccccc
Confidence            34444568999999999999999999999999999999999999999999999999999999999988       56678


Q ss_pred             hHHHHHHHHHcCCCeEEEEEeCC
Q psy9646         189 TREHLLLAKQIGVTNIVVFINKF  211 (211)
Q Consensus       189 ~~~~~~~~~~~~~~~~i~~inK~  211 (211)
                      +.+++..+...+.+++|+++||+
T Consensus       125 ~~~~~~~~~~~~~~~iiivvNK~  147 (219)
T cd01883         125 TREHALLARTLGVKQLIVAVNKM  147 (219)
T ss_pred             hHHHHHHHHHcCCCeEEEEEEcc
Confidence            88888888888877788899996

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

>PRK10512 selenocysteinyl-tRNA-specific translation factor; Provisional

Probab=99.65  E-value=5.1e-16  Score=138.06  Aligned_cols=104  Identities=36%  Similarity=0.544  Sum_probs=89.1

Q ss_pred             chhhhhhhhcccccc---cccchhhcccceEEeEeEEEeeeC-CceeEeecCCcccccHhHHhhhccccceEEEEEeccC
Q psy9646         108 VLADKKLAKVKQYAD---IDNAPEEKARGITINVAHVEYATE-NRHYSHTDCPGHADYIKNMITGTSQMDGAILVVAATD  183 (211)
Q Consensus       108 ~~~~~~~~~f~~~i~---~~~~~~e~~rg~tv~~~~~~~~~~-~~~~~~iDtPG~~~~~~~~~~~~~~~d~~~~vvd~~~  183 (211)
                      ++...|++++...+.   ++..+.|..||+|+++.+..+... +..+.|+|||||++|+++|..++..+|++++|+|+.+
T Consensus         7 GhvdhGKTtLi~aLtg~~~dr~~eE~~rGiTI~l~~~~~~~~~g~~i~~IDtPGhe~fi~~m~~g~~~~D~~lLVVda~e   86 (614)
T PRK10512          7 GHVDHGKTTLLQAITGVNADRLPEEKKRGMTIDLGYAYWPQPDGRVLGFIDVPGHEKFLSNMLAGVGGIDHALLVVACDD   86 (614)
T ss_pred             CCCCCCHHHHHHHHhCCCCccchhcccCCceEEeeeEEEecCCCcEEEEEECCCHHHHHHHHHHHhhcCCEEEEEEECCC
Confidence            444555555544343   577888999999999998888764 5678999999999999999999999999999999999


Q ss_pred             CCCcchHHHHHHHHHcCCCeEEEEEeCC
Q psy9646         184 GAMPQTREHLLLAKQIGVTNIVVFINKF  211 (211)
Q Consensus       184 ~~~~~~~~~~~~~~~~~~~~~i~~inK~  211 (211)
                      |+++|+++|+..+...++|.+|+|+||+
T Consensus        87 g~~~qT~ehl~il~~lgi~~iIVVlNKi  114 (614)
T PRK10512         87 GVMAQTREHLAILQLTGNPMLTVALTKA  114 (614)
T ss_pred             CCcHHHHHHHHHHHHcCCCeEEEEEECC
Confidence            9999999999999999999778999997

>COG3276 SelB Selenocysteine-specific translation elongation factor [Translation, ribosomal structure and biogenesis]

Probab=99.64  E-value=7.8e-16  Score=128.21  Aligned_cols=90  Identities=41%  Similarity=0.646  Sum_probs=87.3

Q ss_pred             ccccchhhcccceEEeEeEEEeeeCCceeEeecCCcccccHhHHhhhccccceEEEEEeccCCCCcchHHHHHHHHHcCC
Q psy9646         122 DIDNAPEEKARGITINVAHVEYATENRHYSHTDCPGHADYIKNMITGTSQMDGAILVVAATDGAMPQTREHLLLAKQIGV  201 (211)
Q Consensus       122 ~~~~~~~e~~rg~tv~~~~~~~~~~~~~~~~iDtPG~~~~~~~~~~~~~~~d~~~~vvd~~~~~~~~~~~~~~~~~~~~~  201 (211)
                      ..+..+.|.+||+|+++.+.++..++..+.|+|.|||.+|+++|..|+..+|+++|+||+.+|++.|+.+|+..+..+|+
T Consensus        24 ~~d~l~EekKRG~TiDlg~~y~~~~d~~~~fIDvpgh~~~i~~miag~~~~d~alLvV~~deGl~~qtgEhL~iLdllgi  103 (447)
T COG3276          24 VTDRLPEEKKRGITIDLGFYYRKLEDGVMGFIDVPGHPDFISNLLAGLGGIDYALLVVAADEGLMAQTGEHLLILDLLGI  103 (447)
T ss_pred             ccccchhhhhcCceEeeeeEeccCCCCceEEeeCCCcHHHHHHHHhhhcCCceEEEEEeCccCcchhhHHHHHHHHhcCC
Confidence            47899999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             CeEEEEEeCC
Q psy9646         202 TNIVVFINKF  211 (211)
Q Consensus       202 ~~~i~~inK~  211 (211)
                      ++.|+|+||+
T Consensus       104 ~~giivltk~  113 (447)
T COG3276         104 KNGIIVLTKA  113 (447)
T ss_pred             CceEEEEecc
Confidence            9988999995

>COG0532 InfB Translation initiation factor 2 (IF-2; GTPase) [Translation, ribosomal structure and biogenesis]

Probab=99.64  E-value=8.6e-16  Score=130.79  Aligned_cols=111  Identities=34%  Similarity=0.382  Sum_probs=98.6

Q ss_pred             ccccccccchhhhhhhhcccccccccchhhcccceEEeEeEEEeeeC---CceeEeecCCcccccHhHHhhhccccceEE
Q psy9646         100 RGLIMAKPVLADKKLAKVKQYADIDNAPEEKARGITINVAHVEYATE---NRHYSHTDCPGHADYIKNMITGTSQMDGAI  176 (211)
Q Consensus       100 ~G~ii~~~~~~~~~~~~f~~~i~~~~~~~e~~rg~tv~~~~~~~~~~---~~~~~~iDtPG~~~~~~~~~~~~~~~d~~~  176 (211)
                      |-.+++-..+..++++++...+.-.+.......|+|.++....+...   ...++|+|||||+.|.....+|.+.+|+++
T Consensus         4 R~PvVtimGHVDHGKTtLLD~IR~t~Va~~EaGGITQhIGA~~v~~~~~~~~~itFiDTPGHeAFt~mRaRGa~vtDIaI   83 (509)
T COG0532           4 RPPVVTIMGHVDHGKTTLLDKIRKTNVAAGEAGGITQHIGAYQVPLDVIKIPGITFIDTPGHEAFTAMRARGASVTDIAI   83 (509)
T ss_pred             CCCEEEEeCcccCCccchhhhHhcCccccccCCceeeEeeeEEEEeccCCCceEEEEcCCcHHHHHHHHhcCCccccEEE
Confidence            44566667888888988888777667777777789999998888874   468999999999999999999999999999


Q ss_pred             EEEeccCCCCcchHHHHHHHHHcCCCeEEEEEeCC
Q psy9646         177 LVVAATDGAMPQTREHLLLAKQIGVTNIVVFINKF  211 (211)
Q Consensus       177 ~vvd~~~~~~~~~~~~~~~~~~~~~~~~i~~inK~  211 (211)
                      ||||+.+|+++||.+-+.+++..++| +|+++|||
T Consensus        84 LVVa~dDGv~pQTiEAI~hak~a~vP-~iVAiNKi  117 (509)
T COG0532          84 LVVAADDGVMPQTIEAINHAKAAGVP-IVVAINKI  117 (509)
T ss_pred             EEEEccCCcchhHHHHHHHHHHCCCC-EEEEEecc
Confidence            99999999999999999999999999 99999997

>TIGR01394 TypA_BipA GTP-binding protein TypA/BipA

Probab=99.63  E-value=9e-16  Score=135.93  Aligned_cols=90  Identities=34%  Similarity=0.489  Sum_probs=86.0

Q ss_pred             cccccchhhcccceEEeEeEEEeeeCCceeEeecCCcccccHhHHhhhccccceEEEEEeccCCCCcchHHHHHHHHHcC
Q psy9646         121 ADIDNAPEEKARGITINVAHVEYATENRHYSHTDCPGHADYIKNMITGTSQMDGAILVVAATDGAMPQTREHLLLAKQIG  200 (211)
Q Consensus       121 i~~~~~~~e~~rg~tv~~~~~~~~~~~~~~~~iDtPG~~~~~~~~~~~~~~~d~~~~vvd~~~~~~~~~~~~~~~~~~~~  200 (211)
                      ..+|..+.|+.||+|+......+.+.+++++++|||||.+|..++..+++.+|++++|+|+.+|+..|++.++..+...+
T Consensus        37 ~~~D~~~~ErerGiTI~~~~~~v~~~~~kinlIDTPGh~DF~~ev~~~l~~aD~alLVVDa~~G~~~qT~~~l~~a~~~~  116 (594)
T TIGR01394        37 RVMDSNDLERERGITILAKNTAIRYNGTKINIVDTPGHADFGGEVERVLGMVDGVLLLVDASEGPMPQTRFVLKKALELG  116 (594)
T ss_pred             ecccCchHHHhCCccEEeeeEEEEECCEEEEEEECCCHHHHHHHHHHHHHhCCEEEEEEeCCCCCcHHHHHHHHHHHHCC
Confidence            35899999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             CCeEEEEEeCC
Q psy9646         201 VTNIVVFINKF  211 (211)
Q Consensus       201 ~~~~i~~inK~  211 (211)
                      +| +|+|+||+
T Consensus       117 ip-~IVviNKi  126 (594)
T TIGR01394       117 LK-PIVVINKI  126 (594)
T ss_pred             CC-EEEEEECC
Confidence            99 67899997

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.

>cd03688 eIF2_gamma_II eIF2_gamma_II: this subfamily represents the domain II of the gamma subunit of eukaryotic translation initiation factor 2 (eIF2-gamma) found in Eukaryota and Archaea

Probab=99.63  E-value=4e-15  Score=102.02  Aligned_cols=91  Identities=24%  Similarity=0.369  Sum_probs=80.0

Q ss_pred             CCCCCeeEEEeeEEeec--------CCcEEEEEEEEEEEEecCCEEEEeec----------CceeeEEEEEEEecceecc
Q psy9646          17 DLDKPFYLPVEHTYSIP--------GRGTVVTGRLERGIVKKGMECEFTGY----------GRQFKTTVTGIEMFHKILD   78 (211)
Q Consensus        17 ~~~~p~~~~v~~~~~~~--------~~G~v~~G~v~~G~i~~g~~v~i~p~----------~~~~~~~v~~i~~~~~~~~   78 (211)
                      +.++||+|+|-++|.++        .+|.|++|++++|.+++||++.|.|.          .+...++|.||++++++++
T Consensus         1 d~~~pp~M~V~RsFdinkPG~~~~~l~GgVigGsi~~G~lkvgdeIEIrpg~~~~~~~~~~~~pi~T~I~sl~~~~~~l~   80 (113)
T cd03688           1 DFTSPPRMIVIRSFDVNKPGTEVDDLKGGVAGGSLLQGVLKVGDEIEIRPGIVVKDEGKIKCRPIFTKIVSLKAENNDLQ   80 (113)
T ss_pred             CCCCCceEEEEEEEecCCCCCccccceeeEEEEEEEEEEEeCCCEEEEeeceeeecCCCeeEEEEEEEEEEEEecCcccc
Confidence            35789999999999999        89999999999999999999999976          1235789999999999999


Q ss_pred             eecccCceeh---hccCCCccccccccccccc
Q psy9646          79 EAQAGDQLGA---LVKGMKRDEVNRGLIMAKP  107 (211)
Q Consensus        79 ~a~~G~~v~~---~l~~~~~~~v~~G~ii~~~  107 (211)
                      +|.||+.+++   ....+.+.|..+|.++..+
T Consensus        81 ~a~pGgliGvgT~Ldpsltk~D~l~GqV~g~p  112 (113)
T cd03688          81 EAVPGGLIGVGTKLDPTLTKADRLVGQVVGEP  112 (113)
T ss_pred             EEeCCCeEEEccccCccccccceeeEEEeecC
Confidence            9999999999   6667778889999887653

eIF2 is a G protein that delivers the methionyl initiator tRNA to the small ribosomal subunit and releases it upon GTP hydrolysis after the recognition of the initiation codon. eIF2 is composed three subunits, alpha, beta and gamma. Subunit gamma shows strongest conservation, and it confers both tRNA binding and GTP/GDP binding.

>PRK00007 elongation factor G; Reviewed

Probab=99.62  E-value=1.3e-15  Score=137.66  Aligned_cols=90  Identities=30%  Similarity=0.441  Sum_probs=86.1

Q ss_pred             cccccchhhcccceEEeEeEEEeeeCCceeEeecCCcccccHhHHhhhccccceEEEEEeccCCCCcchHHHHHHHHHcC
Q psy9646         121 ADIDNAPEEKARGITINVAHVEYATENRHYSHTDCPGHADYIKNMITGTSQMDGAILVVAATDGAMPQTREHLLLAKQIG  200 (211)
Q Consensus       121 i~~~~~~~e~~rg~tv~~~~~~~~~~~~~~~~iDtPG~~~~~~~~~~~~~~~d~~~~vvd~~~~~~~~~~~~~~~~~~~~  200 (211)
                      ..+|..+.|..||+|++++...+.+.+++++|+|||||.+|..++..++..+|++++|+|+.+|+..|++.++.++...+
T Consensus        48 ~~~D~~~~E~~rg~ti~~~~~~~~~~~~~~~liDTPG~~~f~~ev~~al~~~D~~vlVvda~~g~~~qt~~~~~~~~~~~  127 (693)
T PRK00007         48 ATMDWMEQEQERGITITSAATTCFWKDHRINIIDTPGHVDFTIEVERSLRVLDGAVAVFDAVGGVEPQSETVWRQADKYK  127 (693)
T ss_pred             ccCCCCHHHHhCCCCEeccEEEEEECCeEEEEEeCCCcHHHHHHHHHHHHHcCEEEEEEECCCCcchhhHHHHHHHHHcC
Confidence            45899999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             CCeEEEEEeCC
Q psy9646         201 VTNIVVFINKF  211 (211)
Q Consensus       201 ~~~~i~~inK~  211 (211)
                      +| .|+++||+
T Consensus       128 ~p-~iv~vNK~  137 (693)
T PRK00007        128 VP-RIAFVNKM  137 (693)
T ss_pred             CC-EEEEEECC
Confidence            99 56899997

>PRK12739 elongation factor G; Reviewed

Probab=99.60  E-value=1.9e-15  Score=136.78  Aligned_cols=90  Identities=32%  Similarity=0.476  Sum_probs=86.1

Q ss_pred             cccccchhhcccceEEeEeEEEeeeCCceeEeecCCcccccHhHHhhhccccceEEEEEeccCCCCcchHHHHHHHHHcC
Q psy9646         121 ADIDNAPEEKARGITINVAHVEYATENRHYSHTDCPGHADYIKNMITGTSQMDGAILVVAATDGAMPQTREHLLLAKQIG  200 (211)
Q Consensus       121 i~~~~~~~e~~rg~tv~~~~~~~~~~~~~~~~iDtPG~~~~~~~~~~~~~~~d~~~~vvd~~~~~~~~~~~~~~~~~~~~  200 (211)
                      ..+|..+.|+.||+|++++..++++++++++|+|||||++|..++..++..+|++++|+|+.+|+..|++.++..+...+
T Consensus        46 ~~~D~~~~E~~rgiti~~~~~~~~~~~~~i~liDTPG~~~f~~e~~~al~~~D~~ilVvDa~~g~~~qt~~i~~~~~~~~  125 (691)
T PRK12739         46 ATMDWMEQEQERGITITSAATTCFWKGHRINIIDTPGHVDFTIEVERSLRVLDGAVAVFDAVSGVEPQSETVWRQADKYG  125 (691)
T ss_pred             cccCCChhHhhcCCCccceeEEEEECCEEEEEEcCCCHHHHHHHHHHHHHHhCeEEEEEeCCCCCCHHHHHHHHHHHHcC
Confidence            45899999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             CCeEEEEEeCC
Q psy9646         201 VTNIVVFINKF  211 (211)
Q Consensus       201 ~~~~i~~inK~  211 (211)
                      +| .|+++||+
T Consensus       126 ~p-~iv~iNK~  135 (691)
T PRK12739        126 VP-RIVFVNKM  135 (691)
T ss_pred             CC-EEEEEECC
Confidence            99 67899997

>TIGR00483 EF-1_alpha translation elongation factor EF-1 alpha

Probab=99.60  E-value=3.4e-15  Score=128.27  Aligned_cols=100  Identities=49%  Similarity=0.773  Sum_probs=90.3

Q ss_pred             hhhhhcccccccccchhhcccceEEeEeEEEeeeCCceeEeecCCcccccHhHHhhhccccceEEEEEeccCC---CCcc
Q psy9646         112 KKLAKVKQYADIDNAPEEKARGITINVAHVEYATENRHYSHTDCPGHADYIKNMITGTSQMDGAILVVAATDG---AMPQ  188 (211)
Q Consensus       112 ~~~~~f~~~i~~~~~~~e~~rg~tv~~~~~~~~~~~~~~~~iDtPG~~~~~~~~~~~~~~~d~~~~vvd~~~~---~~~~  188 (211)
                      .++.+|.+.+.+|..+.|+.||+|+++.+..+++++.++.|+|||||++|.+++..++..+|++++|+|+.++   ...+
T Consensus        49 ~g~~~~~~~~~~d~~~~e~~rg~Tid~~~~~~~~~~~~i~iiDtpGh~~f~~~~~~~~~~aD~~ilVvDa~~~~~~~~~~  128 (426)
T TIGR00483        49 KGKASFEFAWVMDRLKEERERGVTIDVAHWKFETDKYEVTIVDCPGHRDFIKNMITGASQADAAVLVVAVGDGEFEVQPQ  128 (426)
T ss_pred             cCCcccchhhhhccCHHHhhcCceEEEEEEEEccCCeEEEEEECCCHHHHHHHHHhhhhhCCEEEEEEECCCCCcccCCc
Confidence            3444566677799999999999999999999999999999999999999999999999999999999999999   7788


Q ss_pred             hHHHHHHHHHcCCCeEEEEEeCC
Q psy9646         189 TREHLLLAKQIGVTNIVVFINKF  211 (211)
Q Consensus       189 ~~~~~~~~~~~~~~~~i~~inK~  211 (211)
                      +.+++.++...+.+++|+++||+
T Consensus       129 t~~~~~~~~~~~~~~iIVviNK~  151 (426)
T TIGR00483       129 TREHAFLARTLGINQLIVAINKM  151 (426)
T ss_pred             hHHHHHHHHHcCCCeEEEEEECh
Confidence            88888888888887788999996

This model represents the counterpart of bacterial EF-Tu for the Archaea (aEF-1 alpha) and Eukaryotes (eEF-1 alpha). The trusted cutoff is set fairly high so that incomplete sequences will score between suggested and trusted cutoff levels.

>cd04168 TetM_like Tet(M)-like subfamily

Probab=99.59  E-value=5.6e-15  Score=117.38  Aligned_cols=89  Identities=35%  Similarity=0.558  Sum_probs=84.0

Q ss_pred             ccccchhhcccceEEeEeEEEeeeCCceeEeecCCcccccHhHHhhhccccceEEEEEeccCCCCcchHHHHHHHHHcCC
Q psy9646         122 DIDNAPEEKARGITINVAHVEYATENRHYSHTDCPGHADYIKNMITGTSQMDGAILVVAATDGAMPQTREHLLLAKQIGV  201 (211)
Q Consensus       122 ~~~~~~~e~~rg~tv~~~~~~~~~~~~~~~~iDtPG~~~~~~~~~~~~~~~d~~~~vvd~~~~~~~~~~~~~~~~~~~~~  201 (211)
                      +++..+.|..|++++......+++++.+++|+|||||.+|..++..+++.+|++++|+|+.+++..+++++++.+.+.++
T Consensus        38 ~~D~~~~e~~rg~ti~~~~~~~~~~~~~i~liDTPG~~~f~~~~~~~l~~aD~~IlVvd~~~g~~~~~~~~~~~~~~~~~  117 (237)
T cd04168          38 RTDTMELERQRGITIFSAVASFQWEDTKVNLIDTPGHMDFIAEVERSLSVLDGAILVISAVEGVQAQTRILWRLLRKLNI  117 (237)
T ss_pred             cCCCchhHhhCCCceeeeeEEEEECCEEEEEEeCCCccchHHHHHHHHHHhCeEEEEEeCCCCCCHHHHHHHHHHHHcCC
Confidence            46788899999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             CeEEEEEeCC
Q psy9646         202 TNIVVFINKF  211 (211)
Q Consensus       202 ~~~i~~inK~  211 (211)
                      | +++++||+
T Consensus       118 P-~iivvNK~  126 (237)
T cd04168         118 P-TIIFVNKI  126 (237)
T ss_pred             C-EEEEEECc
Confidence            9 67899996

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.

>PLN00116 translation elongation factor EF-2 subunit; Provisional

Probab=99.59  E-value=3e-15  Score=137.77  Aligned_cols=90  Identities=29%  Similarity=0.383  Sum_probs=82.6

Q ss_pred             cccccchhhcccceEEeEeEEEeeeC----------------CceeEeecCCcccccHhHHhhhccccceEEEEEeccCC
Q psy9646         121 ADIDNAPEEKARGITINVAHVEYATE----------------NRHYSHTDCPGHADYIKNMITGTSQMDGAILVVAATDG  184 (211)
Q Consensus       121 i~~~~~~~e~~rg~tv~~~~~~~~~~----------------~~~~~~iDtPG~~~~~~~~~~~~~~~d~~~~vvd~~~~  184 (211)
                      ..+|..+.|+.||+|++++...+.+.                ++.++|+|||||.+|..++..|++.+|++++||||.+|
T Consensus        55 ~~~D~~~~E~~rgiti~~~~~~~~~~~~~~~~~~~~~~~~~~~~~inliDtPGh~dF~~e~~~al~~~D~ailVvda~~G  134 (843)
T PLN00116         55 RMTDTRADEAERGITIKSTGISLYYEMTDESLKDFKGERDGNEYLINLIDSPGHVDFSSEVTAALRITDGALVVVDCIEG  134 (843)
T ss_pred             eeccCcHHHHHhCCceecceeEEEeecccccccccccccCCCceEEEEECCCCHHHHHHHHHHHHhhcCEEEEEEECCCC
Confidence            34799999999999999887666653                67899999999999999999999999999999999999


Q ss_pred             CCcchHHHHHHHHHcCCCeEEEEEeCC
Q psy9646         185 AMPQTREHLLLAKQIGVTNIVVFINKF  211 (211)
Q Consensus       185 ~~~~~~~~~~~~~~~~~~~~i~~inK~  211 (211)
                      +..||+.+++++...++| +|+++|||
T Consensus       135 v~~~t~~~~~~~~~~~~p-~i~~iNK~  160 (843)
T PLN00116        135 VCVQTETVLRQALGERIR-PVLTVNKM  160 (843)
T ss_pred             CcccHHHHHHHHHHCCCC-EEEEEECC
Confidence            999999999999999999 67999997

>PTZ00416 elongation factor 2; Provisional

Probab=99.59  E-value=3.1e-15  Score=137.45  Aligned_cols=90  Identities=32%  Similarity=0.421  Sum_probs=82.7

Q ss_pred             cccccchhhcccceEEeEeEEEeeeC----------CceeEeecCCcccccHhHHhhhccccceEEEEEeccCCCCcchH
Q psy9646         121 ADIDNAPEEKARGITINVAHVEYATE----------NRHYSHTDCPGHADYIKNMITGTSQMDGAILVVAATDGAMPQTR  190 (211)
Q Consensus       121 i~~~~~~~e~~rg~tv~~~~~~~~~~----------~~~~~~iDtPG~~~~~~~~~~~~~~~d~~~~vvd~~~~~~~~~~  190 (211)
                      ..+|..+.|+.||+|++.+...+.+.          ++.++|+|||||++|..++..++..+|++++|+|+.+|+..|++
T Consensus        55 ~~~D~~~~E~~rgiti~~~~~~~~~~~~~~~~~~~~~~~i~liDtPG~~~f~~~~~~al~~~D~ailVvda~~g~~~~t~  134 (836)
T PTZ00416         55 RFTDTRADEQERGITIKSTGISLYYEHDLEDGDDKQPFLINLIDSPGHVDFSSEVTAALRVTDGALVVVDCVEGVCVQTE  134 (836)
T ss_pred             eecccchhhHhhcceeeccceEEEeecccccccCCCceEEEEEcCCCHHhHHHHHHHHHhcCCeEEEEEECCCCcCccHH
Confidence            34799999999999999887766665          67899999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHcCCCeEEEEEeCC
Q psy9646         191 EHLLLAKQIGVTNIVVFINKF  211 (211)
Q Consensus       191 ~~~~~~~~~~~~~~i~~inK~  211 (211)
                      .+++++...++| +|+++|||
T Consensus       135 ~~~~~~~~~~~p-~iv~iNK~  154 (836)
T PTZ00416        135 TVLRQALQERIR-PVLFINKV  154 (836)
T ss_pred             HHHHHHHHcCCC-EEEEEECh
Confidence            999999999988 77899997

>TIGR00475 selB selenocysteine-specific elongation factor SelB

Probab=99.58  E-value=5.6e-15  Score=130.96  Aligned_cols=102  Identities=34%  Similarity=0.575  Sum_probs=89.4

Q ss_pred             hhhhhhhcccccc---cccchhhcccceEEeEeEEEeeeCCceeEeecCCcccccHhHHhhhccccceEEEEEeccCCCC
Q psy9646         110 ADKKLAKVKQYAD---IDNAPEEKARGITINVAHVEYATENRHYSHTDCPGHADYIKNMITGTSQMDGAILVVAATDGAM  186 (211)
Q Consensus       110 ~~~~~~~f~~~i~---~~~~~~e~~rg~tv~~~~~~~~~~~~~~~~iDtPG~~~~~~~~~~~~~~~d~~~~vvd~~~~~~  186 (211)
                      ...|++++...+.   .+..+.|..+|+|+++.+..++.++..+.|+|||||++|.+++..++..+|++++|+|+.+|++
T Consensus         9 ~d~GKTTLi~aLtg~~~d~~~eE~~rGiTid~~~~~~~~~~~~v~~iDtPGhe~f~~~~~~g~~~aD~aILVVDa~~G~~   88 (581)
T TIGR00475         9 VDHGKTTLLKALTGIAADRLPEEKKRGMTIDLGFAYFPLPDYRLGFIDVPGHEKFISNAIAGGGGIDAALLVVDADEGVM   88 (581)
T ss_pred             CCCCHHHHHHHHhCccCcCChhHhcCCceEEeEEEEEEeCCEEEEEEECCCHHHHHHHHHhhhccCCEEEEEEECCCCCc
Confidence            3445555444332   4667788899999999999999988999999999999999999999999999999999999999


Q ss_pred             cchHHHHHHHHHcCCCeEEEEEeCC
Q psy9646         187 PQTREHLLLAKQIGVTNIVVFINKF  211 (211)
Q Consensus       187 ~~~~~~~~~~~~~~~~~~i~~inK~  211 (211)
                      +|+.+++..+...++|++|+++||+
T Consensus        89 ~qT~ehl~il~~lgi~~iIVVlNK~  113 (581)
T TIGR00475        89 TQTGEHLAVLDLLGIPHTIVVITKA  113 (581)
T ss_pred             HHHHHHHHHHHHcCCCeEEEEEECC
Confidence            9999999999999999888999997

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.

>PRK07560 elongation factor EF-2; Reviewed

Probab=99.57  E-value=5e-15  Score=134.68  Aligned_cols=90  Identities=40%  Similarity=0.546  Sum_probs=82.0

Q ss_pred             cccccchhhcccceEEeEeEEEeee----CCceeEeecCCcccccHhHHhhhccccceEEEEEeccCCCCcchHHHHHHH
Q psy9646         121 ADIDNAPEEKARGITINVAHVEYAT----ENRHYSHTDCPGHADYIKNMITGTSQMDGAILVVAATDGAMPQTREHLLLA  196 (211)
Q Consensus       121 i~~~~~~~e~~rg~tv~~~~~~~~~----~~~~~~~iDtPG~~~~~~~~~~~~~~~d~~~~vvd~~~~~~~~~~~~~~~~  196 (211)
                      ..+|..+.|+.||+|++++...+.+    .+++++|+|||||++|..++..++..+|++++|+|+.+|+..+++.+++++
T Consensus        56 ~~~D~~~~E~~rgiTi~~~~~~~~~~~~~~~~~i~liDtPG~~df~~~~~~~l~~~D~avlVvda~~g~~~~t~~~~~~~  135 (731)
T PRK07560         56 LALDFDEEEQARGITIKAANVSMVHEYEGKEYLINLIDTPGHVDFGGDVTRAMRAVDGAIVVVDAVEGVMPQTETVLRQA  135 (731)
T ss_pred             eecCccHHHHHhhhhhhccceEEEEEecCCcEEEEEEcCCCccChHHHHHHHHHhcCEEEEEEECCCCCCccHHHHHHHH
Confidence            4589999999999999998766554    578899999999999999999999999999999999999999999999999


Q ss_pred             HHcCCCeEEEEEeCC
Q psy9646         197 KQIGVTNIVVFINKF  211 (211)
Q Consensus       197 ~~~~~~~~i~~inK~  211 (211)
                      .+.++| .|+++||+
T Consensus       136 ~~~~~~-~iv~iNK~  149 (731)
T PRK07560        136 LRERVK-PVLFINKV  149 (731)
T ss_pred             HHcCCC-eEEEEECc
Confidence            889998 57899997

>KOG1145|consensus

Probab=99.56  E-value=9.6e-15  Score=124.23  Aligned_cols=111  Identities=31%  Similarity=0.363  Sum_probs=95.2

Q ss_pred             ccccccccchhhhhhhhcccccccccchhhcccceEEeEeEEEeee-CCceeEeecCCcccccHhHHhhhccccceEEEE
Q psy9646         100 RGLIMAKPVLADKKLAKVKQYADIDNAPEEKARGITINVAHVEYAT-ENRHYSHTDCPGHADYIKNMITGTSQMDGAILV  178 (211)
Q Consensus       100 ~G~ii~~~~~~~~~~~~f~~~i~~~~~~~e~~rg~tv~~~~~~~~~-~~~~~~~iDtPG~~~~~~~~~~~~~~~d~~~~v  178 (211)
                      |-.++.-+++..++++.+..++.-.........|+|.++.....+. .+..++|+|||||..|.....+|...+|.+++|
T Consensus       152 RpPVVTiMGHVDHGKTTLLD~lRks~VAA~E~GGITQhIGAF~V~~p~G~~iTFLDTPGHaAF~aMRaRGA~vtDIvVLV  231 (683)
T KOG1145|consen  152 RPPVVTIMGHVDHGKTTLLDALRKSSVAAGEAGGITQHIGAFTVTLPSGKSITFLDTPGHAAFSAMRARGANVTDIVVLV  231 (683)
T ss_pred             CCCeEEEeecccCChhhHHHHHhhCceehhhcCCccceeceEEEecCCCCEEEEecCCcHHHHHHHHhccCccccEEEEE
Confidence            4455555777788888877666655666666778999998877764 457899999999999999999999999999999


Q ss_pred             EeccCCCCcchHHHHHHHHHcCCCeEEEEEeCC
Q psy9646         179 VAATDGAMPQTREHLLLAKQIGVTNIVVFINKF  211 (211)
Q Consensus       179 vd~~~~~~~~~~~~~~~~~~~~~~~~i~~inK~  211 (211)
                      |.|.+|+++||.+.+++++..++| +|+++|||
T Consensus       232 VAadDGVmpQT~EaIkhAk~A~Vp-iVvAinKi  263 (683)
T KOG1145|consen  232 VAADDGVMPQTLEAIKHAKSANVP-IVVAINKI  263 (683)
T ss_pred             EEccCCccHhHHHHHHHHHhcCCC-EEEEEecc
Confidence            999999999999999999999999 88999997

>cd04169 RF3 RF3 subfamily

Probab=99.55  E-value=1.9e-14  Score=116.21  Aligned_cols=89  Identities=29%  Similarity=0.521  Sum_probs=83.5

Q ss_pred             ccccchhhcccceEEeEeEEEeeeCCceeEeecCCcccccHhHHhhhccccceEEEEEeccCCCCcchHHHHHHHHHcCC
Q psy9646         122 DIDNAPEEKARGITINVAHVEYATENRHYSHTDCPGHADYIKNMITGTSQMDGAILVVAATDGAMPQTREHLLLAKQIGV  201 (211)
Q Consensus       122 ~~~~~~~e~~rg~tv~~~~~~~~~~~~~~~~iDtPG~~~~~~~~~~~~~~~d~~~~vvd~~~~~~~~~~~~~~~~~~~~~  201 (211)
                      .+|..+.|+.|++++..+...+++.+.+++++|||||.+|..+++.++..+|++++|+|+..++..+++.+++.+...++
T Consensus        45 ~~D~~~~e~~rg~si~~~~~~~~~~~~~i~liDTPG~~df~~~~~~~l~~aD~~IlVvda~~g~~~~~~~i~~~~~~~~~  124 (267)
T cd04169          45 TSDWMEIEKQRGISVTSSVMQFEYRDCVINLLDTPGHEDFSEDTYRTLTAVDSAVMVIDAAKGVEPQTRKLFEVCRLRGI  124 (267)
T ss_pred             cCCCcHHHHhCCCCeEEEEEEEeeCCEEEEEEECCCchHHHHHHHHHHHHCCEEEEEEECCCCccHHHHHHHHHHHhcCC
Confidence            36788999999999999999999999999999999999999999999999999999999999998899999999988899


Q ss_pred             CeEEEEEeCC
Q psy9646         202 TNIVVFINKF  211 (211)
Q Consensus       202 ~~~i~~inK~  211 (211)
                      | +++++||+
T Consensus       125 P-~iivvNK~  133 (267)
T cd04169         125 P-IITFINKL  133 (267)
T ss_pred             C-EEEEEECC
Confidence            8 77899996

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.

>KOG0459|consensus

Probab=99.55  E-value=6.6e-15  Score=121.16  Aligned_cols=104  Identities=38%  Similarity=0.606  Sum_probs=96.0

Q ss_pred             chhhhhhhhcccccccccchhhcccceEEeEeEEEeeeCCceeEeecCCcccccHhHHhhhccccceEEEEEeccCCCC-
Q psy9646         108 VLADKKLAKVKQYADIDNAPEEKARGITINVAHVEYATENRHYSHTDCPGHADYIKNMITGTSQMDGAILVVAATDGAM-  186 (211)
Q Consensus       108 ~~~~~~~~~f~~~i~~~~~~~e~~rg~tv~~~~~~~~~~~~~~~~iDtPG~~~~~~~~~~~~~~~d~~~~vvd~~~~~~-  186 (211)
                      .....++.++...|.+|....|+.+|-|+.....+|+++..+++++|+|||.-|..+|+.|+++||.+++|+.|+.|.+ 
T Consensus       117 eake~~rEswylsW~ldtn~EeR~kgKtvEvGrA~FEte~~~ftiLDApGHk~fv~nmI~GasqAD~~vLvisar~gefe  196 (501)
T KOG0459|consen  117 EAKEKNRESWYLSWALDTNGEERDKGKTVEVGRAYFETENKRFTILDAPGHKSFVPNMIGGASQADLAVLVISARKGEFE  196 (501)
T ss_pred             HHHhhccccceEEEEEcCchhhhhccceeeeeeEEEEecceeEEeeccCcccccchhhccccchhhhhhhhhhhhhchhh
Confidence            3445566778888889999999999999999999999999999999999999999999999999999999999987764 


Q ss_pred             ------cchHHHHHHHHHcCCCeEEEEEeCC
Q psy9646         187 ------PQTREHLLLAKQIGVTNIVVFINKF  211 (211)
Q Consensus       187 ------~~~~~~~~~~~~~~~~~~i~~inK~  211 (211)
                            +|+++|+.+++.+|+.++|+++|||
T Consensus       197 tgFerGgQTREha~Lakt~gv~~lVv~vNKM  227 (501)
T KOG0459|consen  197 TGFEKGGQTREHAMLAKTAGVKHLIVLINKM  227 (501)
T ss_pred             cccccccchhHHHHHHHhhccceEEEEEEec
Confidence                  6999999999999999999999997

>cd04165 GTPBP1_like GTPBP1-like

Probab=99.54  E-value=1.7e-14  Score=113.71  Aligned_cols=68  Identities=32%  Similarity=0.501  Sum_probs=62.3

Q ss_pred             eeeCCceeEeecCCcccccHhHHhhhcc--ccceEEEEEeccCCCCcchHHHHHHHHHcCCCeEEEEEeCC
Q psy9646         143 YATENRHYSHTDCPGHADYIKNMITGTS--QMDGAILVVAATDGAMPQTREHLLLAKQIGVTNIVVFINKF  211 (211)
Q Consensus       143 ~~~~~~~~~~iDtPG~~~~~~~~~~~~~--~~d~~~~vvd~~~~~~~~~~~~~~~~~~~~~~~~i~~inK~  211 (211)
                      ++..++.++|+|||||++|.+++..++.  .+|++++|+|+.+++.+++++++.++...++| +++++||+
T Consensus        79 ~~~~~~~i~liDtpG~~~~~~~~~~~~~~~~~D~~llVvda~~g~~~~d~~~l~~l~~~~ip-~ivvvNK~  148 (224)
T cd04165          79 CEKSSKLVTFIDLAGHERYLKTTLFGLTGYAPDYAMLVVAANAGIIGMTKEHLGLALALNIP-VFVVVTKI  148 (224)
T ss_pred             eeeCCcEEEEEECCCcHHHHHHHHHhhcccCCCEEEEEEECCCCCcHHHHHHHHHHHHcCCC-EEEEEECc
Confidence            3455678999999999999999999986  79999999999999999999999999999999 78999996

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

>KOG0465|consensus

Probab=99.54  E-value=8.3e-15  Score=125.79  Aligned_cols=89  Identities=31%  Similarity=0.465  Sum_probs=85.4

Q ss_pred             ccccchhhcccceEEeEeEEEeeeCCceeEeecCCcccccHhHHhhhccccceEEEEEeccCCCCcchHHHHHHHHHcCC
Q psy9646         122 DIDNAPEEKARGITINVAHVEYATENRHYSHTDCPGHADYIKNMITGTSQMDGAILVVAATDGAMPQTREHLLLAKQIGV  201 (211)
Q Consensus       122 ~~~~~~~e~~rg~tv~~~~~~~~~~~~~~~~iDtPG~~~~~~~~~~~~~~~d~~~~vvd~~~~~~~~~~~~~~~~~~~~~  201 (211)
                      .+|....|+.||+|+..+..++.|.++.+++||||||-+|--++.+|++.-|++++++|+..|+.+|+..+++++++.++
T Consensus        78 ~md~m~~er~rgITiqSAAt~~~w~~~~iNiIDTPGHvDFT~EVeRALrVlDGaVlvl~aV~GVqsQt~tV~rQ~~ry~v  157 (721)
T KOG0465|consen   78 TMDSMELERQRGITIQSAATYFTWRDYRINIIDTPGHVDFTFEVERALRVLDGAVLVLDAVAGVESQTETVWRQMKRYNV  157 (721)
T ss_pred             eeehHHHHHhcCceeeeceeeeeeccceeEEecCCCceeEEEEehhhhhhccCeEEEEEcccceehhhHHHHHHHHhcCC
Confidence            47899999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             CeEEEEEeCC
Q psy9646         202 TNIVVFINKF  211 (211)
Q Consensus       202 ~~~i~~inK~  211 (211)
                      |. |.++|||
T Consensus       158 P~-i~FiNKm  166 (721)
T KOG0465|consen  158 PR-ICFINKM  166 (721)
T ss_pred             Ce-EEEEehh
Confidence            94 5789996

>PRK00741 prfC peptide chain release factor 3; Provisional

Probab=99.53  E-value=2.8e-14  Score=124.95  Aligned_cols=89  Identities=28%  Similarity=0.480  Sum_probs=84.3

Q ss_pred             ccccchhhcccceEEeEeEEEeeeCCceeEeecCCcccccHhHHhhhccccceEEEEEeccCCCCcchHHHHHHHHHcCC
Q psy9646         122 DIDNAPEEKARGITINVAHVEYATENRHYSHTDCPGHADYIKNMITGTSQMDGAILVVAATDGAMPQTREHLLLAKQIGV  201 (211)
Q Consensus       122 ~~~~~~~e~~rg~tv~~~~~~~~~~~~~~~~iDtPG~~~~~~~~~~~~~~~d~~~~vvd~~~~~~~~~~~~~~~~~~~~~  201 (211)
                      .+|..+.|+.||+|+..+...+++++++++++|||||.+|...++.++..+|++++|+|+..++..+++.+++.+...++
T Consensus        53 ~~D~~~~E~~rgiSi~~~~~~~~~~~~~inliDTPG~~df~~~~~~~l~~aD~aIlVvDa~~gv~~~t~~l~~~~~~~~i  132 (526)
T PRK00741         53 TSDWMEMEKQRGISVTSSVMQFPYRDCLINLLDTPGHEDFSEDTYRTLTAVDSALMVIDAAKGVEPQTRKLMEVCRLRDT  132 (526)
T ss_pred             cCCCcHHHHhhCCceeeeeEEEEECCEEEEEEECCCchhhHHHHHHHHHHCCEEEEEEecCCCCCHHHHHHHHHHHhcCC
Confidence            36778999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             CeEEEEEeCC
Q psy9646         202 TNIVVFINKF  211 (211)
Q Consensus       202 ~~~i~~inK~  211 (211)
                      | +++++||+
T Consensus       133 P-iiv~iNK~  141 (526)
T PRK00741        133 P-IFTFINKL  141 (526)
T ss_pred             C-EEEEEECC
Confidence            9 78999996

>COG5257 GCD11 Translation initiation factor 2, gamma subunit (eIF-2gamma; GTPase) [Translation, ribosomal structure and biogenesis]

Probab=99.53  E-value=1.4e-14  Score=116.24  Aligned_cols=93  Identities=41%  Similarity=0.627  Sum_probs=81.7

Q ss_pred             cccccccchhhcccceEEeEeEEEeee--------------C------------CceeEeecCCcccccHhHHhhhcccc
Q psy9646         119 QYADIDNAPEEKARGITINVAHVEYAT--------------E------------NRHYSHTDCPGHADYIKNMITGTSQM  172 (211)
Q Consensus       119 ~~i~~~~~~~e~~rg~tv~~~~~~~~~--------------~------------~~~~~~iDtPG~~~~~~~~~~~~~~~  172 (211)
                      .-+|++++..|.+||+|+++.|.....              .            .+.+.|+|.|||+-++.+|++|.+..
T Consensus        31 sGvwT~~hseElkRgitIkLGYAd~~i~kC~~c~~~~~y~~~~~C~~cg~~~~l~R~VSfVDaPGHe~LMATMLsGAAlM  110 (415)
T COG5257          31 SGVWTDRHSEELKRGITIKLGYADAKIYKCPECYRPECYTTEPKCPNCGAETELVRRVSFVDAPGHETLMATMLSGAALM  110 (415)
T ss_pred             hceeeechhHHHhcCcEEEeccccCceEeCCCCCCCcccccCCCCCCCCCCccEEEEEEEeeCCchHHHHHHHhcchhhh
Confidence            345899999999999999998754221              1            14689999999999999999999999


Q ss_pred             ceEEEEEeccCC-CCcchHHHHHHHHHcCCCeEEEEEeCC
Q psy9646         173 DGAILVVAATDG-AMPQTREHLLLAKQIGVTNIVVFINKF  211 (211)
Q Consensus       173 d~~~~vvd~~~~-~~~~~~~~~~~~~~~~~~~~i~~inK~  211 (211)
                      |++++|++|++. +++||++|+..+.-.|++.+|++-||+
T Consensus       111 DgAlLvIaANEpcPQPQT~EHl~AleIigik~iiIvQNKI  150 (415)
T COG5257         111 DGALLVIAANEPCPQPQTREHLMALEIIGIKNIIIVQNKI  150 (415)
T ss_pred             cceEEEEecCCCCCCCchHHHHHHHhhhccceEEEEeccc
Confidence            999999999865 679999999999999999999999996

>TIGR00503 prfC peptide chain release factor 3

Probab=99.53  E-value=3.5e-14  Score=124.35  Aligned_cols=89  Identities=25%  Similarity=0.443  Sum_probs=84.2

Q ss_pred             ccccchhhcccceEEeEeEEEeeeCCceeEeecCCcccccHhHHhhhccccceEEEEEeccCCCCcchHHHHHHHHHcCC
Q psy9646         122 DIDNAPEEKARGITINVAHVEYATENRHYSHTDCPGHADYIKNMITGTSQMDGAILVVAATDGAMPQTREHLLLAKQIGV  201 (211)
Q Consensus       122 ~~~~~~~e~~rg~tv~~~~~~~~~~~~~~~~iDtPG~~~~~~~~~~~~~~~d~~~~vvd~~~~~~~~~~~~~~~~~~~~~  201 (211)
                      .+|..+.|+.||+++.++...+++.+++++|+|||||.+|...++.++..+|++++|+|+..++..+++.+++.+...++
T Consensus        54 ~~D~~~~E~~rgisi~~~~~~~~~~~~~inliDTPG~~df~~~~~~~l~~aD~aIlVvDa~~gv~~~t~~l~~~~~~~~~  133 (527)
T TIGR00503        54 KSDWMEMEKQRGISITTSVMQFPYRDCLVNLLDTPGHEDFSEDTYRTLTAVDNCLMVIDAAKGVETRTRKLMEVTRLRDT  133 (527)
T ss_pred             cCCCCHHHHhcCCcEEEEEEEEeeCCeEEEEEECCChhhHHHHHHHHHHhCCEEEEEEECCCCCCHHHHHHHHHHHhcCC
Confidence            36888999999999999999999999999999999999999999999999999999999999999999999999988898


Q ss_pred             CeEEEEEeCC
Q psy9646         202 TNIVVFINKF  211 (211)
Q Consensus       202 ~~~i~~inK~  211 (211)
                      | +|+++||+
T Consensus       134 P-iivviNKi  142 (527)
T TIGR00503       134 P-IFTFMNKL  142 (527)
T ss_pred             C-EEEEEECc
Confidence            8 78999996

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.

>PRK10218 GTP-binding protein; Provisional

Probab=99.51  E-value=7.3e-14  Score=123.85  Aligned_cols=90  Identities=37%  Similarity=0.426  Sum_probs=85.4

Q ss_pred             cccccchhhcccceEEeEeEEEeeeCCceeEeecCCcccccHhHHhhhccccceEEEEEeccCCCCcchHHHHHHHHHcC
Q psy9646         121 ADIDNAPEEKARGITINVAHVEYATENRHYSHTDCPGHADYIKNMITGTSQMDGAILVVAATDGAMPQTREHLLLAKQIG  200 (211)
Q Consensus       121 i~~~~~~~e~~rg~tv~~~~~~~~~~~~~~~~iDtPG~~~~~~~~~~~~~~~d~~~~vvd~~~~~~~~~~~~~~~~~~~~  200 (211)
                      ..+|..+.|..+|+|+......+.+++.+++++|||||.+|..++..+++.+|++++|+|+.+|+..+++.++..+...+
T Consensus        41 ~v~D~~~~E~erGiTi~~~~~~i~~~~~~inliDTPG~~df~~~v~~~l~~aDg~ILVVDa~~G~~~qt~~~l~~a~~~g  120 (607)
T PRK10218         41 RVMDSNDLEKERGITILAKNTAIKWNDYRINIVDTPGHADFGGEVERVMSMVDSVLLVVDAFDGPMPQTRFVTKKAFAYG  120 (607)
T ss_pred             eeeccccccccCceEEEEEEEEEecCCEEEEEEECCCcchhHHHHHHHHHhCCEEEEEEecccCccHHHHHHHHHHHHcC
Confidence            45899999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             CCeEEEEEeCC
Q psy9646         201 VTNIVVFINKF  211 (211)
Q Consensus       201 ~~~~i~~inK~  211 (211)
                      +| .|+++||+
T Consensus       121 ip-~IVviNKi  130 (607)
T PRK10218        121 LK-PIVVINKV  130 (607)
T ss_pred             CC-EEEEEECc
Confidence            99 56899997

>TIGR00484 EF-G translation elongation factor EF-G

Probab=99.51  E-value=5.6e-14  Score=127.22  Aligned_cols=90  Identities=31%  Similarity=0.452  Sum_probs=85.2

Q ss_pred             cccccchhhcccceEEeEeEEEeeeCCceeEeecCCcccccHhHHhhhccccceEEEEEeccCCCCcchHHHHHHHHHcC
Q psy9646         121 ADIDNAPEEKARGITINVAHVEYATENRHYSHTDCPGHADYIKNMITGTSQMDGAILVVAATDGAMPQTREHLLLAKQIG  200 (211)
Q Consensus       121 i~~~~~~~e~~rg~tv~~~~~~~~~~~~~~~~iDtPG~~~~~~~~~~~~~~~d~~~~vvd~~~~~~~~~~~~~~~~~~~~  200 (211)
                      ..+|..+.|+.||+|+++....+++++.+++|+|||||.+|..++..+++.+|++++|+|+.+|+..+++.++.++...+
T Consensus        48 ~~~D~~~~e~~rgiti~~~~~~~~~~~~~i~liDTPG~~~~~~~~~~~l~~~D~~ilVvda~~g~~~~~~~~~~~~~~~~  127 (689)
T TIGR00484        48 ATMDWMEQEKERGITITSAATTVFWKGHRINIIDTPGHVDFTVEVERSLRVLDGAVAVLDAVGGVQPQSETVWRQANRYE  127 (689)
T ss_pred             cccCCCHHHHhcCCCEecceEEEEECCeEEEEEECCCCcchhHHHHHHHHHhCEEEEEEeCCCCCChhHHHHHHHHHHcC
Confidence            45788999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             CCeEEEEEeCC
Q psy9646         201 VTNIVVFINKF  211 (211)
Q Consensus       201 ~~~~i~~inK~  211 (211)
                      +| +++++||+
T Consensus       128 ~p-~ivviNK~  137 (689)
T TIGR00484       128 VP-RIAFVNKM  137 (689)
T ss_pred             CC-EEEEEECC
Confidence            99 66899997

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.

>COG0481 LepA Membrane GTPase LepA [Cell envelope biogenesis, outer membrane]

Probab=99.50  E-value=2.4e-14  Score=120.19  Aligned_cols=89  Identities=31%  Similarity=0.458  Sum_probs=81.0

Q ss_pred             ccccchhhcccceEEeEeEEEeee-----CCceeEeecCCcccccHhHHhhhccccceEEEEEeccCCCCcchHHHHHHH
Q psy9646         122 DIDNAPEEKARGITINVAHVEYAT-----ENRHYSHTDCPGHADYIKNMITGTSQMDGAILVVAATDGAMPQTREHLLLA  196 (211)
Q Consensus       122 ~~~~~~~e~~rg~tv~~~~~~~~~-----~~~~~~~iDtPG~~~~~~~~~~~~~~~d~~~~vvd~~~~~~~~~~~~~~~~  196 (211)
                      .+|+...|+.||+|++.....+.+     +.+.+++||||||.||.-++.++++.+.+++++|||.+|+..||..-..++
T Consensus        45 ~LDsMdiERERGITIKaq~v~l~Yk~~~g~~Y~lnlIDTPGHVDFsYEVSRSLAACEGalLvVDAsQGveAQTlAN~YlA  124 (603)
T COG0481          45 VLDSMDIERERGITIKAQAVRLNYKAKDGETYVLNLIDTPGHVDFSYEVSRSLAACEGALLVVDASQGVEAQTLANVYLA  124 (603)
T ss_pred             hhhhhhhHhhcCceEEeeEEEEEEEeCCCCEEEEEEcCCCCccceEEEehhhHhhCCCcEEEEECccchHHHHHHHHHHH
Confidence            489999999999999988766554     337899999999999999999999999999999999999999999988999


Q ss_pred             HHcCCCeEEEEEeCC
Q psy9646         197 KQIGVTNIVVFINKF  211 (211)
Q Consensus       197 ~~~~~~~~i~~inK~  211 (211)
                      ...+.. +|-|+|||
T Consensus       125 le~~Le-IiPViNKI  138 (603)
T COG0481         125 LENNLE-IIPVLNKI  138 (603)
T ss_pred             HHcCcE-EEEeeecc
Confidence            999987 88899997

>PRK05306 infB translation initiation factor IF-2; Validated

Probab=99.50  E-value=6.6e-14  Score=126.88  Aligned_cols=113  Identities=32%  Similarity=0.384  Sum_probs=95.4

Q ss_pred             ccccccccccchhhhhhhhcccccccccchhhcccceEEeEeEEEeeeCCceeEeecCCcccccHhHHhhhccccceEEE
Q psy9646          98 VNRGLIMAKPVLADKKLAKVKQYADIDNAPEEKARGITINVAHVEYATENRHYSHTDCPGHADYIKNMITGTSQMDGAIL  177 (211)
Q Consensus        98 v~~G~ii~~~~~~~~~~~~f~~~i~~~~~~~e~~rg~tv~~~~~~~~~~~~~~~~iDtPG~~~~~~~~~~~~~~~d~~~~  177 (211)
                      ..|-.+++-.++...|++++..++..........+++|.++....+.+.+.+++|+|||||.+|...+..++..+|+++|
T Consensus       287 ~~R~pvV~ImGhvd~GKTSLl~~Lr~~~v~~~e~~GIT~~iga~~v~~~~~~ItfiDTPGhe~F~~m~~rga~~aDiaIL  366 (787)
T PRK05306        287 VPRPPVVTIMGHVDHGKTSLLDAIRKTNVAAGEAGGITQHIGAYQVETNGGKITFLDTPGHEAFTAMRARGAQVTDIVVL  366 (787)
T ss_pred             ccCCCEEEEECCCCCCHHHHHHHHHhCCccccccCceeeeccEEEEEECCEEEEEEECCCCccchhHHHhhhhhCCEEEE
Confidence            45566666667777888887766543333444567899998888888888999999999999999999999999999999


Q ss_pred             EEeccCCCCcchHHHHHHHHHcCCCeEEEEEeCC
Q psy9646         178 VVAATDGAMPQTREHLLLAKQIGVTNIVVFINKF  211 (211)
Q Consensus       178 vvd~~~~~~~~~~~~~~~~~~~~~~~~i~~inK~  211 (211)
                      |+|+.+|+.+++.+++.++...++| +|+++||+
T Consensus       367 VVdAddGv~~qT~e~i~~a~~~~vP-iIVviNKi  399 (787)
T PRK05306        367 VVAADDGVMPQTIEAINHAKAAGVP-IIVAINKI  399 (787)
T ss_pred             EEECCCCCCHhHHHHHHHHHhcCCc-EEEEEECc
Confidence            9999999999999999999999999 88999996

>KOG0467|consensus

Probab=99.50  E-value=4.2e-14  Score=124.04  Aligned_cols=90  Identities=27%  Similarity=0.427  Sum_probs=86.2

Q ss_pred             cccccchhhcccceEEeEeEEEeeeCCceeEeecCCcccccHhHHhhhccccceEEEEEeccCCCCcchHHHHHHHHHcC
Q psy9646         121 ADIDNAPEEKARGITINVAHVEYATENRHYSHTDCPGHADYIKNMITGTSQMDGAILVVAATDGAMPQTREHLLLAKQIG  200 (211)
Q Consensus       121 i~~~~~~~e~~rg~tv~~~~~~~~~~~~~~~~iDtPG~~~~~~~~~~~~~~~d~~~~vvd~~~~~~~~~~~~~~~~~~~~  200 (211)
                      .++|..+.|..||+|.+++..++..+++.+++||+|||-||-.++.+|..-+|.++++||+.+|+.+||..+++++...|
T Consensus        45 rfld~redeq~rgitmkss~is~~~~~~~~nlidspghvdf~sevssas~l~d~alvlvdvvegv~~qt~~vlrq~~~~~  124 (887)
T KOG0467|consen   45 RFLDTREDEQTRGITMKSSAISLLHKDYLINLIDSPGHVDFSSEVSSASRLSDGALVLVDVVEGVCSQTYAVLRQAWIEG  124 (887)
T ss_pred             eeccccchhhhhceeeeccccccccCceEEEEecCCCccchhhhhhhhhhhcCCcEEEEeeccccchhHHHHHHHHHHcc
Confidence            46899999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             CCeEEEEEeCC
Q psy9646         201 VTNIVVFINKF  211 (211)
Q Consensus       201 ~~~~i~~inK~  211 (211)
                      .+ .|+|+|||
T Consensus       125 ~~-~~lvinki  134 (887)
T KOG0467|consen  125 LK-PILVINKI  134 (887)
T ss_pred             Cc-eEEEEehh
Confidence            88 56999997

>TIGR03680 eif2g_arch translation initiation factor 2 subunit gamma

Probab=99.50  E-value=8.6e-14  Score=118.83  Aligned_cols=90  Identities=41%  Similarity=0.638  Sum_probs=79.3

Q ss_pred             ccccchhhcccceEEeEeEEEee--------------e------------CCceeEeecCCcccccHhHHhhhccccceE
Q psy9646         122 DIDNAPEEKARGITINVAHVEYA--------------T------------ENRHYSHTDCPGHADYIKNMITGTSQMDGA  175 (211)
Q Consensus       122 ~~~~~~~e~~rg~tv~~~~~~~~--------------~------------~~~~~~~iDtPG~~~~~~~~~~~~~~~d~~  175 (211)
                      +++.++.|..||+|+.+.+..+.              +            ....+.|+|||||++|.+++..+++.+|++
T Consensus        28 ~~d~~~~e~~rg~Ti~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~liDtPGh~~f~~~~~~g~~~aD~a  107 (406)
T TIGR03680        28 WTDTHSEELKRGISIRLGYADAEIYKCPECDGPECYTTEPVCPNCGSETELLRRVSFVDAPGHETLMATMLSGAALMDGA  107 (406)
T ss_pred             ecccCHhHHHcCceeEecccccccccccccCccccccccccccccccccccccEEEEEECCCHHHHHHHHHHHHHHCCEE
Confidence            47888999999999998865543              1            135799999999999999999999999999


Q ss_pred             EEEEeccCCC-CcchHHHHHHHHHcCCCeEEEEEeCC
Q psy9646         176 ILVVAATDGA-MPQTREHLLLAKQIGVTNIVVFINKF  211 (211)
Q Consensus       176 ~~vvd~~~~~-~~~~~~~~~~~~~~~~~~~i~~inK~  211 (211)
                      ++|+|+.++. .+++++++..+...+++++|+++||+
T Consensus       108 IlVVDa~~g~~~~qt~e~l~~l~~~gi~~iIVvvNK~  144 (406)
T TIGR03680       108 LLVIAANEPCPQPQTKEHLMALEIIGIKNIVIVQNKI  144 (406)
T ss_pred             EEEEECCCCccccchHHHHHHHHHcCCCeEEEEEEcc
Confidence            9999999998 89999999999999988788999996

eIF-2 functions in the early steps of protein synthesis by forming a ternary complex with GTP and initiator tRNA.

>cd01888 eIF2_gamma eIF2-gamma (gamma subunit of initiation factor 2)

Probab=99.49  E-value=1.3e-13  Score=107.17  Aligned_cols=89  Identities=37%  Similarity=0.597  Sum_probs=75.5

Q ss_pred             cccchhhcccceEEeEeEEEeeeC---------------------------C------ceeEeecCCcccccHhHHhhhc
Q psy9646         123 IDNAPEEKARGITINVAHVEYATE---------------------------N------RHYSHTDCPGHADYIKNMITGT  169 (211)
Q Consensus       123 ~~~~~~e~~rg~tv~~~~~~~~~~---------------------------~------~~~~~iDtPG~~~~~~~~~~~~  169 (211)
                      .+..+.|..|++++..++..+.+.                           +      .++.|+|||||.+|..++..++
T Consensus        25 ~~~~~~e~~~~~s~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~iDtPG~~~~~~~~~~~~  104 (203)
T cd01888          25 TVRFKEELERNITIKLGYANAKIYKCPNCGCPRPYCYRSKEDSPECECPGCGGETKLVRHVSFVDCPGHEILMATMLSGA  104 (203)
T ss_pred             CCCCCeeEEcCCceeecccccccccccCcCCCCccccccccccccccccccCCccccccEEEEEECCChHHHHHHHHHhh
Confidence            567788888888888876665543                           2      7899999999999999999999


Q ss_pred             cccceEEEEEeccCC-CCcchHHHHHHHHHcCCCeEEEEEeCC
Q psy9646         170 SQMDGAILVVAATDG-AMPQTREHLLLAKQIGVTNIVVFINKF  211 (211)
Q Consensus       170 ~~~d~~~~vvd~~~~-~~~~~~~~~~~~~~~~~~~~i~~inK~  211 (211)
                      ..+|++++|+|+.++ ...++.+++..+...+++++|+++||+
T Consensus       105 ~~~D~~llVvd~~~~~~~~~t~~~l~~~~~~~~~~iiivvNK~  147 (203)
T cd01888         105 AVMDGALLLIAANEPCPQPQTSEHLAALEIMGLKHIIIVQNKI  147 (203)
T ss_pred             hcCCEEEEEEECCCCCCCcchHHHHHHHHHcCCCcEEEEEEch
Confidence            999999999999974 667888888888878887688899996

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

>KOG0468|consensus

Probab=99.49  E-value=7.9e-14  Score=120.85  Aligned_cols=93  Identities=28%  Similarity=0.357  Sum_probs=82.9

Q ss_pred             ccccccccchhhcccceEEeEeEEEeee-----CCceeEeecCCcccccHhHHhhhccccceEEEEEeccCCCCcchHHH
Q psy9646         118 KQYADIDNAPEEKARGITINVAHVEYAT-----ENRHYSHTDCPGHADYIKNMITGTSQMDGAILVVAATDGAMPQTREH  192 (211)
Q Consensus       118 ~~~i~~~~~~~e~~rg~tv~~~~~~~~~-----~~~~~~~iDtPG~~~~~~~~~~~~~~~d~~~~vvd~~~~~~~~~~~~  192 (211)
                      ....++|.+..|+.||.++++.-.++-.     +.+-++++|||||.+|+.++..+++.+|++++++|+.+|++-+++++
T Consensus       162 ~~lrytD~l~~E~eRg~sIK~~p~Tl~l~D~~~KS~l~nilDTPGHVnF~DE~ta~l~~sDgvVlvvDv~EGVmlntEr~  241 (971)
T KOG0468|consen  162 ADLRYTDTLFYEQERGCSIKSTPVTLVLSDSKGKSYLMNILDTPGHVNFSDETTASLRLSDGVVLVVDVAEGVMLNTERI  241 (971)
T ss_pred             ccccccccchhhHhcCceEeecceEEEEecCcCceeeeeeecCCCcccchHHHHHHhhhcceEEEEEEcccCceeeHHHH
Confidence            3445689999999999999987666543     33568999999999999999999999999999999999999999999


Q ss_pred             HHHHHHcCCCeEEEEEeCC
Q psy9646         193 LLLAKQIGVTNIVVFINKF  211 (211)
Q Consensus       193 ~~~~~~~~~~~~i~~inK~  211 (211)
                      ++++-....| +++|+||+
T Consensus       242 ikhaiq~~~~-i~vviNKi  259 (971)
T KOG0468|consen  242 IKHAIQNRLP-IVVVINKV  259 (971)
T ss_pred             HHHHHhccCc-EEEEEehh
Confidence            9999998888 88999996

>TIGR01394 TypA_BipA GTP-binding protein TypA/BipA

Probab=99.48  E-value=3.8e-13  Score=119.32  Aligned_cols=104  Identities=28%  Similarity=0.406  Sum_probs=90.6

Q ss_pred             hHHHHHhhhCCCCCCCCCCCeeEEEeeEEeecCCcEEEEEEEEEEEEecCCEEEEeecC-ceeeEEEEEEEec----cee
Q psy9646           2 ELLNQIDTYIPQPVRDLDKPFYLPVEHTYSIPGRGTVVTGRLERGIVKKGMECEFTGYG-RQFKTTVTGIEMF----HKI   76 (211)
Q Consensus         2 ~ll~~l~~~i~~p~~~~~~p~~~~v~~~~~~~~~G~v~~G~v~~G~i~~g~~v~i~p~~-~~~~~~v~~i~~~----~~~   76 (211)
                      +||+.+.+++|.|..+.++||+|+|..+++.++.|+++.|||.+|++++||.|.+.|.+ +..+.+|++|+.+    +.+
T Consensus       181 ~Lld~Iv~~lP~P~~~~~~pl~~~V~~i~~d~~~Grv~~gRV~sG~lk~G~~V~~~~~~~~~~~~kV~~i~~~~g~~~~~  260 (594)
T TIGR01394       181 PLFDAIVRHVPAPKGDLDEPLQMLVTNLDYDEYLGRIAIGRVHRGTVKKGQQVALMKRDGTIENGRISKLLGFEGLERVE  260 (594)
T ss_pred             HHHHHHHHhCCCCCCCCCCCEEEEEEEEEeeCCCceEEEEEEEeCEEccCCEEEEecCCCceeEEEEEEEEEccCCCceE
Confidence            58899999899888888999999999999999999999999999999999999999873 2346789999876    479


Q ss_pred             cceecccCceehhccCCCcccccccccccccch
Q psy9646          77 LDEAQAGDQLGALVKGMKRDEVNRGLIMAKPVL  109 (211)
Q Consensus        77 ~~~a~~G~~v~~~l~~~~~~~v~~G~ii~~~~~  109 (211)
                      +++|.|||++++.    +..++.+|++++....
T Consensus       261 v~~a~aGDiv~i~----gl~~i~~Gdtl~~~~~  289 (594)
T TIGR01394       261 IDEAGAGDIVAVA----GLEDINIGETIADPEV  289 (594)
T ss_pred             CCEECCCCEEEEe----CCcccCCCCEEeCCCc
Confidence            9999999999873    3467899999987654

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.

>TIGR00487 IF-2 translation initiation factor IF-2

Probab=99.45  E-value=2.9e-13  Score=119.82  Aligned_cols=111  Identities=30%  Similarity=0.364  Sum_probs=91.3

Q ss_pred             ccccccccchhhhhhhhcccccccccchhhcccceEEeEeEEEeeeCCc-eeEeecCCcccccHhHHhhhccccceEEEE
Q psy9646         100 RGLIMAKPVLADKKLAKVKQYADIDNAPEEKARGITINVAHVEYATENR-HYSHTDCPGHADYIKNMITGTSQMDGAILV  178 (211)
Q Consensus       100 ~G~ii~~~~~~~~~~~~f~~~i~~~~~~~e~~rg~tv~~~~~~~~~~~~-~~~~iDtPG~~~~~~~~~~~~~~~d~~~~v  178 (211)
                      |-.+++-.++...|++++..++..........+|+|.+.....+++.+. ++.|+|||||++|...+.+++..+|++++|
T Consensus        86 r~p~V~I~Ghvd~GKTSLl~~l~~~~v~~~e~~GIT~~ig~~~v~~~~~~~i~~iDTPGhe~F~~~r~rga~~aDiaILV  165 (587)
T TIGR00487        86 RPPVVTIMGHVDHGKTSLLDSIRKTKVAQGEAGGITQHIGAYHVENEDGKMITFLDTPGHEAFTSMRARGAKVTDIVVLV  165 (587)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHhCCcccccCCceeecceEEEEEECCCcEEEEEECCCCcchhhHHHhhhccCCEEEEE
Confidence            4445555667778888876665444444444567888888877777655 899999999999999999999999999999


Q ss_pred             EeccCCCCcchHHHHHHHHHcCCCeEEEEEeCC
Q psy9646         179 VAATDGAMPQTREHLLLAKQIGVTNIVVFINKF  211 (211)
Q Consensus       179 vd~~~~~~~~~~~~~~~~~~~~~~~~i~~inK~  211 (211)
                      +|+.+|+.+|+.+++.+++..++| +|+++||+
T Consensus       166 Vda~dgv~~qT~e~i~~~~~~~vP-iIVviNKi  197 (587)
T TIGR00487       166 VAADDGVMPQTIEAISHAKAANVP-IIVAINKI  197 (587)
T ss_pred             EECCCCCCHhHHHHHHHHHHcCCC-EEEEEECc
Confidence            999999999999999999999999 88999996

This model discriminates eubacterial (and mitochondrial) translation initiation factor 2 (IF-2), encoded by the infB gene in bacteria, from similar proteins in the Archaea and Eukaryotes. In the bacteria and in organelles, the initiator tRNA is charged with N-formyl-Met instead of Met. This translation factor acts in delivering the initator tRNA to the ribosome. It is one of a number of GTP-binding translation factors recognized by the pfam model GTP_EFTU.

>PRK05433 GTP-binding protein LepA; Provisional

Probab=99.45  E-value=2.3e-13  Score=121.05  Aligned_cols=90  Identities=30%  Similarity=0.441  Sum_probs=80.9

Q ss_pred             cccccchhhcccceEEeEeEEEeeeC-----CceeEeecCCcccccHhHHhhhccccceEEEEEeccCCCCcchHHHHHH
Q psy9646         121 ADIDNAPEEKARGITINVAHVEYATE-----NRHYSHTDCPGHADYIKNMITGTSQMDGAILVVAATDGAMPQTREHLLL  195 (211)
Q Consensus       121 i~~~~~~~e~~rg~tv~~~~~~~~~~-----~~~~~~iDtPG~~~~~~~~~~~~~~~d~~~~vvd~~~~~~~~~~~~~~~  195 (211)
                      ..+|..+.|+.||+|+......+.+.     +++++|+|||||.+|..++..+++.+|++++|+|+.+++..++.+++..
T Consensus        42 ~~lD~~~~ErerGiTi~~~~v~~~~~~~dg~~~~lnLiDTPGh~dF~~~v~~sl~~aD~aILVVDas~gv~~qt~~~~~~  121 (600)
T PRK05433         42 QVLDSMDLERERGITIKAQAVRLNYKAKDGETYILNLIDTPGHVDFSYEVSRSLAACEGALLVVDASQGVEAQTLANVYL  121 (600)
T ss_pred             ccccCchHHhhcCCcccccEEEEEEEccCCCcEEEEEEECCCcHHHHHHHHHHHHHCCEEEEEEECCCCCCHHHHHHHHH
Confidence            45788999999999999877776553     5789999999999999999999999999999999999999999998888


Q ss_pred             HHHcCCCeEEEEEeCC
Q psy9646         196 AKQIGVTNIVVFINKF  211 (211)
Q Consensus       196 ~~~~~~~~~i~~inK~  211 (211)
                      +...++| +|+|+||+
T Consensus       122 ~~~~~lp-iIvViNKi  136 (600)
T PRK05433        122 ALENDLE-IIPVLNKI  136 (600)
T ss_pred             HHHCCCC-EEEEEECC
Confidence            8888998 88999996

>COG1217 TypA Predicted membrane GTPase involved in stress response [Signal transduction mechanisms]

Probab=99.45  E-value=6e-13  Score=111.61  Aligned_cols=105  Identities=26%  Similarity=0.351  Sum_probs=91.9

Q ss_pred             hHHHHHhhhCCCCCCCCCCCeeEEEeeEEeecCCcEEEEEEEEEEEEecCCEEEEeec-CceeeEEEEEEEecc----ee
Q psy9646           2 ELLNQIDTYIPQPVRDLDKPFYLPVEHTYSIPGRGTVVTGRLERGIVKKGMECEFTGY-GRQFKTTVTGIEMFH----KI   76 (211)
Q Consensus         2 ~ll~~l~~~i~~p~~~~~~p~~~~v~~~~~~~~~G~v~~G~v~~G~i~~g~~v~i~p~-~~~~~~~v~~i~~~~----~~   76 (211)
                      .|+++|..++|.|..+.++||+|.|+...+.+|.|++..|||.+|++|+|+.|.+.-. +.....+|.++.-+.    .+
T Consensus       185 pLfe~I~~hvp~P~~~~d~PlQ~qvt~Ldyn~y~GrIgigRi~~G~vk~~q~V~~i~~~g~~~~gri~kllgf~GL~R~e  264 (603)
T COG1217         185 PLFETILDHVPAPKGDLDEPLQMQVTQLDYNSYVGRIGIGRIFRGTVKPNQQVALIKSDGTTENGRITKLLGFLGLERIE  264 (603)
T ss_pred             HHHHHHHHhCCCCCCCCCCCeEEEEEeeccccccceeEEEEEecCcccCCCeEEEEcCCCcEEeeEEEeeeeccceeeee
Confidence            5899999999999999999999999999999999999999999999999999977544 445578899987665    68


Q ss_pred             cceecccCceehhccCCCcccccccccccccchh
Q psy9646          77 LDEAQAGDQLGALVKGMKRDEVNRGLIMAKPVLA  110 (211)
Q Consensus        77 ~~~a~~G~~v~~~l~~~~~~~v~~G~ii~~~~~~  110 (211)
                      +++|.|||+|++    ...+++..|+++|.+..+
T Consensus       265 i~eA~AGDIVai----aG~~~~~igdTi~d~~~~  294 (603)
T COG1217         265 IEEAEAGDIVAI----AGLEDINIGDTICDPDNP  294 (603)
T ss_pred             cccccccCEEEE----cCcccccccccccCCCCc
Confidence            999999999997    456789999999986543

>cd03692 mtIF2_IVc mtIF2_IVc: this family represents the C2 subdomain of domain IV of mitochondrial translation initiation factor 2 (mtIF2) which adopts a beta-barrel fold displaying a high degree of structural similarity with domain II of the translation elongation factor EF-Tu

Probab=99.44  E-value=1.1e-12  Score=87.42  Aligned_cols=79  Identities=15%  Similarity=0.351  Sum_probs=71.2

Q ss_pred             EEEeeEEeecCCcEEEEEEEEEEEEecCCEEEEeecCc-eeeEEEEEEEecceecceecccCceehhccCCCcccccccc
Q psy9646          24 LPVEHTYSIPGRGTVVTGRLERGIVKKGMECEFTGYGR-QFKTTVTGIEMFHKILDEAQAGDQLGALVKGMKRDEVNRGL  102 (211)
Q Consensus        24 ~~v~~~~~~~~~G~v~~G~v~~G~i~~g~~v~i~p~~~-~~~~~v~~i~~~~~~~~~a~~G~~v~~~l~~~~~~~v~~G~  102 (211)
                      .-|+++|++++.|+++.|+|++|.+++|+.+.++|+++ ....+|+|++.+++++++|.+|+.+++.|++++  ++++|+
T Consensus         3 ~~V~~vf~~~~~g~vag~kV~~G~l~~g~~v~vlr~~~~~~~g~i~sl~~~~~~v~~a~~G~ecgi~l~~~~--d~~~Gd   80 (84)
T cd03692           3 AEVRAVFKISKVGNIAGCYVTDGKIKRNAKVRVLRNGEVIYEGKISSLKRFKDDVKEVKKGYECGITLENFN--DIKVGD   80 (84)
T ss_pred             EEEEEEEECCCCcEEEEEEEEECEEeCCCEEEEEcCCCEEEEEEEEEEEEcCcccCEECCCCEEEEEEeCcc--cCCCCC
Confidence            46889998888899999999999999999999999974 136799999999999999999999999999766  999999


Q ss_pred             cc
Q psy9646         103 IM  104 (211)
Q Consensus       103 ii  104 (211)
                      ++
T Consensus        81 vi   82 (84)
T cd03692          81 II   82 (84)
T ss_pred             EE
Confidence            76

The C-terminal part of mtIF2 contains the entire fMet-tRNAfmet binding site of IF-2 and is resistant to proteolysis. This C-terminal portion consists of two domains, IF2 C1 and IF2 C2. IF2 C2 been shown to contain all molecular determinants necessary and sufficient for the recognition and binding of fMet-tRNAfMet. Like IF2 from certain prokaryotes such as Thermus thermophilus, mtIF2lacks domain II which is thought to be involved in binding of E.coli IF-2 to 30S subunits.

>PRK10218 GTP-binding protein; Provisional

Probab=99.44  E-value=8.7e-13  Score=117.05  Aligned_cols=103  Identities=24%  Similarity=0.290  Sum_probs=88.4

Q ss_pred             hHHHHHhhhCCCCCCCCCCCeeEEEeeEEeecCCcEEEEEEEEEEEEecCCEEEEeec-CceeeEEEEEEEec----cee
Q psy9646           2 ELLNQIDTYIPQPVRDLDKPFYLPVEHTYSIPGRGTVVTGRLERGIVKKGMECEFTGY-GRQFKTTVTGIEMF----HKI   76 (211)
Q Consensus         2 ~ll~~l~~~i~~p~~~~~~p~~~~v~~~~~~~~~G~v~~G~v~~G~i~~g~~v~i~p~-~~~~~~~v~~i~~~----~~~   76 (211)
                      .||+++.+++|+|.++.++||+|+|+.+++.++.|++..|||.+|++++||.|.+.+. ++..+.+|++|...    ..+
T Consensus       185 ~Lld~Ii~~iP~P~~~~~~Pl~~~V~k~~~d~~~G~i~~gRV~sG~lk~Gd~v~~~~~~~~~~~~rv~~l~~~~g~~~~~  264 (607)
T PRK10218        185 PLYQAIVDHVPAPDVDLDGPFQMQISQLDYNSYVGVIGIGRIKRGKVKPNQQVTIIDSEGKTRNAKVGKVLGHLGLERIE  264 (607)
T ss_pred             HHHHHHHHhCCCCCCCCCCCeEEEEEeeEecCCCcEEEEEEEEeCcCcCCCEEEEecCCCcEeeEEEEEEEEEecCCceE
Confidence            5789999999989888899999999999999999999999999999999999999876 43335778888655    478


Q ss_pred             cceecccCceehhccCCCcccccccccccccc
Q psy9646          77 LDEAQAGDQLGALVKGMKRDEVNRGLIMAKPV  108 (211)
Q Consensus        77 ~~~a~~G~~v~~~l~~~~~~~v~~G~ii~~~~  108 (211)
                      +++|.|||++++    .+..++..|++++...
T Consensus       265 v~~a~AGdIvai----~gl~~~~~GdTl~~~~  292 (607)
T PRK10218        265 TDLAEAGDIVAI----TGLGELNISDTVCDTQ  292 (607)
T ss_pred             CCEEcCCCEEEE----ECccccccCcEEecCC
Confidence            999999999996    2456789999998654

>TIGR00490 aEF-2 translation elongation factor aEF-2

Probab=99.43  E-value=2.6e-13  Score=123.33  Aligned_cols=90  Identities=40%  Similarity=0.565  Sum_probs=81.4

Q ss_pred             cccccchhhcccceEEeEeEEE----eeeCCceeEeecCCcccccHhHHhhhccccceEEEEEeccCCCCcchHHHHHHH
Q psy9646         121 ADIDNAPEEKARGITINVAHVE----YATENRHYSHTDCPGHADYIKNMITGTSQMDGAILVVAATDGAMPQTREHLLLA  196 (211)
Q Consensus       121 i~~~~~~~e~~rg~tv~~~~~~----~~~~~~~~~~iDtPG~~~~~~~~~~~~~~~d~~~~vvd~~~~~~~~~~~~~~~~  196 (211)
                      ..++..+.|+.|++|+..++.+    +++.+++++|+|||||++|..++..++..+|++++|+|+.+|+..+++++++.+
T Consensus        55 ~~~d~~~~e~~rg~Ti~~~~~~~~~~~~~~~~~i~liDTPG~~~f~~~~~~al~~aD~~llVvda~~g~~~~t~~~~~~~  134 (720)
T TIGR00490        55 LYLDFDEQEQERGITINAANVSMVHEYEGNEYLINLIDTPGHVDFGGDVTRAMRAVDGAIVVVCAVEGVMPQTETVLRQA  134 (720)
T ss_pred             eecCCCHHHHhhcchhhcccceeEEeecCCceEEEEEeCCCccccHHHHHHHHHhcCEEEEEEecCCCCCccHHHHHHHH
Confidence            3478889999999999887654    667889999999999999999999999999999999999999999999999999


Q ss_pred             HHcCCCeEEEEEeCC
Q psy9646         197 KQIGVTNIVVFINKF  211 (211)
Q Consensus       197 ~~~~~~~~i~~inK~  211 (211)
                      ...++| .++++||+
T Consensus       135 ~~~~~p-~ivviNKi  148 (720)
T TIGR00490       135 LKENVK-PVLFINKV  148 (720)
T ss_pred             HHcCCC-EEEEEECh
Confidence            888998 56899996

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.

>PRK04000 translation initiation factor IF-2 subunit gamma; Validated

Probab=99.43  E-value=3.4e-13  Score=115.20  Aligned_cols=90  Identities=43%  Similarity=0.657  Sum_probs=78.5

Q ss_pred             ccccchhhcccceEEeEeEEEeee--------------C------------CceeEeecCCcccccHhHHhhhccccceE
Q psy9646         122 DIDNAPEEKARGITINVAHVEYAT--------------E------------NRHYSHTDCPGHADYIKNMITGTSQMDGA  175 (211)
Q Consensus       122 ~~~~~~~e~~rg~tv~~~~~~~~~--------------~------------~~~~~~iDtPG~~~~~~~~~~~~~~~d~~  175 (211)
                      +++.++.|..||+|+.+++..+++              .            ..+++|+|||||.+|..++..++..+|++
T Consensus        33 ~~d~~~~E~~rg~Ti~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~liDtPG~~~f~~~~~~~~~~~D~~  112 (411)
T PRK04000         33 WTDRHSEELKRGITIRLGYADATIRKCPDCEEPEAYTTEPKCPNCGSETELLRRVSFVDAPGHETLMATMLSGAALMDGA  112 (411)
T ss_pred             ecccCHhHHhcCcEEEecccccccccccccCccccccccccccccccccccccEEEEEECCCHHHHHHHHHHHHhhCCEE
Confidence            578899999999999987644332              1            26899999999999999999999999999


Q ss_pred             EEEEeccCCC-CcchHHHHHHHHHcCCCeEEEEEeCC
Q psy9646         176 ILVVAATDGA-MPQTREHLLLAKQIGVTNIVVFINKF  211 (211)
Q Consensus       176 ~~vvd~~~~~-~~~~~~~~~~~~~~~~~~~i~~inK~  211 (211)
                      ++|+|+.++. ..++.+++..+...+++++++++||+
T Consensus       113 llVVDa~~~~~~~~t~~~l~~l~~~~i~~iiVVlNK~  149 (411)
T PRK04000        113 ILVIAANEPCPQPQTKEHLMALDIIGIKNIVIVQNKI  149 (411)
T ss_pred             EEEEECCCCCCChhHHHHHHHHHHcCCCcEEEEEEee
Confidence            9999999987 78899999999888887788999996

>COG1159 Era GTPase [General function prediction only]

Probab=99.42  E-value=6.8e-13  Score=106.09  Aligned_cols=101  Identities=18%  Similarity=0.123  Sum_probs=77.1

Q ss_pred             hhhhhhhcccccccccc-hhhcccceEEeEeEEEeeeCCceeEeecCCcccc--------cHhHHhhhccccceEEEEEe
Q psy9646         110 ADKKLAKVKQYADIDNA-PEEKARGITINVAHVEYATENRHYSHTDCPGHAD--------YIKNMITGTSQMDGAILVVA  180 (211)
Q Consensus       110 ~~~~~~~f~~~i~~~~~-~~e~~rg~tv~~~~~~~~~~~~~~~~iDtPG~~~--------~~~~~~~~~~~~d~~~~vvd  180 (211)
                      |..|++.+...+.-... -.....+.|.+.-.+-++.++.|++|+||||.|.        |++++++++.++|+++||+|
T Consensus        15 PNvGKSTLlN~l~G~KisIvS~k~QTTR~~I~GI~t~~~~QiIfvDTPGih~pk~~l~~~m~~~a~~sl~dvDlilfvvd   94 (298)
T COG1159          15 PNVGKSTLLNALVGQKISIVSPKPQTTRNRIRGIVTTDNAQIIFVDTPGIHKPKHALGELMNKAARSALKDVDLILFVVD   94 (298)
T ss_pred             CCCcHHHHHHHHhcCceEeecCCcchhhhheeEEEEcCCceEEEEeCCCCCCcchHHHHHHHHHHHHHhccCcEEEEEEe
Confidence            44455555544432111 1122334555555667788899999999999663        68999999999999999999


Q ss_pred             ccCCCCcchHHHHHHHHHcCCCeEEEEEeCC
Q psy9646         181 ATDGAMPQTREHLLLAKQIGVTNIVVFINKF  211 (211)
Q Consensus       181 ~~~~~~~~~~~~~~~~~~~~~~~~i~~inK~  211 (211)
                      +.+++.+.++.+++.++..+.| +|+++||+
T Consensus        95 ~~~~~~~~d~~il~~lk~~~~p-vil~iNKI  124 (298)
T COG1159          95 ADEGWGPGDEFILEQLKKTKTP-VILVVNKI  124 (298)
T ss_pred             ccccCCccHHHHHHHHhhcCCC-eEEEEEcc
Confidence            9999999999999999997778 77999996

>cd04167 Snu114p Snu114p subfamily

Probab=99.41  E-value=7.7e-13  Score=103.52  Aligned_cols=92  Identities=26%  Similarity=0.439  Sum_probs=79.0

Q ss_pred             cccccccchhhcccceEEeEeEEEeeeC-----CceeEeecCCcccccHhHHhhhccccceEEEEEeccCCCCcchHHHH
Q psy9646         119 QYADIDNAPEEKARGITINVAHVEYATE-----NRHYSHTDCPGHADYIKNMITGTSQMDGAILVVAATDGAMPQTREHL  193 (211)
Q Consensus       119 ~~i~~~~~~~e~~rg~tv~~~~~~~~~~-----~~~~~~iDtPG~~~~~~~~~~~~~~~d~~~~vvd~~~~~~~~~~~~~  193 (211)
                      ...+++..+.|..+++++......+.+.     ...+.++|||||.+|...+..++..+|++++|+|+.++...++++++
T Consensus        37 ~~~~~d~~~~e~~~giti~~~~~~~~~~~~~~~~~~i~iiDtpG~~~f~~~~~~~~~~aD~~llVvD~~~~~~~~~~~~~  116 (213)
T cd04167          37 PLRYTDIRKDEQERGISIKSSPISLVLPDSKGKSYLFNIIDTPGHVNFMDEVAAALRLSDGVVLVVDVVEGVTSNTERLI  116 (213)
T ss_pred             ceeECCCCHHHHHcCccccccceeEEEEcCCCCEEEEEEEECCCCcchHHHHHHHHHhCCEEEEEEECCCCCCHHHHHHH
Confidence            4456788899999999998877766543     36799999999999999999999999999999999999888888888


Q ss_pred             HHHHHcCCCeEEEEEeCC
Q psy9646         194 LLAKQIGVTNIVVFINKF  211 (211)
Q Consensus       194 ~~~~~~~~~~~i~~inK~  211 (211)
                      +.+...+.| +++++||+
T Consensus       117 ~~~~~~~~p-~iiviNK~  133 (213)
T cd04167         117 RHAILEGLP-IVLVINKI  133 (213)
T ss_pred             HHHHHcCCC-EEEEEECc
Confidence            888777877 78999996

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.

>TIGR01393 lepA GTP-binding protein LepA

Probab=99.41  E-value=2.2e-12  Score=114.63  Aligned_cols=104  Identities=27%  Similarity=0.403  Sum_probs=91.2

Q ss_pred             hHHHHHhhhCCCCCCCCCCCeeEEEeeEEeecCCcEEEEEEEEEEEEecCCEEEEeecCceeeEEEEEEEecc---eecc
Q psy9646           2 ELLNQIDTYIPQPVRDLDKPFYLPVEHTYSIPGRGTVVTGRLERGIVKKGMECEFTGYGRQFKTTVTGIEMFH---KILD   78 (211)
Q Consensus         2 ~ll~~l~~~i~~p~~~~~~p~~~~v~~~~~~~~~G~v~~G~v~~G~i~~g~~v~i~p~~~~~~~~v~~i~~~~---~~~~   78 (211)
                      +|+++|.+.+|.|.++.++||+++|.++++.++.|+++.|||.+|++++||+|.++|++.  ..+|++|..+.   .+++
T Consensus       170 ~Lle~I~~~lp~p~~~~~~pl~~~V~~~~~d~~~G~v~~~rV~sG~lk~Gd~v~~~~~~~--~~~v~~i~~~~~~~~~v~  247 (595)
T TIGR01393       170 EILEAIVKRVPPPKGDPDAPLKALIFDSHYDNYRGVVALVRVFEGTIKPGDKIRFMSTGK--EYEVDEVGVFTPKLTKTD  247 (595)
T ss_pred             HHHHHHHHhCCCCCCCCCCCeEEEEEEEEEeCCCcEEEEEEEECCEEecCCEEEEecCCC--eeEEeEEEEecCCceECC
Confidence            588999888988988899999999999999999999999999999999999999999875  67888998776   6789


Q ss_pred             eecccCceehhccCCC-cccccccccccccc
Q psy9646          79 EAQAGDQLGALVKGMK-RDEVNRGLIMAKPV  108 (211)
Q Consensus        79 ~a~~G~~v~~~l~~~~-~~~v~~G~ii~~~~  108 (211)
                      ++.||| +++.+.+++ ..+++.|++++...
T Consensus       248 ~~~aGd-Ig~i~~~~~~~~~~~~Gdtl~~~~  277 (595)
T TIGR01393       248 ELSAGE-VGYIIAGIKDVSDVRVGDTITHVK  277 (595)
T ss_pred             EEcCCC-EEEEeccccccCccCCCCEEECCC
Confidence            999999 666666653 46799999998654

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.

>cd04171 SelB SelB subfamily

Probab=99.41  E-value=1.3e-12  Score=97.18  Aligned_cols=101  Identities=38%  Similarity=0.606  Sum_probs=77.6

Q ss_pred             hhhhhhcccccc---cccchhhcccceEEeEeEEEeeeC-CceeEeecCCcccccHhHHhhhccccceEEEEEeccCCCC
Q psy9646         111 DKKLAKVKQYAD---IDNAPEEKARGITINVAHVEYATE-NRHYSHTDCPGHADYIKNMITGTSQMDGAILVVAATDGAM  186 (211)
Q Consensus       111 ~~~~~~f~~~i~---~~~~~~e~~rg~tv~~~~~~~~~~-~~~~~~iDtPG~~~~~~~~~~~~~~~d~~~~vvd~~~~~~  186 (211)
                      ..|++++...+.   .+..+.+..++.++...+..+... +..+.++||||+++|...+..++..+|++++|+|+.+++.
T Consensus        10 ~~GKssl~~~l~~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~DtpG~~~~~~~~~~~~~~ad~ii~V~d~~~~~~   89 (164)
T cd04171          10 DHGKTTLIKALTGIETDRLPEEKKRGITIDLGFAYLDLPSGKRLGFIDVPGHEKFIKNMLAGAGGIDLVLLVVAADEGIM   89 (164)
T ss_pred             CCCHHHHHHHHhCcccccchhhhccCceEEeeeEEEEecCCcEEEEEECCChHHHHHHHHhhhhcCCEEEEEEECCCCcc
Confidence            344444443332   233344556678888877777766 7889999999999999888899999999999999999888


Q ss_pred             cchHHHHHHHHHcCCCeEEEEEeCC
Q psy9646         187 PQTREHLLLAKQIGVTNIVVFINKF  211 (211)
Q Consensus       187 ~~~~~~~~~~~~~~~~~~i~~inK~  211 (211)
                      .++.+.+..++..+.+++++++||+
T Consensus        90 ~~~~~~~~~~~~~~~~~~ilv~NK~  114 (164)
T cd04171          90 PQTREHLEILELLGIKRGLVVLTKA  114 (164)
T ss_pred             HhHHHHHHHHHHhCCCcEEEEEECc
Confidence            8888877777777774488999996

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

>cd01889 SelB_euk SelB subfamily

Probab=99.40  E-value=9.3e-13  Score=101.35  Aligned_cols=88  Identities=34%  Similarity=0.631  Sum_probs=76.1

Q ss_pred             cccchhhcccceEEeEeEEEeeeC--------------CceeEeecCCcccccHhHHhhhccccceEEEEEeccCCCCcc
Q psy9646         123 IDNAPEEKARGITINVAHVEYATE--------------NRHYSHTDCPGHADYIKNMITGTSQMDGAILVVAATDGAMPQ  188 (211)
Q Consensus       123 ~~~~~~e~~rg~tv~~~~~~~~~~--------------~~~~~~iDtPG~~~~~~~~~~~~~~~d~~~~vvd~~~~~~~~  188 (211)
                      ++....+..|+.|+...+..+++.              +.++.++|||||..|.+.++.+...+|++++|+|+.++...+
T Consensus        29 ~~~~~~e~~~g~T~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~DtpG~~~~~~~~~~~~~~~d~vi~VvD~~~~~~~~  108 (192)
T cd01889          29 FDKNPQSQERGITLDLGFSSFYVDKPKHLRELINPGEENLQITLVDCPGHASLIRTIIGGAQIIDLMLLVVDATKGIQTQ  108 (192)
T ss_pred             hccCHHHHHcCCeeeecceEEEecccccccccccccccCceEEEEECCCcHHHHHHHHHHHhhCCEEEEEEECCCCccHH
Confidence            567778889999999887777665              678999999999999999999999999999999999998888


Q ss_pred             hHHHHHHHHHcCCCeEEEEEeCC
Q psy9646         189 TREHLLLAKQIGVTNIVVFINKF  211 (211)
Q Consensus       189 ~~~~~~~~~~~~~~~~i~~inK~  211 (211)
                      +.+.+..+...+.| +++++||+
T Consensus       109 ~~~~~~~~~~~~~~-~iiv~NK~  130 (192)
T cd01889         109 TAECLVIGEILCKK-LIVVLNKI  130 (192)
T ss_pred             HHHHHHHHHHcCCC-EEEEEECc
Confidence            87777777777887 77999996

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

>TIGR01393 lepA GTP-binding protein LepA

Probab=99.40  E-value=1e-12  Score=116.80  Aligned_cols=89  Identities=30%  Similarity=0.439  Sum_probs=79.2

Q ss_pred             ccccchhhcccceEEeEeEEEeeeC-----CceeEeecCCcccccHhHHhhhccccceEEEEEeccCCCCcchHHHHHHH
Q psy9646         122 DIDNAPEEKARGITINVAHVEYATE-----NRHYSHTDCPGHADYIKNMITGTSQMDGAILVVAATDGAMPQTREHLLLA  196 (211)
Q Consensus       122 ~~~~~~~e~~rg~tv~~~~~~~~~~-----~~~~~~iDtPG~~~~~~~~~~~~~~~d~~~~vvd~~~~~~~~~~~~~~~~  196 (211)
                      .+|+.+.|+.||+|+......+.+.     ..+++|+|||||.+|..++..++..+|++++|+|+.+++..++.+++..+
T Consensus        39 ~~D~~~~ErerGiTi~~~~v~~~~~~~~g~~~~l~liDTPG~~dF~~~v~~~l~~aD~aILVvDat~g~~~qt~~~~~~~  118 (595)
T TIGR01393        39 VLDSMDLERERGITIKAQAVRLNYKAKDGETYVLNLIDTPGHVDFSYEVSRSLAACEGALLLVDAAQGIEAQTLANVYLA  118 (595)
T ss_pred             ccCCChHHHhcCCCeeeeEEEEEEEcCCCCEEEEEEEECCCcHHHHHHHHHHHHhCCEEEEEecCCCCCCHhHHHHHHHH
Confidence            4788899999999999887766553     26899999999999999999999999999999999999999999888888


Q ss_pred             HHcCCCeEEEEEeCC
Q psy9646         197 KQIGVTNIVVFINKF  211 (211)
Q Consensus       197 ~~~~~~~~i~~inK~  211 (211)
                      ...++| +|+++||+
T Consensus       119 ~~~~ip-iIiViNKi  132 (595)
T TIGR01393       119 LENDLE-IIPVINKI  132 (595)
T ss_pred             HHcCCC-EEEEEECc
Confidence            888888 88999996

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.

>KOG0464|consensus

Probab=99.40  E-value=7.1e-14  Score=115.79  Aligned_cols=88  Identities=31%  Similarity=0.413  Sum_probs=83.9

Q ss_pred             cccchhhcccceEEeEeEEEeeeCCceeEeecCCcccccHhHHhhhccccceEEEEEeccCCCCcchHHHHHHHHHcCCC
Q psy9646         123 IDNAPEEKARGITINVAHVEYATENRHYSHTDCPGHADYIKNMITGTSQMDGAILVVAATDGAMPQTREHLLLAKQIGVT  202 (211)
Q Consensus       123 ~~~~~~e~~rg~tv~~~~~~~~~~~~~~~~iDtPG~~~~~~~~~~~~~~~d~~~~vvd~~~~~~~~~~~~~~~~~~~~~~  202 (211)
                      .|....|+.||+|+.....+|.|+++++++||||||.+|--++.+.++..|+++.|+|+..|+.+|+..+|+++.+.++|
T Consensus        77 tdfla~erergitiqsaav~fdwkg~rinlidtpghvdf~leverclrvldgavav~dasagve~qtltvwrqadk~~ip  156 (753)
T KOG0464|consen   77 TDFLAIERERGITIQSAAVNFDWKGHRINLIDTPGHVDFRLEVERCLRVLDGAVAVFDASAGVEAQTLTVWRQADKFKIP  156 (753)
T ss_pred             HHHHHHHHhcCceeeeeeeecccccceEeeecCCCcceEEEEHHHHHHHhcCeEEEEeccCCcccceeeeehhccccCCc
Confidence            57778999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             eEEEEEeCC
Q psy9646         203 NIVVFINKF  211 (211)
Q Consensus       203 ~~i~~inK~  211 (211)
                      . +.++|||
T Consensus       157 ~-~~finkm  164 (753)
T KOG0464|consen  157 A-HCFINKM  164 (753)
T ss_pred             h-hhhhhhh
Confidence            4 5889997

>cd04170 EF-G_bact Elongation factor G (EF-G) subfamily

Probab=99.39  E-value=1.3e-12  Score=105.84  Aligned_cols=88  Identities=27%  Similarity=0.423  Sum_probs=81.5

Q ss_pred             cccchhhcccceEEeEeEEEeeeCCceeEeecCCcccccHhHHhhhccccceEEEEEeccCCCCcchHHHHHHHHHcCCC
Q psy9646         123 IDNAPEEKARGITINVAHVEYATENRHYSHTDCPGHADYIKNMITGTSQMDGAILVVAATDGAMPQTREHLLLAKQIGVT  202 (211)
Q Consensus       123 ~~~~~~e~~rg~tv~~~~~~~~~~~~~~~~iDtPG~~~~~~~~~~~~~~~d~~~~vvd~~~~~~~~~~~~~~~~~~~~~~  202 (211)
                      .+..+.+..|+.++......+++++++++++||||+.+|...+..++..+|++++|+|+..+...++..+++.+...++|
T Consensus        39 ~d~~~~e~~r~~ti~~~~~~~~~~~~~i~liDtPG~~~f~~~~~~~l~~aD~~i~Vvd~~~g~~~~~~~~~~~~~~~~~p  118 (268)
T cd04170          39 SDYDPEEIKRKMSISTSVAPLEWKGHKINLIDTPGYADFVGETRAALRAADAALVVVSAQSGVEVGTEKLWEFADEAGIP  118 (268)
T ss_pred             CCCCHHHHhhcccccceeEEEEECCEEEEEEECcCHHHHHHHHHHHHHHCCEEEEEEeCCCCCCHHHHHHHHHHHHcCCC
Confidence            57778888999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             eEEEEEeCC
Q psy9646         203 NIVVFINKF  211 (211)
Q Consensus       203 ~~i~~inK~  211 (211)
                       .++++||+
T Consensus       119 -~iivvNK~  126 (268)
T cd04170         119 -RIIFINKM  126 (268)
T ss_pred             -EEEEEECC
Confidence             66899996

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

>KOG1143|consensus

Probab=99.38  E-value=9.3e-13  Score=107.91  Aligned_cols=144  Identities=17%  Similarity=0.181  Sum_probs=125.5

Q ss_pred             ChHHHHHhhhCCCCCCC------CCCCeeEEEeeEEeecCCcEEEEEEEEEEEEecCCEEEEeec--CceeeEEEEEEEe
Q psy9646           1 MELLNQIDTYIPQPVRD------LDKPFYLPVEHTYSIPGRGTVVTGRLERGIVKKGMECEFTGY--GRQFKTTVTGIEM   72 (211)
Q Consensus         1 ~~ll~~l~~~i~~p~~~------~~~p~~~~v~~~~~~~~~G~v~~G~v~~G~i~~g~~v~i~p~--~~~~~~~v~~i~~   72 (211)
                      |.||..+.+.+++.-..      ...|..|.|+++|.++..|+|+.|.+.+|.+..|+.+.+.|.  |.+.+.+|-+|++
T Consensus       376 l~ll~~fLn~Lsp~~~~~e~~~L~q~~~eFqvdEiy~Vp~VG~VVGG~Ls~G~l~Eg~~~~vGP~~DG~F~~itV~sI~R  455 (591)
T KOG1143|consen  376 LRLLRTFLNCLSPAGTAEERIQLVQLPAEFQVDEIYNVPHVGQVVGGMLSEGQLHEGADVLVGPMKDGTFEKITVGSIRR  455 (591)
T ss_pred             hhHHHHHHhhcCCcCChHHHHHHhcCcceeeHhHeecCCcccccccceeeeceeccCceeEeecCCCCceeEEEeeeeec
Confidence            46788888877643221      245889999999999999999999999999999999999664  5678999999999


Q ss_pred             cceecceecccCceehhccCCCcccccccccccccchhhhhhhhcccccccccchhhcccceEEeEeEEEee
Q psy9646          73 FHKILDEAQAGDQLGALVKGMKRDEVNRGLIMAKPVLADKKLAKVKQYADIDNAPEEKARGITINVAHVEYA  144 (211)
Q Consensus        73 ~~~~~~~a~~G~~v~~~l~~~~~~~v~~G~ii~~~~~~~~~~~~f~~~i~~~~~~~e~~rg~tv~~~~~~~~  144 (211)
                      +++++..++||+.+.+.+...+...+++|+++......+..+-.|.+.+.+..|.....+|+....+.++.-
T Consensus       456 nr~acrvvraGqaAslsl~d~D~~~LR~GMVl~~~~~nP~~c~~F~A~~~lLfHaT~i~~GFQ~TVhiGsvr  527 (591)
T KOG1143|consen  456 NRQACRVVRAGQAASLSLNDPDGVSLRRGMVLAEIDHNPPVCYEFTANLLLLFHATYICEGFQATVHIGSVR  527 (591)
T ss_pred             cccceeeecCccceeeeccCCCccchhcceEEeecCCCCceEEEEeeeehhhhhhHhheecceEEEEEccee
Confidence            999999999999999999988888899999999999889999999999998899999999988887766543

>CHL00189 infB translation initiation factor 2; Provisional

Probab=99.37  E-value=9.8e-13  Score=118.46  Aligned_cols=111  Identities=30%  Similarity=0.355  Sum_probs=87.2

Q ss_pred             ccccccccchhhhhhhhcccccccccchhhcccceEEeEeEEEeee----CCceeEeecCCcccccHhHHhhhccccceE
Q psy9646         100 RGLIMAKPVLADKKLAKVKQYADIDNAPEEKARGITINVAHVEYAT----ENRHYSHTDCPGHADYIKNMITGTSQMDGA  175 (211)
Q Consensus       100 ~G~ii~~~~~~~~~~~~f~~~i~~~~~~~e~~rg~tv~~~~~~~~~----~~~~~~~iDtPG~~~~~~~~~~~~~~~d~~  175 (211)
                      +..+++-.++...|++++...+..........+++|.++....+.+    .+..++|+|||||+.|...+..++..+|++
T Consensus       243 r~p~V~IvGhvdvGKTSLld~L~~~~~~~~e~~GiTq~i~~~~v~~~~~~~~~kItfiDTPGhe~F~~mr~rg~~~aDia  322 (742)
T CHL00189        243 RPPIVTILGHVDHGKTTLLDKIRKTQIAQKEAGGITQKIGAYEVEFEYKDENQKIVFLDTPGHEAFSSMRSRGANVTDIA  322 (742)
T ss_pred             cCCEEEEECCCCCCHHHHHHHHHhccCccccCCccccccceEEEEEEecCCceEEEEEECCcHHHHHHHHHHHHHHCCEE
Confidence            4444444556667777766555433344445567887766555444    347899999999999999999999999999


Q ss_pred             EEEEeccCCCCcchHHHHHHHHHcCCCeEEEEEeCC
Q psy9646         176 ILVVAATDGAMPQTREHLLLAKQIGVTNIVVFINKF  211 (211)
Q Consensus       176 ~~vvd~~~~~~~~~~~~~~~~~~~~~~~~i~~inK~  211 (211)
                      ++|+|+.+|+.+|+.+++..++..++| +|+++||+
T Consensus       323 ILVVDA~dGv~~QT~E~I~~~k~~~iP-iIVViNKi  357 (742)
T CHL00189        323 ILIIAADDGVKPQTIEAINYIQAANVP-IIVAINKI  357 (742)
T ss_pred             EEEEECcCCCChhhHHHHHHHHhcCce-EEEEEECC
Confidence            999999999999999999999999998 88999996

>PRK05433 GTP-binding protein LepA; Provisional

Probab=99.34  E-value=9.2e-12  Score=110.85  Aligned_cols=105  Identities=27%  Similarity=0.396  Sum_probs=90.0

Q ss_pred             hHHHHHhhhCCCCCCCCCCCeeEEEeeEEeecCCcEEEEEEEEEEEEecCCEEEEeecCceeeEEEEEEEecc---eecc
Q psy9646           2 ELLNQIDTYIPQPVRDLDKPFYLPVEHTYSIPGRGTVVTGRLERGIVKKGMECEFTGYGRQFKTTVTGIEMFH---KILD   78 (211)
Q Consensus         2 ~ll~~l~~~i~~p~~~~~~p~~~~v~~~~~~~~~G~v~~G~v~~G~i~~g~~v~i~p~~~~~~~~v~~i~~~~---~~~~   78 (211)
                      +|+++|.+.+|+|..+.++||+++|.++++.++.|+++.|||.+|.+++||++.++|++.  ..+|++|...+   .+++
T Consensus       174 ~Ll~~I~~~lp~P~~~~~~pl~~~Vfd~~~d~~~G~v~~~rV~sG~Lk~Gd~i~~~~~~~--~~~V~~i~~~~~~~~~v~  251 (600)
T PRK05433        174 EVLEAIVERIPPPKGDPDAPLKALIFDSWYDNYRGVVVLVRVVDGTLKKGDKIKMMSTGK--EYEVDEVGVFTPKMVPVD  251 (600)
T ss_pred             HHHHHHHHhCccccCCCCCCceEEEEEEEecCCCceEEEEEEEcCEEecCCEEEEecCCc--eEEEEEeeccCCCceECc
Confidence            588999888988888889999999999999999999999999999999999999999875  67888988653   6899


Q ss_pred             eecccCceehhccCC-Ccccccccccccccch
Q psy9646          79 EAQAGDQLGALVKGM-KRDEVNRGLIMAKPVL  109 (211)
Q Consensus        79 ~a~~G~~v~~~l~~~-~~~~v~~G~ii~~~~~  109 (211)
                      ++.||| ++..+.++ +..+++.|++++....
T Consensus       252 ~~~aGd-Ig~i~~~ik~~~~~~~Gdtl~~~~~  282 (600)
T PRK05433        252 ELSAGE-VGYIIAGIKDVRDARVGDTITLAKN  282 (600)
T ss_pred             EEcCCC-EEEEecccccccccCCCCEEECCCC
Confidence            999999 55545554 3467999999987543

>PRK12740 elongation factor G; Reviewed

Probab=99.34  E-value=3.5e-12  Score=115.42  Aligned_cols=90  Identities=33%  Similarity=0.553  Sum_probs=84.2

Q ss_pred             cccccchhhcccceEEeEeEEEeeeCCceeEeecCCcccccHhHHhhhccccceEEEEEeccCCCCcchHHHHHHHHHcC
Q psy9646         121 ADIDNAPEEKARGITINVAHVEYATENRHYSHTDCPGHADYIKNMITGTSQMDGAILVVAATDGAMPQTREHLLLAKQIG  200 (211)
Q Consensus       121 i~~~~~~~e~~rg~tv~~~~~~~~~~~~~~~~iDtPG~~~~~~~~~~~~~~~d~~~~vvd~~~~~~~~~~~~~~~~~~~~  200 (211)
                      ..+|..+.|+.||+|+......+.+.+++++|+|||||.+|..++..++..+|++++++|+.++...++..++..+...+
T Consensus        33 ~~~d~~~~e~~rgiTi~~~~~~~~~~~~~i~liDtPG~~~~~~~~~~~l~~aD~vllvvd~~~~~~~~~~~~~~~~~~~~  112 (668)
T PRK12740         33 TTMDFMPEERERGISITSAATTCEWKGHKINLIDTPGHVDFTGEVERALRVLDGAVVVVCAVGGVEPQTETVWRQAEKYG  112 (668)
T ss_pred             ccCCCChHHHhcCCCeeeceEEEEECCEEEEEEECCCcHHHHHHHHHHHHHhCeEEEEEeCCCCcCHHHHHHHHHHHHcC
Confidence            35788899999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             CCeEEEEEeCC
Q psy9646         201 VTNIVVFINKF  211 (211)
Q Consensus       201 ~~~~i~~inK~  211 (211)
                      +| +++++||+
T Consensus       113 ~p-~iiv~NK~  122 (668)
T PRK12740        113 VP-RIIFVNKM  122 (668)
T ss_pred             CC-EEEEEECC
Confidence            98 67899996

>PRK13351 elongation factor G; Reviewed

Probab=99.32  E-value=4.4e-12  Score=115.08  Aligned_cols=89  Identities=34%  Similarity=0.523  Sum_probs=83.6

Q ss_pred             ccccchhhcccceEEeEeEEEeeeCCceeEeecCCcccccHhHHhhhccccceEEEEEeccCCCCcchHHHHHHHHHcCC
Q psy9646         122 DIDNAPEEKARGITINVAHVEYATENRHYSHTDCPGHADYIKNMITGTSQMDGAILVVAATDGAMPQTREHLLLAKQIGV  201 (211)
Q Consensus       122 ~~~~~~~e~~rg~tv~~~~~~~~~~~~~~~~iDtPG~~~~~~~~~~~~~~~d~~~~vvd~~~~~~~~~~~~~~~~~~~~~  201 (211)
                      .+|..+.|..|++|+..++..+.+.+.+++|+|||||.+|...+..++..+|++++|+|+.++...++..+++.+...++
T Consensus        47 ~~d~~~~e~~r~~ti~~~~~~~~~~~~~i~liDtPG~~df~~~~~~~l~~aD~~ilVvd~~~~~~~~~~~~~~~~~~~~~  126 (687)
T PRK13351         47 VTDWMPQEQERGITIESAATSCDWDNHRINLIDTPGHIDFTGEVERSLRVLDGAVVVFDAVTGVQPQTETVWRQADRYGI  126 (687)
T ss_pred             cCCCCHHHHhcCCCcccceEEEEECCEEEEEEECCCcHHHHHHHHHHHHhCCEEEEEEeCCCCCCHHHHHHHHHHHhcCC
Confidence            46888899999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             CeEEEEEeCC
Q psy9646         202 TNIVVFINKF  211 (211)
Q Consensus       202 ~~~i~~inK~  211 (211)
                      | +++++||+
T Consensus       127 p-~iiviNK~  135 (687)
T PRK13351        127 P-RLIFINKM  135 (687)
T ss_pred             C-EEEEEECC
Confidence            8 67899996

>cd01891 TypA_BipA TypA (tyrosine phosphorylated protein A)/BipA subfamily

Probab=99.32  E-value=8.5e-12  Score=96.14  Aligned_cols=88  Identities=36%  Similarity=0.531  Sum_probs=77.4

Q ss_pred             cccchhhcccceEEeEeEEEeeeCCceeEeecCCcccccHhHHhhhccccceEEEEEeccCCCCcchHHHHHHHHHcCCC
Q psy9646         123 IDNAPEEKARGITINVAHVEYATENRHYSHTDCPGHADYIKNMITGTSQMDGAILVVAATDGAMPQTREHLLLAKQIGVT  202 (211)
Q Consensus       123 ~~~~~~e~~rg~tv~~~~~~~~~~~~~~~~iDtPG~~~~~~~~~~~~~~~d~~~~vvd~~~~~~~~~~~~~~~~~~~~~~  202 (211)
                      ++..+.+..+|.++......+..++.++.++||||+.+|...+...+..+|++++|+|+.++...++..++..+...++|
T Consensus        40 ~~~~~~e~~~g~t~~~~~~~~~~~~~~~~l~DtpG~~~~~~~~~~~~~~~d~~ilV~d~~~~~~~~~~~~~~~~~~~~~p  119 (194)
T cd01891          40 MDSNDLERERGITILAKNTAVTYKDTKINIVDTPGHADFGGEVERVLSMVDGVLLLVDASEGPMPQTRFVLKKALELGLK  119 (194)
T ss_pred             cccchhHHhcccccccceeEEEECCEEEEEEECCCcHHHHHHHHHHHHhcCEEEEEEECCCCccHHHHHHHHHHHHcCCC
Confidence            45556677888998888888888899999999999999999999999999999999999998888888888888778888


Q ss_pred             eEEEEEeCC
Q psy9646         203 NIVVFINKF  211 (211)
Q Consensus       203 ~~i~~inK~  211 (211)
                       +++++||+
T Consensus       120 -~iiv~NK~  127 (194)
T cd01891         120 -PIVVINKI  127 (194)
T ss_pred             -EEEEEECC
Confidence             77899996

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

>KOG0469|consensus

Probab=99.31  E-value=4.7e-12  Score=107.18  Aligned_cols=91  Identities=26%  Similarity=0.365  Sum_probs=81.8

Q ss_pred             ccccccchhhcccceEEeEeEEEeee----------------CCceeEeecCCcccccHhHHhhhccccceEEEEEeccC
Q psy9646         120 YADIDNAPEEKARGITINVAHVEYAT----------------ENRHYSHTDCPGHADYIKNMITGTSQMDGAILVVAATD  183 (211)
Q Consensus       120 ~i~~~~~~~e~~rg~tv~~~~~~~~~----------------~~~~~~~iDtPG~~~~~~~~~~~~~~~d~~~~vvd~~~  183 (211)
                      ..++|+.+.|.+|++|+..+..++.+                +++.+++||.|||.+|.+++..|++..|++++|||+.+
T Consensus        54 ~Rf~DtRkDEQeR~iTIKStAISl~~e~~~~dl~~~k~~~d~~~FLiNLIDSPGHVDFSSEVTAALRVTDGALVVVDcv~  133 (842)
T KOG0469|consen   54 TRFTDTRKDEQERGITIKSTAISLFFEMSDDDLKFIKQEGDGNGFLINLIDSPGHVDFSSEVTAALRVTDGALVVVDCVS  133 (842)
T ss_pred             ccccccccchhhcceEeeeeeeeehhhhhHhHHHHhcCCCCCcceeEEeccCCCcccchhhhhheeEeccCcEEEEEccC
Confidence            45689999999999999998777543                24669999999999999999999999999999999999


Q ss_pred             CCCcchHHHHHHHHHcCCCeEEEEEeCC
Q psy9646         184 GAMPQTREHLLLAKQIGVTNIVVFINKF  211 (211)
Q Consensus       184 ~~~~~~~~~~~~~~~~~~~~~i~~inK~  211 (211)
                      |+..||+.+++++....++++ +++||+
T Consensus       134 GvCVQTETVLrQA~~ERIkPv-lv~NK~  160 (842)
T KOG0469|consen  134 GVCVQTETVLRQAIAERIKPV-LVMNKM  160 (842)
T ss_pred             ceEechHHHHHHHHHhhccce-EEeehh
Confidence            999999999999998888866 889996

>cd01890 LepA LepA subfamily

Probab=99.28  E-value=2.1e-11  Score=92.36  Aligned_cols=88  Identities=32%  Similarity=0.476  Sum_probs=71.9

Q ss_pred             cccchhhcccceEEeEeEEEee-----eCCceeEeecCCcccccHhHHhhhccccceEEEEEeccCCCCcchHHHHHHHH
Q psy9646         123 IDNAPEEKARGITINVAHVEYA-----TENRHYSHTDCPGHADYIKNMITGTSQMDGAILVVAATDGAMPQTREHLLLAK  197 (211)
Q Consensus       123 ~~~~~~e~~rg~tv~~~~~~~~-----~~~~~~~~iDtPG~~~~~~~~~~~~~~~d~~~~vvd~~~~~~~~~~~~~~~~~  197 (211)
                      .+..+.+..+|.+.........     ..+.++.|+|||||++|...+..++..+|++++|+|+.++...++...+..+.
T Consensus        37 ~~~~~~~~~~g~t~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~ad~~i~v~D~~~~~~~~~~~~~~~~~  116 (179)
T cd01890          37 LDSMDLERERGITIKAQTVRLNYKAKDGQEYLLNLIDTPGHVDFSYEVSRSLAACEGALLLVDATQGVEAQTLANFYLAL  116 (179)
T ss_pred             ccCChhHHHCCCeEecceEEEEEecCCCCcEEEEEEECCCChhhHHHHHHHHHhcCeEEEEEECCCCccHhhHHHHHHHH
Confidence            5666677788888776554442     34567889999999999999999999999999999999888777777777777


Q ss_pred             HcCCCeEEEEEeCC
Q psy9646         198 QIGVTNIVVFINKF  211 (211)
Q Consensus       198 ~~~~~~~i~~inK~  211 (211)
                      ..++| +++++||+
T Consensus       117 ~~~~~-iiiv~NK~  129 (179)
T cd01890         117 ENNLE-IIPVINKI  129 (179)
T ss_pred             HcCCC-EEEEEECC
Confidence            77888 78999996

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.

>KOG0461|consensus

Probab=99.28  E-value=1.3e-11  Score=100.26  Aligned_cols=94  Identities=32%  Similarity=0.566  Sum_probs=81.7

Q ss_pred             cccccccccchhhcccceEEeEeEEEeeeC---------CceeEeecCCcccccHhHHhhhccccceEEEEEeccCCCCc
Q psy9646         117 VKQYADIDNAPEEKARGITINVAHVEYATE---------NRHYSHTDCPGHADYIKNMITGTSQMDGAILVVAATDGAMP  187 (211)
Q Consensus       117 f~~~i~~~~~~~e~~rg~tv~~~~~~~~~~---------~~~~~~iDtPG~~~~~~~~~~~~~~~d~~~~vvd~~~~~~~  187 (211)
                      .......|.+|....||+|+++.+.++...         .-|+.++|+|||..++++++.|....|.+++|+|+..|...
T Consensus        30 ~~STaAFDk~pqS~eRgiTLDLGFS~~~v~~parLpq~e~lq~tlvDCPGHasLIRtiiggaqiiDlm~lviDv~kG~Qt  109 (522)
T KOG0461|consen   30 LGSTAAFDKHPQSTERGITLDLGFSTMTVLSPARLPQGEQLQFTLVDCPGHASLIRTIIGGAQIIDLMILVIDVQKGKQT  109 (522)
T ss_pred             hccchhhccCCcccccceeEeecceeeecccccccCccccceeEEEeCCCcHHHHHHHHhhhheeeeeeEEEehhccccc
Confidence            333345799999999999999998887742         35789999999999999999999999999999999999999


Q ss_pred             chHHHHHHHHHcCCCeEEEEEeCC
Q psy9646         188 QTREHLLLAKQIGVTNIVVFINKF  211 (211)
Q Consensus       188 ~~~~~~~~~~~~~~~~~i~~inK~  211 (211)
                      |+.+++-+...+..+ .++++||+
T Consensus       110 QtAEcLiig~~~c~k-lvvvinki  132 (522)
T KOG0461|consen  110 QTAECLIIGELLCKK-LVVVINKI  132 (522)
T ss_pred             ccchhhhhhhhhccc-eEEEEecc
Confidence            999998888777656 77899996

>KOG0052|consensus

Probab=99.25  E-value=8e-12  Score=103.19  Aligned_cols=106  Identities=43%  Similarity=0.574  Sum_probs=95.7

Q ss_pred             ccchhhhhhhhcccccccccchhhcccceEEeEeEEEeeeCCceeEeecCCcccccHhHHhhhccccceEEEEEeccCCC
Q psy9646         106 KPVLADKKLAKVKQYADIDNAPEEKARGITINVAHVEYATENRHYSHTDCPGHADYIKNMITGTSQMDGAILVVAATDGA  185 (211)
Q Consensus       106 ~~~~~~~~~~~f~~~i~~~~~~~e~~rg~tv~~~~~~~~~~~~~~~~iDtPG~~~~~~~~~~~~~~~d~~~~vvd~~~~~  185 (211)
                      .+.+...++.+|++.+.++..+.|..|+++++.+...+.+..+.++.+|.|||.+|.++|..+.++||+++++|.+..|.
T Consensus        40 ~keaa~~~kgsf~~a~~~dk~~ae~~r~i~I~~~l~~~~t~k~~i~iid~pgh~d~~k~mitg~sqaD~avliva~~~ge  119 (391)
T KOG0052|consen   40 EKEAAEMGKGSFKYAWVLDKLKAERERGITIDIALWKFETSKYYVTIIDAPGHRDFIKNMITGTSQADCAVLIVAAGTGE  119 (391)
T ss_pred             chHHHhhccceeeeeeeechhhhccccceEEEEEeecccceeEEEEEecCCCCCceeeeEEeeEeeeceeEEEEeeeccc
Confidence            34555778889999988999999999999999999999999999999999999999999999999999999999985444


Q ss_pred             -------CcchHHHHHHHHHcCCCeEEEEEeCC
Q psy9646         186 -------MPQTREHLLLAKQIGVTNIVVFINKF  211 (211)
Q Consensus       186 -------~~~~~~~~~~~~~~~~~~~i~~inK~  211 (211)
                             .+|+++|+.++..+|++++|+.+||+
T Consensus       120 fEagiskngqt~ehalla~tlgv~qliv~v~k~  152 (391)
T KOG0052|consen  120 FEAGISKNGQTREHALLAFTLGVKQLIVGVNKM  152 (391)
T ss_pred             eeeeccccchhhhhhhhhccccceeeeEEeecc
Confidence                   38999999999999999999999996

>cd01342 Translation_Factor_II_like Translation_Factor_II_like: Elongation factor Tu (EF-Tu) domain II-like proteins

Probab=99.21  E-value=1.7e-10  Score=75.65  Aligned_cols=82  Identities=33%  Similarity=0.473  Sum_probs=70.9

Q ss_pred             eeEEEeeEEeecCCcEEEEEEEEEEEEecCCEEEEeecCceeeEEEEEEEecceecceecccCceehhccCCCccccccc
Q psy9646          22 FYLPVEHTYSIPGRGTVVTGRLERGIVKKGMECEFTGYGRQFKTTVTGIEMFHKILDEAQAGDQLGALVKGMKRDEVNRG  101 (211)
Q Consensus        22 ~~~~v~~~~~~~~~G~v~~G~v~~G~i~~g~~v~i~p~~~~~~~~v~~i~~~~~~~~~a~~G~~v~~~l~~~~~~~v~~G  101 (211)
                      |+++|.++++.++.|+++.|+|.+|.+++|+.+.+.|.+...+.+|++|+..+.+.+++.+||.+++.+...+  +++.|
T Consensus         1 ~~~~v~~~~~~~~~g~v~~~rv~~G~l~~g~~v~~~~~~~~~~~~i~~i~~~~~~~~~~~aG~~~~~~~~~~~--~~~~g   78 (83)
T cd01342           1 LRALVFKVFKDKGRGTVATGRVESGTLKKGDKVRVGPGGGGVKGKVKSLKRFKGEVDEAVAGDIVGIVLKDKD--DIKIG   78 (83)
T ss_pred             CeeEEEEEEEeCCceEEEEEEEeeCEEecCCEEEEecCCceeEEEEeEeEecCceeceecCCCEEEEEEcccc--ccCCC
Confidence            5789999999999999999999999999999999988332457889999999999999999999999776433  78888


Q ss_pred             cccc
Q psy9646         102 LIMA  105 (211)
Q Consensus       102 ~ii~  105 (211)
                      ++++
T Consensus        79 ~~l~   82 (83)
T cd01342          79 DTLT   82 (83)
T ss_pred             CEec
Confidence            8764

Elongation factor Tu consists of three structural domains, this family represents the second domain. Domain II adopts a beta barrel structure and is involved in binding to charged tRNA. Domain II is found in other proteins such as elongation factor G and translation initiation factor IF-2. This group also includes the C2 subdomain of domain IV of IF-2 that has the same fold as domain II of (EF-Tu). Like IF-2 from certain prokaryotes such as Thermus thermophilus, mitochondrial IF-2 lacks domain II, which is thought to be involved in binding of E.coli IF-2 to 30S subunits.

>TIGR00491 aIF-2 translation initiation factor aIF-2/yIF-2

Probab=99.19  E-value=4.9e-11  Score=105.71  Aligned_cols=107  Identities=24%  Similarity=0.276  Sum_probs=78.2

Q ss_pred             ccccchhhhhhhhcccccccccchhhcccceEEeEeEEEeeeC------------------CceeEeecCCcccccHhHH
Q psy9646         104 MAKPVLADKKLAKVKQYADIDNAPEEKARGITINVAHVEYATE------------------NRHYSHTDCPGHADYIKNM  165 (211)
Q Consensus       104 i~~~~~~~~~~~~f~~~i~~~~~~~e~~rg~tv~~~~~~~~~~------------------~~~~~~iDtPG~~~~~~~~  165 (211)
                      ++-.+++..|++++..++..........+++|.++.+..+...                  ..++.|+|||||+.|...+
T Consensus         7 V~IiG~~d~GKTSLln~l~~~~v~~~e~ggiTq~iG~~~v~~~~~~~~~~~~~~~~~v~~~~~~l~~iDTpG~e~f~~l~   86 (590)
T TIGR00491         7 VSVLGHVDHGKTTLLDKIRGSAVAKREAGGITQHIGATEIPMDVIEGICGDLLKKFKIRLKIPGLLFIDTPGHEAFTNLR   86 (590)
T ss_pred             EEEECCCCCCHHHHHHHHhccccccccCCceecccCeeEeeeccccccccccccccccccccCcEEEEECCCcHhHHHHH
Confidence            3334556667777655553333333333456655443333221                  1248899999999999988


Q ss_pred             hhhccccceEEEEEeccCCCCcchHHHHHHHHHcCCCeEEEEEeCC
Q psy9646         166 ITGTSQMDGAILVVAATDGAMPQTREHLLLAKQIGVTNIVVFINKF  211 (211)
Q Consensus       166 ~~~~~~~d~~~~vvd~~~~~~~~~~~~~~~~~~~~~~~~i~~inK~  211 (211)
                      ..+++.+|++++|+|+.+|+.+++.+++.++...++| +|+++||+
T Consensus        87 ~~~~~~aD~~IlVvD~~~g~~~qt~e~i~~l~~~~vp-iIVv~NK~  131 (590)
T TIGR00491        87 KRGGALADLAILIVDINEGFKPQTQEALNILRMYKTP-FVVAANKI  131 (590)
T ss_pred             HHHHhhCCEEEEEEECCcCCCHhHHHHHHHHHHcCCC-EEEEEECC
Confidence            8999999999999999999999999999999989998 88999996

This model describes archaeal and eukaryotic orthologs of bacterial IF-2. Like IF-2, it helps convey the initiator tRNA to the ribosome, although the initiator is N-formyl-Met in bacteria and Met here. This protein is not closely related to the subunits of eIF-2 of eukaryotes, which is also involved in the initiation of translation. The aIF-2 of Methanococcus jannaschii contains a large intein interrupting a region of very strongly conserved sequence very near the amino end; this model does not correctly align the sequences from Methanococcus jannaschii and Pyrococcus horikoshii in this region.

>PRK04004 translation initiation factor IF-2; Validated

Probab=99.18  E-value=6.5e-11  Score=105.14  Aligned_cols=61  Identities=34%  Similarity=0.413  Sum_probs=57.7

Q ss_pred             eEeecCCcccccHhHHhhhccccceEEEEEeccCCCCcchHHHHHHHHHcCCCeEEEEEeCC
Q psy9646         150 YSHTDCPGHADYIKNMITGTSQMDGAILVVAATDGAMPQTREHLLLAKQIGVTNIVVFINKF  211 (211)
Q Consensus       150 ~~~iDtPG~~~~~~~~~~~~~~~d~~~~vvd~~~~~~~~~~~~~~~~~~~~~~~~i~~inK~  211 (211)
                      ++|+|||||++|...+..+++.+|++++|+|+.+|+.+++.+++.++...++| +++++||+
T Consensus        73 i~~iDTPG~e~f~~~~~~~~~~aD~~IlVvDa~~g~~~qt~e~i~~~~~~~vp-iIvviNK~  133 (586)
T PRK04004         73 LLFIDTPGHEAFTNLRKRGGALADIAILVVDINEGFQPQTIEAINILKRRKTP-FVVAANKI  133 (586)
T ss_pred             EEEEECCChHHHHHHHHHhHhhCCEEEEEEECCCCCCHhHHHHHHHHHHcCCC-EEEEEECc
Confidence            78999999999998888899999999999999999999999999999999999 88999996

>cd01887 IF2_eIF5B IF2/eIF5B (initiation factors 2/ eukaryotic initiation factor 5B) subfamily

Probab=99.18  E-value=1.3e-10  Score=86.82  Aligned_cols=99  Identities=35%  Similarity=0.434  Sum_probs=71.9

Q ss_pred             hhhhhcccccccccchhhcccceEEeEeEEEeeeC---CceeEeecCCcccccHhHHhhhccccceEEEEEeccCCCCcc
Q psy9646         112 KKLAKVKQYADIDNAPEEKARGITINVAHVEYATE---NRHYSHTDCPGHADYIKNMITGTSQMDGAILVVAATDGAMPQ  188 (211)
Q Consensus       112 ~~~~~f~~~i~~~~~~~e~~rg~tv~~~~~~~~~~---~~~~~~iDtPG~~~~~~~~~~~~~~~d~~~~vvd~~~~~~~~  188 (211)
                      .|++++...+..........++.+.+.....+...   +..+.++||||+..|......++..+|++++|+|+.++...+
T Consensus        11 ~GKtsli~~l~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~iiDtpG~~~~~~~~~~~~~~~d~il~v~d~~~~~~~~   90 (168)
T cd01887          11 HGKTTLLDKIRKTNVAAGEAGGITQHIGAFEVPAEVLKIPGITFIDTPGHEAFTNMRARGASLTDIAILVVAADDGVMPQ   90 (168)
T ss_pred             CCHHHHHHHHHhcccccccCCCeEEeeccEEEecccCCcceEEEEeCCCcHHHHHHHHHHHhhcCEEEEEEECCCCccHH
Confidence            34444443332222222233455666555555553   678999999999988877777889999999999999888788


Q ss_pred             hHHHHHHHHHcCCCeEEEEEeCC
Q psy9646         189 TREHLLLAKQIGVTNIVVFINKF  211 (211)
Q Consensus       189 ~~~~~~~~~~~~~~~~i~~inK~  211 (211)
                      +.+.+..+...++| +++++||+
T Consensus        91 ~~~~~~~~~~~~~p-~ivv~NK~  112 (168)
T cd01887          91 TIEAIKLAKAANVP-FIVALNKI  112 (168)
T ss_pred             HHHHHHHHHHcCCC-EEEEEEce
Confidence            88888888888988 77899996

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.

>COG1160 Predicted GTPases [General function prediction only]

Probab=99.17  E-value=6.5e-11  Score=99.75  Aligned_cols=80  Identities=18%  Similarity=0.266  Sum_probs=72.4

Q ss_pred             ccceEEeEeEEEeeeCCceeEeecCCcccc---------cHhHHhhhccccceEEEEEeccCCCCcchHHHHHHHHHcCC
Q psy9646         131 ARGITINVAHVEYATENRHYSHTDCPGHAD---------YIKNMITGTSQMDGAILVVAATDGAMPQTREHLLLAKQIGV  201 (211)
Q Consensus       131 ~rg~tv~~~~~~~~~~~~~~~~iDtPG~~~---------~~~~~~~~~~~~d~~~~vvd~~~~~~~~~~~~~~~~~~~~~  201 (211)
                      ..|.|.+..|...++.+..+.+|||+|...         +..++..|+..||+++||||+.+|++++++.+++.++..+.
T Consensus        34 ~pGvTRDr~y~~~~~~~~~f~lIDTgGl~~~~~~~l~~~i~~Qa~~Ai~eADvilfvVD~~~Git~~D~~ia~~Lr~~~k  113 (444)
T COG1160          34 TPGVTRDRIYGDAEWLGREFILIDTGGLDDGDEDELQELIREQALIAIEEADVILFVVDGREGITPADEEIAKILRRSKK  113 (444)
T ss_pred             CCCCccCCccceeEEcCceEEEEECCCCCcCCchHHHHHHHHHHHHHHHhCCEEEEEEeCCCCCCHHHHHHHHHHHhcCC
Confidence            458999999999999999999999999763         35778999999999999999999999999999999998778


Q ss_pred             CeEEEEEeCC
Q psy9646         202 TNIVVFINKF  211 (211)
Q Consensus       202 ~~~i~~inK~  211 (211)
                      | +|+|+||+
T Consensus       114 p-viLvvNK~  122 (444)
T COG1160         114 P-VILVVNKI  122 (444)
T ss_pred             C-EEEEEEcc
Confidence            8 88999996

>PF03144 GTP_EFTU_D2: Elongation factor Tu domain 2; InterPro: IPR004161 Translation elongation factors are responsible for two main processes during protein synthesis on the ribosome [, , ]

Probab=99.17  E-value=1.3e-10  Score=75.56  Aligned_cols=70  Identities=30%  Similarity=0.434  Sum_probs=60.5

Q ss_pred             cEEEEEEEEEEEEecCCEEEEeecCce---eeEEEEEEEecceecceecccCceehhccCCCccc-cccccccc
Q psy9646          36 GTVVTGRLERGIVKKGMECEFTGYGRQ---FKTTVTGIEMFHKILDEAQAGDQLGALVKGMKRDE-VNRGLIMA  105 (211)
Q Consensus        36 G~v~~G~v~~G~i~~g~~v~i~p~~~~---~~~~v~~i~~~~~~~~~a~~G~~v~~~l~~~~~~~-v~~G~ii~  105 (211)
                      |+++.|||.+|.+++||++.+.|.+..   ...+|++|++++....++.+|+.+++.+...+.++ +++|++++
T Consensus         1 G~v~~grV~sG~l~~gd~v~~~~~~~~~~~~~~~I~~i~~~~~~~~~~~~~~~~G~~~~~~~~~~~i~~Gdtl~   74 (74)
T PF03144_consen    1 GRVATGRVYSGTLKKGDKVRVLPNGTGKKGQVVKIKSIFMFNGDVQEAVAGANAGDIVAIIGLNDAIRRGDTLT   74 (74)
T ss_dssp             EEEEEEEEEESEEETTEEEEEESTTTTEECEEEEEEEEEETTEEESEEETTEEEEEEEESSSGCSCSSTTEEEE
T ss_pred             CEEEEEEEEEeEEcCCCEEEECccCCcceeeeeecccccccccCccEeCCceeeEEEEEEcCCCCCcCcCCEEC
Confidence            789999999999999999999884322   34999999999988888888888888888778888 89999875

EF1A (or EF-Tu) is responsible for the selection and binding of the cognate aminoacyl-tRNA to the A-site (acceptor site) of the ribosome. EF2 (or EF-G) is responsible for the translocation of the peptidyl-tRNA from the A-site to the P-site (peptidyl-tRNA site) of the ribosome, thereby freeing the A-site for the next aminoacyl-tRNA to bind. Elongation factors are responsible for achieving accuracy of translation and both EF1A and EF2 are remarkably conserved throughout evolution. EF1A (also known as EF-1alpha or EF-Tu) is a G-protein. It forms a ternary complex of EF1A-GTP-aminoacyltRNA. The binding of aminoacyl-tRNA stimulates GTP hydrolysis by EF1A, causing a conformational change in EF1A that causes EF1A-GDP to detach from the ribosome, leaving the aminoacyl-tRNA attached at the A-site. Only the cognate aminoacyl-tRNA can induce the required conformational change in EF1A through its tight anticodon-codon binding [, ]. EF1A-GDP is returned to its active state, EF1A-GTP, through the action of another elongation factor, EF1B (also known as EF-Ts or EF-1beta/gamma/delta). EF1A consists of three structural domains. This entry represents domain 2 of EF2, which adopts a beta-barrel structure, and is involved in binding to both charged tRNA []. This domain is structurally related to the C-terminal domain of EF2 (IPR004160 from INTERPRO), to which it displays weak sequence matches. This domain is also found in other proteins such as translation initiation factor IF-2 and tetracycline-resistance proteins. More information about these proteins can be found at Protein of the Month: Elongation Factors [].; GO: 0005525 GTP binding; PDB: 3MCA_A 3AGJ_E 1SKQ_B 1JNY_A 1S0U_A 1ZUN_B 3SFS_W 3UOQ_W 2H5E_B 2XEX_A ....

>KOG1144|consensus

Probab=99.16  E-value=4.6e-11  Score=105.04  Aligned_cols=113  Identities=29%  Similarity=0.294  Sum_probs=95.8

Q ss_pred             ccccccccccchhhhhhhhcccccccccchhhcccceEEeEeEEEeeeCC------------------ceeEeecCCccc
Q psy9646          98 VNRGLIMAKPVLADKKLAKVKQYADIDNAPEEKARGITINVAHVEYATEN------------------RHYSHTDCPGHA  159 (211)
Q Consensus        98 v~~G~ii~~~~~~~~~~~~f~~~i~~~~~~~e~~rg~tv~~~~~~~~~~~------------------~~~~~iDtPG~~  159 (211)
                      --|..++|-.++...+++.+...+.-.+.......|+|..+...+|...+                  -.+.+||||||+
T Consensus       472 ~lRSPIcCilGHVDTGKTKlld~ir~tNVqegeaggitqqIgAt~fp~~ni~e~tk~~~~~~K~~~kvPg~lvIdtpghE  551 (1064)
T KOG1144|consen  472 NLRSPICCILGHVDTGKTKLLDKIRGTNVQEGEAGGITQQIGATYFPAENIREKTKELKKDAKKRLKVPGLLVIDTPGHE  551 (1064)
T ss_pred             hcCCceEEEeecccccchHHHHHhhccccccccccceeeeccccccchHHHHHHHHHHHhhhhhhcCCCeeEEecCCCch
Confidence            44667888888888888888776666666677777899888776665431                  248899999999


Q ss_pred             ccHhHHhhhccccceEEEEEeccCCCCcchHHHHHHHHHcCCCeEEEEEeCC
Q psy9646         160 DYIKNMITGTSQMDGAILVVAATDGAMPQTREHLLLAKQIGVTNIVVFINKF  211 (211)
Q Consensus       160 ~~~~~~~~~~~~~d~~~~vvd~~~~~~~~~~~~~~~~~~~~~~~~i~~inK~  211 (211)
                      .|..-..+|.+.+|.+|+|||..+|+.+|+.+.+.+++..+.| +|+++|||
T Consensus       552 sFtnlRsrgsslC~~aIlvvdImhGlepqtiESi~lLR~rktp-FivALNKi  602 (1064)
T KOG1144|consen  552 SFTNLRSRGSSLCDLAILVVDIMHGLEPQTIESINLLRMRKTP-FIVALNKI  602 (1064)
T ss_pred             hhhhhhhccccccceEEEEeehhccCCcchhHHHHHHHhcCCC-eEEeehhh
Confidence            9999999999999999999999999999999999999999998 99999996

>PRK14845 translation initiation factor IF-2; Provisional

Probab=99.15  E-value=1.3e-10  Score=108.01  Aligned_cols=96  Identities=27%  Similarity=0.330  Sum_probs=79.6

Q ss_pred             hhcccccccccchhhcccceEEeEeEEEeeeCC------------------ceeEeecCCcccccHhHHhhhccccceEE
Q psy9646         115 AKVKQYADIDNAPEEKARGITINVAHVEYATEN------------------RHYSHTDCPGHADYIKNMITGTSQMDGAI  176 (211)
Q Consensus       115 ~~f~~~i~~~~~~~e~~rg~tv~~~~~~~~~~~------------------~~~~~iDtPG~~~~~~~~~~~~~~~d~~~  176 (211)
                      +++...+.-.+.+.....|+|.++.+..+..+.                  ..+.|+|||||+.|...+..+...+|+++
T Consensus       475 TtLLD~iR~t~v~~~EaGGITQ~IGa~~v~~~~~~~~~~~~~~~~~~~~~~p~i~fiDTPGhe~F~~lr~~g~~~aDivl  554 (1049)
T PRK14845        475 TTLLDKIRKTRVAKKEAGGITQHIGATEIPIDVIKKICGPLLKLLKAEIKIPGLLFIDTPGHEAFTSLRKRGGSLADLAV  554 (1049)
T ss_pred             ccHHHHHhCCCcccccCCCceeccceEEEEecccccccccccccccccCCcCcEEEEECCCcHHHHHHHHhhcccCCEEE
Confidence            344444444455777788999999887776542                  13899999999999888888999999999


Q ss_pred             EEEeccCCCCcchHHHHHHHHHcCCCeEEEEEeCC
Q psy9646         177 LVVAATDGAMPQTREHLLLAKQIGVTNIVVFINKF  211 (211)
Q Consensus       177 ~vvd~~~~~~~~~~~~~~~~~~~~~~~~i~~inK~  211 (211)
                      +|+|+.+|+..++.+++..++..++| +|+++||+
T Consensus       555 LVVDa~~Gi~~qT~e~I~~lk~~~iP-iIVViNKi  588 (1049)
T PRK14845        555 LVVDINEGFKPQTIEAINILRQYKTP-FVVAANKI  588 (1049)
T ss_pred             EEEECcccCCHhHHHHHHHHHHcCCC-EEEEEECC
Confidence            99999999999999999999999988 88999996

>COG5257 GCD11 Translation initiation factor 2, gamma subunit (eIF-2gamma; GTPase) [Translation, ribosomal structure and biogenesis]

Probab=99.14  E-value=2.8e-10  Score=91.81  Aligned_cols=117  Identities=26%  Similarity=0.424  Sum_probs=92.4

Q ss_pred             hHHHHHhhhCCCCCCCCCCCeeEEEeeEEeecCC--------cEEEEEEEEEEEEecCCEEEEeecCc----------ee
Q psy9646           2 ELLNQIDTYIPQPVRDLDKPFYLPVEHTYSIPGR--------GTVVTGRLERGIVKKGMECEFTGYGR----------QF   63 (211)
Q Consensus         2 ~ll~~l~~~i~~p~~~~~~p~~~~v~~~~~~~~~--------G~v~~G~v~~G~i~~g~~v~i~p~~~----------~~   63 (211)
                      .|+++|.+++|.|+|+.++|++|.|-+.|.++.-        |-|..|.+.+|.+++||++.+.|.-.          ..
T Consensus       192 al~e~i~~~IptP~rd~~~~p~m~v~RSFDVNkPGt~~~~L~GGViGGsl~~G~l~vGDEIEIrPGi~v~k~~k~~~~pi  271 (415)
T COG5257         192 ALIEAIEKYIPTPERDLDKPPRMYVARSFDVNKPGTPPEELKGGVIGGSLVQGVLRVGDEIEIRPGIVVEKGGKTVWEPI  271 (415)
T ss_pred             HHHHHHHHhCCCCccCCCCCceEEEEeecccCCCCCCHHHccCceecceeeeeeEecCCeEEecCCeEeecCCceEEEEe
Confidence            3789999999999999999999999999999864        44899999999999999999998641          23


Q ss_pred             eEEEEEEEecceecceecccCceehhccC---CCcccccccccccccchhhhhhhhcc
Q psy9646          64 KTTVTGIEMFHKILDEAQAGDQLGALVKG---MKRDEVNRGLIMAKPVLADKKLAKVK  118 (211)
Q Consensus        64 ~~~v~~i~~~~~~~~~a~~G~~v~~~l~~---~~~~~v~~G~ii~~~~~~~~~~~~f~  118 (211)
                      .++|.|++....++++|.+|-.+++-.+-   +.+-|--.|.++..+...++...++.
T Consensus       272 ~T~i~Sl~ag~~~~~ea~PGGLvgvGT~lDP~ltKaD~L~G~V~G~pG~lPpv~~~~~  329 (415)
T COG5257         272 TTEIVSLQAGGEDVEEARPGGLVGVGTKLDPTLTKADALVGQVVGKPGTLPPVWTSIR  329 (415)
T ss_pred             eEEEEEEEeCCeeeeeccCCceEEEecccCcchhhhhhhccccccCCCCCCCceEEEE
Confidence            47899999999999999999999985441   22344455556655555555444443

>cd00881 GTP_translation_factor GTP translation factor family

Probab=99.12  E-value=3.8e-10  Score=85.80  Aligned_cols=87  Identities=46%  Similarity=0.705  Sum_probs=74.2

Q ss_pred             ccchhhcccceEEeEeEEEeeeCCceeEeecCCcccccHhHHhhhccccceEEEEEeccCCCCcchHHHHHHHHHcCCCe
Q psy9646         124 DNAPEEKARGITINVAHVEYATENRHYSHTDCPGHADYIKNMITGTSQMDGAILVVAATDGAMPQTREHLLLAKQIGVTN  203 (211)
Q Consensus       124 ~~~~~e~~rg~tv~~~~~~~~~~~~~~~~iDtPG~~~~~~~~~~~~~~~d~~~~vvd~~~~~~~~~~~~~~~~~~~~~~~  203 (211)
                      +....+..++.++......++..+..+.|+||||+.++......++..+|++++|+|+.++...+..+++..+...+.| 
T Consensus        38 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~d~~i~v~d~~~~~~~~~~~~~~~~~~~~~~-  116 (189)
T cd00881          38 DVLKEERERGITIKSGVATFEWPDRRVNFIDTPGHEDFSSEVIRGLSVSDGAILVVDANEGVQPQTREHLRIAREGGLP-  116 (189)
T ss_pred             cCCHHHHHcCCCeecceEEEeeCCEEEEEEeCCCcHHHHHHHHHHHHhcCEEEEEEECCCCCcHHHHHHHHHHHHCCCC-
Confidence            3344566677788777777888888999999999999988888999999999999999998888888888888887877 


Q ss_pred             EEEEEeCC
Q psy9646         204 IVVFINKF  211 (211)
Q Consensus       204 ~i~~inK~  211 (211)
                      +++++||+
T Consensus       117 i~iv~nK~  124 (189)
T cd00881         117 IIVAINKI  124 (189)
T ss_pred             eEEEEECC
Confidence            88999996

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.

>KOG0462|consensus

Probab=99.09  E-value=2.1e-10  Score=98.17  Aligned_cols=106  Identities=25%  Similarity=0.352  Sum_probs=83.2

Q ss_pred             hHHHHHhhhCCCCCCCCCCCeeEEEeeEEeecCCcEEEEEEEEEEEEecCCEEEEeecCceeeEEEEEEEecc-eeccee
Q psy9646           2 ELLNQIDTYIPQPVRDLDKPFYLPVEHTYSIPGRGTVVTGRLERGIVKKGMECEFTGYGRQFKTTVTGIEMFH-KILDEA   80 (211)
Q Consensus         2 ~ll~~l~~~i~~p~~~~~~p~~~~v~~~~~~~~~G~v~~G~v~~G~i~~g~~v~i~p~~~~~~~~v~~i~~~~-~~~~~a   80 (211)
                      ++|+++..++|+|....++||||.+.+.++..|+|.+..++|..|.+++||+|..+-+++...+++.++...+ .++...
T Consensus       225 ~lL~AII~rVPpP~~~~d~plr~Lifds~yD~y~G~I~~vrv~~G~vrkGdkV~~~~t~~~yev~~vgvm~p~~~~~~~l  304 (650)
T KOG0462|consen  225 ELLEAIIRRVPPPKGIRDAPLRMLIFDSEYDEYRGVIALVRVVDGVVRKGDKVQSAATGKSYEVKVVGVMRPEMTPVVEL  304 (650)
T ss_pred             HHHHHHHhhCCCCCCCCCcchHHHhhhhhhhhhcceEEEEEEeeeeeecCCEEEEeecCcceEeEEeEEeccCceeeeee
Confidence            6899999999999999999999999999999999999999999999999999999888764455555555444 244444


Q ss_pred             cccCceehhccCCC-cccccccccccccc
Q psy9646          81 QAGDQLGALVKGMK-RDEVNRGLIMAKPV  108 (211)
Q Consensus        81 ~~G~~v~~~l~~~~-~~~v~~G~ii~~~~  108 (211)
                      .+|+ |+..+-++. ..+...|++++...
T Consensus       305 ~agq-vGyIi~~mr~~~ea~IGdTi~~~~  332 (650)
T KOG0462|consen  305 DAGQ-VGYIICNMRNVKEAQIGDTIAHKS  332 (650)
T ss_pred             cccc-cceeEecccccccccccceeeecc
Confidence            4444 333333455 56788999998654

>PF14578 GTP_EFTU_D4: Elongation factor Tu domain 4; PDB: 1G7R_A 1G7S_A 1G7T_A 1XE1_A

Probab=99.07  E-value=2.9e-09  Score=69.46  Aligned_cols=77  Identities=25%  Similarity=0.381  Sum_probs=62.0

Q ss_pred             CCeeEEEeeEEeecCCcEEEEEEEEEEEEecCCEEEEeecCceeeEEEEEEEecceecceecccCceehhccCCCccccc
Q psy9646          20 KPFYLPVEHTYSIPGRGTVVTGRLERGIVKKGMECEFTGYGRQFKTTVTGIEMFHKILDEAQAGDQLGALVKGMKRDEVN   99 (211)
Q Consensus        20 ~p~~~~v~~~~~~~~~G~v~~G~v~~G~i~~g~~v~i~p~~~~~~~~v~~i~~~~~~~~~a~~G~~v~~~l~~~~~~~v~   99 (211)
                      .|.++.|...|-.+..+ ++.|+|..|.+++|..+    .+. .-..|+||+..++++++|.+||.|++.+.+..  ++.
T Consensus         3 ~p~ki~Ilp~~vFr~~~-~IvG~V~~G~ik~G~~l----~G~-~iG~I~sIe~~~k~v~~A~~G~eVai~Ieg~~--~i~   74 (81)
T PF14578_consen    3 RPGKIRILPVCVFRQSD-AIVGEVLEGIIKPGYPL----DGR-KIGRIKSIEDNGKNVDEAKKGDEVAISIEGPT--QIK   74 (81)
T ss_dssp             -SEEEEEEEEEEECTCC-EEEEEEEEEEEETT-EE----CSS-CEEEEEEEEETTEEESEEETT-EEEEEEET----TB-
T ss_pred             CceEEEECCcCEEecCC-eEEEEEeeeEEeCCCcc----CCE-EEEEEEEeEECCcCccccCCCCEEEEEEeCCc--cCC
Confidence            46788888888888888 88889999999999998    443 47899999999999999999999999999744  888


Q ss_pred             ccccc
Q psy9646         100 RGLIM  104 (211)
Q Consensus       100 ~G~ii  104 (211)
                      .|+++
T Consensus        75 eGDiL   79 (81)
T PF14578_consen   75 EGDIL   79 (81)
T ss_dssp             TT-EE
T ss_pred             CCCEE
Confidence            88876

>cd01894 EngA1 EngA1 subfamily

Probab=99.06  E-value=9.9e-10  Score=80.91  Aligned_cols=80  Identities=18%  Similarity=0.199  Sum_probs=63.5

Q ss_pred             ccceEEeEeEEEeeeCCceeEeecCCcccccH--------hHHhhhccccceEEEEEeccCCCCcchHHHHHHHHHcCCC
Q psy9646         131 ARGITINVAHVEYATENRHYSHTDCPGHADYI--------KNMITGTSQMDGAILVVAATDGAMPQTREHLLLAKQIGVT  202 (211)
Q Consensus       131 ~rg~tv~~~~~~~~~~~~~~~~iDtPG~~~~~--------~~~~~~~~~~d~~~~vvd~~~~~~~~~~~~~~~~~~~~~~  202 (211)
                      ..+.+.+..+......+..+.++||||+.++.        +.....+..+|++++++|+..+....+..+.+.++..+.|
T Consensus        28 ~~~~t~~~~~~~~~~~~~~~~i~DtpG~~~~~~~~~~~~~~~~~~~~~~~d~ii~v~d~~~~~~~~~~~~~~~~~~~~~p  107 (157)
T cd01894          28 TPGVTRDRIYGEAEWGGREFILIDTGGIEPDDEGISKEIREQAELAIEEADVILFVVDGREGLTPADEEIAKYLRKSKKP  107 (157)
T ss_pred             CCCceeCceeEEEEECCeEEEEEECCCCCCchhHHHHHHHHHHHHHHHhCCEEEEEEeccccCCccHHHHHHHHHhcCCC
Confidence            33455555555666677889999999998743        3556678899999999999888877777888888888888


Q ss_pred             eEEEEEeCC
Q psy9646         203 NIVVFINKF  211 (211)
Q Consensus       203 ~~i~~inK~  211 (211)
                       +++++||+
T Consensus       108 -iiiv~nK~  115 (157)
T cd01894         108 -VILVVNKV  115 (157)
T ss_pred             -EEEEEECc
Confidence             78999996

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.

>PRK15494 era GTPase Era; Provisional

Probab=98.99  E-value=1.9e-09  Score=90.08  Aligned_cols=102  Identities=10%  Similarity=0.075  Sum_probs=70.2

Q ss_pred             hhhhhhhhcccccccccch-hhcccceEEeEeEEEeeeCCceeEeecCCcccc--------cHhHHhhhccccceEEEEE
Q psy9646         109 LADKKLAKVKQYADIDNAP-EEKARGITINVAHVEYATENRHYSHTDCPGHAD--------YIKNMITGTSQMDGAILVV  179 (211)
Q Consensus       109 ~~~~~~~~f~~~i~~~~~~-~e~~rg~tv~~~~~~~~~~~~~~~~iDtPG~~~--------~~~~~~~~~~~~d~~~~vv  179 (211)
                      .+..|++++...+...... .....+.|.+.....++.++.++.|+||||.++        +.+.++.++..+|++++|+
T Consensus        60 ~~nvGKSTLin~l~~~k~~ivs~k~~tTr~~~~~~~~~~~~qi~~~DTpG~~~~~~~l~~~~~r~~~~~l~~aDvil~Vv  139 (339)
T PRK15494         60 RPNSGKSTLLNRIIGEKLSIVTPKVQTTRSIITGIITLKDTQVILYDTPGIFEPKGSLEKAMVRCAWSSLHSADLVLLII  139 (339)
T ss_pred             CCCCCHHHHHHHHhCCceeeccCCCCCccCcEEEEEEeCCeEEEEEECCCcCCCcccHHHHHHHHHHHHhhhCCEEEEEE
Confidence            3445555554444222111 112334454444556677889999999999753        4556677889999999999


Q ss_pred             eccCCCCcchHHHHHHHHHcCCCeEEEEEeCC
Q psy9646         180 AATDGAMPQTREHLLLAKQIGVTNIVVFINKF  211 (211)
Q Consensus       180 d~~~~~~~~~~~~~~~~~~~~~~~~i~~inK~  211 (211)
                      |+.++....+..++..++..+.| .|+++||+
T Consensus       140 D~~~s~~~~~~~il~~l~~~~~p-~IlViNKi  170 (339)
T PRK15494        140 DSLKSFDDITHNILDKLRSLNIV-PIFLLNKI  170 (339)
T ss_pred             ECCCCCCHHHHHHHHHHHhcCCC-EEEEEEhh
Confidence            99888877777788888778888 45799996

>COG0481 LepA Membrane GTPase LepA [Cell envelope biogenesis, outer membrane]

Probab=98.98  E-value=4.4e-09  Score=88.95  Aligned_cols=102  Identities=25%  Similarity=0.334  Sum_probs=86.9

Q ss_pred             hHHHHHhhhCCCCCCCCCCCeeEEEeeEEeecCCcEEEEEEEEEEEEecCCEEEEeecCceeeEEEEEEEecc---eecc
Q psy9646           2 ELLNQIDTYIPQPVRDLDKPFYLPVEHTYSIPGRGTVVTGRLERGIVKKGMECEFTGYGRQFKTTVTGIEMFH---KILD   78 (211)
Q Consensus         2 ~ll~~l~~~i~~p~~~~~~p~~~~v~~~~~~~~~G~v~~G~v~~G~i~~g~~v~i~p~~~~~~~~v~~i~~~~---~~~~   78 (211)
                      ++|+++.+.+|+|..+.++|++..|.++++.+|+|.++.-||..|.+++||++.++.+++  +..|..+.++.   ...+
T Consensus       176 ~iLe~Iv~~iP~P~g~~~~pLkALifDS~yD~Y~GVv~~vRi~dG~ik~gdki~~m~tg~--~y~V~evGvftP~~~~~~  253 (603)
T COG0481         176 DVLEAIVEKIPPPKGDPDAPLKALIFDSWYDNYLGVVVLVRIFDGTLKKGDKIRMMSTGK--EYEVDEVGIFTPKMVKVD  253 (603)
T ss_pred             HHHHHHHhhCCCCCCCCCCcceEEEEeccccccceEEEEEEEeeceecCCCEEEEEecCC--EEEEEEEeeccCCccccc
Confidence            689999999999999999999999999999999999999999999999999999999986  67777877765   4667


Q ss_pred             eecccCceehhccCC-Ccccccccccccc
Q psy9646          79 EAQAGDQLGALVKGM-KRDEVNRGLIMAK  106 (211)
Q Consensus        79 ~a~~G~~v~~~l~~~-~~~~v~~G~ii~~  106 (211)
                      +..+||.-.+ ..++ +..+.+.||++..
T Consensus       254 ~L~aGeVG~~-~a~iK~v~d~~VGDTiT~  281 (603)
T COG0481         254 ELKAGEVGYI-IAGIKDVRDARVGDTITL  281 (603)
T ss_pred             cccCCceeEE-EEeeeecccCcccceEec
Confidence            8899995444 3333 3567899999974

>TIGR03594 GTPase_EngA ribosome-associated GTPase EngA

Probab=98.96  E-value=1.9e-09  Score=92.78  Aligned_cols=80  Identities=18%  Similarity=0.243  Sum_probs=68.9

Q ss_pred             ccceEEeEeEEEeeeCCceeEeecCCcc--------cccHhHHhhhccccceEEEEEeccCCCCcchHHHHHHHHHcCCC
Q psy9646         131 ARGITINVAHVEYATENRHYSHTDCPGH--------ADYIKNMITGTSQMDGAILVVAATDGAMPQTREHLLLAKQIGVT  202 (211)
Q Consensus       131 ~rg~tv~~~~~~~~~~~~~~~~iDtPG~--------~~~~~~~~~~~~~~d~~~~vvd~~~~~~~~~~~~~~~~~~~~~~  202 (211)
                      ..|.|.+..+...++.+..+.++||||+        ..+...+..++..+|++++|+|+..+....+.++++.+++.+.|
T Consensus        30 ~~g~t~d~~~~~~~~~~~~~~liDTpG~~~~~~~~~~~~~~~~~~~~~~ad~vl~vvD~~~~~~~~d~~i~~~l~~~~~p  109 (429)
T TIGR03594        30 TPGVTRDRKYGDAEWGGREFILIDTGGIEEDDDGLDKQIREQAEIAIEEADVILFVVDGREGLTPEDEEIAKWLRKSGKP  109 (429)
T ss_pred             CCCcccCceEEEEEECCeEEEEEECCCCCCcchhHHHHHHHHHHHHHhhCCEEEEEEeCCCCCCHHHHHHHHHHHHhCCC
Confidence            4567777777777888889999999997        34566788889999999999999999999999999999988988


Q ss_pred             eEEEEEeCC
Q psy9646         203 NIVVFINKF  211 (211)
Q Consensus       203 ~~i~~inK~  211 (211)
                       +++|+||+
T Consensus       110 -iilVvNK~  117 (429)
T TIGR03594       110 -VILVANKI  117 (429)
T ss_pred             -EEEEEECc
Confidence             88999996

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.

>TIGR00436 era GTP-binding protein Era

Probab=98.94  E-value=3.4e-09  Score=85.92  Aligned_cols=76  Identities=18%  Similarity=0.132  Sum_probs=56.2

Q ss_pred             eEEeEeEEEeeeCCceeEeecCCcccc--------cHhHHhhhccccceEEEEEeccCCCCcchHHHHHHHHHcCCCeEE
Q psy9646         134 ITINVAHVEYATENRHYSHTDCPGHAD--------YIKNMITGTSQMDGAILVVAATDGAMPQTREHLLLAKQIGVTNIV  205 (211)
Q Consensus       134 ~tv~~~~~~~~~~~~~~~~iDtPG~~~--------~~~~~~~~~~~~d~~~~vvd~~~~~~~~~~~~~~~~~~~~~~~~i  205 (211)
                      .|.......+...+.++.|+||||+++        +.+.+..++..+|++++|+|+....... ..++..++..+.| ++
T Consensus        34 TTr~~i~~i~~~~~~qii~vDTPG~~~~~~~l~~~~~~~~~~~l~~aDvvl~VvD~~~~~~~~-~~i~~~l~~~~~p-~i  111 (270)
T TIGR00436        34 TTRNRISGIHTTGASQIIFIDTPGFHEKKHSLNRLMMKEARSAIGGVDLILFVVDSDQWNGDG-EFVLTKLQNLKRP-VV  111 (270)
T ss_pred             cccCcEEEEEEcCCcEEEEEECcCCCCCcchHHHHHHHHHHHHHhhCCEEEEEEECCCCCchH-HHHHHHHHhcCCC-EE
Confidence            343333333445677899999999754        3456778889999999999998765443 5677777788888 77


Q ss_pred             EEEeCC
Q psy9646         206 VFINKF  211 (211)
Q Consensus       206 ~~inK~  211 (211)
                      +++||+
T Consensus       112 lV~NK~  117 (270)
T TIGR00436       112 LTRNKL  117 (270)
T ss_pred             EEEECe
Confidence            999996

Era is an essential GTPase in Escherichia coli and many other bacteria. It plays a role in ribosome biogenesis. Few bacteria lack this protein.

>COG5258 GTPBP1 GTPase [General function prediction only]

Probab=98.93  E-value=4.3e-09  Score=86.94  Aligned_cols=91  Identities=29%  Similarity=0.487  Sum_probs=79.2

Q ss_pred             ccccccchhhcccceEEeEeEEEeeeCC-----------------------ceeEeecCCcccccHhHHhhhcc--ccce
Q psy9646         120 YADIDNAPEEKARGITINVAHVEYATEN-----------------------RHYSHTDCPGHADYIKNMITGTS--QMDG  174 (211)
Q Consensus       120 ~i~~~~~~~e~~rg~tv~~~~~~~~~~~-----------------------~~~~~iDtPG~~~~~~~~~~~~~--~~d~  174 (211)
                      +.+++.++.|..||.|-++++.-|-+.+                       .-+.|+||-||+.++++++.|+-  ..|+
T Consensus       150 R~~ldv~kHEverGlsa~iS~~v~Gf~dgk~~rlknPld~aE~~~vv~~aDklVsfVDtvGHEpwLrTtirGL~gqk~dY  229 (527)
T COG5258         150 RSYLDVQKHEVERGLSADISLRVYGFDDGKVVRLKNPLDEAEKAAVVKRADKLVSFVDTVGHEPWLRTTIRGLLGQKVDY  229 (527)
T ss_pred             hhhhhhhhHHHhhccccceeEEEEEecCCceEeecCcccHHHHhHhhhhcccEEEEEecCCccHHHHHHHHHHhccccce
Confidence            4456888888889988888876655442                       45889999999999999999994  6899


Q ss_pred             EEEEEeccCCCCcchHHHHHHHHHcCCCeEEEEEeCC
Q psy9646         175 AILVVAATDGAMPQTREHLLLAKQIGVTNIVVFINKF  211 (211)
Q Consensus       175 ~~~vvd~~~~~~~~~~~~~~~~~~~~~~~~i~~inK~  211 (211)
                      .+++|.|++|++..+++|+-++...+.| +|++++|+
T Consensus       230 glLvVaAddG~~~~tkEHLgi~~a~~lP-viVvvTK~  265 (527)
T COG5258         230 GLLVVAADDGVTKMTKEHLGIALAMELP-VIVVVTKI  265 (527)
T ss_pred             EEEEEEccCCcchhhhHhhhhhhhhcCC-EEEEEEec
Confidence            9999999999999999999999999999 77999996

>PRK00093 GTP-binding protein Der; Reviewed

Probab=98.92  E-value=5.7e-09  Score=90.08  Aligned_cols=102  Identities=18%  Similarity=0.231  Sum_probs=76.6

Q ss_pred             hhhhhhhhccccccc-ccchhhcccceEEeEeEEEeeeCCceeEeecCCccccc-----------HhHHhhhccccceEE
Q psy9646         109 LADKKLAKVKQYADI-DNAPEEKARGITINVAHVEYATENRHYSHTDCPGHADY-----------IKNMITGTSQMDGAI  176 (211)
Q Consensus       109 ~~~~~~~~f~~~i~~-~~~~~e~~rg~tv~~~~~~~~~~~~~~~~iDtPG~~~~-----------~~~~~~~~~~~d~~~  176 (211)
                      .+..|++++...+.. ........++.|.+.....+...+..+.++||||+.+.           ...+..++..+|+++
T Consensus       181 ~~n~GKStlin~ll~~~~~~~~~~~gtt~~~~~~~~~~~~~~~~lvDT~G~~~~~~~~~~~e~~~~~~~~~~~~~ad~~i  260 (435)
T PRK00093        181 RPNVGKSSLINALLGEERVIVSDIAGTTRDSIDTPFERDGQKYTLIDTAGIRRKGKVTEGVEKYSVIRTLKAIERADVVL  260 (435)
T ss_pred             CCCCCHHHHHHHHhCCCceeecCCCCceEEEEEEEEEECCeeEEEEECCCCCCCcchhhHHHHHHHHHHHHHHHHCCEEE
Confidence            344555665544321 22233445678888777777788889999999996431           234567888999999


Q ss_pred             EEEeccCCCCcchHHHHHHHHHcCCCeEEEEEeCC
Q psy9646         177 LVVAATDGAMPQTREHLLLAKQIGVTNIVVFINKF  211 (211)
Q Consensus       177 ~vvd~~~~~~~~~~~~~~~~~~~~~~~~i~~inK~  211 (211)
                      +|+|+.++...++..++.++...+.| +|+++||+
T Consensus       261 lViD~~~~~~~~~~~i~~~~~~~~~~-~ivv~NK~  294 (435)
T PRK00093        261 LVIDATEGITEQDLRIAGLALEAGRA-LVIVVNKW  294 (435)
T ss_pred             EEEeCCCCCCHHHHHHHHHHHHcCCc-EEEEEECc
Confidence            99999999999999999999888988 77999996

>COG2229 Predicted GTPase [General function prediction only]

Probab=98.91  E-value=9.2e-09  Score=76.86  Aligned_cols=80  Identities=18%  Similarity=0.153  Sum_probs=69.1

Q ss_pred             ccceEEeEeEEEeeeCC-ceeEeecCCcccccHhHHhhhccccceEEEEEeccCCCCcchHHHHHHHHHcC-CCeEEEEE
Q psy9646         131 ARGITINVAHVEYATEN-RHYSHTDCPGHADYIKNMITGTSQMDGAILVVAATDGAMPQTREHLLLAKQIG-VTNIVVFI  208 (211)
Q Consensus       131 ~rg~tv~~~~~~~~~~~-~~~~~iDtPG~~~~~~~~~~~~~~~d~~~~vvd~~~~~~~~~~~~~~~~~~~~-~~~~i~~i  208 (211)
                      .|..|+...++..+..+ +.+.+.|||||.+|.-...-..+.+++++++||+..+.....+++++...... +| +++++
T Consensus        50 kr~tTva~D~g~~~~~~~~~v~LfgtPGq~RF~fm~~~l~~ga~gaivlVDss~~~~~~a~~ii~f~~~~~~ip-~vVa~  128 (187)
T COG2229          50 KRPTTVAMDFGSIELDEDTGVHLFGTPGQERFKFMWEILSRGAVGAIVLVDSSRPITFHAEEIIDFLTSRNPIP-VVVAI  128 (187)
T ss_pred             ccceeEeecccceEEcCcceEEEecCCCcHHHHHHHHHHhCCcceEEEEEecCCCcchHHHHHHHHHhhccCCC-EEEEe
Confidence            56789999999988776 89999999999998766666777899999999999998887788888888877 77 88999


Q ss_pred             eCC
Q psy9646         209 NKF  211 (211)
Q Consensus       209 nK~  211 (211)
                      ||.
T Consensus       129 NK~  131 (187)
T COG2229         129 NKQ  131 (187)
T ss_pred             ecc
Confidence            994

>cd01879 FeoB Ferrous iron transport protein B (FeoB) subfamily

Probab=98.90  E-value=4.9e-09  Score=77.41  Aligned_cols=97  Identities=15%  Similarity=0.086  Sum_probs=62.5

Q ss_pred             hhhhhcccccccccchhhcccceEEeEeEEEeeeCCceeEeecCCcccccHhH------Hhhhc--cccceEEEEEeccC
Q psy9646         112 KKLAKVKQYADIDNAPEEKARGITINVAHVEYATENRHYSHTDCPGHADYIKN------MITGT--SQMDGAILVVAATD  183 (211)
Q Consensus       112 ~~~~~f~~~i~~~~~~~e~~rg~tv~~~~~~~~~~~~~~~~iDtPG~~~~~~~------~~~~~--~~~d~~~~vvd~~~  183 (211)
                      .|++++...+.-........++.|.+.....++.++..+.++||||+.++...      ....+  ..+|++++|+|+..
T Consensus         7 ~GKssl~~~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~~~d~vi~v~d~~~   86 (158)
T cd01879           7 VGKTTLFNALTGARQKVGNWPGVTVEKKEGRFKLGGKEIEIVDLPGTYSLSPYSEDEKVARDFLLGEKPDLIVNVVDATN   86 (158)
T ss_pred             CCHHHHHHHHhcCcccccCCCCcccccceEEEeeCCeEEEEEECCCccccCCCChhHHHHHHHhcCCCCcEEEEEeeCCc
Confidence            34444444332222222334566776666677777788999999998865421      12222  58999999999976


Q ss_pred             CCCcchHHHHHHHHHcCCCeEEEEEeCC
Q psy9646         184 GAMPQTREHLLLAKQIGVTNIVVFINKF  211 (211)
Q Consensus       184 ~~~~~~~~~~~~~~~~~~~~~i~~inK~  211 (211)
                      .  ......+..+...++| +++++||+
T Consensus        87 ~--~~~~~~~~~~~~~~~~-~iiv~NK~  111 (158)
T cd01879          87 L--ERNLYLTLQLLELGLP-VVVALNMI  111 (158)
T ss_pred             c--hhHHHHHHHHHHcCCC-EEEEEehh
Confidence            3  2334455566778888 77999995

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.

>PRK00093 GTP-binding protein Der; Reviewed

Probab=98.88  E-value=7.1e-09  Score=89.49  Aligned_cols=79  Identities=18%  Similarity=0.210  Sum_probs=65.5

Q ss_pred             cceEEeEeEEEeeeCCceeEeecCCcccc--------cHhHHhhhccccceEEEEEeccCCCCcchHHHHHHHHHcCCCe
Q psy9646         132 RGITINVAHVEYATENRHYSHTDCPGHAD--------YIKNMITGTSQMDGAILVVAATDGAMPQTREHLLLAKQIGVTN  203 (211)
Q Consensus       132 rg~tv~~~~~~~~~~~~~~~~iDtPG~~~--------~~~~~~~~~~~~d~~~~vvd~~~~~~~~~~~~~~~~~~~~~~~  203 (211)
                      .+.|.+..+....+.+..+.++||||+.+        +...+..++..+|++++|+|+..+....+.++.++++..+.| 
T Consensus        33 ~~~t~d~~~~~~~~~~~~~~liDT~G~~~~~~~~~~~~~~~~~~~~~~ad~il~vvd~~~~~~~~~~~~~~~l~~~~~p-  111 (435)
T PRK00093         33 PGVTRDRIYGEAEWLGREFILIDTGGIEPDDDGFEKQIREQAELAIEEADVILFVVDGRAGLTPADEEIAKILRKSNKP-  111 (435)
T ss_pred             CCCcccceEEEEEECCcEEEEEECCCCCCcchhHHHHHHHHHHHHHHhCCEEEEEEECCCCCCHHHHHHHHHHHHcCCc-
Confidence            45566666666777788999999999987        344466788999999999999999888888888999888988 


Q ss_pred             EEEEEeCC
Q psy9646         204 IVVFINKF  211 (211)
Q Consensus       204 ~i~~inK~  211 (211)
                      +|+++||+
T Consensus       112 iilv~NK~  119 (435)
T PRK00093        112 VILVVNKV  119 (435)
T ss_pred             EEEEEECc
Confidence            88999996

>PRK00089 era GTPase Era; Reviewed

Probab=98.86  E-value=1e-08  Score=83.99  Aligned_cols=68  Identities=19%  Similarity=0.270  Sum_probs=55.8

Q ss_pred             eeeCCceeEeecCCcccc--------cHhHHhhhccccceEEEEEeccCCCCcchHHHHHHHHHcCCCeEEEEEeCC
Q psy9646         143 YATENRHYSHTDCPGHAD--------YIKNMITGTSQMDGAILVVAATDGAMPQTREHLLLAKQIGVTNIVVFINKF  211 (211)
Q Consensus       143 ~~~~~~~~~~iDtPG~~~--------~~~~~~~~~~~~d~~~~vvd~~~~~~~~~~~~~~~~~~~~~~~~i~~inK~  211 (211)
                      +..++.++.|+||||+++        +...+..++..+|++++|+|+.++....+..+++.+...+.| +++++||+
T Consensus        48 ~~~~~~qi~~iDTPG~~~~~~~l~~~~~~~~~~~~~~~D~il~vvd~~~~~~~~~~~i~~~l~~~~~p-vilVlNKi  123 (292)
T PRK00089         48 VTEDDAQIIFVDTPGIHKPKRALNRAMNKAAWSSLKDVDLVLFVVDADEKIGPGDEFILEKLKKVKTP-VILVLNKI  123 (292)
T ss_pred             EEcCCceEEEEECCCCCCchhHHHHHHHHHHHHHHhcCCEEEEEEeCCCCCChhHHHHHHHHhhcCCC-EEEEEECC
Confidence            334568999999999754        356677888999999999999987777778888888877788 77999996

>TIGR03594 GTPase_EngA ribosome-associated GTPase EngA

Probab=98.86  E-value=7.5e-09  Score=89.15  Aligned_cols=101  Identities=17%  Similarity=0.199  Sum_probs=75.0

Q ss_pred             hhhhhhhcccccccc-cchhhcccceEEeEeEEEeeeCCceeEeecCCcccccH-----------hHHhhhccccceEEE
Q psy9646         110 ADKKLAKVKQYADID-NAPEEKARGITINVAHVEYATENRHYSHTDCPGHADYI-----------KNMITGTSQMDGAIL  177 (211)
Q Consensus       110 ~~~~~~~f~~~i~~~-~~~~e~~rg~tv~~~~~~~~~~~~~~~~iDtPG~~~~~-----------~~~~~~~~~~d~~~~  177 (211)
                      +..|++++...+... ........+.|.+.....++..+..+.++||||+.++.           ..+..++..+|++++
T Consensus       181 ~~~GKSsLin~l~~~~~~~~~~~~gtt~~~~~~~~~~~~~~~~liDT~G~~~~~~~~~~~e~~~~~~~~~~~~~ad~~il  260 (429)
T TIGR03594       181 PNVGKSTLVNALLGEERVIVSDIAGTTRDSIDIPFERNGKKYLLIDTAGIRRKGKVTEGVEKYSVLRTLKAIERADVVLL  260 (429)
T ss_pred             CCCCHHHHHHHHHCCCeeecCCCCCceECcEeEEEEECCcEEEEEECCCccccccchhhHHHHHHHHHHHHHHhCCEEEE
Confidence            344555554444322 12234456777777777777788899999999975432           234567889999999


Q ss_pred             EEeccCCCCcchHHHHHHHHHcCCCeEEEEEeCC
Q psy9646         178 VVAATDGAMPQTREHLLLAKQIGVTNIVVFINKF  211 (211)
Q Consensus       178 vvd~~~~~~~~~~~~~~~~~~~~~~~~i~~inK~  211 (211)
                      |+|+.++...++.+++..+...+.| +|+++||+
T Consensus       261 V~D~~~~~~~~~~~~~~~~~~~~~~-iiiv~NK~  293 (429)
T TIGR03594       261 VLDATEGITEQDLRIAGLILEAGKA-LVIVVNKW  293 (429)
T ss_pred             EEECCCCccHHHHHHHHHHHHcCCc-EEEEEECc
Confidence            9999999999999999999888888 88999996

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.

>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=98.85  E-value=6.6e-09  Score=73.30  Aligned_cols=98  Identities=20%  Similarity=0.215  Sum_probs=66.4

Q ss_pred             hhhhhhcccccccc-cchhhcccceEEeEeEEEeeeCCceeEeecCCcccc---------cHhHHhhhccccceEEEEEe
Q psy9646         111 DKKLAKVKQYADID-NAPEEKARGITINVAHVEYATENRHYSHTDCPGHAD---------YIKNMITGTSQMDGAILVVA  180 (211)
Q Consensus       111 ~~~~~~f~~~i~~~-~~~~e~~rg~tv~~~~~~~~~~~~~~~~iDtPG~~~---------~~~~~~~~~~~~d~~~~vvd  180 (211)
                      ..|++++...+.-. ........+.|....+..++..+..+.|+||||..+         ........+..+|++++|+|
T Consensus         9 ~~GKSTlin~l~~~~~~~~~~~~~~T~~~~~~~~~~~~~~~~~vDtpG~~~~~~~~~~~~~~~~~~~~~~~~d~ii~vv~   88 (116)
T PF01926_consen    9 NVGKSTLINALTGKKLAKVSNIPGTTRDPVYGQFEYNNKKFILVDTPGINDGESQDNDGKEIRKFLEQISKSDLIIYVVD   88 (116)
T ss_dssp             TSSHHHHHHHHHTSTSSEESSSTTSSSSEEEEEEEETTEEEEEEESSSCSSSSHHHHHHHHHHHHHHHHCTESEEEEEEE
T ss_pred             CCCHHHHHHHHhccccccccccccceeeeeeeeeeeceeeEEEEeCCCCcccchhhHHHHHHHHHHHHHHHCCEEEEEEE
Confidence            34555554444321 123333445565655666777888999999999643         34456777789999999999


Q ss_pred             ccCCCCcchHHHHHHHHHcCCCeEEEEEeC
Q psy9646         181 ATDGAMPQTREHLLLAKQIGVTNIVVFINK  210 (211)
Q Consensus       181 ~~~~~~~~~~~~~~~~~~~~~~~~i~~inK  210 (211)
                      +..........+++.++ .+.| +++|+||
T Consensus        89 ~~~~~~~~~~~~~~~l~-~~~~-~i~v~NK  116 (116)
T PF01926_consen   89 ASNPITEDDKNILRELK-NKKP-IILVLNK  116 (116)
T ss_dssp             TTSHSHHHHHHHHHHHH-TTSE-EEEEEES
T ss_pred             CCCCCCHHHHHHHHHHh-cCCC-EEEEEcC
Confidence            87744455667777775 5666 8899999

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 ....

>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=98.85  E-value=6.8e-09  Score=76.98  Aligned_cols=99  Identities=17%  Similarity=0.166  Sum_probs=67.5

Q ss_pred             hhhhhhhcccccccccchhhcccceEEeEeEEEeeeCCceeEeecCCcccccH------hHHhhh--ccccceEEEEEec
Q psy9646         110 ADKKLAKVKQYADIDNAPEEKARGITINVAHVEYATENRHYSHTDCPGHADYI------KNMITG--TSQMDGAILVVAA  181 (211)
Q Consensus       110 ~~~~~~~f~~~i~~~~~~~e~~rg~tv~~~~~~~~~~~~~~~~iDtPG~~~~~------~~~~~~--~~~~d~~~~vvd~  181 (211)
                      |..|++.+-..+.-.+.....-.|.|++...+.+...+.++.|+|+||...+.      +-+...  ....|++++|+||
T Consensus         9 PNvGKStLfN~Ltg~~~~v~n~pG~Tv~~~~g~~~~~~~~~~lvDlPG~ysl~~~s~ee~v~~~~l~~~~~D~ii~VvDa   88 (156)
T PF02421_consen    9 PNVGKSTLFNALTGAKQKVGNWPGTTVEKKEGIFKLGDQQVELVDLPGIYSLSSKSEEERVARDYLLSEKPDLIIVVVDA   88 (156)
T ss_dssp             TTSSHHHHHHHHHTTSEEEEESTTSSSEEEEEEEEETTEEEEEEE----SSSSSSSHHHHHHHHHHHHTSSSEEEEEEEG
T ss_pred             CCCCHHHHHHHHHCCCceecCCCCCCeeeeeEEEEecCceEEEEECCCcccCCCCCcHHHHHHHHHhhcCCCEEEEECCC
Confidence            44555555444433334444557899999999999999999999999955431      112222  2589999999999


Q ss_pred             cCCCCcchHHHHHHHHHcCCCeEEEEEeCC
Q psy9646         182 TDGAMPQTREHLLLAKQIGVTNIVVFINKF  211 (211)
Q Consensus       182 ~~~~~~~~~~~~~~~~~~~~~~~i~~inK~  211 (211)
                      ..  ...+..++.++.++|+| +++++||+
T Consensus        89 ~~--l~r~l~l~~ql~e~g~P-~vvvlN~~  115 (156)
T PF02421_consen   89 TN--LERNLYLTLQLLELGIP-VVVVLNKM  115 (156)
T ss_dssp             GG--HHHHHHHHHHHHHTTSS-EEEEEETH
T ss_pred             CC--HHHHHHHHHHHHHcCCC-EEEEEeCH
Confidence            76  35556677888899999 88999995

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 ....

>cd03690 Tet_II Tet_II: This subfamily represents domain II of ribosomal protection proteins Tet(M) and Tet(O)

Probab=98.85  E-value=2.6e-08  Score=66.48  Aligned_cols=80  Identities=15%  Similarity=0.085  Sum_probs=64.0

Q ss_pred             CCCeeEEEeeEEeecCCcEEEEEEEEEEEEecCCEEEEeecCceeeEEEEEEEecc----eecceecccCceehhccCCC
Q psy9646          19 DKPFYLPVEHTYSIPGRGTVVTGRLERGIVKKGMECEFTGYGRQFKTTVTGIEMFH----KILDEAQAGDQLGALVKGMK   94 (211)
Q Consensus        19 ~~p~~~~v~~~~~~~~~G~v~~G~v~~G~i~~g~~v~i~p~~~~~~~~v~~i~~~~----~~~~~a~~G~~v~~~l~~~~   94 (211)
                      ++||.+.|..+.+.++.|++..+||-+|.++.|+.+.... +  .+.++.+|...+    .++++|.|||++++    ..
T Consensus         1 ~~p~~~~Vfkv~~d~~~G~la~~RV~sG~l~~g~~v~~~~-~--~~~~v~~l~~~~g~~~~~v~~~~aGdI~ai----~g   73 (85)
T cd03690           1 ESELSGTVFKIERDDKGERLAYLRLYSGTLRLRDSVRVNR-E--EKIKITELRVFNNGEVVTADTVTAGDIAIL----TG   73 (85)
T ss_pred             CCCcEEEEEEeEECCCCCeEEEEEEccCEEcCCCEEEeCC-C--cEEEeceeEEEeCCCeEECcEECCCCEEEE----EC
Confidence            4689999999999999999999999999999999997644 2  244566775554    58899999999987    23


Q ss_pred             ccccccccccc
Q psy9646          95 RDEVNRGLIMA  105 (211)
Q Consensus        95 ~~~v~~G~ii~  105 (211)
                      ..++..|++++
T Consensus        74 l~~~~~Gdtl~   84 (85)
T cd03690          74 LKGLRVGDVLG   84 (85)
T ss_pred             CCCCcCccccC
Confidence            45677887764

This domain has homology to domain II of the elongation factors EF-G and EF-2. Tet(M) and Tet(O) catalyze the release of tetracycline (Tc) from the ribosome in a GTP-dependent manner thereby mediating Tc resistance. Tcs are broad-spectrum antibiotics. Typical Tcs bind to the ribosome and inhibit the elongation phase of protein synthesis, by inhibiting the occupation of site A by aminoacyl-tRNA.

>PRK03003 GTP-binding protein Der; Reviewed

Probab=98.84  E-value=1.4e-08  Score=88.65  Aligned_cols=103  Identities=17%  Similarity=0.156  Sum_probs=76.2

Q ss_pred             chhhhhhhhccccccccc-chhhcccceEEeEeEEEeeeCCceeEeecCCcccc--------cHhHHhhhccccceEEEE
Q psy9646         108 VLADKKLAKVKQYADIDN-APEEKARGITINVAHVEYATENRHYSHTDCPGHAD--------YIKNMITGTSQMDGAILV  178 (211)
Q Consensus       108 ~~~~~~~~~f~~~i~~~~-~~~e~~rg~tv~~~~~~~~~~~~~~~~iDtPG~~~--------~~~~~~~~~~~~d~~~~v  178 (211)
                      +.+..|++++..++.-.. .......|.|.+..+...++.+..+.++||||+..        +...+..++..+|++++|
T Consensus        45 G~~nvGKSSL~nrl~~~~~~~v~~~~gvT~d~~~~~~~~~~~~~~l~DT~G~~~~~~~~~~~~~~~~~~~~~~aD~il~V  124 (472)
T PRK03003         45 GRPNVGKSTLVNRILGRREAVVEDVPGVTRDRVSYDAEWNGRRFTVVDTGGWEPDAKGLQASVAEQAEVAMRTADAVLFV  124 (472)
T ss_pred             cCCCCCHHHHHHHHhCcCcccccCCCCCCEeeEEEEEEECCcEEEEEeCCCcCCcchhHHHHHHHHHHHHHHhCCEEEEE
Confidence            334456666554443211 12234556777777777778888999999999763        445566788999999999


Q ss_pred             EeccCCCCcchHHHHHHHHHcCCCeEEEEEeCC
Q psy9646         179 VAATDGAMPQTREHLLLAKQIGVTNIVVFINKF  211 (211)
Q Consensus       179 vd~~~~~~~~~~~~~~~~~~~~~~~~i~~inK~  211 (211)
                      +|+..+....+..++..++..+.| +|+|+||+
T Consensus       125 vD~~~~~s~~~~~i~~~l~~~~~p-iilV~NK~  156 (472)
T PRK03003        125 VDATVGATATDEAVARVLRRSGKP-VILAANKV  156 (472)
T ss_pred             EECCCCCCHHHHHHHHHHHHcCCC-EEEEEECc
Confidence            999999887778888888888888 88999996

>KOG0466|consensus

Probab=98.84  E-value=2.9e-09  Score=85.53  Aligned_cols=90  Identities=32%  Similarity=0.548  Sum_probs=75.0

Q ss_pred             ccccchhhcccceEEeEeEEEeee---C----------------------------------CceeEeecCCcccccHhH
Q psy9646         122 DIDNAPEEKARGITINVAHVEYAT---E----------------------------------NRHYSHTDCPGHADYIKN  164 (211)
Q Consensus       122 ~~~~~~~e~~rg~tv~~~~~~~~~---~----------------------------------~~~~~~iDtPG~~~~~~~  164 (211)
                      .+...+.|..|++|+.+.|.....   +                                  -+++.|+|+|||.-++.+
T Consensus        62 ~TvrFK~ELERNITIKLGYANAKIYkc~~~kCprP~cy~s~gS~k~d~~~c~~~g~~~~~klvRHVSfVDCPGHDiLMaT  141 (466)
T KOG0466|consen   62 HTVRFKNELERNITIKLGYANAKIYKCDDPKCPRPGCYRSFGSSKEDRPPCDRPGCEGKMKLVRHVSFVDCPGHDILMAT  141 (466)
T ss_pred             eEEEehhhhhcceeEEeccccceEEecCCCCCCCcchhhccCCCCCCCCCcccCCCCCceEEEEEEEeccCCchHHHHHH
Confidence            356677788888888887655331   0                                  046899999999999999


Q ss_pred             HhhhccccceEEEEEeccCC-CCcchHHHHHHHHHcCCCeEEEEEeCC
Q psy9646         165 MITGTSQMDGAILVVAATDG-AMPQTREHLLLAKQIGVTNIVVFINKF  211 (211)
Q Consensus       165 ~~~~~~~~d~~~~vvd~~~~-~~~~~~~~~~~~~~~~~~~~i~~inK~  211 (211)
                      |+.|.+..|++++++.+++. +.+||.+|+....-...++++++-||+
T Consensus       142 MLnGaAvmDaalLlIA~NEsCPQPQTsEHLaaveiM~LkhiiilQNKi  189 (466)
T KOG0466|consen  142 MLNGAAVMDAALLLIAGNESCPQPQTSEHLAAVEIMKLKHIIILQNKI  189 (466)
T ss_pred             HhcchHHhhhhhhhhhcCCCCCCCchhhHHHHHHHhhhceEEEEechh
Confidence            99999999999999999865 679999999988888999999999996

>PRK12298 obgE GTPase CgtA; Reviewed

Probab=98.83  E-value=3.1e-08  Score=84.12  Aligned_cols=164  Identities=9%  Similarity=0.053  Sum_probs=93.5

Q ss_pred             EEEEEEEEecCCEEEEeecCcee---eEEEEEEEecceecceecccCceehhccCCCcccccccccccccchhhhhhhhc
Q psy9646          41 GRLERGIVKKGMECEFTGYGRQF---KTTVTGIEMFHKILDEAQAGDQLGALVKGMKRDEVNRGLIMAKPVLADKKLAKV  117 (211)
Q Consensus        41 G~v~~G~i~~g~~v~i~p~~~~~---~~~v~~i~~~~~~~~~a~~G~~v~~~l~~~~~~~v~~G~ii~~~~~~~~~~~~f  117 (211)
                      |++..--.+.|+++.++..|.--   ..-.++........+...+|+...+.|. +. .-...+.    -..+..+++++
T Consensus       102 ~~~~~d~~~~~~~~~~a~GG~gG~gn~~f~~~~~~~p~~~~~g~~g~~~~~~le-lk-~iadVal----VG~PNaGKSTL  175 (390)
T PRK12298        102 GEVIGDLTEHGQRLLVAKGGWHGLGNTRFKSSVNRAPRQKTPGTPGEERELKLE-LK-LLADVGL----LGLPNAGKSTF  175 (390)
T ss_pred             CcEEEEeccCCcEEEEecCCCCccchhhhccCccCCCcccCCCCCCceEEEEEe-ee-ccccEEE----EcCCCCCHHHH
Confidence            45555566788888886655200   0111122222233445667777666444 11 0011111    23345566666


Q ss_pred             ccccccccchhhcccceEEeEeEEEeeeCCc-eeEeecCCcccc-------cHhHHhhhccccceEEEEEeccC----CC
Q psy9646         118 KQYADIDNAPEEKARGITINVAHVEYATENR-HYSHTDCPGHAD-------YIKNMITGTSQMDGAILVVAATD----GA  185 (211)
Q Consensus       118 ~~~i~~~~~~~e~~rg~tv~~~~~~~~~~~~-~~~~iDtPG~~~-------~~~~~~~~~~~~d~~~~vvd~~~----~~  185 (211)
                      ...+.-...........|.......+...+. +++|+||||..+       +...+...++.+|++++|+|+..    ..
T Consensus       176 ln~Lt~~k~~vs~~p~TT~~p~~Giv~~~~~~~i~~vDtPGi~~~a~~~~~Lg~~~l~~i~radvlL~VVD~s~~~~~d~  255 (390)
T PRK12298        176 IRAVSAAKPKVADYPFTTLVPNLGVVRVDDERSFVVADIPGLIEGASEGAGLGIRFLKHLERCRVLLHLIDIAPIDGSDP  255 (390)
T ss_pred             HHHHhCCcccccCCCCCccCcEEEEEEeCCCcEEEEEeCCCccccccchhhHHHHHHHHHHhCCEEEEEeccCcccccCh
Confidence            5555322223333445676667777777654 599999999753       45567788999999999999862    22


Q ss_pred             CcchHHHHHHHHHc-----CCCeEEEEEeCC
Q psy9646         186 MPQTREHLLLAKQI-----GVTNIVVFINKF  211 (211)
Q Consensus       186 ~~~~~~~~~~~~~~-----~~~~~i~~inK~  211 (211)
                      ..+...+.+.+...     +.| +|+++||+
T Consensus       256 ~e~~~~l~~eL~~~~~~L~~kP-~IlVlNKi  285 (390)
T PRK12298        256 VENARIIINELEKYSPKLAEKP-RWLVFNKI  285 (390)
T ss_pred             HHHHHHHHHHHHhhhhhhcCCC-EEEEEeCC
Confidence            23334455555543     466 77899996

>PRK09518 bifunctional cytidylate kinase/GTPase Der; Reviewed

Probab=98.80  E-value=2.3e-08  Score=91.29  Aligned_cols=102  Identities=15%  Similarity=0.161  Sum_probs=77.2

Q ss_pred             hhhhhhhhcccccccc-cchhhcccceEEeEeEEEeeeCCceeEeecCCcccc--------cHhHHhhhccccceEEEEE
Q psy9646         109 LADKKLAKVKQYADID-NAPEEKARGITINVAHVEYATENRHYSHTDCPGHAD--------YIKNMITGTSQMDGAILVV  179 (211)
Q Consensus       109 ~~~~~~~~f~~~i~~~-~~~~e~~rg~tv~~~~~~~~~~~~~~~~iDtPG~~~--------~~~~~~~~~~~~d~~~~vv  179 (211)
                      .+..|++++...+.-. ....+...|.|.+..+...++.+.++.++||||+..        +..++..++..+|++++|+
T Consensus       283 ~~nvGKSSL~n~l~~~~~~iv~~~pGvT~d~~~~~~~~~~~~~~liDT~G~~~~~~~~~~~~~~~~~~~~~~aD~iL~Vv  362 (712)
T PRK09518        283 RPNVGKSTLVNRILGRREAVVEDTPGVTRDRVSYDAEWAGTDFKLVDTGGWEADVEGIDSAIASQAQIAVSLADAVVFVV  362 (712)
T ss_pred             CCCCCHHHHHHHHhCCCceeecCCCCeeEEEEEEEEEECCEEEEEEeCCCcCCCCccHHHHHHHHHHHHHHhCCEEEEEE
Confidence            3445666654433211 112233557777777777788888999999999763        5667778899999999999


Q ss_pred             eccCCCCcchHHHHHHHHHcCCCeEEEEEeCC
Q psy9646         180 AATDGAMPQTREHLLLAKQIGVTNIVVFINKF  211 (211)
Q Consensus       180 d~~~~~~~~~~~~~~~~~~~~~~~~i~~inK~  211 (211)
                      |+.++....+..+++.++..+.| +|+|+||+
T Consensus       363 Da~~~~~~~d~~i~~~Lr~~~~p-vIlV~NK~  393 (712)
T PRK09518        363 DGQVGLTSTDERIVRMLRRAGKP-VVLAVNKI  393 (712)
T ss_pred             ECCCCCCHHHHHHHHHHHhcCCC-EEEEEECc
Confidence            99999988888898999888988 88999996

>cd01895 EngA2 EngA2 subfamily

Probab=98.78  E-value=3.3e-08  Score=73.75  Aligned_cols=79  Identities=23%  Similarity=0.326  Sum_probs=59.0

Q ss_pred             cceEEeEeEEEeeeCCceeEeecCCcccccH-----------hHHhhhccccceEEEEEeccCCCCcchHHHHHHHHHcC
Q psy9646         132 RGITINVAHVEYATENRHYSHTDCPGHADYI-----------KNMITGTSQMDGAILVVAATDGAMPQTREHLLLAKQIG  200 (211)
Q Consensus       132 rg~tv~~~~~~~~~~~~~~~~iDtPG~~~~~-----------~~~~~~~~~~d~~~~vvd~~~~~~~~~~~~~~~~~~~~  200 (211)
                      ++.+.......+...+..+.++||||+.++.           ..+...+..+|++++|+|+..+...+...+++.+...+
T Consensus        34 ~~~~~~~~~~~~~~~~~~~~iiDtpG~~~~~~~~~~~e~~~~~~~~~~~~~~d~vi~v~d~~~~~~~~~~~~~~~~~~~~  113 (174)
T cd01895          34 AGTTRDSIDVPFEYDGKKYTLIDTAGIRRKGKVEEGIEKYSVLRTLKAIERADVVLLVIDATEGITEQDLRIAGLILEEG  113 (174)
T ss_pred             CCCccCceeeEEEECCeeEEEEECCCCccccchhccHHHHHHHHHHHHHhhcCeEEEEEeCCCCcchhHHHHHHHHHhcC
Confidence            3444444445556677789999999975431           23455678999999999999888877777778877778


Q ss_pred             CCeEEEEEeCC
Q psy9646         201 VTNIVVFINKF  211 (211)
Q Consensus       201 ~~~~i~~inK~  211 (211)
                      .| +++++||+
T Consensus       114 ~~-~iiv~nK~  123 (174)
T cd01895         114 KA-LVIVVNKW  123 (174)
T ss_pred             CC-EEEEEecc
Confidence            77 77899996

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.

>TIGR00487 IF-2 translation initiation factor IF-2

Probab=98.77  E-value=2.1e-07  Score=82.85  Aligned_cols=97  Identities=21%  Similarity=0.140  Sum_probs=75.0

Q ss_pred             hHHHHHhhh--CCCCCCCCCCCeeEEEeeEEeecCCcEEEEEEEEEEEEecCCEEEEeecCceeeEEEEEEEec-ceecc
Q psy9646           2 ELLNQIDTY--IPQPVRDLDKPFYLPVEHTYSIPGRGTVVTGRLERGIVKKGMECEFTGYGRQFKTTVTGIEMF-HKILD   78 (211)
Q Consensus         2 ~ll~~l~~~--i~~p~~~~~~p~~~~v~~~~~~~~~G~v~~G~v~~G~i~~g~~v~i~p~~~~~~~~v~~i~~~-~~~~~   78 (211)
                      +|+++|...  +..+..+.+.|++++|.+++..++.|++++|+|.+|++++||.+.+.|.    ..+|++++.. .+.++
T Consensus       240 eLl~~I~~~~~~~~l~~~~~~~~~~~V~ev~~~~g~G~v~~~~V~~GtL~~Gd~iv~~~~----~~kVr~l~~~~g~~v~  315 (587)
T TIGR00487       240 ELLDMILLQSEVEELKANPNGQASGVVIEAQLDKGRGPVATVLVQSGTLRVGDIVVVGAA----YGRVRAMIDENGKSVK  315 (587)
T ss_pred             HHHHhhhhhhhhccccCCCCCCceeEEEEEEEeCCCcEEEEEEEEeCEEeCCCEEEECCC----ccEEEEEECCCCCCCC
Confidence            355555331  2223345668999999999999999999999999999999999999885    5789999984 47899


Q ss_pred             eecccCceehhccCCCcccc-cccccccc
Q psy9646          79 EAQAGDQLGALVKGMKRDEV-NRGLIMAK  106 (211)
Q Consensus        79 ~a~~G~~v~~~l~~~~~~~v-~~G~ii~~  106 (211)
                      +|.||+.|.+.  ++  .++ ..|+.+..
T Consensus       316 ~a~~g~~v~i~--Gl--~~~p~aGd~~~~  340 (587)
T TIGR00487       316 EAGPSKPVEIL--GL--SDVPAAGDEFIV  340 (587)
T ss_pred             EECCCCEEEEe--CC--CCCCCCCCEEEE
Confidence            99999999863  32  233 66877763

This model discriminates eubacterial (and mitochondrial) translation initiation factor 2 (IF-2), encoded by the infB gene in bacteria, from similar proteins in the Archaea and Eukaryotes. In the bacteria and in organelles, the initiator tRNA is charged with N-formyl-Met instead of Met. This translation factor acts in delivering the initator tRNA to the ribosome. It is one of a number of GTP-binding translation factors recognized by the pfam model GTP_EFTU.

>PRK09866 hypothetical protein; Provisional

Probab=98.76  E-value=1.9e-08  Score=88.69  Aligned_cols=64  Identities=19%  Similarity=0.217  Sum_probs=55.3

Q ss_pred             CceeEeecCCcccc-----cHhHHhhhccccceEEEEEeccCCCCcchHHHHHHHHHcCC--CeEEEEEeCC
Q psy9646         147 NRHYSHTDCPGHAD-----YIKNMITGTSQMDGAILVVAATDGAMPQTREHLLLAKQIGV--TNIVVFINKF  211 (211)
Q Consensus       147 ~~~~~~iDtPG~~~-----~~~~~~~~~~~~d~~~~vvd~~~~~~~~~~~~~~~~~~~~~--~~~i~~inK~  211 (211)
                      ..|++|+||||.+.     +.+.|..++..+|+++||+|+..+....++.+++.++..+.  | +|+++||+
T Consensus       229 ~~QIIFVDTPGIhk~~~~~L~k~M~eqL~eADvVLFVVDat~~~s~~DeeIlk~Lkk~~K~~P-VILVVNKI  299 (741)
T PRK09866        229 PGQLTLLDTPGPNEAGQPHLQKMLNQQLARASAVLAVLDYTQLKSISDEEVREAILAVGQSVP-LYVLVNKF  299 (741)
T ss_pred             cCCEEEEECCCCCCccchHHHHHHHHHHhhCCEEEEEEeCCCCCChhHHHHHHHHHhcCCCCC-EEEEEEcc
Confidence            47999999999754     45668889999999999999998888888899999988774  6 88999996

>cd03691 BipA_TypA_II BipA_TypA_II: domain II of BipA (also called TypA) having homology to domain II of the elongation factors (EFs) EF-G and EF-Tu

Probab=98.76  E-value=1.1e-07  Score=63.47  Aligned_cols=80  Identities=25%  Similarity=0.326  Sum_probs=61.6

Q ss_pred             eeEEEeeEEeecCCcEEEEEEEEEEEEecCCEEEEeec-CceeeEEEEEEEecc----eecceecccCceehhccCCCcc
Q psy9646          22 FYLPVEHTYSIPGRGTVVTGRLERGIVKKGMECEFTGY-GRQFKTTVTGIEMFH----KILDEAQAGDQLGALVKGMKRD   96 (211)
Q Consensus        22 ~~~~v~~~~~~~~~G~v~~G~v~~G~i~~g~~v~i~p~-~~~~~~~v~~i~~~~----~~~~~a~~G~~v~~~l~~~~~~   96 (211)
                      |+|.|..+...++.|++..+||.+|.+++||+|.+... ++..+.+|.++....    .+++++.|||.+.+  .+  ..
T Consensus         1 ~~~~vfk~~~d~~~g~i~~~Rv~sG~l~~g~~v~~~~~~~~~~~~~v~~l~~~~g~~~~~v~~~~aG~I~~i--~g--l~   76 (86)
T cd03691           1 LQMLVTTLDYDDYVGRIAIGRIFRGTVKVGQQVAVVKRDGKIEKAKITKLFGFEGLKRVEVEEAEAGDIVAI--AG--IE   76 (86)
T ss_pred             CeEEEEEeEecCCCCeEEEEEEEeCEEcCCCEEEEEcCCCCEEEEEEeeEeeeeCCCeeECcEECCCCEEEE--EC--CC
Confidence            68899999999999999999999999999999987554 212245677774333    68999999999865  33  34


Q ss_pred             ccccccccc
Q psy9646          97 EVNRGLIMA  105 (211)
Q Consensus        97 ~v~~G~ii~  105 (211)
                      ++..|++++
T Consensus        77 ~~~~Gdtl~   85 (86)
T cd03691          77 DITIGDTIC   85 (86)
T ss_pred             CCcccceec
Confidence            677887764

BipA is a highly conserved protein with global regulatory properties in Escherichia coli. BipA is phosphorylated on a tyrosine residue under some cellular conditions. Mutants show altered regulation of some pathways. BipA functions as a translation factor that is required specifically for the expression of the transcriptional modulator Fis. BipA binds to ribosomes at a site that coincides with that of EF-G and has a GTPase activity that is sensitive to high GDP:GTP ratios and, is stimulated by 70S ribosomes programmed with mRNA and aminoacylated tRNAs. The growth rate-dependent induction of BipA allows the efficient expression of Fis, thereby modulating a range of downstream processes, including DNA metabolism and type III secretion.

>TIGR00490 aEF-2 translation elongation factor aEF-2

Probab=98.74  E-value=7.5e-08  Score=87.95  Aligned_cols=101  Identities=23%  Similarity=0.379  Sum_probs=81.8

Q ss_pred             hHHHHHhhhCCCCCC-------------------------CCCCCeeEEEeeEEeecCCcEEEEEEEEEEEEecCCEEEE
Q psy9646           2 ELLNQIDTYIPQPVR-------------------------DLDKPFYLPVEHTYSIPGRGTVVTGRLERGIVKKGMECEF   56 (211)
Q Consensus         2 ~ll~~l~~~i~~p~~-------------------------~~~~p~~~~v~~~~~~~~~G~v~~G~v~~G~i~~g~~v~i   56 (211)
                      .||++|..++|.|..                         +.++||...|..+...++.|++..|||.+|.+++||.|.+
T Consensus       245 ~Lld~i~~~lPsP~~~~~~~~~~~~~~~~~~~~~~~~~~~d~~~pl~a~VfK~~~~~~~G~ia~~RV~sGtL~~G~~l~~  324 (720)
T TIGR00490       245 VVLDMVIRHLPSPIEAQKYRIPVIWKGDLNSEVGKAMLNCDPKGPLALMITKIVVDKHAGEVAVGRLYSGTIRPGMEVYI  324 (720)
T ss_pred             HHHHHHHHhCCChhhhhhhcccccccCCCCccchhhcccCCCCCCeEEEEEEEEecCCCcEEEEEEEEeCEEcCCCEEEE
Confidence            478899888887731                         2256899999999988999999999999999999999999


Q ss_pred             eecCceeeEEEEEEEecc----eecceecccCceehhccCCCcccccccccccccc
Q psy9646          57 TGYGRQFKTTVTGIEMFH----KILDEAQAGDQLGALVKGMKRDEVNRGLIMAKPV  108 (211)
Q Consensus        57 ~p~~~~~~~~v~~i~~~~----~~~~~a~~G~~v~~~l~~~~~~~v~~G~ii~~~~  108 (211)
                      .+.+.  +.+|..|....    .++++|.|||++++  .+  ..++.+|++++...
T Consensus       325 ~~~~~--~~kv~~l~~~~g~~~~~v~~a~aGdIv~i--~g--l~~~~~GdtL~~~~  374 (720)
T TIGR00490       325 VDRKA--KARIQQVGVYMGPERVEVDEIPAGNIVAV--IG--LKDAVAGETICTTV  374 (720)
T ss_pred             cCCCC--eeEeeEEEEeccCCccCccEECCCCEEEE--EC--ccccccCceeecCC
Confidence            88864  67788887653    58999999999987  33  33667899987543

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.

>cd04092 mtEFG2_II_like mtEFG2_C: C-terminus of mitochondrial Elongation factor G2 (mtEFG2)-like proteins found in eukaryotes

Probab=98.73  E-value=8.2e-08  Score=63.76  Aligned_cols=77  Identities=18%  Similarity=0.182  Sum_probs=59.8

Q ss_pred             eEEEeeEEeecCCcEEEEEEEEEEEEecCCEEEEeecCceeeEEEEEEEecc----eecceecccCceehhccCCCcccc
Q psy9646          23 YLPVEHTYSIPGRGTVVTGRLERGIVKKGMECEFTGYGRQFKTTVTGIEMFH----KILDEAQAGDQLGALVKGMKRDEV   98 (211)
Q Consensus        23 ~~~v~~~~~~~~~G~v~~G~v~~G~i~~g~~v~i~p~~~~~~~~v~~i~~~~----~~~~~a~~G~~v~~~l~~~~~~~v   98 (211)
                      ...|..++..++.|.+..+||.+|.+++||.|.....++  +.++.+|...+    .++++|.|||++.+  .+  .+++
T Consensus         2 ~a~VfK~~~d~~~g~i~~~Ri~sGtl~~g~~v~~~~~~~--~~~v~~l~~~~g~~~~~v~~~~aGdI~~i--~g--l~~~   75 (83)
T cd04092           2 CALAFKVVHDPQRGPLTFVRVYSGTLKRGSALYNTNTGK--KERISRLLQPFADQYQEIPSLSAGNIGVI--TG--LKQT   75 (83)
T ss_pred             EEEEEecccCCCCCeEEEEEEecCEECCCCEEEECCCCC--EEEeeEEEEEECCCceECCeeCCCCEEEE--EC--CCCc
Confidence            345667777788999999999999999999998765543  45666775443    68999999999986  33  3568


Q ss_pred             ccccccc
Q psy9646          99 NRGLIMA  105 (211)
Q Consensus        99 ~~G~ii~  105 (211)
                      ..|++++
T Consensus        76 ~~Gdtl~   82 (83)
T cd04092          76 RTGDTLV   82 (83)
T ss_pred             ccCCEEe
Confidence            8888876

Eukaryotic cells harbor 2 protein synthesis systems: one localized in the cytoplasm, the other in the mitochondria. Most factors regulating mitochondrial protein synthesis are encoded by nuclear genes, translated in the cytoplasm, and then transported to the mitochondria. The eukaryotic system of elongation factor (EF) components is more complex than that in prokaryotes, with both cytoplasmic and mitochondrial elongation factors and multiple isoforms being expressed in certain species. Eukaryotic EF-2 operates in the cytosolic protein synthesis machinery of eukaryotes, EF-Gs in protein synthesis in bacteria. Eukaryotic mtEFG1 proteins show significant homology to bacterial EF-Gs. No clear phenotype has been found for mutants in the yeast homologue of mtEFG2, MEF2. There are two forms of mtEFG present in mammals (designated mtEFG1s and mtEFG2s) mtEFG1s are n

>PRK07560 elongation factor EF-2; Reviewed

Probab=98.72  E-value=6.9e-08  Score=88.38  Aligned_cols=100  Identities=24%  Similarity=0.441  Sum_probs=81.5

Q ss_pred             hHHHHHhhhCCCCCC-------------------------CCCCCeeEEEeeEEeecCCcEEEEEEEEEEEEecCCEEEE
Q psy9646           2 ELLNQIDTYIPQPVR-------------------------DLDKPFYLPVEHTYSIPGRGTVVTGRLERGIVKKGMECEF   56 (211)
Q Consensus         2 ~ll~~l~~~i~~p~~-------------------------~~~~p~~~~v~~~~~~~~~G~v~~G~v~~G~i~~g~~v~i   56 (211)
                      .||+++.+++|.|..                         +.++||.+.|..++..++.|++..|||.+|++++||.|.+
T Consensus       246 ~Lld~I~~~lPsP~~~~~~~~~~~~~~~~~~~~~~~~~~~d~~~p~~a~VfK~~~d~~~G~va~~RV~sGtL~~Gd~v~~  325 (731)
T PRK07560        246 VVLDMVVKHLPNPIEAQKYRIPKIWKGDLNSEVGKAMLNCDPNGPLVMMVTDIIVDPHAGEVATGRVFSGTLRKGQEVYL  325 (731)
T ss_pred             HHHHHHHHhCCChhhhhhhcccccccCCCCccccceeeccCCCCCEEEEEEeeEEcCCCCeEEEEEEEEeEEcCCCEEEE
Confidence            588999998887741                         2356899999999999999999999999999999999999


Q ss_pred             eecCceeeEEEEEEEec----ceecceecccCceehhccCCCccccccccccccc
Q psy9646          57 TGYGRQFKTTVTGIEMF----HKILDEAQAGDQLGALVKGMKRDEVNRGLIMAKP  107 (211)
Q Consensus        57 ~p~~~~~~~~v~~i~~~----~~~~~~a~~G~~v~~~l~~~~~~~v~~G~ii~~~  107 (211)
                      .+.+.  +.+|.+|...    ..++++|.|||++++  .+  ..+...|++++..
T Consensus       326 ~~~~~--~~~v~~i~~~~g~~~~~v~~a~AGdIv~i--~g--l~~~~~GdtL~~~  374 (731)
T PRK07560        326 VGAKK--KNRVQQVGIYMGPEREEVEEIPAGNIAAV--TG--LKDARAGETVVSV  374 (731)
T ss_pred             cCCCC--ceEeheehhhhcCCCceeeeECCCCEEEE--Ec--ccccccCCEEeCC
Confidence            88764  5678888655    368999999999997  23  3456789888754

>COG1160 Predicted GTPases [General function prediction only]

Probab=98.71  E-value=4.9e-08  Score=82.60  Aligned_cols=101  Identities=21%  Similarity=0.302  Sum_probs=79.3

Q ss_pred             hhhhhhhcccccccc-cchhhcccceEEeEeEEEeeeCCceeEeecCCcccc----------c-HhHHhhhccccceEEE
Q psy9646         110 ADKKLAKVKQYADID-NAPEEKARGITINVAHVEYATENRHYSHTDCPGHAD----------Y-IKNMITGTSQMDGAIL  177 (211)
Q Consensus       110 ~~~~~~~f~~~i~~~-~~~~e~~rg~tv~~~~~~~~~~~~~~~~iDtPG~~~----------~-~~~~~~~~~~~d~~~~  177 (211)
                      |..+++++...+.-. ..=.....|+|.+.-...+++++..+.++||.|.+.          | +..+..++..+|.+++
T Consensus       187 PNvGKSsLiN~ilgeeR~Iv~~~aGTTRD~I~~~~e~~~~~~~liDTAGiRrk~ki~e~~E~~Sv~rt~~aI~~a~vvll  266 (444)
T COG1160         187 PNVGKSSLINAILGEERVIVSDIAGTTRDSIDIEFERDGRKYVLIDTAGIRRKGKITESVEKYSVARTLKAIERADVVLL  266 (444)
T ss_pred             CCCCchHHHHHhccCceEEecCCCCccccceeeeEEECCeEEEEEECCCCCcccccccceEEEeehhhHhHHhhcCEEEE
Confidence            344555554444211 112233557899988999999999999999999653          2 3557789999999999


Q ss_pred             EEeccCCCCcchHHHHHHHHHcCCCeEEEEEeCC
Q psy9646         178 VVAATDGAMPQTREHLLLAKQIGVTNIVVFINKF  211 (211)
Q Consensus       178 vvd~~~~~~~~~~~~~~~~~~~~~~~~i~~inK~  211 (211)
                      |+||.+|...|+..++.++.+.|.+ +|+++||.
T Consensus       267 viDa~~~~~~qD~~ia~~i~~~g~~-~vIvvNKW  299 (444)
T COG1160         267 VIDATEGISEQDLRIAGLIEEAGRG-IVIVVNKW  299 (444)
T ss_pred             EEECCCCchHHHHHHHHHHHHcCCC-eEEEEEcc
Confidence            9999999999999999999999988 77899995

>cd04088 EFG_mtEFG_II EFG_mtEFG_II: this subfamily represents the domain II of elongation factor G (EF-G) in bacteria and, the C-terminus of mitochondrial Elongation factor G1 (mtEFG1) and G2 (mtEFG2)_like proteins found in eukaryotes

Probab=98.69  E-value=1.5e-07  Score=62.46  Aligned_cols=77  Identities=25%  Similarity=0.233  Sum_probs=60.0

Q ss_pred             eEEEeeEEeecCCcEEEEEEEEEEEEecCCEEEEeecCceeeEEEEEEEecc----eecceecccCceehhccCCCcccc
Q psy9646          23 YLPVEHTYSIPGRGTVVTGRLERGIVKKGMECEFTGYGRQFKTTVTGIEMFH----KILDEAQAGDQLGALVKGMKRDEV   98 (211)
Q Consensus        23 ~~~v~~~~~~~~~G~v~~G~v~~G~i~~g~~v~i~p~~~~~~~~v~~i~~~~----~~~~~a~~G~~v~~~l~~~~~~~v   98 (211)
                      ...|..+.+.++.|++..+||.+|.+++||.+.....++  ..++.+|....    .+++++.|||++.+  .+  ..++
T Consensus         2 ~a~Vfk~~~d~~~G~~~~~Rv~sG~l~~g~~v~~~~~~~--~~~v~~l~~~~g~~~~~v~~~~aGdI~~i--~g--~~~~   75 (83)
T cd04088           2 VALVFKTIHDPFVGKLSFVRVYSGTLKAGSTLYNSTKGK--KERVGRLLRMHGKKQEEVEEAGAGDIGAV--AG--LKDT   75 (83)
T ss_pred             EEEEEEcccCCCCceEEEEEEecCEEcCCCEEEECCCCc--EEEeeEEEEEcCCCceECCEeCCCCEEEE--EC--CCCC
Confidence            345677777788999999999999999999998876543  55677775443    68899999999987  33  3457


Q ss_pred             ccccccc
Q psy9646          99 NRGLIMA  105 (211)
Q Consensus        99 ~~G~ii~  105 (211)
                      +.|++++
T Consensus        76 ~~Gdtl~   82 (83)
T cd04088          76 ATGDTLC   82 (83)
T ss_pred             ccCCEee
Confidence            7888764

During the process of peptide synthesis and tRNA site changes, the ribosome is moved along the mRNA a distance equal to one codon with the addition of each amino acid. In bacteria this translocation step is catalyzed by EF-G_GTP, which is hydrolyzed to provide the required energy. Thus, this action releases the uncharged tRNA from the P site and transfers the newly formed peptidyl-tRNA from the A site to the P site. Eukaryotic cells harbor 2 protein synthesis systems: one localized in the cytoplasm, the other in the mitochondria. Most factors regulating mitochondrial protein synthesis are encoded by nuclear genes, translated in the cytoplasm, and then transported to the mitochondria. The eukaryotic system of elongation factor (EF) components is more compl

>cd03699 lepA_II lepA_II: This subfamily represents the domain II of LepA, a GTP-binding protein localized in the cytoplasmic membrane

Probab=98.68  E-value=1.9e-07  Score=62.40  Aligned_cols=81  Identities=22%  Similarity=0.321  Sum_probs=61.2

Q ss_pred             eeEEEeeEEeecCCcEEEEEEEEEEEEecCCEEEEeecCceeeEEEEEEEecc---eecceecccCceehhccCC-Cccc
Q psy9646          22 FYLPVEHTYSIPGRGTVVTGRLERGIVKKGMECEFTGYGRQFKTTVTGIEMFH---KILDEAQAGDQLGALVKGM-KRDE   97 (211)
Q Consensus        22 ~~~~v~~~~~~~~~G~v~~G~v~~G~i~~g~~v~i~p~~~~~~~~v~~i~~~~---~~~~~a~~G~~v~~~l~~~-~~~~   97 (211)
                      |.+.|..+.+.++.|++..+||.+|.++.|+.+.....++  +.++..+....   .+++++.|||++.+. .++ +..+
T Consensus         1 ~~~~Vfk~~~d~~~G~i~~~Rv~sG~l~~~~~v~~~~~~~--~~~i~~l~~~~~~~~~~~~~~aGdI~~v~-~g~~~l~~   77 (86)
T cd03699           1 LRALIFDSWYDPYRGVIALVRVFDGTLKKGDKIRFMSTGK--EYEVEEVGIFRPEMTPTDELSAGQVGYII-AGIKTVKD   77 (86)
T ss_pred             CEEEEEEeeccCCCCEEEEEEEEcCEEcCCCEEEEecCCC--eEEEEEEEEECCCccCCceECCCCEEEEE-ccccccCc
Confidence            5788889999999999999999999999999998765543  44555665433   578999999998772 111 2345


Q ss_pred             cccccccc
Q psy9646          98 VNRGLIMA  105 (211)
Q Consensus        98 v~~G~ii~  105 (211)
                      +..|++++
T Consensus        78 ~~~Gdtl~   85 (86)
T cd03699          78 ARVGDTIT   85 (86)
T ss_pred             cccccEee
Confidence            77888775

The N-terminal domain of LepA shares regions of homology to translation factors. In terms of interaction with the ribosome, EF-G, EF-Tu and IF2 have all been demonstrated to interact at overlapping sites on the ribosome. Chemical protection studies demonstrate that they all include the universally conserved alpha-sarcin loop as part of their binding site. These data indicate that LepA may bind to this location on the ribosome as well. LepA has never been observed in archaea, and eukaryl LepA is organellar. LepA is therefore a true bacterial GTPase, found only in the bacterial lineage.

>cd04164 trmE TrmE (MnmE, ThdF, MSS1) is a 3-domain protein found in bacteria and eukaryotes

Probab=98.67  E-value=9.8e-08  Score=70.07  Aligned_cols=77  Identities=21%  Similarity=0.188  Sum_probs=54.5

Q ss_pred             cceEEeEeEEEeeeCCceeEeecCCcccccHh--------HHhhhccccceEEEEEeccCCCCcchHHHHHHHHHcCCCe
Q psy9646         132 RGITINVAHVEYATENRHYSHTDCPGHADYIK--------NMITGTSQMDGAILVVAATDGAMPQTREHLLLAKQIGVTN  203 (211)
Q Consensus       132 rg~tv~~~~~~~~~~~~~~~~iDtPG~~~~~~--------~~~~~~~~~d~~~~vvd~~~~~~~~~~~~~~~~~~~~~~~  203 (211)
                      .+.+.......+...+..+.++||||+.++..        .+...+..+|++++|+|+...........+..  ..+.| 
T Consensus        33 ~~~~~~~~~~~~~~~~~~~~i~DtpG~~~~~~~~~~~~~~~~~~~~~~~~~~v~v~d~~~~~~~~~~~~~~~--~~~~~-  109 (157)
T cd04164          33 AGTTRDVIEESIDIGGIPVRLIDTAGIRETEDEIEKIGIERAREAIEEADLVLFVIDASRGLDEEDLEILEL--PADKP-  109 (157)
T ss_pred             CCCccceEEEEEEeCCEEEEEEECCCcCCCcchHHHHHHHHHHHHHhhCCEEEEEEECCCCCCHHHHHHHHh--hcCCC-
Confidence            34555555555666777899999999876532        35567789999999999987665555444333  34566 


Q ss_pred             EEEEEeCC
Q psy9646         204 IVVFINKF  211 (211)
Q Consensus       204 ~i~~inK~  211 (211)
                      +++++||+
T Consensus       110 vi~v~nK~  117 (157)
T cd04164         110 IIVVLNKS  117 (157)
T ss_pred             EEEEEEch
Confidence            88999995

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.

>PRK12740 elongation factor G; Reviewed

Probab=98.65  E-value=1.7e-07  Score=85.18  Aligned_cols=100  Identities=28%  Similarity=0.397  Sum_probs=79.4

Q ss_pred             hHHHHHhhhCCCCCC-----------------CCCCCeeEEEeeEEeecCCcEEEEEEEEEEEEecCCEEEEeecCceee
Q psy9646           2 ELLNQIDTYIPQPVR-----------------DLDKPFYLPVEHTYSIPGRGTVVTGRLERGIVKKGMECEFTGYGRQFK   64 (211)
Q Consensus         2 ~ll~~l~~~i~~p~~-----------------~~~~p~~~~v~~~~~~~~~G~v~~G~v~~G~i~~g~~v~i~p~~~~~~   64 (211)
                      .||++|..++|.|..                 +.++|+.+.|..++..++.|++..+||.+|.+++||+|.+.+.++  +
T Consensus       252 ~LLd~i~~~lPsp~~~~~~~~~~~~~~~~~~~~~~~~l~a~v~k~~~~~~~G~i~~~RV~sG~L~~g~~v~~~~~~~--~  329 (668)
T PRK12740        252 RLLDAVVDYLPSPLEVPPVDGEDGEEGAELAPDPDGPLVALVFKTMDDPFVGKLSLVRVYSGTLKKGDTLYNSGTGK--K  329 (668)
T ss_pred             HHHHHHHHHCCChhhcccccCCCCccccccccCCCCCeEEEEEEeeecCCCCcEEEEEEeeeEEcCCCEEEeCCCCC--c
Confidence            489999998887742                 346789999999999999999999999999999999999887653  3


Q ss_pred             EEEEEEEec----ceecceecccCceehhccCCCccccccccccccc
Q psy9646          65 TTVTGIEMF----HKILDEAQAGDQLGALVKGMKRDEVNRGLIMAKP  107 (211)
Q Consensus        65 ~~v~~i~~~----~~~~~~a~~G~~v~~~l~~~~~~~v~~G~ii~~~  107 (211)
                      .++.+|...    ..++++|.|||++++.  ++  ..+..|++++..
T Consensus       330 ~~i~~l~~l~g~~~~~v~~~~aGdI~~i~--gl--~~~~~Gdtl~~~  372 (668)
T PRK12740        330 ERVGRLYRMHGKQREEVDEAVAGDIVAVA--KL--KDAATGDTLCDK  372 (668)
T ss_pred             EEecceeeecCCCccccCccCCCCEEEEe--cc--CccCCCCEEeCC
Confidence            444455432    3689999999999974  33  357899988643

>cd01882 BMS1 Bms1

Probab=98.64  E-value=1.1e-07  Score=75.16  Aligned_cols=64  Identities=20%  Similarity=0.325  Sum_probs=55.8

Q ss_pred             eCCceeEeecCCcccccHhHHhhhccccceEEEEEeccCCCCcchHHHHHHHHHcCCCeEEEEEeCC
Q psy9646         145 TENRHYSHTDCPGHADYIKNMITGTSQMDGAILVVAATDGAMPQTREHLLLAKQIGVTNIVVFINKF  211 (211)
Q Consensus       145 ~~~~~~~~iDtPG~~~~~~~~~~~~~~~d~~~~vvd~~~~~~~~~~~~~~~~~~~~~~~~i~~inK~  211 (211)
                      ..+.+++|+||||+.   ..+..++..+|++++++|+..+...++..++..+...+.|.+|+++||+
T Consensus        80 ~~~~~i~~vDtPg~~---~~~l~~ak~aDvVllviDa~~~~~~~~~~i~~~l~~~g~p~vi~VvnK~  143 (225)
T cd01882          80 GKKRRLTFIECPNDI---NAMIDIAKVADLVLLLIDASFGFEMETFEFLNILQVHGFPRVMGVLTHL  143 (225)
T ss_pred             cCCceEEEEeCCchH---HHHHHHHHhcCEEEEEEecCcCCCHHHHHHHHHHHHcCCCeEEEEEecc
Confidence            367889999999964   6677788999999999999999999999999999889999666699996

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.

>PRK03003 GTP-binding protein Der; Reviewed

Probab=98.64  E-value=9.8e-08  Score=83.30  Aligned_cols=102  Identities=13%  Similarity=0.204  Sum_probs=72.6

Q ss_pred             hhhhhhhhcccccccccc-hhhcccceEEeEeEEEeeeCCceeEeecCCccc---------ccHhH--HhhhccccceEE
Q psy9646         109 LADKKLAKVKQYADIDNA-PEEKARGITINVAHVEYATENRHYSHTDCPGHA---------DYIKN--MITGTSQMDGAI  176 (211)
Q Consensus       109 ~~~~~~~~f~~~i~~~~~-~~e~~rg~tv~~~~~~~~~~~~~~~~iDtPG~~---------~~~~~--~~~~~~~~d~~~  176 (211)
                      .+..|++++...+..... ......++|.+.....++..+..+.++||||..         ++...  ...++..+|+++
T Consensus       219 ~~nvGKSSLin~l~~~~~~~~s~~~gtT~d~~~~~~~~~~~~~~l~DTaG~~~~~~~~~~~e~~~~~~~~~~i~~ad~vi  298 (472)
T PRK03003        219 KPNVGKSSLLNKLAGEERSVVDDVAGTTVDPVDSLIELGGKTWRFVDTAGLRRRVKQASGHEYYASLRTHAAIEAAEVAV  298 (472)
T ss_pred             CCCCCHHHHHHHHhCCCcccccCCCCccCCcceEEEEECCEEEEEEECCCccccccccchHHHHHHHHHHHHHhcCCEEE
Confidence            344556665544432221 233455677766666677788889999999963         22222  234678999999


Q ss_pred             EEEeccCCCCcchHHHHHHHHHcCCCeEEEEEeCC
Q psy9646         177 LVVAATDGAMPQTREHLLLAKQIGVTNIVVFINKF  211 (211)
Q Consensus       177 ~vvd~~~~~~~~~~~~~~~~~~~~~~~~i~~inK~  211 (211)
                      +|+|+.++...++..++..+...+.| +|+|+||+
T Consensus       299 lV~Da~~~~s~~~~~~~~~~~~~~~p-iIiV~NK~  332 (472)
T PRK03003        299 VLIDASEPISEQDQRVLSMVIEAGRA-LVLAFNKW  332 (472)
T ss_pred             EEEeCCCCCCHHHHHHHHHHHHcCCC-EEEEEECc
Confidence            99999999998888888888888888 88999996

>PRK13351 elongation factor G; Reviewed

Probab=98.64  E-value=2.9e-07  Score=83.91  Aligned_cols=100  Identities=24%  Similarity=0.366  Sum_probs=78.8

Q ss_pred             hHHHHHhhhCCCCCC------------------CCCCCeeEEEeeEEeecCCcEEEEEEEEEEEEecCCEEEEeecCcee
Q psy9646           2 ELLNQIDTYIPQPVR------------------DLDKPFYLPVEHTYSIPGRGTVVTGRLERGIVKKGMECEFTGYGRQF   63 (211)
Q Consensus         2 ~ll~~l~~~i~~p~~------------------~~~~p~~~~v~~~~~~~~~G~v~~G~v~~G~i~~g~~v~i~p~~~~~   63 (211)
                      .||++|..++|.|..                  +.++|+.+.|..++..++.|++..+||.+|+++.||+|.+.+.+.  
T Consensus       268 ~LLd~I~~~lPsP~~~~~~~~~~~~~~~~~~~~~~~~pl~a~VfK~~~d~~~G~i~~~RV~sGtl~~g~~v~~~~~~~--  345 (687)
T PRK13351        268 PLLDAVVDYLPSPLEVPPPRGSKDNGKPVKVDPDPEKPLLALVFKVQYDPYAGKLTYLRVYSGTLRAGSQLYNGTGGK--  345 (687)
T ss_pred             HHHHHHHHHCCChhhcccccccCCCCCceeecCCCCCCeEEEEEEeeecCCCceEEEEEEeEEEEcCCCEEEeCCCCC--
Confidence            489999999987742                  346799999999999999999999999999999999999877653  


Q ss_pred             eEEEEEEEec----ceecceecccCceehhccCCCccccccccccccc
Q psy9646          64 KTTVTGIEMF----HKILDEAQAGDQLGALVKGMKRDEVNRGLIMAKP  107 (211)
Q Consensus        64 ~~~v~~i~~~----~~~~~~a~~G~~v~~~l~~~~~~~v~~G~ii~~~  107 (211)
                      +.++.+|...    ..++++|.|||++++  .+  ..+...|++++..
T Consensus       346 ~~~i~~i~~~~g~~~~~v~~~~aGdI~~i--~g--l~~~~~gdtl~~~  389 (687)
T PRK13351        346 REKVGRLFRLQGNKREEVDRAKAGDIVAV--AG--LKELETGDTLHDS  389 (687)
T ss_pred             ceEeeeEEEEccCCeeECCccCCCCEEEE--EC--cccCccCCEEeCC
Confidence            4555565443    268999999999876  33  2345678888654

>KOG1143|consensus

Probab=98.62  E-value=6.5e-08  Score=79.89  Aligned_cols=93  Identities=29%  Similarity=0.380  Sum_probs=75.9

Q ss_pred             ccccccccchhhcccceEEeEeEEEeeeC---------------------CceeEeecCCcccccHhHHhhhccc--cce
Q psy9646         118 KQYADIDNAPEEKARGITINVAHVEYATE---------------------NRHYSHTDCPGHADYIKNMITGTSQ--MDG  174 (211)
Q Consensus       118 ~~~i~~~~~~~e~~rg~tv~~~~~~~~~~---------------------~~~~~~iDtPG~~~~~~~~~~~~~~--~d~  174 (211)
                      ++++-+..++.|++.|.|-.+++-.+-++                     ..-++|||-.||++|++..+.|+..  .|+
T Consensus       198 rARln~FRh~HEiqsGrTSsis~evlGFd~~g~vVNY~~~~taEEi~e~SSKlvTfiDLAGh~kY~~TTi~gLtgY~Ph~  277 (591)
T KOG1143|consen  198 RARLNIFRHPHEIQSGRTSSISNEVLGFDNRGKVVNYAQNMTAEEIVEKSSKLVTFIDLAGHAKYQKTTIHGLTGYTPHF  277 (591)
T ss_pred             eeeeehhcchhhhccCcccccchhcccccccccccchhhcccHHHHHhhhcceEEEeecccchhhheeeeeecccCCCce
Confidence            45566778888887776655543322211                     1458999999999999999999986  489


Q ss_pred             EEEEEeccCCCCcchHHHHHHHHHcCCCeEEEEEeCC
Q psy9646         175 AILVVAATDGAMPQTREHLLLAKQIGVTNIVVFINKF  211 (211)
Q Consensus       175 ~~~vvd~~~~~~~~~~~~~~~~~~~~~~~~i~~inK~  211 (211)
                      ++++|.|..|+...+++|+.++..+++| ++++++|+
T Consensus       278 A~LvVsA~~Gi~~tTrEHLgl~~AL~iP-fFvlvtK~  313 (591)
T KOG1143|consen  278 ACLVVSADRGITWTTREHLGLIAALNIP-FFVLVTKM  313 (591)
T ss_pred             EEEEEEcCCCCccccHHHHHHHHHhCCC-eEEEEEee
Confidence            9999999999999999999999999999 88899996

>cd01864 Rab19 Rab19 subfamily

Probab=98.60  E-value=1.9e-07  Score=69.70  Aligned_cols=100  Identities=14%  Similarity=0.105  Sum_probs=61.1

Q ss_pred             hhhhhhcccccccccchhhcccceEEeEeEEEeeeCC--ceeEeecCCcccccHhHHhhhccccceEEEEEeccCCCCcc
Q psy9646         111 DKKLAKVKQYADIDNAPEEKARGITINVAHVEYATEN--RHYSHTDCPGHADYIKNMITGTSQMDGAILVVAATDGAMPQ  188 (211)
Q Consensus       111 ~~~~~~f~~~i~~~~~~~e~~rg~tv~~~~~~~~~~~--~~~~~iDtPG~~~~~~~~~~~~~~~d~~~~vvd~~~~~~~~  188 (211)
                      ..|++++..++.......+.......+.....+...+  .++.+.||||+..|.......+..+|++++++|+.....-+
T Consensus        13 ~~GKTsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~G~~~~~~~~~~~~~~~d~~llv~d~~~~~s~~   92 (165)
T cd01864          13 NVGKTCVVQRFKSGTFSERQGNTIGVDFTMKTLEIEGKRVKLQIWDTAGQERFRTITQSYYRSANGAIIAYDITRRSSFE   92 (165)
T ss_pred             CCCHHHHHHHHhhCCCcccCCCccceEEEEEEEEECCEEEEEEEEECCChHHHHHHHHHHhccCCEEEEEEECcCHHHHH
Confidence            3455555444322222222222222333334444454  47889999999998887778888999999999997664322


Q ss_pred             h-HHHHHHHHH---cCCCeEEEEEeCC
Q psy9646         189 T-REHLLLAKQ---IGVTNIVVFINKF  211 (211)
Q Consensus       189 ~-~~~~~~~~~---~~~~~~i~~inK~  211 (211)
                      . +.++..+..   .++| +|++.||+
T Consensus        93 ~~~~~~~~i~~~~~~~~p-~ivv~nK~  118 (165)
T cd01864          93 SVPHWIEEVEKYGASNVV-LLLIGNKC  118 (165)
T ss_pred             hHHHHHHHHHHhCCCCCc-EEEEEECc
Confidence            2 334444433   3566 77899996

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.

>TIGR03598 GTPase_YsxC ribosome biogenesis GTP-binding protein YsxC/EngB

Probab=98.60  E-value=2.5e-07  Score=70.23  Aligned_cols=63  Identities=14%  Similarity=0.323  Sum_probs=48.6

Q ss_pred             ceeEeecCCccc----------ccH---hHHhhhccccceEEEEEeccCCCCcchHHHHHHHHHcCCCeEEEEEeCC
Q psy9646         148 RHYSHTDCPGHA----------DYI---KNMITGTSQMDGAILVVAATDGAMPQTREHLLLAKQIGVTNIVVFINKF  211 (211)
Q Consensus       148 ~~~~~iDtPG~~----------~~~---~~~~~~~~~~d~~~~vvd~~~~~~~~~~~~~~~~~~~~~~~~i~~inK~  211 (211)
                      .++.++||||+.          ++.   ...+.....+|++++|+|+..+....+.++++.+...+.| +++++||+
T Consensus        64 ~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~ii~vvd~~~~~~~~~~~~~~~~~~~~~p-viiv~nK~  139 (179)
T TIGR03598        64 DGFRLVDLPGYGYAKVSKEEKEKWQKLIEEYLEKRENLKGVVLLMDIRHPLKELDLEMLEWLRERGIP-VLIVLTKA  139 (179)
T ss_pred             CcEEEEeCCCCccccCChhHHHHHHHHHHHHHHhChhhcEEEEEecCCCCCCHHHHHHHHHHHHcCCC-EEEEEECc
Confidence            379999999963          122   2223333457899999999998888888888888888888 88999996

Members of this protein family are a GTPase associated with ribosome biogenesis, typified by YsxC from Bacillus subutilis. The family is widely but not universally distributed among bacteria. Members commonly are called EngB based on homology to EngA, one of several other GTPases of ribosome biogenesis. Cutoffs as set find essentially all bacterial members, but also identify large numbers of eukaryotic (probably organellar) sequences. This protein is found in about 80 percent of bacterial genomes.

>cd04160 Arfrp1 Arfrp1 subfamily

Probab=98.58  E-value=1.3e-07  Score=70.61  Aligned_cols=76  Identities=17%  Similarity=0.149  Sum_probs=53.9

Q ss_pred             EEeEeEEEeeeCCceeEeecCCcccccHhHHhhhccccceEEEEEeccCCCC-cchHHHHHHHH----HcCCCeEEEEEe
Q psy9646         135 TINVAHVEYATENRHYSHTDCPGHADYIKNMITGTSQMDGAILVVAATDGAM-PQTREHLLLAK----QIGVTNIVVFIN  209 (211)
Q Consensus       135 tv~~~~~~~~~~~~~~~~iDtPG~~~~~~~~~~~~~~~d~~~~vvd~~~~~~-~~~~~~~~~~~----~~~~~~~i~~in  209 (211)
                      |+...+..+...+.++.+.||||+.+|.......+..+|++++|+|+...-. ......+..+.    ..++| +++++|
T Consensus        37 t~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~~~~v~vvd~~~~~~~~~~~~~~~~~~~~~~~~~~p-~ilv~N  115 (167)
T cd04160          37 TVGLNIGTIEVGNARLKFWDLGGQESLRSLWDKYYAECHAIIYVIDSTDRERFEESKSALEKVLRNEALEGVP-LLILAN  115 (167)
T ss_pred             ccccceEEEEECCEEEEEEECCCChhhHHHHHHHhCCCCEEEEEEECchHHHHHHHHHHHHHHHhChhhcCCC-EEEEEE
Confidence            3344445566678899999999999998888888999999999999865421 11222222222    24678 889999


Q ss_pred             CC
Q psy9646         210 KF  211 (211)
Q Consensus       210 K~  211 (211)
                      |+
T Consensus       116 K~  117 (167)
T cd04160         116 KQ  117 (167)
T ss_pred             cc
Confidence            96

Arfrp1 (Arf-related protein 1), formerly known as ARP, is a membrane-associated Arf family member that lacks the N-terminal myristoylation motif. Arfrp1 is mainly associated with the trans-Golgi compartment and the trans-Golgi network, where it regulates the targeting of Arl1 and the GRIP domain-containing proteins, golgin-97 and golgin-245, onto Golgi membranes. It is also involved in the anterograde transport of the vesicular stomatitis virus G protein from the Golgi to the plasma membrane, and in the retrograde transport of TGN38 and Shiga toxin from endosomes to the trans-Golgi network. Arfrp1 also inhibits Arf/Sec7-dependent activation of phospholipase D. Deletion of Arfrp1 in mice causes embryonic lethality at the gastrulation stage and apoptosis of mesodermal cells, indicating its importance in development.

>PRK12299 obgE GTPase CgtA; Reviewed

Probab=98.57  E-value=6.9e-07  Score=74.52  Aligned_cols=164  Identities=10%  Similarity=0.073  Sum_probs=91.1

Q ss_pred             EEEEEEEEecCCEEEEeecCcee--e-EEEEEEEecceecceecccCceehhccCCCcccccccccccccchhhhhhhhc
Q psy9646          41 GRLERGIVKKGMECEFTGYGRQF--K-TTVTGIEMFHKILDEAQAGDQLGALVKGMKRDEVNRGLIMAKPVLADKKLAKV  117 (211)
Q Consensus        41 G~v~~G~i~~g~~v~i~p~~~~~--~-~~v~~i~~~~~~~~~a~~G~~v~~~l~~~~~~~v~~G~ii~~~~~~~~~~~~f  117 (211)
                      |++..--.+.|+++.++..+.--  . .--++........+...+|+...+.|. +. .-...|.+    ..+..+++++
T Consensus       101 ~~~~~d~~~~~~~~~~a~gg~gg~gn~~f~~~~~~~p~~~~~g~~g~~~~~~le-lk-~~adVglV----G~PNaGKSTL  174 (335)
T PRK12299        101 GELIADLTEHGQRFLVAKGGKGGLGNAHFKSSTNRAPRYATPGEPGEERWLRLE-LK-LLADVGLV----GLPNAGKSTL  174 (335)
T ss_pred             CcEEEEcCCCCcEEEEecCCCCcCCchhhccccCCCCccccCCCCCcEEEEEEE-Ec-ccCCEEEE----cCCCCCHHHH
Confidence            45666666788888887665200  0 111111111233455677777776544 11 01112221    2344566666


Q ss_pred             ccccccccchhhcccceEEeEeEEEeee-CCceeEeecCCcccc-------cHhHHhhhccccceEEEEEeccCCC-Ccc
Q psy9646         118 KQYADIDNAPEEKARGITINVAHVEYAT-ENRHYSHTDCPGHAD-------YIKNMITGTSQMDGAILVVAATDGA-MPQ  188 (211)
Q Consensus       118 ~~~i~~~~~~~e~~rg~tv~~~~~~~~~-~~~~~~~iDtPG~~~-------~~~~~~~~~~~~d~~~~vvd~~~~~-~~~  188 (211)
                      ...+.............|+......+.. ...++.+.||||..+       +....+.-++.+|++++|+|+...- ..+
T Consensus       175 ln~ls~a~~~va~ypfTT~~p~~G~v~~~~~~~~~i~D~PGli~ga~~~~gLg~~flrhie~a~vlI~ViD~s~~~s~e~  254 (335)
T PRK12299        175 ISAVSAAKPKIADYPFTTLHPNLGVVRVDDYKSFVIADIPGLIEGASEGAGLGHRFLKHIERTRLLLHLVDIEAVDPVED  254 (335)
T ss_pred             HHHHHcCCCccCCCCCceeCceEEEEEeCCCcEEEEEeCCCccCCCCccccHHHHHHHHhhhcCEEEEEEcCCCCCCHHH
Confidence            5544222212222234566666666766 456799999999642       4455667778899999999987543 222


Q ss_pred             hHHHHHHHHH-----cCCCeEEEEEeCC
Q psy9646         189 TREHLLLAKQ-----IGVTNIVVFINKF  211 (211)
Q Consensus       189 ~~~~~~~~~~-----~~~~~~i~~inK~  211 (211)
                      -+.+.+.+..     .+.| +++|+||+
T Consensus       255 ~~~~~~EL~~~~~~L~~kp-~IIV~NKi  281 (335)
T PRK12299        255 YKTIRNELEKYSPELADKP-RILVLNKI  281 (335)
T ss_pred             HHHHHHHHHHhhhhcccCC-eEEEEECc
Confidence            2334444443     2456 77899996

>TIGR00450 mnmE_trmE_thdF tRNA modification GTPase TrmE

Probab=98.57  E-value=3.5e-07  Score=79.01  Aligned_cols=102  Identities=13%  Similarity=0.095  Sum_probs=68.9

Q ss_pred             chhhhhhhhccccccccc-chhhcccceEEeEeEEEeeeCCceeEeecCCcccccHh--------HHhhhccccceEEEE
Q psy9646         108 VLADKKLAKVKQYADIDN-APEEKARGITINVAHVEYATENRHYSHTDCPGHADYIK--------NMITGTSQMDGAILV  178 (211)
Q Consensus       108 ~~~~~~~~~f~~~i~~~~-~~~e~~rg~tv~~~~~~~~~~~~~~~~iDtPG~~~~~~--------~~~~~~~~~d~~~~v  178 (211)
                      +.+..|++++...+.... .......+.|.+.....+..++..+.++||||+.++..        .+...+..+|++++|
T Consensus       210 G~~nvGKSSLiN~L~~~~~aivs~~pgtTrd~~~~~i~~~g~~v~l~DTaG~~~~~~~ie~~gi~~~~~~~~~aD~il~V  289 (442)
T TIGR00450       210 GSPNVGKSSLLNALLKQDRAIVSDIKGTTRDVVEGDFELNGILIKLLDTAGIREHADFVERLGIEKSFKAIKQADLVIYV  289 (442)
T ss_pred             CCCCCcHHHHHHHHhCCCCcccCCCCCcEEEEEEEEEEECCEEEEEeeCCCcccchhHHHHHHHHHHHHHHhhCCEEEEE
Confidence            334455555544443221 11233456777777777788888999999999865432        245677899999999


Q ss_pred             EeccCCCCcchHHHHHHHHHcCCCeEEEEEeCC
Q psy9646         179 VAATDGAMPQTREHLLLAKQIGVTNIVVFINKF  211 (211)
Q Consensus       179 vd~~~~~~~~~~~~~~~~~~~~~~~~i~~inK~  211 (211)
                      +|+..+....+. ++..+...+.| +|+|+||+
T Consensus       290 ~D~s~~~s~~~~-~l~~~~~~~~p-iIlV~NK~  320 (442)
T TIGR00450       290 LDASQPLTKDDF-LIIDLNKSKKP-FILVLNKI  320 (442)
T ss_pred             EECCCCCChhHH-HHHHHhhCCCC-EEEEEECc
Confidence            999877654444 55666556777 78999996

TrmE, also called MnmE and previously designated ThdF (thiophene and furan oxidation protein), is a GTPase involved in tRNA modification to create 5-methylaminomethyl-2-thiouridine in the wobble position of some tRNAs. This protein and GidA form an alpha2/beta2 heterotetramer.

>PRK09518 bifunctional cytidylate kinase/GTPase Der; Reviewed

Probab=98.54  E-value=2.5e-07  Score=84.59  Aligned_cols=102  Identities=13%  Similarity=0.158  Sum_probs=72.4

Q ss_pred             hhhhhhhhcccccccccc-hhhcccceEEeEeEEEeeeCCceeEeecCCcccc---------cHhH--HhhhccccceEE
Q psy9646         109 LADKKLAKVKQYADIDNA-PEEKARGITINVAHVEYATENRHYSHTDCPGHAD---------YIKN--MITGTSQMDGAI  176 (211)
Q Consensus       109 ~~~~~~~~f~~~i~~~~~-~~e~~rg~tv~~~~~~~~~~~~~~~~iDtPG~~~---------~~~~--~~~~~~~~d~~~  176 (211)
                      .+..|++++...+..... ......+.|.+.....++..+.++.|+||||+.+         +...  ...++..+|+++
T Consensus       458 ~~nvGKSSLin~l~~~~~~~v~~~~gtT~d~~~~~~~~~~~~~~liDTaG~~~~~~~~~~~e~~~~~r~~~~i~~advvi  537 (712)
T PRK09518        458 RPNVGKSSLLNQLTHEERAVVNDLAGTTRDPVDEIVEIDGEDWLFIDTAGIKRRQHKLTGAEYYSSLRTQAAIERSELAL  537 (712)
T ss_pred             CCCCCHHHHHHHHhCccccccCCCCCCCcCcceeEEEECCCEEEEEECCCcccCcccchhHHHHHHHHHHHHhhcCCEEE
Confidence            344566665544432221 1223456666665566777888999999999642         2222  345678999999


Q ss_pred             EEEeccCCCCcchHHHHHHHHHcCCCeEEEEEeCC
Q psy9646         177 LVVAATDGAMPQTREHLLLAKQIGVTNIVVFINKF  211 (211)
Q Consensus       177 ~vvd~~~~~~~~~~~~~~~~~~~~~~~~i~~inK~  211 (211)
                      +|+|+.++...++..++..+...+.| +|+|+||+
T Consensus       538 lViDat~~~s~~~~~i~~~~~~~~~p-iIiV~NK~  571 (712)
T PRK09518        538 FLFDASQPISEQDLKVMSMAVDAGRA-LVLVFNKW  571 (712)
T ss_pred             EEEECCCCCCHHHHHHHHHHHHcCCC-EEEEEEch
Confidence            99999999999998888888888888 88999996

>TIGR00231 small_GTP small GTP-binding protein domain

Probab=98.53  E-value=1.3e-07  Score=68.92  Aligned_cols=99  Identities=20%  Similarity=0.198  Sum_probs=60.5

Q ss_pred             hhhhhhcccccccccchhhcccceEEeEeEEEeeeCC--ceeEeecCCccccc-------HhHHhhhccccceEEEEEec
Q psy9646         111 DKKLAKVKQYADIDNAPEEKARGITINVAHVEYATEN--RHYSHTDCPGHADY-------IKNMITGTSQMDGAILVVAA  181 (211)
Q Consensus       111 ~~~~~~f~~~i~~~~~~~e~~rg~tv~~~~~~~~~~~--~~~~~iDtPG~~~~-------~~~~~~~~~~~d~~~~vvd~  181 (211)
                      ..|++.+...+.....+.+..+..+.+.....+...+  ..+.++||||+.++       .+++...+...|..++++++
T Consensus        11 ~~GKstl~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~G~~~~~~~~~~~~~~~~~~i~~~d~~~~v~~~   90 (161)
T TIGR00231        11 NVGKSTLLNRLLGNKFITEYKPGTTRNYVTTVIEEDGKTYKFNLLDTAGQEDYRAIRRLYYRAVESSLRVFDIVILVLDV   90 (161)
T ss_pred             CCCHHHHHHHHhCCCCcCcCCCCceeeeeEEEEEECCEEEEEEEEECCCcccchHHHHHHHhhhhEEEEEEEEeeeehhh
Confidence            3455555554444444444445555555554455566  67889999999888       44455555556666666666


Q ss_pred             cCCCCcchHHHHHHHHHcCCCeEEEEEeCC
Q psy9646         182 TDGAMPQTREHLLLAKQIGVTNIVVFINKF  211 (211)
Q Consensus       182 ~~~~~~~~~~~~~~~~~~~~~~~i~~inK~  211 (211)
                      ..........+...+.. +.| +++++||+
T Consensus        91 ~~~~~~~~~~~~~~~~~-~~p-~ivv~nK~  118 (161)
T TIGR00231        91 EEILEKQTKEIIHHAES-NVP-IILVGNKI  118 (161)
T ss_pred             hhHhHHHHHHHHHhccc-CCc-EEEEEEcc
Confidence            55544444555555543 777 78999995

This model recognizes a large number of small GTP-binding proteins and related domains in larger proteins. Note that the alpha chains of heterotrimeric G proteins are larger proteins in which the NKXD motif is separated from the GxxxxGK[ST] motif (P-loop) by a long insert and are not easily detected by this model.

>cd01881 Obg_like The Obg-like subfamily consists of five well-delimited, ancient subfamilies, namely Obg, DRG, YyaF/YchF, Ygr210, and NOG1

Probab=98.53  E-value=2.7e-07  Score=69.26  Aligned_cols=79  Identities=15%  Similarity=0.132  Sum_probs=51.3

Q ss_pred             cceEEeEeEEEeeeC-CceeEeecCCcccc-------cHhHHhhhccccceEEEEEeccCCC-----Cc--chHHHHHHH
Q psy9646         132 RGITINVAHVEYATE-NRHYSHTDCPGHAD-------YIKNMITGTSQMDGAILVVAATDGA-----MP--QTREHLLLA  196 (211)
Q Consensus       132 rg~tv~~~~~~~~~~-~~~~~~iDtPG~~~-------~~~~~~~~~~~~d~~~~vvd~~~~~-----~~--~~~~~~~~~  196 (211)
                      .+.|.......+... +.++.|+||||+.+       +.......+..+|++++|+|+....     ..  ....+...+
T Consensus        27 ~~~t~~~~~~~~~~~~~~~~~i~DtpG~~~~~~~~~~~~~~~~~~~~~~d~ii~v~d~~~~~~~~~~~~~~~~~~~~~~~  106 (176)
T cd01881          27 PFTTLEPNLGVVEVPDGARIQVADIPGLIEGASEGRGLGNQFLAHIRRADAILHVVDASEDDDIGGVDPLEDYEILNAEL  106 (176)
T ss_pred             CceeecCcceEEEcCCCCeEEEEeccccchhhhcCCCccHHHHHHHhccCEEEEEEeccCCccccccCHHHHHHHHHHHH
Confidence            344555555556666 78899999999742       3345567778899999999997763     21  112222222


Q ss_pred             HH----------cCCCeEEEEEeCC
Q psy9646         197 KQ----------IGVTNIVVFINKF  211 (211)
Q Consensus       197 ~~----------~~~~~~i~~inK~  211 (211)
                      ..          .+.| +++++||+
T Consensus       107 ~~~~~~~~~~~~~~~p-~ivv~NK~  130 (176)
T cd01881         107 KLYDLETILGLLTAKP-VIYVLNKI  130 (176)
T ss_pred             HHhhhhhHHHHHhhCC-eEEEEEch
Confidence            21          3567 77899996

Four of these groups (Obg, DRG, YyaF/YchF, and Ygr210) are characterized by a distinct glycine-rich motif immediately following the Walker B motif (G3 box). Obg/CgtA is an essential gene that is involved in the initiation of sporulation and DNA replication in the bacteria Caulobacter and Bacillus, but its exact molecular role is unknown. Furthermore, several OBG family members possess a C-terminal RNA-binding domain, the TGS domain, which is also present in threonyl-tRNA synthetase and in bacterial guanosine polyphosphatase SpoT. Nog1 is a nucleolar protein that might function in ribosome assembly. The DRG and Nog1 subfamilies are ubiquitous in archaea and eukaryotes, the Ygr210 subfamily is present in archaea and fungi, and the Obg and YyaF/YchF subfamilies are ubiquitous in bacteria and eukaryotes. The Obg/Nog1 and DRG subfamilies appear to

>PRK05306 infB translation initiation factor IF-2; Validated

Probab=98.53  E-value=2.3e-06  Score=78.37  Aligned_cols=176  Identities=16%  Similarity=0.106  Sum_probs=104.4

Q ss_pred             hHHHHHhhhC--CCCCCCCCCCeeEEEeeEEeecCCcEEEEEEEEEEEEecCCEEEEeecCceeeEEEEEEEec-ceecc
Q psy9646           2 ELLNQIDTYI--PQPVRDLDKPFYLPVEHTYSIPGRGTVVTGRLERGIVKKGMECEFTGYGRQFKTTVTGIEMF-HKILD   78 (211)
Q Consensus         2 ~ll~~l~~~i--~~p~~~~~~p~~~~v~~~~~~~~~G~v~~G~v~~G~i~~g~~v~i~p~~~~~~~~v~~i~~~-~~~~~   78 (211)
                      +|+++|....  ..+..+.+.|++..|..++..++.|++++|+|.+|++++||.+.+.|.    ..+|++++.. .++++
T Consensus       442 eLle~I~~~~e~~~l~~~~~~~~~g~V~es~~dkg~G~v~~v~V~sGtLk~Gd~vv~g~~----~gkVr~m~~~~~~~v~  517 (787)
T PRK05306        442 ELLEAILLQAEVLELKANPDRPARGTVIEAKLDKGRGPVATVLVQNGTLKVGDIVVAGTT----YGRVRAMVDDNGKRVK  517 (787)
T ss_pred             HHHHhhhhhhhhhhcccCCCCCcEEEEEEEEEcCCCeEEEEEEEecCeEecCCEEEECCc----EEEEEEEECCCCCCCC
Confidence            3555554311  123445678999999999999999999999999999999999998653    6889999875 46899


Q ss_pred             eecccCceehhccCCCcccc-cccccccccchhhhhhhhccccccccc-chhhcccceEEeEeEEEeeeCC-ce---eEe
Q psy9646          79 EAQAGDQLGALVKGMKRDEV-NRGLIMAKPVLADKKLAKVKQYADIDN-APEEKARGITINVAHVEYATEN-RH---YSH  152 (211)
Q Consensus        79 ~a~~G~~v~~~l~~~~~~~v-~~G~ii~~~~~~~~~~~~f~~~i~~~~-~~~e~~rg~tv~~~~~~~~~~~-~~---~~~  152 (211)
                      +|.||+.|.+.    +..++ ..|++++.......++.-...+..... ......+..++.--+.....++ ..   ++=
T Consensus       518 ~A~pGd~V~I~----gl~~~p~~Gd~l~~~~~e~~a~~~~~~r~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~iik  593 (787)
T PRK05306        518 EAGPSTPVEIL----GLSGVPQAGDEFVVVEDEKKAREIAEYRQEKAREKKLARQQRVSLENLFEQMKEGEVKELNLIIK  593 (787)
T ss_pred             EEcCCCeEEEe----CCCCCCCCCCEEEEcCCHHHHHHHHHHHHHHHHHHHhhhccccCHHHhhhhhhcCCceEEEEEEE
Confidence            99999999873    22344 788888743322211110000000000 0000000011100000000010 01   222


Q ss_pred             ecCCcccccHhHHhhhccccceEEEEEeccCCC
Q psy9646         153 TDCPGHADYIKNMITGTSQMDGAILVVAATDGA  185 (211)
Q Consensus       153 iDtPG~~~~~~~~~~~~~~~d~~~~vvd~~~~~  185 (211)
                      -|+-|-.+-+...+..+..-+.-+=++.+.-|.
T Consensus       594 ad~~Gs~eai~~~l~~l~~~~v~~~i~~~~vG~  626 (787)
T PRK05306        594 ADVQGSVEALKDSLEKLSTDEVKVNIIHSGVGA  626 (787)
T ss_pred             eCCcchHHHHHHHHHhhcccCCceEEEeeccCC
Confidence            577777777777777777667777777765553

>TIGR02729 Obg_CgtA Obg family GTPase CgtA

Probab=98.52  E-value=8.3e-07  Score=73.90  Aligned_cols=164  Identities=12%  Similarity=0.090  Sum_probs=85.9

Q ss_pred             EEEEEEEEecCCEEEEeecCce--eeEE-EEEEEecceecceecccCceehhccCCCcccccccccccccchhhhhhhhc
Q psy9646          41 GRLERGIVKKGMECEFTGYGRQ--FKTT-VTGIEMFHKILDEAQAGDQLGALVKGMKRDEVNRGLIMAKPVLADKKLAKV  117 (211)
Q Consensus        41 G~v~~G~i~~g~~v~i~p~~~~--~~~~-v~~i~~~~~~~~~a~~G~~v~~~l~~~~~~~v~~G~ii~~~~~~~~~~~~f  117 (211)
                      |++..--.+.|+++.++..+.-  -... -++-.......+...+|+...+.|. +. .-...+.+    ..+..+++++
T Consensus       100 ~~~~~~~~~~~~~~~~a~gg~gg~gn~~f~~~~~~~p~~~~~g~~g~~~~~~le-lk-~~adV~lv----G~pnaGKSTL  173 (329)
T TIGR02729       100 GELLADLTEPGQRFVVAKGGRGGLGNAHFKSSTNRAPRFATPGEPGEERWLRLE-LK-LLADVGLV----GLPNAGKSTL  173 (329)
T ss_pred             CcEEeEeccCCcEEEecCCCCCCCCcccccCccCCCCcccCCCCCCcEEEEEEE-ee-ccccEEEE----cCCCCCHHHH
Confidence            4555566677888888665520  0111 1111111233455667776665443 11 00111111    2334555555


Q ss_pred             ccccccccchhhcccceEEeEeEEEeeeCC-ceeEeecCCcccc-------cHhHHhhhccccceEEEEEeccCC----C
Q psy9646         118 KQYADIDNAPEEKARGITINVAHVEYATEN-RHYSHTDCPGHAD-------YIKNMITGTSQMDGAILVVAATDG----A  185 (211)
Q Consensus       118 ~~~i~~~~~~~e~~rg~tv~~~~~~~~~~~-~~~~~iDtPG~~~-------~~~~~~~~~~~~d~~~~vvd~~~~----~  185 (211)
                      ...+.............|.......+...+ .++.++||||+.+       +....+..++.+|++++|+|+...    .
T Consensus       174 l~~lt~~~~~va~y~fTT~~p~ig~v~~~~~~~~~i~D~PGli~~a~~~~gLg~~flrhierad~ll~VvD~s~~~~~~~  253 (329)
T TIGR02729       174 ISAVSAAKPKIADYPFTTLVPNLGVVRVDDGRSFVIADIPGLIEGASEGAGLGHRFLKHIERTRVLLHLIDISPLDGRDP  253 (329)
T ss_pred             HHHHhcCCccccCCCCCccCCEEEEEEeCCceEEEEEeCCCcccCCcccccHHHHHHHHHHhhCEEEEEEcCccccccCH
Confidence            544422111111112344444555556555 7899999999742       345566777889999999998754    1


Q ss_pred             CcchHHHHHHHHH-----cCCCeEEEEEeCC
Q psy9646         186 MPQTREHLLLAKQ-----IGVTNIVVFINKF  211 (211)
Q Consensus       186 ~~~~~~~~~~~~~-----~~~~~~i~~inK~  211 (211)
                      ..+-..+.+.+..     .+.| +++|+||+
T Consensus       254 ~e~l~~l~~EL~~~~~~l~~kp-~IIV~NK~  283 (329)
T TIGR02729       254 IEDYEIIRNELKKYSPELAEKP-RIVVLNKI  283 (329)
T ss_pred             HHHHHHHHHHHHHhhhhhccCC-EEEEEeCc
Confidence            1222223333332     2456 77899996

This model describes a univeral, mostly one-gene-per-genome GTP-binding protein that associates with ribosomal subunits and appears to play a role in ribosomal RNA maturation. This GTPase, related to the nucleolar protein Obg, is designated CgtA in bacteria. Mutations in this gene are pleiotropic, but it appears that effects on cellular functions such as chromosome partition may be secondary to the effect on ribosome structure. Recent work done in Vibrio cholerae shows an essential role in the stringent response, in which RelA-dependent ability to synthesize the alarmone ppGpp is required for deletion of this GTPase to be lethal.

>cd03689 RF3_II RF3_II: this subfamily represents the domain II of bacterial Release Factor 3 (RF3)

Probab=98.52  E-value=7.8e-07  Score=59.33  Aligned_cols=69  Identities=20%  Similarity=0.380  Sum_probs=53.5

Q ss_pred             ecCCcEEEEEEEEEEEEecCCEEEEeecCceeeEEEEEEEecc----eecceecccCceehhccCCCcccccccccccc
Q psy9646          32 IPGRGTVVTGRLERGIVKKGMECEFTGYGRQFKTTVTGIEMFH----KILDEAQAGDQLGALVKGMKRDEVNRGLIMAK  106 (211)
Q Consensus        32 ~~~~G~v~~G~v~~G~i~~g~~v~i~p~~~~~~~~v~~i~~~~----~~~~~a~~G~~v~~~l~~~~~~~v~~G~ii~~  106 (211)
                      .++.|++..+||.+|.++.||.|.....++  +.++..|...+    .++++|.|||++.+    ....++..|+++++
T Consensus        12 ~~~~Gkla~~Rv~sG~l~~g~~v~~~~~~~--~~kv~~l~~~~g~~~~~v~~a~aGdIv~v----~gl~~~~~Gdtl~~   84 (85)
T cd03689          12 PAHRDRIAFVRVCSGKFERGMKVKHVRLGK--EVRLSNPQQFFAQDRETVDEAYPGDIIGL----VNPGNFQIGDTLTE   84 (85)
T ss_pred             CCCCcEEEEEEEECCEEcCCCEEEEcCCCC--EEEeeEeEEEecCCeeEcCEECCCCEEEE----ECCCCccccCEeeC
Confidence            567899999999999999999998765543  45566665443    58899999999987    23456788988863

Termination of protein synthesis by the ribosome requires two release factor (RF) classes. The class II RF3 is a GTPase that removes class I RFs (RF1 or RF2) from the ribosome after release of the nascent polypeptide. RF3 in the GDP state binds to the ribosomal class I RF complex, followed by an exchange of GDP for GTP and release of the class I RF. Sequence comparison of class II release factors with elongation factors shows that prokaryotic RF3 is more similar to EF-G whereas eukaryotic eRF3 is more similar to eEF1A, implying that their precise function may differ.

>cd01897 NOG NOG1 is a nucleolar GTP-binding protein present in eukaryotes ranging from trypanosomes to humans

Probab=98.52  E-value=4.3e-07  Score=67.80  Aligned_cols=78  Identities=15%  Similarity=0.177  Sum_probs=48.9

Q ss_pred             ceEEeEeEEEeeeCCceeEeecCCccccc-------H-hHHhhhc-cccceEEEEEeccCCCC---cchHHHHHHHHHc-
Q psy9646         133 GITINVAHVEYATENRHYSHTDCPGHADY-------I-KNMITGT-SQMDGAILVVAATDGAM---PQTREHLLLAKQI-  199 (211)
Q Consensus       133 g~tv~~~~~~~~~~~~~~~~iDtPG~~~~-------~-~~~~~~~-~~~d~~~~vvd~~~~~~---~~~~~~~~~~~~~-  199 (211)
                      +.|.......+..++.++.++||||+.+.       . .....++ ..+|++++|+|+.....   .....++..++.. 
T Consensus        32 ~~t~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~~~~~~~~~~d~~l~v~d~~~~~~~~~~~~~~~~~~l~~~~  111 (168)
T cd01897          32 FTTKSLFVGHFDYKYLRWQVIDTPGLLDRPLEERNTIEMQAITALAHLRAAVLFLFDPSETCGYSLEEQLSLFEEIKPLF  111 (168)
T ss_pred             CcccceeEEEEccCceEEEEEECCCcCCccccCCchHHHHHHHHHHhccCcEEEEEeCCcccccchHHHHHHHHHHHhhc
Confidence            34555555556666789999999998421       1 1222222 23689999999976432   2223445555544 


Q ss_pred             -CCCeEEEEEeCC
Q psy9646         200 -GVTNIVVFINKF  211 (211)
Q Consensus       200 -~~~~~i~~inK~  211 (211)
                       +.| +|+++||+
T Consensus       112 ~~~p-vilv~NK~  123 (168)
T cd01897         112 KNKP-VIVVLNKI  123 (168)
T ss_pred             CcCC-eEEEEEcc
Confidence             677 88999996

NOG1 is functionally linked to ribosome biogenesis and found in association with the nuclear pore complexes and identified in many preribosomal complexes. Thus, defects in NOG1 can lead to defects in 60S biogenesis. The S. cerevisiae NOG1 gene is essential for cell viability, and mutations in the predicted G motifs abrogate function. It is a member of the ODN family of GTP-binding proteins that also includes the bacterial Obg and DRG proteins.

>PRK12297 obgE GTPase CgtA; Reviewed

Probab=98.52  E-value=1.1e-06  Score=75.43  Aligned_cols=165  Identities=15%  Similarity=0.135  Sum_probs=88.6

Q ss_pred             EEEEEEEEEecCCEEEEeecCcee---eEEEEEEEecceecceecccCceehhccCCCcccccccccccccchhhhhhhh
Q psy9646          40 TGRLERGIVKKGMECEFTGYGRQF---KTTVTGIEMFHKILDEAQAGDQLGALVKGMKRDEVNRGLIMAKPVLADKKLAK  116 (211)
Q Consensus        40 ~G~v~~G~i~~g~~v~i~p~~~~~---~~~v~~i~~~~~~~~~a~~G~~v~~~l~~~~~~~v~~G~ii~~~~~~~~~~~~  116 (211)
                      +|++..--.+.|+++.++..|.--   ..-.++......-.+...+|+.-.+.|. +. .-...|.    -..+..++++
T Consensus       100 ~~~~~~dl~~~~~~~~va~GG~gG~gn~~F~~s~~~~p~~~~~G~~ge~~~~~le-lk-~~adVgl----VG~pNaGKST  173 (424)
T PRK12297        100 TGEVIADLVEPGQEVVVAKGGRGGRGNAHFATSTNQAPRIAENGEPGEERELRLE-LK-LLADVGL----VGFPNVGKST  173 (424)
T ss_pred             CCcEEeeeccCCcEEEEECCCCCCcCchhhcCCCCCCCCcCCCCCCCeEeEEEEe-ec-ccCcEEE----EcCCCCCHHH
Confidence            355666666778888886665200   1112222222223344556666665443 11 0011111    1234456666


Q ss_pred             cccccccccchhhcccceEEeEeEEEeeeC-CceeEeecCCcccc-------cHhHHhhhccccceEEEEEeccCC----
Q psy9646         117 VKQYADIDNAPEEKARGITINVAHVEYATE-NRHYSHTDCPGHAD-------YIKNMITGTSQMDGAILVVAATDG----  184 (211)
Q Consensus       117 f~~~i~~~~~~~e~~rg~tv~~~~~~~~~~-~~~~~~iDtPG~~~-------~~~~~~~~~~~~d~~~~vvd~~~~----  184 (211)
                      +...+.-...+.......|....+..+... +.++.+.||||..+       +....+..++.+|++++|+|+...    
T Consensus       174 LLn~Lt~ak~kIa~ypfTTl~PnlG~v~~~~~~~~~laD~PGliega~~~~gLg~~fLrhier~~llI~VID~s~~~~~d  253 (424)
T PRK12297        174 LLSVVSNAKPKIANYHFTTLVPNLGVVETDDGRSFVMADIPGLIEGASEGVGLGHQFLRHIERTRVIVHVIDMSGSEGRD  253 (424)
T ss_pred             HHHHHHcCCCccccCCcceeceEEEEEEEeCCceEEEEECCCCcccccccchHHHHHHHHHhhCCEEEEEEeCCccccCC
Confidence            655443222122222345555555656655 67899999999642       345556667889999999998643    


Q ss_pred             CCcchHHHHHHHHH-----cCCCeEEEEEeCC
Q psy9646         185 AMPQTREHLLLAKQ-----IGVTNIVVFINKF  211 (211)
Q Consensus       185 ~~~~~~~~~~~~~~-----~~~~~~i~~inK~  211 (211)
                      .......+.+.+..     .+.| +++|+||+
T Consensus       254 p~e~~~~i~~EL~~y~~~L~~kP-~IVV~NK~  284 (424)
T PRK12297        254 PIEDYEKINKELKLYNPRLLERP-QIVVANKM  284 (424)
T ss_pred             hHHHHHHHHHHHhhhchhccCCc-EEEEEeCC
Confidence            22222334444443     3566 77899996

>cd01898 Obg Obg subfamily

Probab=98.51  E-value=2.7e-07  Score=68.97  Aligned_cols=76  Identities=11%  Similarity=0.062  Sum_probs=49.0

Q ss_pred             EEeEeEEEeeeCCc-eeEeecCCccc-------ccHhHHhhhccccceEEEEEeccCCC-C-cchHHHHHHHHHc-----
Q psy9646         135 TINVAHVEYATENR-HYSHTDCPGHA-------DYIKNMITGTSQMDGAILVVAATDGA-M-PQTREHLLLAKQI-----  199 (211)
Q Consensus       135 tv~~~~~~~~~~~~-~~~~iDtPG~~-------~~~~~~~~~~~~~d~~~~vvd~~~~~-~-~~~~~~~~~~~~~-----  199 (211)
                      +.......+...+. ++.|+||||+.       .+....+..+..+|++++|+|+.... . ..-..+.+.+...     
T Consensus        34 t~~~~~~~~~~~~~~~~~l~DtpG~~~~~~~~~~~~~~~~~~~~~~d~vi~v~D~~~~~~~~~~~~~~~~~l~~~~~~~~  113 (170)
T cd01898          34 TLVPNLGVVRVDDGRSFVVADIPGLIEGASEGKGLGHRFLRHIERTRLLLHVIDLSGDDDPVEDYKTIRNELELYNPELL  113 (170)
T ss_pred             ccCCcceEEEcCCCCeEEEEecCcccCcccccCCchHHHHHHHHhCCEEEEEEecCCCCCHHHHHHHHHHHHHHhCcccc
Confidence            34434444555565 89999999964       24455666677899999999998762 1 2223343444332     


Q ss_pred             CCCeEEEEEeCC
Q psy9646         200 GVTNIVVFINKF  211 (211)
Q Consensus       200 ~~~~~i~~inK~  211 (211)
                      +.| +++++||+
T Consensus       114 ~~p-~ivv~NK~  124 (170)
T cd01898         114 EKP-RIVVLNKI  124 (170)
T ss_pred             ccc-cEEEEEch
Confidence            456 77899995

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.

>TIGR00437 feoB ferrous iron transporter FeoB

Probab=98.50  E-value=5.9e-07  Score=80.31  Aligned_cols=81  Identities=15%  Similarity=0.144  Sum_probs=59.0

Q ss_pred             hhcccceEEeEeEEEeeeCCceeEeecCCcccccHhH-----H---hhhccccceEEEEEeccCCCCcchHHHHHHHHHc
Q psy9646         128 EEKARGITINVAHVEYATENRHYSHTDCPGHADYIKN-----M---ITGTSQMDGAILVVAATDGAMPQTREHLLLAKQI  199 (211)
Q Consensus       128 ~e~~rg~tv~~~~~~~~~~~~~~~~iDtPG~~~~~~~-----~---~~~~~~~d~~~~vvd~~~~~~~~~~~~~~~~~~~  199 (211)
                      ....+|.|++.....++.++.++.++||||+.++...     +   ......+|++++|+|+...  ........++.+.
T Consensus        21 v~n~pG~Tv~~~~~~i~~~~~~i~lvDtPG~~~~~~~s~~e~v~~~~l~~~~aDvvI~VvDat~l--er~l~l~~ql~~~   98 (591)
T TIGR00437        21 VGNWPGVTVEKKEGKLGFQGEDIEIVDLPGIYSLTTFSLEEEVARDYLLNEKPDLVVNVVDASNL--ERNLYLTLQLLEL   98 (591)
T ss_pred             ecCCCCeEEEEEEEEEEECCeEEEEEECCCccccCccchHHHHHHHHHhhcCCCEEEEEecCCcc--hhhHHHHHHHHhc
Confidence            3445678888888888888889999999999876421     1   1233578999999999763  2233444556677


Q ss_pred             CCCeEEEEEeCC
Q psy9646         200 GVTNIVVFINKF  211 (211)
Q Consensus       200 ~~~~~i~~inK~  211 (211)
                      ++| +++++||+
T Consensus        99 ~~P-iIIVlNK~  109 (591)
T TIGR00437        99 GIP-MILALNLV  109 (591)
T ss_pred             CCC-EEEEEehh
Confidence            888 78999996

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.

>PRK05291 trmE tRNA modification GTPase TrmE; Reviewed

Probab=98.50  E-value=3.2e-07  Score=79.50  Aligned_cols=100  Identities=14%  Similarity=0.066  Sum_probs=65.4

Q ss_pred             hhhhhhhhcccccccccc-hhhcccceEEeEeEEEeeeCCceeEeecCCcccccH--------hHHhhhccccceEEEEE
Q psy9646         109 LADKKLAKVKQYADIDNA-PEEKARGITINVAHVEYATENRHYSHTDCPGHADYI--------KNMITGTSQMDGAILVV  179 (211)
Q Consensus       109 ~~~~~~~~f~~~i~~~~~-~~e~~rg~tv~~~~~~~~~~~~~~~~iDtPG~~~~~--------~~~~~~~~~~d~~~~vv  179 (211)
                      .+..|++++...+.-... ......+.|.+.....+...+..+.++||||++++.        ..++..+..+|++++|+
T Consensus       223 ~~nvGKSSLln~L~~~~~a~v~~~~gtT~d~~~~~i~~~g~~i~l~DT~G~~~~~~~ie~~gi~~~~~~~~~aD~il~Vv  302 (449)
T PRK05291        223 RPNVGKSSLLNALLGEERAIVTDIAGTTRDVIEEHINLDGIPLRLIDTAGIRETDDEVEKIGIERSREAIEEADLVLLVL  302 (449)
T ss_pred             CCCCCHHHHHHHHhCCCCcccCCCCCcccccEEEEEEECCeEEEEEeCCCCCCCccHHHHHHHHHHHHHHHhCCEEEEEe
Confidence            334455554443322211 123345667666666677788899999999987642        23455678899999999


Q ss_pred             eccCCCCcchHHHHHHHHHcCCCeEEEEEeCC
Q psy9646         180 AATDGAMPQTREHLLLAKQIGVTNIVVFINKF  211 (211)
Q Consensus       180 d~~~~~~~~~~~~~~~~~~~~~~~~i~~inK~  211 (211)
                      |+..+...+....+..  ..+.| +++|+||+
T Consensus       303 D~s~~~s~~~~~~l~~--~~~~p-iiiV~NK~  331 (449)
T PRK05291        303 DASEPLTEEDDEILEE--LKDKP-VIVVLNKA  331 (449)
T ss_pred             cCCCCCChhHHHHHHh--cCCCC-cEEEEEhh
Confidence            9988766555544443  34667 78999996

>cd01861 Rab6 Rab6 subfamily

Probab=98.50  E-value=5.4e-07  Score=66.69  Aligned_cols=100  Identities=16%  Similarity=0.071  Sum_probs=62.2

Q ss_pred             hhhhhhcccccccccchhhcccceEEeEeEEEeeeCC--ceeEeecCCcccccHhHHhhhccccceEEEEEeccCCCCc-
Q psy9646         111 DKKLAKVKQYADIDNAPEEKARGITINVAHVEYATEN--RHYSHTDCPGHADYIKNMITGTSQMDGAILVVAATDGAMP-  187 (211)
Q Consensus       111 ~~~~~~f~~~i~~~~~~~e~~rg~tv~~~~~~~~~~~--~~~~~iDtPG~~~~~~~~~~~~~~~d~~~~vvd~~~~~~~-  187 (211)
                      ..|++++...+.......+.....+.+.....+..++  .++.+.||||+..+.......+..+|++++|+|......- 
T Consensus        10 ~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~D~~G~~~~~~~~~~~~~~~~~ii~v~d~~~~~s~~   89 (161)
T cd01861          10 SVGKTSIITRFMYDTFDNQYQATIGIDFLSKTMYLEDKTVRLQLWDTAGQERFRSLIPSYIRDSSVAVVVYDITNRQSFD   89 (161)
T ss_pred             CCCHHHHHHHHHcCCCCccCCCceeeeEEEEEEEECCEEEEEEEEECCCcHHHHHHHHHHhccCCEEEEEEECcCHHHHH
Confidence            3455555444433333333344444444444444443  4689999999999888777888999999999998765432 


Q ss_pred             chHHHHHHH-HHcC--CCeEEEEEeCC
Q psy9646         188 QTREHLLLA-KQIG--VTNIVVFINKF  211 (211)
Q Consensus       188 ~~~~~~~~~-~~~~--~~~~i~~inK~  211 (211)
                      ....++... ...+  .| +++++||+
T Consensus        90 ~~~~~~~~~~~~~~~~~~-iilv~nK~  115 (161)
T cd01861          90 NTDKWIDDVRDERGNDVI-IVLVGNKT  115 (161)
T ss_pred             HHHHHHHHHHHhCCCCCE-EEEEEECh
Confidence            223333333 2333  66 88999996

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

>cd00880 Era_like Era (E

Probab=98.49  E-value=8.9e-07  Score=64.51  Aligned_cols=78  Identities=19%  Similarity=0.166  Sum_probs=55.9

Q ss_pred             ceEEeEeEEEeeeC-CceeEeecCCcccccH-------hHHhhhccccceEEEEEeccCCCCcchHHHHHHHHHcCCCeE
Q psy9646         133 GITINVAHVEYATE-NRHYSHTDCPGHADYI-------KNMITGTSQMDGAILVVAATDGAMPQTREHLLLAKQIGVTNI  204 (211)
Q Consensus       133 g~tv~~~~~~~~~~-~~~~~~iDtPG~~~~~-------~~~~~~~~~~d~~~~vvd~~~~~~~~~~~~~~~~~~~~~~~~  204 (211)
                      +.+.......+... ...+.++||||+.++.       ..+...+..+|++++++|+..........+.......+.| +
T Consensus        29 ~~~~~~~~~~~~~~~~~~~~~~Dt~g~~~~~~~~~~~~~~~~~~~~~~d~il~v~~~~~~~~~~~~~~~~~~~~~~~~-~  107 (163)
T cd00880          29 GTTTDPVEYVWELGPLGPVVLIDTPGIDEAGGLGREREELARRVLERADLILFVVDADLRADEEEEKLLELLRERGKP-V  107 (163)
T ss_pred             CcEECCeEEEEEecCCCcEEEEECCCCCccccchhhHHHHHHHHHHhCCEEEEEEeCCCCCCHHHHHHHHHHHhcCCe-E
Confidence            33433333333333 6789999999987653       3455677899999999999988776666556666677888 7


Q ss_pred             EEEEeCC
Q psy9646         205 VVFINKF  211 (211)
Q Consensus       205 i~~inK~  211 (211)
                      ++++||+
T Consensus       108 ivv~nK~  114 (163)
T cd00880         108 LLVLNKI  114 (163)
T ss_pred             EEEEEcc
Confidence            8999995

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

>cd04124 RabL2 RabL2 subfamily

Probab=98.48  E-value=8e-07  Score=66.18  Aligned_cols=64  Identities=14%  Similarity=0.120  Sum_probs=48.4

Q ss_pred             CceeEeecCCcccccHhHHhhhccccceEEEEEeccCCCCcch-HHHHHHHHHc--CCCeEEEEEeCC
Q psy9646         147 NRHYSHTDCPGHADYIKNMITGTSQMDGAILVVAATDGAMPQT-REHLLLAKQI--GVTNIVVFINKF  211 (211)
Q Consensus       147 ~~~~~~iDtPG~~~~~~~~~~~~~~~d~~~~vvd~~~~~~~~~-~~~~~~~~~~--~~~~~i~~inK~  211 (211)
                      ...+.+.||||++.|.......+..+|++++|+|+.+...-+. +.++..++..  +.| ++++.||+
T Consensus        48 ~~~~~i~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~p-~ivv~nK~  114 (161)
T cd04124          48 TILVDFWDTAGQERFQTMHASYYHKAHACILVFDVTRKITYKNLSKWYEELREYRPEIP-CIVVANKI  114 (161)
T ss_pred             EEEEEEEeCCCchhhhhhhHHHhCCCCEEEEEEECCCHHHHHHHHHHHHHHHHhCCCCc-EEEEEECc
Confidence            3467899999999998877788899999999999876644222 3344555443  567 78999995

RabL2 (Rab-like2) subfamily. RabL2s are novel Rab proteins identified recently which display features that are distinct from other Rabs, and have been termed Rab-like. RabL2 contains RabL2a and RabL2b, two very similar Rab proteins that share 98% sequence identity in humans. RabL2b maps to the subtelomeric region of chromosome 22q13.3 and RabL2a maps to 2q13, a region that suggests it is also a subtelomeric gene. Both genes are believed to be expressed ubiquitously, suggesting that RabL2s are the first example of duplicated genes in human proximal subtelomeric regions that are both expressed actively. Like other Rab-like proteins, RabL2s lack a prenylation site at the C-terminus. The specific functions of RabL2a and RabL2b remain 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-b

>smart00175 RAB Rab subfamily of small GTPases

Probab=98.47  E-value=8.2e-07  Score=65.80  Aligned_cols=100  Identities=14%  Similarity=0.075  Sum_probs=61.2

Q ss_pred             hhhhhhcccccccccchhhcccceEEeEeEEEeeeCC--ceeEeecCCcccccHhHHhhhccccceEEEEEeccCCCCcc
Q psy9646         111 DKKLAKVKQYADIDNAPEEKARGITINVAHVEYATEN--RHYSHTDCPGHADYIKNMITGTSQMDGAILVVAATDGAMPQ  188 (211)
Q Consensus       111 ~~~~~~f~~~i~~~~~~~e~~rg~tv~~~~~~~~~~~--~~~~~iDtPG~~~~~~~~~~~~~~~d~~~~vvd~~~~~~~~  188 (211)
                      ..|++++...+..........+..+.+.....+...+  .++.+.||||+..|.......+..+|++++|+|+.+...-+
T Consensus        10 ~~GKTtli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~D~~G~~~~~~~~~~~~~~~d~~ilv~d~~~~~s~~   89 (164)
T smart00175       10 GVGKSSLLSRFTDGKFSEQYKSTIGVDFKTKTIEVDGKRVKLQIWDTAGQERFRSITSSYYRGAVGALLVYDITNRESFE   89 (164)
T ss_pred             CCCHHHHHHHHhcCCCCCCCCCceeeEEEEEEEEECCEEEEEEEEECCChHHHHHHHHHHhCCCCEEEEEEECCCHHHHH
Confidence            3455555444432322233333333333334444444  57889999999999888888889999999999997654332


Q ss_pred             h-HHHHHHHHH---cCCCeEEEEEeCC
Q psy9646         189 T-REHLLLAKQ---IGVTNIVVFINKF  211 (211)
Q Consensus       189 ~-~~~~~~~~~---~~~~~~i~~inK~  211 (211)
                      . ..++..+..   .++| +++++||+
T Consensus        90 ~~~~~l~~~~~~~~~~~p-ivvv~nK~  115 (164)
T smart00175       90 NLKNWLKELREYADPNVV-IMLVGNKS  115 (164)
T ss_pred             HHHHHHHHHHHhCCCCCe-EEEEEEch
Confidence            2 123333322   3466 88999995

Rab GTPases are implicated in vesicle trafficking.

>cd04091 mtEFG1_II_like mtEFG1_C: C-terminus of mitochondrial Elongation factor G1 (mtEFG1)-like proteins found in eukaryotes

Probab=98.46  E-value=1.6e-06  Score=57.22  Aligned_cols=64  Identities=28%  Similarity=0.347  Sum_probs=50.2

Q ss_pred             CcEEEEEEEEEEEEecCCEEEEeecCceeeEEEEEEEecc----eecceecccCceehhccCCCccccccccccc
Q psy9646          35 RGTVVTGRLERGIVKKGMECEFTGYGRQFKTTVTGIEMFH----KILDEAQAGDQLGALVKGMKRDEVNRGLIMA  105 (211)
Q Consensus        35 ~G~v~~G~v~~G~i~~g~~v~i~p~~~~~~~~v~~i~~~~----~~~~~a~~G~~v~~~l~~~~~~~v~~G~ii~  105 (211)
                      .|.+..+||.+|.+++||+|.....++  +.+|.+|....    .+++++.|||++++  .++  + ++.|++++
T Consensus        13 ~G~i~~~Rv~sG~lk~gd~v~~~~~~~--~~~v~~i~~~~g~~~~~~~~~~aGdI~~i--~g~--~-~~~Gdtl~   80 (81)
T cd04091          13 FGQLTYMRIYQGKLKKGDTIYNVRTGK--KVRVPRLVRMHSNEMEEVEEAGAGDICAI--FGI--D-CASGDTFT   80 (81)
T ss_pred             CCCEEEEEEecCEEcCCCEEEEcCCCC--EEEEeEEEEEeCCCceEccEECCCCEEEE--ECC--C-cccCCEec
Confidence            499999999999999999998877654  56677775443    58899999999884  433  3 77888775

Eukaryotic cells harbor 2 protein synthesis systems: one localized in the cytoplasm, the other in the mitochondria. Most factors regulating mitochondrial protein synthesis are encoded by nuclear genes, translated in the cytoplasm, and then transported to the mitochondria. The eukaryotic system of elongation factor (EF) components is more complex than that in prokaryotes, with both cytoplasmic and mitochondrial elongation factors and multiple isoforms being expressed in certain species. Eukaryotic EF-2 operates in the cytosolic protein synthesis machinery of eukaryotes, EF-Gs in protein synthesis in bacteria. Eukaryotic mtEFG1 proteins show significant homology to bacterial EF-Gs. Mutants in yeast mtEFG1 have impaired mitochondrial protein synthesis, respiratory defects and a tendency to lose mitochondrial DNA. There are two forms of mtEFG present in mammals

>PRK09554 feoB ferrous iron transport protein B; Reviewed

Probab=98.44  E-value=8.1e-07  Score=81.47  Aligned_cols=99  Identities=15%  Similarity=0.155  Sum_probs=67.1

Q ss_pred             hhhhhhhcccccccccchhhcccceEEeEeEEEeeeCCceeEeecCCcccccHh--------HH----hhhccccceEEE
Q psy9646         110 ADKKLAKVKQYADIDNAPEEKARGITINVAHVEYATENRHYSHTDCPGHADYIK--------NM----ITGTSQMDGAIL  177 (211)
Q Consensus       110 ~~~~~~~f~~~i~~~~~~~e~~rg~tv~~~~~~~~~~~~~~~~iDtPG~~~~~~--------~~----~~~~~~~d~~~~  177 (211)
                      +..||+++...+.-.+.....-.|.|++.....+.+++.++.++||||+.++..        +.    .-....+|++++
T Consensus        12 pNvGKSTLfN~Ltg~~~~vgn~pGvTve~k~g~~~~~~~~i~lvDtPG~ysl~~~~~~~s~~E~i~~~~l~~~~aD~vI~   91 (772)
T PRK09554         12 PNSGKTTLFNQLTGARQRVGNWAGVTVERKEGQFSTTDHQVTLVDLPGTYSLTTISSQTSLDEQIACHYILSGDADLLIN   91 (772)
T ss_pred             CCCCHHHHHHHHhCCCCccCCCCCceEeeEEEEEEcCceEEEEEECCCccccccccccccHHHHHHHHHHhccCCCEEEE
Confidence            344555544333222222333467888888888888999999999999987642        11    111247899999


Q ss_pred             EEeccCCCCcchHHHHHHHHHcCCCeEEEEEeCC
Q psy9646         178 VVAATDGAMPQTREHLLLAKQIGVTNIVVFINKF  211 (211)
Q Consensus       178 vvd~~~~~~~~~~~~~~~~~~~~~~~~i~~inK~  211 (211)
                      |+|+....  ....+..++.+.++| +++++||+
T Consensus        92 VvDat~le--r~l~l~~ql~e~giP-vIvVlNK~  122 (772)
T PRK09554         92 VVDASNLE--RNLYLTLQLLELGIP-CIVALNML  122 (772)
T ss_pred             EecCCcch--hhHHHHHHHHHcCCC-EEEEEEch
Confidence            99997643  234456677888999 77999996

>cd00154 Rab Rab family

Probab=98.42  E-value=1.3e-06  Score=63.93  Aligned_cols=99  Identities=15%  Similarity=0.075  Sum_probs=60.7

Q ss_pred             hhhhhcccccccccchhhcccceEEeEeEEEeee--CCceeEeecCCcccccHhHHhhhccccceEEEEEeccCCCC-cc
Q psy9646         112 KKLAKVKQYADIDNAPEEKARGITINVAHVEYAT--ENRHYSHTDCPGHADYIKNMITGTSQMDGAILVVAATDGAM-PQ  188 (211)
Q Consensus       112 ~~~~~f~~~i~~~~~~~e~~rg~tv~~~~~~~~~--~~~~~~~iDtPG~~~~~~~~~~~~~~~d~~~~vvd~~~~~~-~~  188 (211)
                      .|++++...+.......+..+....+.....+..  ....+.+.|+||+..+.......++.+|++++++|+.+... ..
T Consensus        11 ~GKStl~~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~d~ii~v~d~~~~~~~~~   90 (159)
T cd00154          11 VGKTSLLLRFVDGKFDENYKSTIGVDFKSKTIEIDGKTVKLQIWDTAGQERFRSITPSYYRGAHGAILVYDITNRESFEN   90 (159)
T ss_pred             CCHHHHHHHHHhCcCCCccCCceeeeeEEEEEEECCEEEEEEEEecCChHHHHHHHHHHhcCCCEEEEEEECCCHHHHHH
Confidence            4455554444323222222233333333333333  33568899999999998888889999999999999976432 22


Q ss_pred             hHHHHHHHHHc---CCCeEEEEEeCC
Q psy9646         189 TREHLLLAKQI---GVTNIVVFINKF  211 (211)
Q Consensus       189 ~~~~~~~~~~~---~~~~~i~~inK~  211 (211)
                      ...++..+...   +.| +++++||+
T Consensus        91 ~~~~~~~~~~~~~~~~p-~ivv~nK~  115 (159)
T cd00154          91 LDKWLKELKEYAPENIP-IILVGNKI  115 (159)
T ss_pred             HHHHHHHHHHhCCCCCc-EEEEEEcc
Confidence            23344444443   366 78899995

Rab GTPases form the largest family within the Ras superfamily. There are at least 60 Rab genes in the human genome, and a number of Rab GTPases are conserved from yeast to humans. Rab GTPases are small, monomeric proteins that function as molecular switches to regulate vesicle trafficking pathways. The different Rab GTPases are localized to the cytosolic face of specific intracellular membranes, where they regulate distinct steps in membrane traffic pathways. In the GTP-bound form, Rab GTPases recruit specific sets of effector proteins onto membranes. Through their effectors, Rab GTPases regulate vesicle formation, actin- and tubulin-dependent vesicle movement, and membrane fusion. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide di

>COG0486 ThdF Predicted GTPase [General function prediction only]

Probab=98.39  E-value=1e-06  Score=74.94  Aligned_cols=109  Identities=16%  Similarity=0.074  Sum_probs=79.3

Q ss_pred             cccccccchhhhhhhhccccccc-ccchhhcccceEEeEeEEEeeeCCceeEeecCCcccc---c-----HhHHhhhccc
Q psy9646         101 GLIMAKPVLADKKLAKVKQYADI-DNAPEEKARGITINVAHVEYATENRHYSHTDCPGHAD---Y-----IKNMITGTSQ  171 (211)
Q Consensus       101 G~ii~~~~~~~~~~~~f~~~i~~-~~~~~e~~rg~tv~~~~~~~~~~~~~~~~iDtPG~~~---~-----~~~~~~~~~~  171 (211)
                      |.-++-.+.|..|++++...+.- +..=..--.|+|.+.--..+..++..+.++||.|.++   .     ++.++..+..
T Consensus       217 G~kvvIiG~PNvGKSSLLNaL~~~d~AIVTdI~GTTRDviee~i~i~G~pv~l~DTAGiRet~d~VE~iGIeRs~~~i~~  296 (454)
T COG0486         217 GLKVVIIGRPNVGKSSLLNALLGRDRAIVTDIAGTTRDVIEEDINLNGIPVRLVDTAGIRETDDVVERIGIERAKKAIEE  296 (454)
T ss_pred             CceEEEECCCCCcHHHHHHHHhcCCceEecCCCCCccceEEEEEEECCEEEEEEecCCcccCccHHHHHHHHHHHHHHHh
Confidence            33333344555666665544421 1111222457888888889999999999999999774   2     4668899999


Q ss_pred             cceEEEEEeccCCCCcchHHHHHHHHHcCCCeEEEEEeCC
Q psy9646         172 MDGAILVVAATDGAMPQTREHLLLAKQIGVTNIVVFINKF  211 (211)
Q Consensus       172 ~d~~~~vvd~~~~~~~~~~~~~~~~~~~~~~~~i~~inK~  211 (211)
                      ||.+++|+|+.+.+..++..++. +...+.| +++++||+
T Consensus       297 ADlvL~v~D~~~~~~~~d~~~~~-~~~~~~~-~i~v~NK~  334 (454)
T COG0486         297 ADLVLFVLDASQPLDKEDLALIE-LLPKKKP-IIVVLNKA  334 (454)
T ss_pred             CCEEEEEEeCCCCCchhhHHHHH-hcccCCC-EEEEEech
Confidence            99999999999998888888877 4455667 78999995

>PRK00741 prfC peptide chain release factor 3; Provisional

Probab=98.39  E-value=2.9e-06  Score=74.86  Aligned_cols=101  Identities=21%  Similarity=0.301  Sum_probs=75.9

Q ss_pred             hHHHHHhhhCCCCCC-C--------CCCCeeEEEeeEE---eecCCcEEEEEEEEEEEEecCCEEEEeecCceeeEEEEE
Q psy9646           2 ELLNQIDTYIPQPVR-D--------LDKPFYLPVEHTY---SIPGRGTVVTGRLERGIVKKGMECEFTGYGRQFKTTVTG   69 (211)
Q Consensus         2 ~ll~~l~~~i~~p~~-~--------~~~p~~~~v~~~~---~~~~~G~v~~G~v~~G~i~~g~~v~i~p~~~~~~~~v~~   69 (211)
                      .||++|.+++|.|.. .        .+.+|...|..+.   ..+++|++...||.||+++.|++|.....++  +.++..
T Consensus       264 ~LLd~i~~~~P~P~~~~~~~~~~~~~~~~~~~~VFK~~~~m~~~~~grlafvRV~sG~l~~g~~v~~~~~~k--~~ri~~  341 (526)
T PRK00741        264 EFLDAFVEWAPAPQPRQTDEREVEPTEEKFSGFVFKIQANMDPKHRDRIAFVRVCSGKFEKGMKVRHVRTGK--DVRISN  341 (526)
T ss_pred             HHHHHHHHHCCCCCcccccceeecCCCCceEEEEEEEEecCCCCcCceEEEEEEeccEECCCCEEEeccCCc--eEEecc
Confidence            589999999987742 1        1345666666665   3458999999999999999999998766654  555656


Q ss_pred             EEecc----eecceecccCceehhccCCCcccccccccccccc
Q psy9646          70 IEMFH----KILDEAQAGDQLGALVKGMKRDEVNRGLIMAKPV  108 (211)
Q Consensus        70 i~~~~----~~~~~a~~G~~v~~~l~~~~~~~v~~G~ii~~~~  108 (211)
                      +....    .++++|.|||++++    .+..+.+.|++++...
T Consensus       342 ~~~~~g~~~~~v~~a~aGDIv~v----~~l~~~~~GDTL~~~~  380 (526)
T PRK00741        342 ALTFMAQDREHVEEAYAGDIIGL----HNHGTIQIGDTFTQGE  380 (526)
T ss_pred             eEEEecCCceECceeCCCCEEEE----ECCCCCccCCCccCCC
Confidence            54332    68999999999987    3456788999998643

>cd04151 Arl1 Arl1 subfamily

Probab=98.39  E-value=9.5e-07  Score=65.43  Aligned_cols=69  Identities=23%  Similarity=0.214  Sum_probs=48.7

Q ss_pred             EeeeCCceeEeecCCcccccHhHHhhhccccceEEEEEeccCCCC-cc-hHHHHHHHHH---cCCCeEEEEEeCC
Q psy9646         142 EYATENRHYSHTDCPGHADYIKNMITGTSQMDGAILVVAATDGAM-PQ-TREHLLLAKQ---IGVTNIVVFINKF  211 (211)
Q Consensus       142 ~~~~~~~~~~~iDtPG~~~~~~~~~~~~~~~d~~~~vvd~~~~~~-~~-~~~~~~~~~~---~~~~~~i~~inK~  211 (211)
                      .++..+.++.++||||+.+|.......+..+|++++|+|+..... .. .+.+...++.   .+.| +++++||+
T Consensus        37 ~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~~~ii~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~p-iiiv~nK~  110 (158)
T cd04151          37 TVTYKNLKFQVWDLGGQTSIRPYWRCYYSNTDAIIYVVDSTDRDRLGTAKEELHAMLEEEELKGAV-LLVFANKQ  110 (158)
T ss_pred             EEEECCEEEEEEECCCCHHHHHHHHHHhcCCCEEEEEEECCCHHHHHHHHHHHHHHHhchhhcCCc-EEEEEeCC
Confidence            344567789999999999887766777899999999999876421 11 2223333332   3566 88999996

Arl1 (Arf-like 1) localizes to the Golgi complex, where it is believed to recruit effector proteins to the trans-Golgi network. Like most members of the Arf family, Arl1 is myristoylated at its N-terminal helix and mutation of the myristoylation site disrupts Golgi targeting. In humans, the Golgi-localized proteins golgin-97 and golgin-245 have been identified as Arl1 effectors. Golgins are large coiled-coil proteins found in the Golgi, and these golgins contain a C-terminal GRIP domain, which is the site of Arl1 binding. Additional Arl1 effectors include the GARP (Golgi-associated retrograde protein)/VFT (Vps53) vesicle-tethering complex and Arfaptin 2. Arl1 is not required for exocytosis, but appears necessary for trafficking from the endosomes to the Golgi. In Drosophila zygotes, mutation of Arl1 is lethal, and in the host-bloodstream form of Trypanosoma brucei, Arl1 is essential for viability.

>PRK00007 elongation factor G; Reviewed

Probab=98.38  E-value=2.5e-06  Score=77.78  Aligned_cols=100  Identities=24%  Similarity=0.342  Sum_probs=77.1

Q ss_pred             hHHHHHhhhCCCCCC--------------------CCCCCeeEEEeeEEeecCCcEEEEEEEEEEEEecCCEEEEeecCc
Q psy9646           2 ELLNQIDTYIPQPVR--------------------DLDKPFYLPVEHTYSIPGRGTVVTGRLERGIVKKGMECEFTGYGR   61 (211)
Q Consensus         2 ~ll~~l~~~i~~p~~--------------------~~~~p~~~~v~~~~~~~~~G~v~~G~v~~G~i~~g~~v~i~p~~~   61 (211)
                      .||++|..++|.|..                    +.++||.+.|..+...++.|.+..+||.+|+++.||+|...-.+ 
T Consensus       270 ~LLd~I~~~lPsP~~~~~~~~~~~~~~~~~~~~~~~~~~~l~a~VfK~~~d~~~G~ia~~RV~sGtl~~g~~v~~~~~~-  348 (693)
T PRK00007        270 PLLDAVVDYLPSPLDVPAIKGILPDGEEEEVERKASDDEPFSALAFKIMTDPFVGKLTFFRVYSGVLESGSYVLNSTKG-  348 (693)
T ss_pred             HHHHHHHHHCCChhhcccccccCCCccccceeecCCCCCCeEEEEEEeeecCCCCcEEEEEEeeeEEcCCCEEEeCCCC-
Confidence            589999999987741                    23568999999999999999999999999999999999754333 


Q ss_pred             eeeEEEEEEEecc----eecceecccCceehhccCCCccccccccccccc
Q psy9646          62 QFKTTVTGIEMFH----KILDEAQAGDQLGALVKGMKRDEVNRGLIMAKP  107 (211)
Q Consensus        62 ~~~~~v~~i~~~~----~~~~~a~~G~~v~~~l~~~~~~~v~~G~ii~~~  107 (211)
                       .+.+|.+|....    .+++++.|||++++  .+  ..++..|++++..
T Consensus       349 -~~eki~~l~~~~g~~~~~v~~~~aGdI~~i--~g--l~~~~~GdtL~~~  393 (693)
T PRK00007        349 -KKERIGRILQMHANKREEIKEVRAGDIAAA--VG--LKDTTTGDTLCDE  393 (693)
T ss_pred             -ceeEeceeEEeccCCcccccccCCCcEEEE--eC--CccCCcCCEeeCC
Confidence             245666665543    68999999999987  22  2356788888653

>KOG0463|consensus

Probab=98.38  E-value=4.4e-07  Score=75.18  Aligned_cols=63  Identities=30%  Similarity=0.499  Sum_probs=58.0

Q ss_pred             ceeEeecCCcccccHhHHhhhcc--ccceEEEEEeccCCCCcchHHHHHHHHHcCCCeEEEEEeCC
Q psy9646         148 RHYSHTDCPGHADYIKNMITGTS--QMDGAILVVAATDGAMPQTREHLLLAKQIGVTNIVVFINKF  211 (211)
Q Consensus       148 ~~~~~iDtPG~~~~~~~~~~~~~--~~d~~~~vvd~~~~~~~~~~~~~~~~~~~~~~~~i~~inK~  211 (211)
                      .-++|||-.||++|++.+..|+.  ..|..++++.++.|+-+.+++|+.++..+.+| +++|++||
T Consensus       219 KviTFIDLAGHEkYLKTTvFGMTGH~PDf~MLMiGaNaGIiGmTKEHLgLALaL~VP-VfvVVTKI  283 (641)
T KOG0463|consen  219 KVITFIDLAGHEKYLKTTVFGMTGHMPDFTMLMIGANAGIIGMTKEHLGLALALHVP-VFVVVTKI  283 (641)
T ss_pred             eeEEEEeccchhhhhheeeeccccCCCCceEEEecccccceeccHHhhhhhhhhcCc-EEEEEEee
Confidence            45899999999999999999886  47999999999999999999999999999999 66899996

>COG0218 Predicted GTPase [General function prediction only]

Probab=98.38  E-value=1.9e-06  Score=65.76  Aligned_cols=96  Identities=18%  Similarity=0.269  Sum_probs=67.4

Q ss_pred             hhhhhccccccccc--chhhcccceEEeEeEEEeeeCCceeEeecCCcccc-------------cHhHHhhhccccceEE
Q psy9646         112 KKLAKVKQYADIDN--APEEKARGITINVAHVEYATENRHYSHTDCPGHAD-------------YIKNMITGTSQMDGAI  176 (211)
Q Consensus       112 ~~~~~f~~~i~~~~--~~~e~~rg~tv~~~~~~~~~~~~~~~~iDtPG~~~-------------~~~~~~~~~~~~d~~~  176 (211)
                      .|++++...+....  .......|.|..+.+..+..   ++.|+|-||...             ++.+-+..=+.-.+++
T Consensus        35 VGKSSlIN~l~~~k~LArtSktPGrTq~iNff~~~~---~~~lVDlPGYGyAkv~k~~~e~w~~~i~~YL~~R~~L~~vv  111 (200)
T COG0218          35 VGKSSLINALTNQKNLARTSKTPGRTQLINFFEVDD---ELRLVDLPGYGYAKVPKEVKEKWKKLIEEYLEKRANLKGVV  111 (200)
T ss_pred             ccHHHHHHHHhCCcceeecCCCCCccceeEEEEecC---cEEEEeCCCcccccCCHHHHHHHHHHHHHHHhhchhheEEE
Confidence            34455544443222  34556667777776654432   488999999542             2333333334467899


Q ss_pred             EEEeccCCCCcchHHHHHHHHHcCCCeEEEEEeCC
Q psy9646         177 LVVAATDGAMPQTREHLLLAKQIGVTNIVVFINKF  211 (211)
Q Consensus       177 ~vvd~~~~~~~~~~~~~~~~~~~~~~~~i~~inK~  211 (211)
                      +++|++.++...+++.++++...++| +++++||+
T Consensus       112 lliD~r~~~~~~D~em~~~l~~~~i~-~~vv~tK~  145 (200)
T COG0218         112 LLIDARHPPKDLDREMIEFLLELGIP-VIVVLTKA  145 (200)
T ss_pred             EEEECCCCCcHHHHHHHHHHHHcCCC-eEEEEEcc
Confidence            99999999999999999999999999 77899996

>cd04163 Era Era subfamily

Probab=98.38  E-value=2.7e-06  Score=62.70  Aligned_cols=68  Identities=21%  Similarity=0.314  Sum_probs=52.0

Q ss_pred             eeeCCceeEeecCCcccc--------cHhHHhhhccccceEEEEEeccCCCCcchHHHHHHHHHcCCCeEEEEEeCC
Q psy9646         143 YATENRHYSHTDCPGHAD--------YIKNMITGTSQMDGAILVVAATDGAMPQTREHLLLAKQIGVTNIVVFINKF  211 (211)
Q Consensus       143 ~~~~~~~~~~iDtPG~~~--------~~~~~~~~~~~~d~~~~vvd~~~~~~~~~~~~~~~~~~~~~~~~i~~inK~  211 (211)
                      +...+..+.++||||+..        +.......+..+|++++++|+..........+.+.+...+.| +++++||+
T Consensus        46 ~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~~~d~i~~v~d~~~~~~~~~~~~~~~~~~~~~~-~iiv~nK~  121 (168)
T cd04163          46 YTDDDAQIIFVDTPGIHKPKKKLGERMVKAAWSALKDVDLVLFVVDASEPIGEGDEFILELLKKSKTP-VILVLNKI  121 (168)
T ss_pred             EEcCCeEEEEEECCCCCcchHHHHHHHHHHHHHHHHhCCEEEEEEECCCccCchHHHHHHHHHHhCCC-EEEEEEch
Confidence            334456789999999754        233455668899999999999888666666777777777788 77899995

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.

>KOG1423|consensus

Probab=98.37  E-value=1.1e-06  Score=70.88  Aligned_cols=103  Identities=14%  Similarity=0.120  Sum_probs=69.7

Q ss_pred             chhhhhhhhcccccccc-cchhhcccceEEeEeEEEeeeCCceeEeecCCc---------ccc---cHhHHhhhccccce
Q psy9646         108 VLADKKLAKVKQYADID-NAPEEKARGITINVAHVEYATENRHYSHTDCPG---------HAD---YIKNMITGTSQMDG  174 (211)
Q Consensus       108 ~~~~~~~~~f~~~i~~~-~~~~e~~rg~tv~~~~~~~~~~~~~~~~iDtPG---------~~~---~~~~~~~~~~~~d~  174 (211)
                      +.|..|++.+..+..-. -.+...+-..|..-..+-++.++.|++|.||||         |+.   +.++.+.|+..||+
T Consensus        79 G~PNvGKStLtN~mig~kv~~vS~K~~TTr~~ilgi~ts~eTQlvf~DTPGlvs~~~~r~~~l~~s~lq~~~~a~q~AD~  158 (379)
T KOG1423|consen   79 GAPNVGKSTLTNQMIGQKVSAVSRKVHTTRHRILGIITSGETQLVFYDTPGLVSKKMHRRHHLMMSVLQNPRDAAQNADC  158 (379)
T ss_pred             cCCCcchhhhhhHhhCCccccccccccceeeeeeEEEecCceEEEEecCCcccccchhhhHHHHHHhhhCHHHHHhhCCE
Confidence            44555666665544322 234444556666767778889999999999999         222   45689999999999


Q ss_pred             EEEEEeccCCCCcchHHHHHHHHHc-CCCeEEEEEeCC
Q psy9646         175 AILVVAATDGAMPQTREHLLLAKQI-GVTNIVVFINKF  211 (211)
Q Consensus       175 ~~~vvd~~~~~~~~~~~~~~~~~~~-~~~~~i~~inK~  211 (211)
                      +++|+|+..--......++.-++.. .+| -|++.||+
T Consensus       159 vvVv~Das~tr~~l~p~vl~~l~~ys~ip-s~lvmnki  195 (379)
T KOG1423|consen  159 VVVVVDASATRTPLHPRVLHMLEEYSKIP-SILVMNKI  195 (379)
T ss_pred             EEEEEeccCCcCccChHHHHHHHHHhcCC-ceeeccch
Confidence            9999999853223333444445443 577 56899996

>cd00878 Arf_Arl Arf (ADP-ribosylation factor)/Arl (Arf-like) small GTPases

Probab=98.37  E-value=7.1e-07  Score=65.97  Aligned_cols=71  Identities=21%  Similarity=0.259  Sum_probs=49.5

Q ss_pred             EEEeeeCCceeEeecCCcccccHhHHhhhccccceEEEEEeccCCC-CcchHHHHHHH----HHcCCCeEEEEEeCC
Q psy9646         140 HVEYATENRHYSHTDCPGHADYIKNMITGTSQMDGAILVVAATDGA-MPQTREHLLLA----KQIGVTNIVVFINKF  211 (211)
Q Consensus       140 ~~~~~~~~~~~~~iDtPG~~~~~~~~~~~~~~~d~~~~vvd~~~~~-~~~~~~~~~~~----~~~~~~~~i~~inK~  211 (211)
                      ...+...+..+.+.||||+..+.......+..+|++++|+|+...- .......+...    ...+.| ++++.||+
T Consensus        35 ~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~D~~~~~~~~~~~~~~~~~~~~~~~~~~p-iiiv~nK~  110 (158)
T cd00878          35 VETVEYKNVSFTVWDVGGQDKIRPLWKHYYENTNGIIFVVDSSDRERIEEAKEELHKLLNEEELKGVP-LLIFANKQ  110 (158)
T ss_pred             eEEEEECCEEEEEEECCCChhhHHHHHHHhccCCEEEEEEECCCHHHHHHHHHHHHHHHhCcccCCCc-EEEEeecc
Confidence            3445556778999999999988766667778999999999997652 12222222222    224667 88899996

Arf proteins are activators of phospholipase D isoforms. Unlike Ras proteins they lack cysteine residues at their C-termini and therefore are unlikely to be prenylated. Arfs are N-terminally myristoylated. Members of the Arf family are regulators of vesicle formation in intracellular traffic that interact reversibly with membranes of the secretory and endocytic compartments in a GTP-dependent manner. They depart from other small GTP-binding proteins by a unique structural device, interswitch toggle, that implements front-back communication from N-terminus to the nucleotide binding site. Arf-like (Arl) proteins are close relatives of the Arf, but only Arl1 has been shown to function in membrane traffic like the Arf proteins. Arl2 has an unrelated function in the folding of native tubulin, and Arl4 may function in the nucleus. Most other Arf family proteins are so far relatively poorly characterized. Thu

>cd01893 Miro1 Miro1 subfamily

Probab=98.37  E-value=1.3e-06  Score=65.33  Aligned_cols=66  Identities=17%  Similarity=0.158  Sum_probs=47.7

Q ss_pred             eCCceeEeecCCcccccHhHHhhhccccceEEEEEeccCCCCcch--HHHHHHHHH--cCCCeEEEEEeCC
Q psy9646         145 TENRHYSHTDCPGHADYIKNMITGTSQMDGAILVVAATDGAMPQT--REHLLLAKQ--IGVTNIVVFINKF  211 (211)
Q Consensus       145 ~~~~~~~~iDtPG~~~~~~~~~~~~~~~d~~~~vvd~~~~~~~~~--~~~~~~~~~--~~~~~~i~~inK~  211 (211)
                      ....++.++||||+..+.......+..+|++++|+|+.....-+.  ..+...++.  .+.| ++++.||+
T Consensus        44 ~~~~~~~i~Dt~G~~~~~~~~~~~~~~ad~~ilv~d~~~~~s~~~~~~~~~~~i~~~~~~~p-viiv~nK~  113 (166)
T cd01893          44 PERVPTTIVDTSSRPQDRANLAAEIRKANVICLVYSVDRPSTLERIRTKWLPLIRRLGVKVP-IILVGNKS  113 (166)
T ss_pred             CCeEEEEEEeCCCchhhhHHHhhhcccCCEEEEEEECCCHHHHHHHHHHHHHHHHHhCCCCC-EEEEEEch
Confidence            345678899999998887777777899999999999876544333  123343433  3566 88999996

Miro (mitochondrial Rho) proteins have tandem GTP-binding domains separated by a linker region containing putative calcium-binding EF hand motifs. Genes encoding Miro-like proteins were found in several eukaryotic organisms. This CD represents the N-terminal GTPase domain of Miro proteins. These atypical Rho GTPases have roles in mitochondrial homeostasis and apoptosis. Most Rho proteins contain a lipid modification site at the C-terminus; however, Miro is one of few Rho subfamilies that lack this feature.

>cd01878 HflX HflX subfamily

Probab=98.36  E-value=1.4e-06  Score=67.38  Aligned_cols=102  Identities=13%  Similarity=0.126  Sum_probs=57.1

Q ss_pred             hhhhhhhhcccccccccchhhcccceEEeEeEEEeeeCCc-eeEeecCCccccc--------HhHHhhhccccceEEEEE
Q psy9646         109 LADKKLAKVKQYADIDNAPEEKARGITINVAHVEYATENR-HYSHTDCPGHADY--------IKNMITGTSQMDGAILVV  179 (211)
Q Consensus       109 ~~~~~~~~f~~~i~~~~~~~e~~rg~tv~~~~~~~~~~~~-~~~~iDtPG~~~~--------~~~~~~~~~~~d~~~~vv  179 (211)
                      .+..|++++...+.............++......+...+. .+.|+||||+.+.        ...+...+..+|++++|+
T Consensus        49 ~~g~GKStLl~~l~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~~~~~~~~~d~ii~v~  128 (204)
T cd01878          49 YTNAGKSTLFNALTGADVYAEDQLFATLDPTTRRLRLPDGREVLLTDTVGFIRDLPHQLVEAFRSTLEEVAEADLLLHVV  128 (204)
T ss_pred             CCCCCHHHHHHHHhcchhccCCccceeccceeEEEEecCCceEEEeCCCccccCCCHHHHHHHHHHHHHHhcCCeEEEEE
Confidence            3445666655444322211111122334444444444454 8999999997321        122334466899999999


Q ss_pred             eccCCCCcch-HHHHHHHHHc---CCCeEEEEEeCC
Q psy9646         180 AATDGAMPQT-REHLLLAKQI---GVTNIVVFINKF  211 (211)
Q Consensus       180 d~~~~~~~~~-~~~~~~~~~~---~~~~~i~~inK~  211 (211)
                      |+........ ..+...+...   +.| +++|+||+
T Consensus       129 D~~~~~~~~~~~~~~~~l~~~~~~~~~-viiV~NK~  163 (204)
T cd01878         129 DASDPDYEEQIETVEKVLKELGAEDIP-MILVLNKI  163 (204)
T ss_pred             ECCCCChhhHHHHHHHHHHHcCcCCCC-EEEEEEcc
Confidence            9987654433 2333444333   456 78999996

A distinct conserved domain with a glycine-rich segment N-terminal of the GTPase domain characterizes the HflX subfamily. The E. coli HflX has been implicated in the control of the lambda cII repressor proteolysis, but the actual biological functions of these GTPases remain unclear. HflX is widespread, but not universally represented in all three superkingdoms.

>cd04113 Rab4 Rab4 subfamily

Probab=98.36  E-value=1.3e-06  Score=64.75  Aligned_cols=63  Identities=17%  Similarity=0.132  Sum_probs=46.6

Q ss_pred             ceeEeecCCcccccHhHHhhhccccceEEEEEeccCCCCcch-HHHHHHHH---HcCCCeEEEEEeCC
Q psy9646         148 RHYSHTDCPGHADYIKNMITGTSQMDGAILVVAATDGAMPQT-REHLLLAK---QIGVTNIVVFINKF  211 (211)
Q Consensus       148 ~~~~~iDtPG~~~~~~~~~~~~~~~d~~~~vvd~~~~~~~~~-~~~~~~~~---~~~~~~~i~~inK~  211 (211)
                      ..+.+.||||+.+|.......+..+|++++|+|+.+...-+. ..++...+   ..++| ++++.||+
T Consensus        49 ~~l~l~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~-iivv~nK~  115 (161)
T cd04113          49 VKLQIWDTAGQERFRSVTRSYYRGAAGALLVYDITNRTSFEALPTWLSDARALASPNIV-VILVGNKS  115 (161)
T ss_pred             EEEEEEECcchHHHHHhHHHHhcCCCEEEEEEECCCHHHHHHHHHHHHHHHHhCCCCCe-EEEEEEch
Confidence            467899999999988877788899999999999977544322 23333332   23666 88999995

Rab4 has been implicated in numerous functions within the cell. It helps regulate endocytosis through the sorting, recycling, and degradation of early endosomes. Mammalian Rab4 is involved in the regulation of many surface proteins including G-protein-coupled receptors, transferrin receptor, integrins, and surfactant protein A. Experimental data implicate Rab4 in regulation of the recycling of internalized receptors back to the plasma membrane. It is also believed to influence receptor-mediated antigen processing in B-lymphocytes, in calcium-dependent exocytosis in platelets, in alpha-amylase secretion in pancreatic cells, and in insulin-induced translocation of Glut4 from internal vesicles to the cell surface. Rab4 is known to share effector proteins with Rab5 and Rab11. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to p

>TIGR00484 EF-G translation elongation factor EF-G

Probab=98.36  E-value=3.3e-06  Score=77.04  Aligned_cols=100  Identities=25%  Similarity=0.373  Sum_probs=76.6

Q ss_pred             hHHHHHhhhCCCCCC-------------------CCCCCeeEEEeeEEeecCCcEEEEEEEEEEEEecCCEEEEeecCce
Q psy9646           2 ELLNQIDTYIPQPVR-------------------DLDKPFYLPVEHTYSIPGRGTVVTGRLERGIVKKGMECEFTGYGRQ   62 (211)
Q Consensus         2 ~ll~~l~~~i~~p~~-------------------~~~~p~~~~v~~~~~~~~~G~v~~G~v~~G~i~~g~~v~i~p~~~~   62 (211)
                      .||++|..++|.|..                   +.++||.+.|..+...++.|.+..+||-+|.++.||+|...-.++ 
T Consensus       269 ~LLd~I~~~lPsP~~~~~~~~~~~~~~~~~~~~~~~~~~l~a~VfK~~~d~~~G~i~~~RV~sGtL~~g~~v~~~~~~~-  347 (689)
T TIGR00484       269 LLLDAVVDYLPSPTDVPAIKGIDPDTEKEIERKASDDEPFSALAFKVATDPFVGQLTFVRVYSGVLKSGSYVKNSRKNK-  347 (689)
T ss_pred             HHHHHHHHHCCCchhcccccccCCCCCceeeecCCCCCceEEEEEEeeecCCCCeEEEEEEEEeEEcCCCEEEeCCCCc-
Confidence            589999998887641                   225789999999999999999999999999999999998643332 


Q ss_pred             eeEEEEEEEecc----eecceecccCceehhccCCCccccccccccccc
Q psy9646          63 FKTTVTGIEMFH----KILDEAQAGDQLGALVKGMKRDEVNRGLIMAKP  107 (211)
Q Consensus        63 ~~~~v~~i~~~~----~~~~~a~~G~~v~~~l~~~~~~~v~~G~ii~~~  107 (211)
                       +.++..+....    .+++++.|||++++  .+  ..+...|++++..
T Consensus       348 -~~~i~~l~~~~g~~~~~v~~~~aGdI~~i--~g--l~~~~~gdtl~~~  391 (689)
T TIGR00484       348 -KERVGRLVKMHANNREEIKEVRAGDICAA--IG--LKDTTTGDTLCDP  391 (689)
T ss_pred             -eEEecceEEeecCCcccccccCCCCEEEE--cC--CCCCCCCCEEeCC
Confidence             34555664443    58899999999987  22  2356778888643

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.

>PRK12739 elongation factor G; Reviewed

Probab=98.36  E-value=2.9e-06  Score=77.37  Aligned_cols=100  Identities=24%  Similarity=0.361  Sum_probs=76.8

Q ss_pred             hHHHHHhhhCCCCCC-------------------CCCCCeeEEEeeEEeecCCcEEEEEEEEEEEEecCCEEEEeecCce
Q psy9646           2 ELLNQIDTYIPQPVR-------------------DLDKPFYLPVEHTYSIPGRGTVVTGRLERGIVKKGMECEFTGYGRQ   62 (211)
Q Consensus         2 ~ll~~l~~~i~~p~~-------------------~~~~p~~~~v~~~~~~~~~G~v~~G~v~~G~i~~g~~v~i~p~~~~   62 (211)
                      .||++|..++|.|..                   +.++||.+.|..++..++.|++..+||-+|.++.||.|.....++ 
T Consensus       268 ~LLd~I~~~lPsP~~~~~~~~~~~~~~~~~~~~~~~~~pl~a~VfK~~~d~~~G~i~~~RV~sGtL~~g~~v~~~~~~~-  346 (691)
T PRK12739        268 PLLDAVVDYLPSPLDVPAIKGINPDTEEEIERPASDDEPFAALAFKIMTDPFVGRLTFFRVYSGVLESGSYVLNTTKGK-  346 (691)
T ss_pred             HHHHHHHHHCCChhhccccccccCCCCcceeeccCCCCCeEEEEEEeeeCCCCCeEEEEEEeeeEEcCCCEEEeCCCCc-
Confidence            589999998887631                   246789999999999999999999999999999999987544432 


Q ss_pred             eeEEEEEEEecc----eecceecccCceehhccCCCccccccccccccc
Q psy9646          63 FKTTVTGIEMFH----KILDEAQAGDQLGALVKGMKRDEVNRGLIMAKP  107 (211)
Q Consensus        63 ~~~~v~~i~~~~----~~~~~a~~G~~v~~~l~~~~~~~v~~G~ii~~~  107 (211)
                       +.+|.+|....    .+++++.|||++++.  +  ..++..|++++..
T Consensus       347 -~~~v~~l~~~~g~~~~~v~~~~aGdI~~i~--g--l~~~~~gdtl~~~  390 (691)
T PRK12739        347 -KERIGRLLQMHANKREEIKEVYAGDIAAAV--G--LKDTTTGDTLCDE  390 (691)
T ss_pred             -eEEecceEEEecCCcccccccCCCCEEEEe--C--CCcccCCCEEeCC
Confidence             45566664432    689999999999873  2  2346788888643

>cd01860 Rab5_related Rab5-related subfamily

Probab=98.36  E-value=1.4e-06  Score=64.55  Aligned_cols=69  Identities=14%  Similarity=0.104  Sum_probs=48.3

Q ss_pred             EeeeCCceeEeecCCcccccHhHHhhhccccceEEEEEeccCCCC-cchHHHHHHHHHc---CCCeEEEEEeCC
Q psy9646         142 EYATENRHYSHTDCPGHADYIKNMITGTSQMDGAILVVAATDGAM-PQTREHLLLAKQI---GVTNIVVFINKF  211 (211)
Q Consensus       142 ~~~~~~~~~~~iDtPG~~~~~~~~~~~~~~~d~~~~vvd~~~~~~-~~~~~~~~~~~~~---~~~~~i~~inK~  211 (211)
                      .+......+.++||||+..+.......+..+|++++++|+..... ...+.++..+...   ++| +++++||+
T Consensus        44 ~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~-iivv~nK~  116 (163)
T cd01860          44 NLDDTTVKFEIWDTAGQERYRSLAPMYYRGAAAAIVVYDITSEESFEKAKSWVKELQRNASPNII-IALVGNKA  116 (163)
T ss_pred             EECCEEEEEEEEeCCchHHHHHHHHHHhccCCEEEEEEECcCHHHHHHHHHHHHHHHHhCCCCCe-EEEEEECc
Confidence            333334567789999999887777777889999999999875432 3334444555444   355 77899995

This subfamily includes Rab5 and Rab22 of mammals, Ypt51/Ypt52/Ypt53 of yeast, and RabF of plants. The members of this subfamily are involved in endocytosis and endocytic-sorting pathways. In mammals, Rab5 GTPases localize to early endosomes and regulate fusion of clathrin-coated vesicles to early endosomes and fusion between early endosomes. In yeast, Ypt51p family members similarly regulate membrane trafficking through prevacuolar compartments. 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 mo

>cd04157 Arl6 Arl6 subfamily

Probab=98.34  E-value=2e-06  Score=63.58  Aligned_cols=68  Identities=22%  Similarity=0.324  Sum_probs=48.8

Q ss_pred             eeeCCceeEeecCCcccccHhHHhhhccccceEEEEEeccCCCC-cchHHHHHHHH------HcCCCeEEEEEeCC
Q psy9646         143 YATENRHYSHTDCPGHADYIKNMITGTSQMDGAILVVAATDGAM-PQTREHLLLAK------QIGVTNIVVFINKF  211 (211)
Q Consensus       143 ~~~~~~~~~~iDtPG~~~~~~~~~~~~~~~d~~~~vvd~~~~~~-~~~~~~~~~~~------~~~~~~~i~~inK~  211 (211)
                      +...+..+.+.||||+.+|.......+..+|++++|+|+.+... ......++.+.      ..++| +++++||+
T Consensus        40 ~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~ii~v~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~p-~iiv~NK~  114 (162)
T cd04157          40 FEKGNLSFTAFDMSGQGKYRGLWEHYYKNIQGIIFVIDSSDRLRLVVVKDELELLLNHPDIKHRRVP-ILFFANKM  114 (162)
T ss_pred             EEECCEEEEEEECCCCHhhHHHHHHHHccCCEEEEEEeCCcHHHHHHHHHHHHHHHcCcccccCCCC-EEEEEeCc
Confidence            44567789999999999988777777899999999999976542 11122222221      23677 88999995

Arl6 (Arf-like 6) forms a subfamily of the Arf family of small GTPases. Arl6 expression is limited to the brain and kidney in adult mice, but it is expressed in the neural plate and somites during embryogenesis, suggesting a possible role for Arl6 in early development. Arl6 is also believed to have a role in cilia or flagella function. Several proteins have been identified that bind Arl6, including Arl6 interacting protein (Arl6ip), and SEC61beta, a subunit of the heterotrimeric conducting channel SEC61p. Based on Arl6 binding to these effectors, Arl6 is also proposed to play a role in protein transport, membrane trafficking, or cell signaling during hematopoietic maturation. At least three specific homozygous Arl6 mutations in humans have been found to cause Bardet-Biedl syndrome, a disorder characterized by obesity, retinopathy, polydactyly, renal and cardiac malformations, learning disabilities, and hypogenitalism. Older literature suggests that A

>PRK12296 obgE GTPase CgtA; Reviewed

Probab=98.34  E-value=3.9e-06  Score=73.11  Aligned_cols=138  Identities=11%  Similarity=0.082  Sum_probs=78.3

Q ss_pred             EEEEEEEEEecCCEEEEeecCcee--eEEEE-EEEecceecceecccCceehhccCCCcccccccccccccchhhhhhhh
Q psy9646          40 TGRLERGIVKKGMECEFTGYGRQF--KTTVT-GIEMFHKILDEAQAGDQLGALVKGMKRDEVNRGLIMAKPVLADKKLAK  116 (211)
Q Consensus        40 ~G~v~~G~i~~g~~v~i~p~~~~~--~~~v~-~i~~~~~~~~~a~~G~~v~~~l~~~~~~~v~~G~ii~~~~~~~~~~~~  116 (211)
                      .|.+..--.+.|+++.++..|.--  ...-+ +-.....-.+...+|+.-.+.|. ++ .....+.    -..+..++++
T Consensus       101 ~~~~~~dl~~~g~~~~~a~GG~GG~Gn~~f~~~~~~~p~~~~~G~~Ge~~~~~le-Lk-~~adV~L----VG~PNAGKST  174 (500)
T PRK12296        101 DGEVLADLVGAGTRFVAAAGGRGGLGNAALASKARKAPGFALLGEPGEERDLVLE-LK-SVADVGL----VGFPSAGKSS  174 (500)
T ss_pred             CCcEEeeeccCCCEEEEEccCCCcCCCcccCCccCCCCccccCCCCCceEEEEEE-ec-ccceEEE----EEcCCCCHHH
Confidence            356666667888888887765300  11111 11111123345667777666554 11 0111111    1334556666


Q ss_pred             cccccccccchhhcccceEEeEeEEEeeeCCceeEeecCCcccc-------cHhHHhhhccccceEEEEEeccC
Q psy9646         117 VKQYADIDNAPEEKARGITINVAHVEYATENRHYSHTDCPGHAD-------YIKNMITGTSQMDGAILVVAATD  183 (211)
Q Consensus       117 f~~~i~~~~~~~e~~rg~tv~~~~~~~~~~~~~~~~iDtPG~~~-------~~~~~~~~~~~~d~~~~vvd~~~  183 (211)
                      +...+.-...+.......|+......+...+.++.+.||||..+       +....+..+..+|++++|+|+..
T Consensus       175 Lln~Ls~akpkIadypfTTl~P~lGvv~~~~~~f~laDtPGliegas~g~gLg~~fLrhieradvLv~VVD~s~  248 (500)
T PRK12296        175 LISALSAAKPKIADYPFTTLVPNLGVVQAGDTRFTVADVPGLIPGASEGKGLGLDFLRHIERCAVLVHVVDCAT  248 (500)
T ss_pred             HHHHHhcCCccccccCcccccceEEEEEECCeEEEEEECCCCccccchhhHHHHHHHHHHHhcCEEEEEECCcc
Confidence            65544322222223345666666777777888999999999632       23445666788999999999964

>TIGR00503 prfC peptide chain release factor 3

Probab=98.34  E-value=3.8e-06  Score=74.16  Aligned_cols=100  Identities=21%  Similarity=0.300  Sum_probs=76.6

Q ss_pred             hHHHHHhhhCCCCCC-C--------CCCCeeEEEeeEEe--e-cCCcEEEEEEEEEEEEecCCEEEEeecCceeeEEEEE
Q psy9646           2 ELLNQIDTYIPQPVR-D--------LDKPFYLPVEHTYS--I-PGRGTVVTGRLERGIVKKGMECEFTGYGRQFKTTVTG   69 (211)
Q Consensus         2 ~ll~~l~~~i~~p~~-~--------~~~p~~~~v~~~~~--~-~~~G~v~~G~v~~G~i~~g~~v~i~p~~~~~~~~v~~   69 (211)
                      .||+.|..++|.|.. .        .+.+|.-.|..+..  . +++|++...||.||+++.|++|.....++  +.++..
T Consensus       265 ~LLd~i~~~~PsP~~~~~~~~~~~~~~~~~~~~VFK~~~~mdp~~~griaf~RV~sG~l~~g~~v~~~~~~k--~~ri~~  342 (527)
T TIGR00503       265 HFLDGLLQWAPKPEARQSDTRTVEPTEEKFSGFVFKIQANMDPKHRDRVAFMRVVSGKYEKGMKLKHVRTGK--DVVISD  342 (527)
T ss_pred             HHHHHHHHHCCCCccccCCceecCCCCCCeeEEEEEEEeccCcccCceEEEEEEeeeEEcCCCEEEecCCCC--cEEecc
Confidence            589999999987742 1        23567777666665  3 58999999999999999999998766654  566666


Q ss_pred             EEecc----eecceecccCceehhccCCCccccccccccccc
Q psy9646          70 IEMFH----KILDEAQAGDQLGALVKGMKRDEVNRGLIMAKP  107 (211)
Q Consensus        70 i~~~~----~~~~~a~~G~~v~~~l~~~~~~~v~~G~ii~~~  107 (211)
                      +....    .++++|.|||++++    .+..+.+.|++++..
T Consensus       343 ~~~~~g~~~~~v~~a~aGDI~~~----~~~~~~~~GDtl~~~  380 (527)
T TIGR00503       343 ALTFMAGDREHVEEAYAGDIIGL----HNHGTIQIGDTFTQG  380 (527)
T ss_pred             hhhhhcCCceEcceeCCCCEEEE----ECCCCcccCCEecCC
Confidence            64432    68999999999987    345678899999763

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.

>cd04153 Arl5_Arl8 Arl5/Arl8 subfamily

Probab=98.33  E-value=1.6e-06  Score=65.43  Aligned_cols=72  Identities=22%  Similarity=0.212  Sum_probs=50.6

Q ss_pred             eEEEeeeCCceeEeecCCcccccHhHHhhhccccceEEEEEeccCCCC-cc-hHHHHHHHHH---cCCCeEEEEEeCC
Q psy9646         139 AHVEYATENRHYSHTDCPGHADYIKNMITGTSQMDGAILVVAATDGAM-PQ-TREHLLLAKQ---IGVTNIVVFINKF  211 (211)
Q Consensus       139 ~~~~~~~~~~~~~~iDtPG~~~~~~~~~~~~~~~d~~~~vvd~~~~~~-~~-~~~~~~~~~~---~~~~~~i~~inK~  211 (211)
                      .+..+...+.++.+.||||+..|.......+..+|++++|+|+.+... .. ..++.+.+..   .+.| +++++||+
T Consensus        50 ~~~~~~~~~~~~~l~D~~G~~~~~~~~~~~~~~~d~vi~V~D~s~~~~~~~~~~~l~~~~~~~~~~~~p-~viv~NK~  126 (174)
T cd04153          50 NVEEIVYKNIRFLMWDIGGQESLRSSWNTYYTNTDAVILVIDSTDRERLPLTKEELYKMLAHEDLRKAV-LLVLANKQ  126 (174)
T ss_pred             ceEEEEECCeEEEEEECCCCHHHHHHHHHHhhcCCEEEEEEECCCHHHHHHHHHHHHHHHhchhhcCCC-EEEEEECC
Confidence            344566667889999999999887777777899999999999876532 11 1223333322   2466 88999996

Arl5 (Arf-like 5) and Arl8, like Arl4 and Arl7, are localized to the nucleus and nucleolus. Arl5 is developmentally regulated during embryogenesis in mice. Human Arl5 interacts with the heterochromatin protein 1-alpha (HP1alpha), a nonhistone chromosomal protein that is associated with heterochromatin and telomeres, and prevents telomere fusion. Arl5 may also play a role in embryonic nuclear dynamics and/or signaling cascades. Arl8 was identified from a fetal cartilage cDNA library. It is found in brain, heart, lung, cartilage, and kidney. No function has been assigned for Arl8 to date.

>PRK04004 translation initiation factor IF-2; Validated

Probab=98.33  E-value=3.9e-06  Score=74.98  Aligned_cols=89  Identities=20%  Similarity=0.154  Sum_probs=66.7

Q ss_pred             CCCCCCCeeEEEeeEEeecCCcEEEEEEEEEEEEecCCEEEEeecCceeeEEEEEEEecc------------eecceecc
Q psy9646          15 VRDLDKPFYLPVEHTYSIPGRGTVVTGRLERGIVKKGMECEFTGYGRQFKTTVTGIEMFH------------KILDEAQA   82 (211)
Q Consensus        15 ~~~~~~p~~~~v~~~~~~~~~G~v~~G~v~~G~i~~g~~v~i~p~~~~~~~~v~~i~~~~------------~~~~~a~~   82 (211)
                      .++.+.|++++|.+++..++.|++++|+|.+|++++||.+.+.|.+....++|+++...+            +.+++|.|
T Consensus       226 ~~~~~~~~~~~V~ev~~~~g~G~v~~~~v~~GtL~~Gd~vv~~~~~~~i~~kVr~l~~~~~~~e~~~~~~~~~~~~~~~~  305 (586)
T PRK04004        226 KIDVEGPGKGTVLEVKEERGLGTTIDVILYDGTLRKGDTIVVGGKDGPIVTKVRALLKPRPLDEMRDPEDKFKPVDEVVA  305 (586)
T ss_pred             ccCCCCCeEEEEEEEEEeCCCceEEEEEEEcCEEECCCEEEECcCCCcceEEEEEEecCcchhhccccccccccccccCC
Confidence            345678999999999999999999999999999999999999998644567999998762            34556666


Q ss_pred             cCceehhccCCCccccccccccc
Q psy9646          83 GDQLGALVKGMKRDEVNRGLIMA  105 (211)
Q Consensus        83 G~~v~~~l~~~~~~~v~~G~ii~  105 (211)
                      ...|-+...+++  .+..|+.+.
T Consensus       306 ~~~v~i~~~gl~--~~~~g~~~~  326 (586)
T PRK04004        306 AAGVKISAPDLE--DALAGSPLR  326 (586)
T ss_pred             CCceEEEeCCcc--ccCCCCeEE
Confidence            555554323332  335565543

>cd04105 SR_beta Signal recognition particle receptor, beta subunit (SR-beta)

Probab=98.31  E-value=2.5e-06  Score=66.21  Aligned_cols=65  Identities=17%  Similarity=0.313  Sum_probs=46.3

Q ss_pred             CCceeEeecCCcccccHhHHhhhcccc-ceEEEEEeccCCCC--cchHHHHHH-H---HH--cCCCeEEEEEeCC
Q psy9646         146 ENRHYSHTDCPGHADYIKNMITGTSQM-DGAILVVAATDGAM--PQTREHLLL-A---KQ--IGVTNIVVFINKF  211 (211)
Q Consensus       146 ~~~~~~~iDtPG~~~~~~~~~~~~~~~-d~~~~vvd~~~~~~--~~~~~~~~~-~---~~--~~~~~~i~~inK~  211 (211)
                      .+..+.++|||||.+|.......+..+ +++++|+|+.....  ....+.+.. +   ..  .++| +++++||+
T Consensus        46 ~~~~~~l~D~pG~~~~~~~~~~~~~~~~~~vV~VvD~~~~~~~~~~~~~~l~~il~~~~~~~~~~p-vliv~NK~  119 (203)
T cd04105          46 KGKKFRLVDVPGHPKLRDKLLETLKNSAKGIVFVVDSATFQKNLKDVAEFLYDILTDLEKVKNKIP-VLIACNKQ  119 (203)
T ss_pred             CCceEEEEECCCCHHHHHHHHHHHhccCCEEEEEEECccchhHHHHHHHHHHHHHHHHhhccCCCC-EEEEecch
Confidence            356789999999999988888888888 99999999977631  112222221 1   11  3677 88999995

SR-beta and SR-alpha form the heterodimeric signal recognition particle (SRP or SR) receptor that binds SRP to regulate protein translocation across the ER membrane. Nascent polypeptide chains are synthesized with an N-terminal hydrophobic signal sequence that binds SRP54, a component of the SRP. SRP directs targeting of the ribosome-nascent chain complex (RNC) to the ER membrane via interaction with the SR, which is localized to the ER membrane. The RNC is then transferred to the protein-conducting channel, or translocon, which facilitates polypeptide translation across the ER membrane or integration into the ER membrane. SR-beta is found only in eukaryotes; it is believed to control the release of the signal sequence from SRP54 upon binding of the ribosome to the translocon. High expression of SR-beta has been observed in human colon cancer, suggesting it may play a role in the development of this typ

>cd04145 M_R_Ras_like M-Ras/R-Ras-like subfamily

Probab=98.31  E-value=1.3e-06  Score=64.70  Aligned_cols=63  Identities=14%  Similarity=0.091  Sum_probs=45.2

Q ss_pred             ceeEeecCCcccccHhHHhhhccccceEEEEEeccCCCCcc-hHHHHHHHHH----cCCCeEEEEEeCC
Q psy9646         148 RHYSHTDCPGHADYIKNMITGTSQMDGAILVVAATDGAMPQ-TREHLLLAKQ----IGVTNIVVFINKF  211 (211)
Q Consensus       148 ~~~~~iDtPG~~~~~~~~~~~~~~~d~~~~vvd~~~~~~~~-~~~~~~~~~~----~~~~~~i~~inK~  211 (211)
                      .++.++||||+++|.......+..+|++++|+|+.+...-+ ...++..+.+    .++| +++++||+
T Consensus        50 ~~~~i~Dt~G~~~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~p-iiiv~NK~  117 (164)
T cd04145          50 AILDILDTAGQEEFSAMREQYMRTGEGFLLVFSVTDRGSFEEVDKFHTQILRVKDRDEFP-MILVGNKA  117 (164)
T ss_pred             EEEEEEECCCCcchhHHHHHHHhhCCEEEEEEECCCHHHHHHHHHHHHHHHHHhCCCCCC-EEEEeeCc
Confidence            46888999999999887777888999999999987643211 1222222222    3667 88899996

This subfamily contains R-Ras2/TC21, M-Ras/R-Ras3, and related members of the Ras family. M-Ras is expressed in lympho-hematopoetic cells. It interacts with some of the known Ras effectors, but appears to also have its own effectors. Expression of mutated M-Ras leads to transformation of several types of cell lines, including hematopoietic cells, mammary epithelial cells, and fibroblasts. Overexpression of M-Ras is observed in carcinomas from breast, uterus, thyroid, stomach, colon, kidney, lung, and rectum. In addition, expression of a constitutively active M-Ras mutant in murine bone marrow induces a malignant mast cell leukemia that is distinct from the monocytic leukemia induced by H-Ras. TC21, along with H-Ras, has been shown to regulate the branching morphogenesis of ureteric bud cell branching in mice. Most Ras proteins contain a lipid modification site at the C-terminus, with a typical sequence motif CaaX, where a = an ali

>PRK04213 GTP-binding protein; Provisional

Probab=98.30  E-value=3e-06  Score=65.34  Aligned_cols=95  Identities=19%  Similarity=0.248  Sum_probs=55.5

Q ss_pred             hhhhhcccccccccchhhcccceEEeEeEEEeeeCCceeEeecCCccc-----------ccHhH----HhhhccccceEE
Q psy9646         112 KKLAKVKQYADIDNAPEEKARGITINVAHVEYATENRHYSHTDCPGHA-----------DYIKN----MITGTSQMDGAI  176 (211)
Q Consensus       112 ~~~~~f~~~i~~~~~~~e~~rg~tv~~~~~~~~~~~~~~~~iDtPG~~-----------~~~~~----~~~~~~~~d~~~  176 (211)
                      .|++++...+.....+....++.+......  ...  .+.++||||+.           .|...    +..++..+|+++
T Consensus        20 ~GKSsLin~l~~~~~~~~~~~~~t~~~~~~--~~~--~~~l~Dt~G~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~vi   95 (201)
T PRK04213         20 VGKSTLVRELTGKKVRVGKRPGVTRKPNHY--DWG--DFILTDLPGFGFMSGVPKEVQEKIKDEIVRYIEDNADRILAAV   95 (201)
T ss_pred             CCHHHHHHHHhCCCCccCCCCceeeCceEE--eec--ceEEEeCCccccccccCHHHHHHHHHHHHHHHHhhhhhheEEE
Confidence            344444433322222233344555554332  222  68999999952           22111    223566789999


Q ss_pred             EEEeccCC-----------CCcchHHHHHHHHHcCCCeEEEEEeCC
Q psy9646         177 LVVAATDG-----------AMPQTREHLLLAKQIGVTNIVVFINKF  211 (211)
Q Consensus       177 ~vvd~~~~-----------~~~~~~~~~~~~~~~~~~~~i~~inK~  211 (211)
                      +|+|+...           ....+.+++..+...++| +++++||+
T Consensus        96 ~v~d~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~p-~iiv~NK~  140 (201)
T PRK04213         96 LVVDGKSFIEIIERWEGRGEIPIDVEMFDFLRELGIP-PIVAVNKM  140 (201)
T ss_pred             EEEeCccccccccccccCCCcHHHHHHHHHHHHcCCC-eEEEEECc
Confidence            99998642           122456677777778888 77999996

>cd04114 Rab30 Rab30 subfamily

Probab=98.29  E-value=2.8e-06  Score=63.39  Aligned_cols=73  Identities=14%  Similarity=0.015  Sum_probs=48.8

Q ss_pred             EeEEEeeeCC--ceeEeecCCcccccHhHHhhhccccceEEEEEeccCCCCcch-HHHHHHHH---HcCCCeEEEEEeCC
Q psy9646         138 VAHVEYATEN--RHYSHTDCPGHADYIKNMITGTSQMDGAILVVAATDGAMPQT-REHLLLAK---QIGVTNIVVFINKF  211 (211)
Q Consensus       138 ~~~~~~~~~~--~~~~~iDtPG~~~~~~~~~~~~~~~d~~~~vvd~~~~~~~~~-~~~~~~~~---~~~~~~~i~~inK~  211 (211)
                      .....+...+  ..+.+.||||+..|.......+..+|++++++|...+..... ..++..++   ..++| ++++.||+
T Consensus        44 ~~~~~~~~~~~~~~~~~~D~~g~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~l~~~~~~~~~-~i~v~NK~  122 (169)
T cd04114          44 FMIKTVEIKGEKIKLQIWDTAGQERFRSITQSYYRSANALILTYDITCEESFRCLPEWLREIEQYANNKVI-TILVGNKI  122 (169)
T ss_pred             EEEEEEEECCEEEEEEEEECCCcHHHHHHHHHHhcCCCEEEEEEECcCHHHHHHHHHHHHHHHHhCCCCCe-EEEEEECc
Confidence            3333444444  346778999999998888888999999999999875532211 22322222   23566 67899995

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.

>cd01866 Rab2 Rab2 subfamily

Probab=98.28  E-value=3.7e-06  Score=63.00  Aligned_cols=63  Identities=22%  Similarity=0.140  Sum_probs=45.9

Q ss_pred             ceeEeecCCcccccHhHHhhhccccceEEEEEeccCCCCcc-hHHHHHHHHH---cCCCeEEEEEeCC
Q psy9646         148 RHYSHTDCPGHADYIKNMITGTSQMDGAILVVAATDGAMPQ-TREHLLLAKQ---IGVTNIVVFINKF  211 (211)
Q Consensus       148 ~~~~~iDtPG~~~~~~~~~~~~~~~d~~~~vvd~~~~~~~~-~~~~~~~~~~---~~~~~~i~~inK~  211 (211)
                      .++.+.||||+++|.......+..+|++++|+|+.....-+ -..++..++.   .+.| ++++.||+
T Consensus        53 ~~~~i~Dt~G~~~~~~~~~~~~~~~d~il~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p-vivv~nK~  119 (168)
T cd01866          53 IKLQIWDTAGQESFRSITRSYYRGAAGALLVYDITRRETFNHLTSWLEDARQHSNSNMT-IMLIGNKC  119 (168)
T ss_pred             EEEEEEECCCcHHHHHHHHHHhccCCEEEEEEECCCHHHHHHHHHHHHHHHHhCCCCCc-EEEEEECc
Confidence            56889999999998887888889999999999987533222 2223333433   2566 78999995

Rab2 is localized on cis-Golgi membranes and interacts with Golgi matrix proteins. Rab2 is also implicated in the maturation of vesicular tubular clusters (VTCs), which are microtubule-associated intermediates in transport between the ER and Golgi apparatus. In plants, Rab2 regulates vesicle trafficking between the ER and the Golgi bodies and is important to pollen tube growth. 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 featur

>cd04106 Rab23_lke Rab23-like subfamily

Probab=98.28  E-value=3.7e-06  Score=62.21  Aligned_cols=64  Identities=14%  Similarity=0.101  Sum_probs=45.3

Q ss_pred             CceeEeecCCcccccHhHHhhhccccceEEEEEeccCCCCcch-HHHHHHHHH--cCCCeEEEEEeCC
Q psy9646         147 NRHYSHTDCPGHADYIKNMITGTSQMDGAILVVAATDGAMPQT-REHLLLAKQ--IGVTNIVVFINKF  211 (211)
Q Consensus       147 ~~~~~~iDtPG~~~~~~~~~~~~~~~d~~~~vvd~~~~~~~~~-~~~~~~~~~--~~~~~~i~~inK~  211 (211)
                      ...+.+.||||+++|.......++.+|++++|.|+.+...-+. ..++..+..  .++| ++++.||+
T Consensus        50 ~~~~~i~D~~G~~~~~~~~~~~~~~~~~~v~v~d~~~~~s~~~l~~~~~~~~~~~~~~p-~iiv~nK~  116 (162)
T cd04106          50 DVRLMLWDTAGQEEFDAITKAYYRGAQACILVFSTTDRESFEAIESWKEKVEAECGDIP-MVLVQTKI  116 (162)
T ss_pred             EEEEEEeeCCchHHHHHhHHHHhcCCCEEEEEEECCCHHHHHHHHHHHHHHHHhCCCCC-EEEEEECh
Confidence            3568899999999888777778899999999999865432221 122222221  3677 78999995

Rab23 is a member of the Rab family of small GTPases. In mouse, Rab23 has been shown to function as a negative regulator in the sonic hedgehog (Shh) signalling pathway. Rab23 mediates the activity of Gli2 and Gli3, transcription factors that regulate Shh signaling in the spinal cord, primarily by preventing Gli2 activation in the absence of Shh ligand. Rab23 also regulates a step in the cytoplasmic signal transduction pathway that mediates the effect of Smoothened (one of two integral membrane proteins that are essential components of the Shh signaling pathway in vertebrates). In humans, Rab23 is expressed in the retina. Mice contain an isoform that shares 93% sequence identity with the human Rab23 and an alternative splicing isoform that is specific to the brain. This isoform causes the murine open brain phenotype, indicating it may have a role in the development of the central nervous system. GTPase activating proteins (GAPs) interact with G

>cd04161 Arl2l1_Arl13_like Arl2l1/Arl13 subfamily

Probab=98.28  E-value=2.9e-06  Score=63.62  Aligned_cols=69  Identities=22%  Similarity=0.242  Sum_probs=49.6

Q ss_pred             EeeeCCceeEeecCCcccccHhHHhhhccccceEEEEEeccCCCC-cchHHHHHHHHH----cCCCeEEEEEeCC
Q psy9646         142 EYATENRHYSHTDCPGHADYIKNMITGTSQMDGAILVVAATDGAM-PQTREHLLLAKQ----IGVTNIVVFINKF  211 (211)
Q Consensus       142 ~~~~~~~~~~~iDtPG~~~~~~~~~~~~~~~d~~~~vvd~~~~~~-~~~~~~~~~~~~----~~~~~~i~~inK~  211 (211)
                      .+...+..+.+.||||+..|......-+..+|++++|+|+...-. ...+..+..+..    .+.| +++++||+
T Consensus        37 ~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~a~~ii~V~D~s~~~s~~~~~~~l~~l~~~~~~~~~p-iliv~NK~  110 (167)
T cd04161          37 KLRLDKYEVCIFDLGGGANFRGIWVNYYAEAHGLVFVVDSSDDDRVQEVKEILRELLQHPRVSGKP-ILVLANKQ  110 (167)
T ss_pred             EEEECCEEEEEEECCCcHHHHHHHHHHHcCCCEEEEEEECCchhHHHHHHHHHHHHHcCccccCCc-EEEEEeCC
Confidence            455577889999999999887776777889999999999876432 222333333322    3566 88999995

Arl2l1 (Arl2-like protein 1) and Arl13 form a subfamily of the Arf family of small GTPases. Arl2l1 was identified in human cells during a search for the gene(s) responsible for Bardet-Biedl syndrome (BBS). Like Arl6, the identified BBS gene, Arl2l1 is proposed to have cilia-specific functions. Arl13 is found on the X chromosome, but its expression has not been confirmed; it may be a pseudogene.

>cd04115 Rab33B_Rab33A Rab33B/Rab33A subfamily

Probab=98.26  E-value=5.5e-06  Score=62.15  Aligned_cols=100  Identities=13%  Similarity=0.078  Sum_probs=58.6

Q ss_pred             hhhhhhcccccccccchhhcccceEEeEeEEEeeeCC--ceeEeecCCcccccHhH-HhhhccccceEEEEEeccCCCCc
Q psy9646         111 DKKLAKVKQYADIDNAPEEKARGITINVAHVEYATEN--RHYSHTDCPGHADYIKN-MITGTSQMDGAILVVAATDGAMP  187 (211)
Q Consensus       111 ~~~~~~f~~~i~~~~~~~e~~rg~tv~~~~~~~~~~~--~~~~~iDtPG~~~~~~~-~~~~~~~~d~~~~vvd~~~~~~~  187 (211)
                      ..|++++..++.....+.+.......+.....+...+  ..+.+.||||+.+|... ....+..+|++++|+|+.....-
T Consensus        12 ~vGKTsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~   91 (170)
T cd04115          12 NVGKTCLTYRFCAGRFPERTEATIGVDFRERTVEIDGERIKVQLWDTAGQERFRKSMVQHYYRNVHAVVFVYDVTNMASF   91 (170)
T ss_pred             CCCHHHHHHHHHhCCCCCccccceeEEEEEEEEEECCeEEEEEEEeCCChHHHHHhhHHHhhcCCCEEEEEEECCCHHHH
Confidence            3455555544433333222222233333333344444  57889999999888644 44456789999999999765543


Q ss_pred             ch-HHHHHHHHH----cCCCeEEEEEeCC
Q psy9646         188 QT-REHLLLAKQ----IGVTNIVVFINKF  211 (211)
Q Consensus       188 ~~-~~~~~~~~~----~~~~~~i~~inK~  211 (211)
                      +. ..++..+..    .++| ++++.||+
T Consensus        92 ~~~~~~~~~~~~~~~~~~~p-~iiv~nK~  119 (170)
T cd04115          92 HSLPSWIEECEQHSLPNEVP-RILVGNKC  119 (170)
T ss_pred             HhHHHHHHHHHHhcCCCCCC-EEEEEECc
Confidence            33 234444443    2467 78999995

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

>cd04147 Ras_dva Ras-dva subfamily

Probab=98.26  E-value=1.7e-06  Score=66.78  Aligned_cols=63  Identities=21%  Similarity=0.028  Sum_probs=44.1

Q ss_pred             ceeEeecCCcccccHhHHhhhccccceEEEEEeccCCCCcc-hHHHHHHHH----HcCCCeEEEEEeCC
Q psy9646         148 RHYSHTDCPGHADYIKNMITGTSQMDGAILVVAATDGAMPQ-TREHLLLAK----QIGVTNIVVFINKF  211 (211)
Q Consensus       148 ~~~~~iDtPG~~~~~~~~~~~~~~~d~~~~vvd~~~~~~~~-~~~~~~~~~----~~~~~~~i~~inK~  211 (211)
                      ..+.++||||+..|-......+..+|++++|+|+.+...-+ ...++..+.    ..++| +|+++||+
T Consensus        47 ~~l~i~D~~G~~~~~~~~~~~~~~ad~vilv~d~~~~~s~~~~~~~~~~i~~~~~~~~~p-iilv~NK~  114 (198)
T cd04147          47 LTLDILDTSGSYSFPAMRKLSIQNSDAFALVYAVDDPESFEEVERLREEILEVKEDKFVP-IVVVGNKA  114 (198)
T ss_pred             EEEEEEECCCchhhhHHHHHHhhcCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCc-EEEEEEcc
Confidence            46789999999988766667788999999999987643211 222222222    24677 78999996

Ras-dva (Ras - dorsal-ventral anterior localization) subfamily consists of a set of proteins characterized only in Xenopus leavis, to date. In Xenopus Ras-dva expression is activated by the transcription factor Otx2 and begins during gastrulation throughout the anterior ectoderm. Ras-dva expression is inhibited in the anterior neural plate by factor Xanf1. Downregulation of Ras-dva results in head development abnormalities through the inhibition of several regulators of the anterior neural plate and folds patterning, including Otx2, BF-1, Xag2, Pax6, Slug, and Sox9. Downregulation of Ras-dva also interferes with the FGF-8a signaling within the anterior ectoderm. 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.

>cd01862 Rab7 Rab7 subfamily

Probab=98.26  E-value=4.8e-06  Score=62.20  Aligned_cols=63  Identities=17%  Similarity=0.068  Sum_probs=43.7

Q ss_pred             ceeEeecCCcccccHhHHhhhccccceEEEEEeccCCCCcchH-HHHH-HHHH------cCCCeEEEEEeCC
Q psy9646         148 RHYSHTDCPGHADYIKNMITGTSQMDGAILVVAATDGAMPQTR-EHLL-LAKQ------IGVTNIVVFINKF  211 (211)
Q Consensus       148 ~~~~~iDtPG~~~~~~~~~~~~~~~d~~~~vvd~~~~~~~~~~-~~~~-~~~~------~~~~~~i~~inK~  211 (211)
                      .++.+.||||+..|.......++.+|++++++|+.....-+.. .+.. ....      .++| +++++||+
T Consensus        49 ~~~~~~D~~g~~~~~~~~~~~~~~~d~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p-~ilv~nK~  119 (172)
T cd01862          49 VTLQIWDTAGQERFQSLGVAFYRGADCCVLVYDVTNPKSFESLDSWRDEFLIQASPSDPENFP-FVVLGNKI  119 (172)
T ss_pred             EEEEEEeCCChHHHHhHHHHHhcCCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCccCCCCce-EEEEEECc
Confidence            4567899999998887777788999999999998765421111 1111 1222      1567 78899995

Rab7 is a small Rab GTPase that regulates vesicular traffic from early to late endosomal stages of the endocytic pathway. The yeast Ypt7 and mammalian Rab7 are both involved in transport to the vacuole/lysosome, whereas Ypt7 is also required for homotypic vacuole fusion. Mammalian Rab7 is an essential participant in the autophagic pathway for sequestration and targeting of cytoplasmic components to the lytic compartment. Mammalian Rab7 is also proposed to function as a tumor suppressor. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-

>TIGR03156 GTP_HflX GTP-binding protein HflX

Probab=98.26  E-value=2.3e-06  Score=71.91  Aligned_cols=78  Identities=15%  Similarity=0.173  Sum_probs=50.1

Q ss_pred             ceEEeEeEEEeee-CCceeEeecCCcc-cc----c---HhHHhhhccccceEEEEEeccCCCCcch-HHHHHHHHHc---
Q psy9646         133 GITINVAHVEYAT-ENRHYSHTDCPGH-AD----Y---IKNMITGTSQMDGAILVVAATDGAMPQT-REHLLLAKQI---  199 (211)
Q Consensus       133 g~tv~~~~~~~~~-~~~~~~~iDtPG~-~~----~---~~~~~~~~~~~d~~~~vvd~~~~~~~~~-~~~~~~~~~~---  199 (211)
                      +.|.+.....+.. .+.++.|+||||. .+    +   .+.++..+..||++++|+|+.+...... ..+...++..   
T Consensus       221 ~tT~d~~~~~i~~~~~~~i~l~DT~G~~~~l~~~lie~f~~tle~~~~ADlil~VvD~s~~~~~~~~~~~~~~L~~l~~~  300 (351)
T TIGR03156       221 FATLDPTTRRLDLPDGGEVLLTDTVGFIRDLPHELVAAFRATLEEVREADLLLHVVDASDPDREEQIEAVEKVLEELGAE  300 (351)
T ss_pred             ccccCCEEEEEEeCCCceEEEEecCcccccCCHHHHHHHHHHHHHHHhCCEEEEEEECCCCchHHHHHHHHHHHHHhccC
Confidence            3455555555555 4578999999997 22    1   2334455778999999999987654322 2223344433   


Q ss_pred             CCCeEEEEEeCC
Q psy9646         200 GVTNIVVFINKF  211 (211)
Q Consensus       200 ~~~~~i~~inK~  211 (211)
                      +.| +++|+||+
T Consensus       301 ~~p-iIlV~NK~  311 (351)
T TIGR03156       301 DIP-QLLVYNKI  311 (351)
T ss_pred             CCC-EEEEEEee
Confidence            566 78999996

This protein family is one of a number of homologous small, well-conserved GTP-binding proteins with pleiotropic effects. Bacterial members are designated HflX, following the naming convention in Escherichia coli where HflX is encoded immediately downstream of the RNA chaperone Hfq, and immediately upstream of HflKC, a membrane-associated protease pair with an important housekeeping function. Over large numbers of other bacterial genomes, the pairing with hfq is more significant than with hflK and hlfC. The gene from Homo sapiens in this family has been named PGPL (pseudoautosomal GTP-binding protein-like).

>cd01869 Rab1_Ypt1 Rab1/Ypt1 subfamily

Probab=98.25  E-value=5.2e-06  Score=61.83  Aligned_cols=64  Identities=17%  Similarity=0.135  Sum_probs=45.4

Q ss_pred             CceeEeecCCcccccHhHHhhhccccceEEEEEeccCCCC-cchHHHHHHHHH---cCCCeEEEEEeCC
Q psy9646         147 NRHYSHTDCPGHADYIKNMITGTSQMDGAILVVAATDGAM-PQTREHLLLAKQ---IGVTNIVVFINKF  211 (211)
Q Consensus       147 ~~~~~~iDtPG~~~~~~~~~~~~~~~d~~~~vvd~~~~~~-~~~~~~~~~~~~---~~~~~~i~~inK~  211 (211)
                      ..++.+.||||+++|......-+..+|++++|+|+.+... ..-..++..+..   .+.| ++++.||+
T Consensus        50 ~~~~~i~D~~G~~~~~~~~~~~~~~~~~ii~v~d~~~~~s~~~l~~~~~~~~~~~~~~~~-~iiv~nK~  117 (166)
T cd01869          50 TIKLQIWDTAGQERFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLQEIDRYASENVN-KLLVGNKC  117 (166)
T ss_pred             EEEEEEEECCCcHhHHHHHHHHhCcCCEEEEEEECcCHHHHHhHHHHHHHHHHhCCCCCc-EEEEEECh
Confidence            3468899999999988777777889999999999875421 112223333333   2466 78899995

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

>cd04154 Arl2 Arl2 subfamily

Probab=98.23  E-value=3.5e-06  Score=63.41  Aligned_cols=68  Identities=19%  Similarity=0.157  Sum_probs=47.1

Q ss_pred             eeeCCceeEeecCCcccccHhHHhhhccccceEEEEEeccCCCC-cchHH-HHHHH---HHcCCCeEEEEEeCC
Q psy9646         143 YATENRHYSHTDCPGHADYIKNMITGTSQMDGAILVVAATDGAM-PQTRE-HLLLA---KQIGVTNIVVFINKF  211 (211)
Q Consensus       143 ~~~~~~~~~~iDtPG~~~~~~~~~~~~~~~d~~~~vvd~~~~~~-~~~~~-~~~~~---~~~~~~~~i~~inK~  211 (211)
                      +...+..+.+.||||++.|.......+..+|++++|+|+...-. ..... +...+   ...+.| +++++||+
T Consensus        53 ~~~~~~~l~l~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~p-~iiv~nK~  125 (173)
T cd04154          53 LEYEGYKLNIWDVGGQKTLRPYWRNYFESTDALIWVVDSSDRLRLDDCKRELKELLQEERLAGAT-LLILANKQ  125 (173)
T ss_pred             EEECCEEEEEEECCCCHHHHHHHHHHhCCCCEEEEEEECCCHHHHHHHHHHHHHHHhChhhcCCC-EEEEEECc
Confidence            34456788999999999887666677889999999999876521 11122 22222   224666 88999996

Arl2 (Arf-like 2) GTPases are members of the Arf family that bind GDP and GTP with very low affinity. Unlike most Arf family proteins, Arl2 is not myristoylated at its N-terminal helix. The protein PDE-delta, first identified in photoreceptor rod cells, binds specifically to Arl2 and is structurally very similar to RhoGDI. Despite the high structural similarity between Arl2 and Rho proteins and between PDE-delta and RhoGDI, the interactions between the GTPases and their effectors are very different. In its GTP bound form, Arl2 interacts with the protein Binder of Arl2 (BART), and the complex is believed to play a role in mitochondrial adenine nucleotide transport. In its GDP bound form, Arl2 interacts with tubulin- folding Cofactor D; this interaction is believed to play a role in regulation of microtubule dynamics that impact the cytoskeleton, cell division, and cytokinesis.

>PRK11058 GTPase HflX; Provisional

Probab=98.23  E-value=3.4e-06  Score=72.61  Aligned_cols=103  Identities=13%  Similarity=0.038  Sum_probs=58.8

Q ss_pred             chhhhhhhhcccccccccchhhcccceEEeEeEEEeeeCC-ceeEeecCCccccc--------HhHHhhhccccceEEEE
Q psy9646         108 VLADKKLAKVKQYADIDNAPEEKARGITINVAHVEYATEN-RHYSHTDCPGHADY--------IKNMITGTSQMDGAILV  178 (211)
Q Consensus       108 ~~~~~~~~~f~~~i~~~~~~~e~~rg~tv~~~~~~~~~~~-~~~~~iDtPG~~~~--------~~~~~~~~~~~d~~~~v  178 (211)
                      +.+..|++++...+.-.........+.|++.....+...+ ..+.++||||....        +..+......+|++++|
T Consensus       204 G~~NaGKSSLlN~Lt~~~~~v~~~~~tTld~~~~~i~l~~~~~~~l~DTaG~~r~lp~~lve~f~~tl~~~~~ADlIL~V  283 (426)
T PRK11058        204 GYTNAGKSTLFNRITEARVYAADQLFATLDPTLRRIDVADVGETVLADTVGFIRHLPHDLVAAFKATLQETRQATLLLHV  283 (426)
T ss_pred             CCCCCCHHHHHHHHhCCceeeccCCCCCcCCceEEEEeCCCCeEEEEecCcccccCCHHHHHHHHHHHHHhhcCCEEEEE
Confidence            3344555554443322111111222345554444555444 37899999997321        23345567889999999


Q ss_pred             EeccCCCCcchH----HHHHHHHHcCCCeEEEEEeCC
Q psy9646         179 VAATDGAMPQTR----EHLLLAKQIGVTNIVVFINKF  211 (211)
Q Consensus       179 vd~~~~~~~~~~----~~~~~~~~~~~~~~i~~inK~  211 (211)
                      +|+.+.......    .++..+...+.| +++|+||+
T Consensus       284 vDaS~~~~~e~l~~v~~iL~el~~~~~p-vIiV~NKi  319 (426)
T PRK11058        284 VDAADVRVQENIEAVNTVLEEIDAHEIP-TLLVMNKI  319 (426)
T ss_pred             EeCCCccHHHHHHHHHHHHHHhccCCCC-EEEEEEcc
Confidence            999876443322    233444334567 77999996

>smart00178 SAR Sar1p-like members of the Ras-family of small GTPases

Probab=98.22  E-value=3.7e-06  Score=64.11  Aligned_cols=69  Identities=20%  Similarity=0.230  Sum_probs=48.2

Q ss_pred             EeeeCCceeEeecCCcccccHhHHhhhccccceEEEEEeccCCCC-cchHH-HHHHHH---HcCCCeEEEEEeCC
Q psy9646         142 EYATENRHYSHTDCPGHADYIKNMITGTSQMDGAILVVAATDGAM-PQTRE-HLLLAK---QIGVTNIVVFINKF  211 (211)
Q Consensus       142 ~~~~~~~~~~~iDtPG~~~~~~~~~~~~~~~d~~~~vvd~~~~~~-~~~~~-~~~~~~---~~~~~~~i~~inK~  211 (211)
                      .+...+.++.++||||++.+.......+..+|++++|+|+.+... ...+. +.+.+.   ..+.| +++++||+
T Consensus        55 ~~~~~~~~~~~~D~~G~~~~~~~~~~~~~~ad~ii~vvD~~~~~~~~~~~~~l~~l~~~~~~~~~p-iliv~NK~  128 (184)
T smart00178       55 ELAIGNIKFTTFDLGGHQQARRLWKDYFPEVNGIVYLVDAYDKERFAESKRELDALLSDEELATVP-FLILGNKI  128 (184)
T ss_pred             EEEECCEEEEEEECCCCHHHHHHHHHHhCCCCEEEEEEECCcHHHHHHHHHHHHHHHcChhhcCCC-EEEEEeCc
Confidence            344567789999999999887767777889999999999975421 12222 222222   24677 88999995

Yeast SAR1 is an essential gene required for transport of secretory proteins from the endoplasmic reticulum to the Golgi apparatus.

>PRK00454 engB GTP-binding protein YsxC; Reviewed

Probab=98.21  E-value=1e-05  Score=61.92  Aligned_cols=64  Identities=16%  Similarity=0.364  Sum_probs=46.6

Q ss_pred             CceeEeecCCccc----------cc---HhHHhhhccccceEEEEEeccCCCCcchHHHHHHHHHcCCCeEEEEEeCC
Q psy9646         147 NRHYSHTDCPGHA----------DY---IKNMITGTSQMDGAILVVAATDGAMPQTREHLLLAKQIGVTNIVVFINKF  211 (211)
Q Consensus       147 ~~~~~~iDtPG~~----------~~---~~~~~~~~~~~d~~~~vvd~~~~~~~~~~~~~~~~~~~~~~~~i~~inK~  211 (211)
                      +.++.++||||+.          .+   ....+.....++++++++|+..+....+.++.+.+...+.| +++++||+
T Consensus        69 ~~~l~l~DtpG~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~d~~~~~~~~~~~i~~~l~~~~~~-~iiv~nK~  145 (196)
T PRK00454         69 NDKLRLVDLPGYGYAKVSKEEKEKWQKLIEEYLRTRENLKGVVLLIDSRHPLKELDLQMIEWLKEYGIP-VLIVLTKA  145 (196)
T ss_pred             CCeEEEeCCCCCCCcCCCchHHHHHHHHHHHHHHhCccceEEEEEEecCCCCCHHHHHHHHHHHHcCCc-EEEEEECc
Confidence            4689999999963          22   22233444456789999998887766666677788888888 77899996

>TIGR00491 aIF-2 translation initiation factor aIF-2/yIF-2

Probab=98.20  E-value=8.6e-06  Score=72.70  Aligned_cols=59  Identities=17%  Similarity=0.189  Sum_probs=52.5

Q ss_pred             CCCCCCeeEEEeeEEeecCCcEEEEEEEEEEEEecCCEEEEeecCceeeEEEEEEEecc
Q psy9646          16 RDLDKPFYLPVEHTYSIPGRGTVVTGRLERGIVKKGMECEFTGYGRQFKTTVTGIEMFH   74 (211)
Q Consensus        16 ~~~~~p~~~~v~~~~~~~~~G~v~~G~v~~G~i~~g~~v~i~p~~~~~~~~v~~i~~~~   74 (211)
                      ...++|++++|.+++..+|.|++++|.|.+|.+++||.+.+.|.+....++|+++...+
T Consensus       225 ~~~~~~~~~~V~e~~~~~G~G~v~t~~v~~G~l~~GD~iv~~~~~~~i~~kVr~l~~~~  283 (590)
T TIGR00491       225 LEEEGPARGTILEVKEETGLGMTIDAVIYDGILRKGDTIAMAGSDDVIVTRVRALLKPR  283 (590)
T ss_pred             cCCCCCeEEEEEEEEEcCCCceEEEEEEEcCEEeCCCEEEEccCCCcccEEEEEecCCC
Confidence            35678999999999999999999999999999999999999998655578999997654

This model describes archaeal and eukaryotic orthologs of bacterial IF-2. Like IF-2, it helps convey the initiator tRNA to the ribosome, although the initiator is N-formyl-Met in bacteria and Met here. This protein is not closely related to the subunits of eIF-2 of eukaryotes, which is also involved in the initiation of translation. The aIF-2 of Methanococcus jannaschii contains a large intein interrupting a region of very strongly conserved sequence very near the amino end; this model does not correctly align the sequences from Methanococcus jannaschii and Pyrococcus horikoshii in this region.

>cd04152 Arl4_Arl7 Arl4/Arl7 subfamily

Probab=98.19  E-value=4.4e-06  Score=63.62  Aligned_cols=65  Identities=20%  Similarity=0.245  Sum_probs=44.6

Q ss_pred             CCceeEeecCCcccccHhHHhhhccccceEEEEEeccCCCCc-chH----HHHHHHHHcCCCeEEEEEeCC
Q psy9646         146 ENRHYSHTDCPGHADYIKNMITGTSQMDGAILVVAATDGAMP-QTR----EHLLLAKQIGVTNIVVFINKF  211 (211)
Q Consensus       146 ~~~~~~~iDtPG~~~~~~~~~~~~~~~d~~~~vvd~~~~~~~-~~~----~~~~~~~~~~~~~~i~~inK~  211 (211)
                      .+..+.+.||||++.|.......+..+|++++|+|+...-.- ...    ++.......+.| +++++||+
T Consensus        50 ~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~ii~v~D~~~~~~~~~~~~~~~~i~~~~~~~~~p-~iiv~NK~  119 (183)
T cd04152          50 KGITFHFWDVGGQEKLRPLWKSYTRCTDGIVFVVDSVDVERMEEAKTELHKITRFSENQGVP-VLVLANKQ  119 (183)
T ss_pred             CceEEEEEECCCcHhHHHHHHHHhccCCEEEEEEECCCHHHHHHHHHHHHHHHhhhhcCCCc-EEEEEECc
Confidence            446789999999988866555557789999999998764211 111    122222335677 78999996

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.

>cd01863 Rab18 Rab18 subfamily

Probab=98.19  E-value=4e-06  Score=62.06  Aligned_cols=64  Identities=16%  Similarity=0.087  Sum_probs=45.3

Q ss_pred             CceeEeecCCcccccHhHHhhhccccceEEEEEeccCCCCcch-HHHHHHHH----HcCCCeEEEEEeCC
Q psy9646         147 NRHYSHTDCPGHADYIKNMITGTSQMDGAILVVAATDGAMPQT-REHLLLAK----QIGVTNIVVFINKF  211 (211)
Q Consensus       147 ~~~~~~iDtPG~~~~~~~~~~~~~~~d~~~~vvd~~~~~~~~~-~~~~~~~~----~~~~~~~i~~inK~  211 (211)
                      ..++.+.||||+..|.......++.+|++++++|+.....-+. ..++..+.    ..+.| ++++.||+
T Consensus        48 ~~~~~l~D~~g~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~~-~~iv~nK~  116 (161)
T cd01863          48 KVKLAIWDTAGQERFRTLTSSYYRGAQGVILVYDVTRRDTFTNLETWLNELETYSTNNDIV-KMLVGNKI  116 (161)
T ss_pred             EEEEEEEECCCchhhhhhhHHHhCCCCEEEEEEECCCHHHHHhHHHHHHHHHHhCCCCCCc-EEEEEECC
Confidence            3568899999999888777777889999999999865443222 22333332    23566 77899995

Mammalian Rab18 is implicated in endocytic transport and is expressed most highly in polarized epithelial cells. However, trypanosomal Rab, TbRAB18, is upregulated in the BSF (Blood Stream Form) stage and localized predominantly to elements of the Golgi complex. In human and mouse cells, Rab18 has been identified in lipid droplets, organelles that store neutral lipids. 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 mos

>cd04158 ARD1 ARD1 subfamily

Probab=98.17  E-value=5.2e-06  Score=62.30  Aligned_cols=70  Identities=13%  Similarity=0.119  Sum_probs=48.8

Q ss_pred             EEeeeCCceeEeecCCcccccHhHHhhhccccceEEEEEeccCCC-CcchHHHHHHHHH----cCCCeEEEEEeCC
Q psy9646         141 VEYATENRHYSHTDCPGHADYIKNMITGTSQMDGAILVVAATDGA-MPQTREHLLLAKQ----IGVTNIVVFINKF  211 (211)
Q Consensus       141 ~~~~~~~~~~~~iDtPG~~~~~~~~~~~~~~~d~~~~vvd~~~~~-~~~~~~~~~~~~~----~~~~~~i~~inK~  211 (211)
                      ..++..+.++.+.||||++++.......+..+|++++|+|+.+.. .......+..+.+    .+.| ++++.||+
T Consensus        36 ~~~~~~~~~i~l~Dt~G~~~~~~~~~~~~~~ad~ii~V~D~s~~~s~~~~~~~~~~~~~~~~~~~~p-iilv~NK~  110 (169)
T cd04158          36 ETVEYKNLKFTIWDVGGKHKLRPLWKHYYLNTQAVVFVVDSSHRDRVSEAHSELAKLLTEKELRDAL-LLIFANKQ  110 (169)
T ss_pred             EEEEECCEEEEEEECCCChhcchHHHHHhccCCEEEEEEeCCcHHHHHHHHHHHHHHhcChhhCCCC-EEEEEeCc
Confidence            345567788999999999988777767788999999999986542 1222232232321    2355 88999995

ARD1 (ADP-ribosylation factor domain protein 1) is an unusual member of the Arf family. In addition to the C-terminal Arf domain, ARD1 has an additional 46-kDa N-terminal domain that contains a RING finger domain, two predicted B-Boxes, and a coiled-coil protein interaction motif. This domain belongs to the TRIM (tripartite motif) or RBCC (RING, B-Box, coiled-coil) family. Like most Arfs, the ARD1 Arf domain lacks detectable GTPase activity. However, unlike most Arfs, the full-length ARD1 protein has significant GTPase activity due to the GAP (GTPase-activating protein) activity exhibited by the 46-kDa N-terminal domain. The GAP domain of ARD1 is specific for its own Arf domain and does not bind other Arfs. The rate of GDP dissociation from the ARD1 Arf domain is slowed by the adjacent 15 amino acids, which act as a GDI (GDP-dissociation inhibitor) domain. ARD1 is ubiquitously expressed in cells and localizes to the Golgi and to the lysosomal membra

>cd04112 Rab26 Rab26 subfamily

Probab=98.17  E-value=6.7e-06  Score=63.03  Aligned_cols=64  Identities=19%  Similarity=0.136  Sum_probs=45.9

Q ss_pred             CceeEeecCCcccccHhHHhhhccccceEEEEEeccCCCCc-chHHHHHHHHHc---CCCeEEEEEeCC
Q psy9646         147 NRHYSHTDCPGHADYIKNMITGTSQMDGAILVVAATDGAMP-QTREHLLLAKQI---GVTNIVVFINKF  211 (211)
Q Consensus       147 ~~~~~~iDtPG~~~~~~~~~~~~~~~d~~~~vvd~~~~~~~-~~~~~~~~~~~~---~~~~~i~~inK~  211 (211)
                      ..++.+.||||+..|.......+..+|++++|+|+.....- ..+.++..+...   ++| ++++.||+
T Consensus        49 ~~~~~i~Dt~G~~~~~~~~~~~~~~ad~~i~v~D~~~~~s~~~~~~~~~~i~~~~~~~~p-iiiv~NK~  116 (191)
T cd04112          49 KVKLQIWDTAGQERFRSVTHAYYRDAHALLLLYDITNKASFDNIRAWLTEIKEYAQEDVV-IMLLGNKA  116 (191)
T ss_pred             EEEEEEEeCCCcHHHHHhhHHHccCCCEEEEEEECCCHHHHHHHHHHHHHHHHhCCCCCc-EEEEEEcc
Confidence            35788999999998877777778899999999998764321 123334444332   466 88999995

First identified in rat pancreatic acinar cells, Rab26 is believed to play a role in recruiting mature granules to the plasma membrane upon beta-adrenergic stimulation. Rab26 belongs to the Rab functional group III, which are considered key regulators of intracellular vesicle transport during exocytosis. 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.

>cd03700 eEF2_snRNP_like_II EF2_snRNP_like_II: this subfamily represents domain II of elongation factor (EF) EF-2 found eukaryotes and archaea and, the C-terminal portion of the spliceosomal human 116kD U5 small nuclear ribonucleoprotein (snRNP) protein (U5-116 kD) and, its yeast counterpart Snu114p

Probab=98.16  E-value=2.8e-05  Score=52.69  Aligned_cols=75  Identities=24%  Similarity=0.387  Sum_probs=52.5

Q ss_pred             EeeEEeec-CCcEEEEEEEEEEEEecCCEEEEeecC-------ceeeEEEEEEEecc----eecceecccCceehhccCC
Q psy9646          26 VEHTYSIP-GRGTVVTGRLERGIVKKGMECEFTGYG-------RQFKTTVTGIEMFH----KILDEAQAGDQLGALVKGM   93 (211)
Q Consensus        26 v~~~~~~~-~~G~v~~G~v~~G~i~~g~~v~i~p~~-------~~~~~~v~~i~~~~----~~~~~a~~G~~v~~~l~~~   93 (211)
                      |.-+...+ +.|++..+||.+|.++.|+.+.+...+       +..+.++..+....    .++++|.|||++.+.  + 
T Consensus         5 v~Ki~~~~~~~g~la~~RV~sGtl~~g~~v~~~~~~~~~~~~~~~~~~~v~~l~~~~g~~~~~v~~a~aGdIv~i~--g-   81 (93)
T cd03700           5 VTKMVPTPDKGGFIAFGRVFSGTIRKGQKVRVLGPNYSPEDEEDLSKKTIQRLYLMMGRYREPVDEVPAGNIVLIV--G-   81 (93)
T ss_pred             EEeCeECCCCCEEEEEEEEeeCeEeCCCEEEEECCCCCCCccCcEEEEEEeEEEEEcCCCEEEccccCCCCEEEEE--C-
Confidence            44444455 789999999999999999999875411       12345677775544    688999999999872  2 


Q ss_pred             Ccccccccccc
Q psy9646          94 KRDEVNRGLIM  104 (211)
Q Consensus        94 ~~~~v~~G~ii  104 (211)
                       ..++..|++.
T Consensus        82 -~~~~~~g~~~   91 (93)
T cd03700          82 -LDQLKSGTTA   91 (93)
T ss_pred             -CccCceEeEe
Confidence             2345566543

During the process of peptide synthesis and tRNA site changes, the ribosome is moved along the mRNA a distance equal to one codon with the addition of each amino acid. This translocation step is catalyzed by EF-2_GTP, which is hydrolyzed to provide the required energy. Thus, this action releases the uncharged tRNA from the P site and transfers the newly formed peptidyl-tRNA from the A site to the P site. Yeast Snu114p is essential for cell viability and for splicing in vivo. U5-116 kD binds GTP. Experiments suggest that GTP binding and probably GTP hydrolysis is important for the function of the U5-116 kD/Snu114p.

>cd01852 AIG1 AIG1 (avrRpt2-induced gene 1)

Probab=98.16  E-value=1.1e-05  Score=62.18  Aligned_cols=78  Identities=14%  Similarity=0.238  Sum_probs=55.0

Q ss_pred             cceEEeEeEEEeeeCCceeEeecCCccccc-----------HhHHhhhccccceEEEEEeccCCCCcchHHHHHHHHHc-
Q psy9646         132 RGITINVAHVEYATENRHYSHTDCPGHADY-----------IKNMITGTSQMDGAILVVAATDGAMPQTREHLLLAKQI-  199 (211)
Q Consensus       132 rg~tv~~~~~~~~~~~~~~~~iDtPG~~~~-----------~~~~~~~~~~~d~~~~vvd~~~~~~~~~~~~~~~~~~~-  199 (211)
                      ++.|........++.+.+++++||||..+.           .+.+..+...+|++++|+++.. ....++..++.+++. 
T Consensus        33 ~~~T~~~~~~~~~~~~~~i~viDTPG~~d~~~~~~~~~~~i~~~~~~~~~g~~~illVi~~~~-~t~~d~~~l~~l~~~f  111 (196)
T cd01852          33 SSVTKTCQKESAVWDGRRVNVIDTPGLFDTSVSPEQLSKEIVRCLSLSAPGPHAFLLVVPLGR-FTEEEEQAVETLQELF  111 (196)
T ss_pred             CCcccccceeeEEECCeEEEEEECcCCCCccCChHHHHHHHHHHHHhcCCCCEEEEEEEECCC-cCHHHHHHHHHHHHHh
Confidence            345555556666778899999999997653           1223334567899999999987 777778888877663 


Q ss_pred             C---CCeEEEEEeC
Q psy9646         200 G---VTNIVVFINK  210 (211)
Q Consensus       200 ~---~~~~i~~inK  210 (211)
                      |   .+++|+++||
T Consensus       112 g~~~~~~~ivv~T~  125 (196)
T cd01852         112 GEKVLDHTIVLFTR  125 (196)
T ss_pred             ChHhHhcEEEEEEC
Confidence            3   2346677776

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).

>cd04159 Arl10_like Arl10-like subfamily

Probab=98.16  E-value=6.1e-06  Score=60.32  Aligned_cols=68  Identities=18%  Similarity=0.158  Sum_probs=48.5

Q ss_pred             eeeCCceeEeecCCcccccHhHHhhhccccceEEEEEeccCCCC-cchHHHHHHHHH----cCCCeEEEEEeCC
Q psy9646         143 YATENRHYSHTDCPGHADYIKNMITGTSQMDGAILVVAATDGAM-PQTREHLLLAKQ----IGVTNIVVFINKF  211 (211)
Q Consensus       143 ~~~~~~~~~~iDtPG~~~~~~~~~~~~~~~d~~~~vvd~~~~~~-~~~~~~~~~~~~----~~~~~~i~~inK~  211 (211)
                      ...+...+.+.||||+..|.......+..+|++++|+|+..... .+.+..+..+..    .+.| +++++||+
T Consensus        39 ~~~~~~~~~~~D~~g~~~~~~~~~~~~~~~d~ii~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~p-~iiv~nK~  111 (159)
T cd04159          39 VTKGNVTLKVWDLGGQPRFRSMWERYCRGVNAIVYVVDAADRTALEAAKNELHDLLEKPSLEGIP-LLVLGNKN  111 (159)
T ss_pred             EEECCEEEEEEECCCCHhHHHHHHHHHhcCCEEEEEEECCCHHHHHHHHHHHHHHHcChhhcCCC-EEEEEeCc
Confidence            44456788999999999988888888899999999999865321 222233333221    4667 77899995

Arl9/Arl10 was identified from a human cancer-derived EST dataset. No functional information about the subfamily is available at the current time, but crystal structures of human Arl10b and Arl10c have been solved.

>cd01867 Rab8_Rab10_Rab13_like Rab8/Sec4/Ypt2

Probab=98.15  E-value=1e-05  Score=60.50  Aligned_cols=63  Identities=19%  Similarity=0.093  Sum_probs=44.8

Q ss_pred             ceeEeecCCcccccHhHHhhhccccceEEEEEeccCCCCc-chHHHHHHHHH---cCCCeEEEEEeCC
Q psy9646         148 RHYSHTDCPGHADYIKNMITGTSQMDGAILVVAATDGAMP-QTREHLLLAKQ---IGVTNIVVFINKF  211 (211)
Q Consensus       148 ~~~~~iDtPG~~~~~~~~~~~~~~~d~~~~vvd~~~~~~~-~~~~~~~~~~~---~~~~~~i~~inK~  211 (211)
                      ..+.+.||||+++|.......+..+|+++++.|+.+...- .-..++..+..   .+.| ++++.||+
T Consensus        52 ~~l~l~D~~g~~~~~~~~~~~~~~ad~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p-~iiv~nK~  118 (167)
T cd01867          52 IKLQIWDTAGQERFRTITTAYYRGAMGIILVYDITDEKSFENIRNWMRNIEEHASEDVE-RMLVGNKC  118 (167)
T ss_pred             EEEEEEeCCchHHHHHHHHHHhCCCCEEEEEEECcCHHHHHhHHHHHHHHHHhCCCCCc-EEEEEECc
Confidence            4678899999999887777778999999999998654321 11233333333   3466 77899995

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

>COG0480 FusA Translation elongation factors (GTPases) [Translation, ribosomal structure and biogenesis]

Probab=98.13  E-value=2.1e-05  Score=71.19  Aligned_cols=101  Identities=24%  Similarity=0.332  Sum_probs=79.0

Q ss_pred             hHHHHHhhhCCCCCC--------------------CCCCCeeEEEeeEEeecCCcEEEEEEEEEEEEecCCEEEEeecCc
Q psy9646           2 ELLNQIDTYIPQPVR--------------------DLDKPFYLPVEHTYSIPGRGTVVTGRLERGIVKKGMECEFTGYGR   61 (211)
Q Consensus         2 ~ll~~l~~~i~~p~~--------------------~~~~p~~~~v~~~~~~~~~G~v~~G~v~~G~i~~g~~v~i~p~~~   61 (211)
                      .||+++..++|.|..                    +.++||.+.+..+...++.|....+||-||.++.|+.+.....+ 
T Consensus       268 ~lLdav~~~lPsP~e~~~~~g~~~~~~~~~~~~~~~~e~p~~a~vfKi~~d~~~g~l~~~RvysGtl~~G~~v~n~~~~-  346 (697)
T COG0480         268 PLLDAVVDYLPSPLDVPPIKGDLDDEIEKAVLRKASDEGPLSALVFKIMTDPFVGKLTFVRVYSGTLKSGSEVLNSTKG-  346 (697)
T ss_pred             HHHHHHHHHCCChhhcccccccCCccccchhcccCCCCCceEEEEEEeEecCCCCeEEEEEEeccEEcCCCEEEeCCCC-
Confidence            588999998887721                    23689999999999999999988899999999999977765544 


Q ss_pred             eeeEEEEEEEecc----eecceecccCceehhccCCCcccccccccccccc
Q psy9646          62 QFKTTVTGIEMFH----KILDEAQAGDQLGALVKGMKRDEVNRGLIMAKPV  108 (211)
Q Consensus        62 ~~~~~v~~i~~~~----~~~~~a~~G~~v~~~l~~~~~~~v~~G~ii~~~~  108 (211)
                       .+.+|..|...+    .+++++.|||++++    .+..+...|+++++..
T Consensus       347 -~~erv~~l~~~~~~~~~~v~~~~AG~I~a~----~Gl~~~~tGdTl~~~~  392 (697)
T COG0480         347 -KKERVGRLLLMHGNEREEVDEVPAGDIVAL----VGLKDATTGDTLCDEN  392 (697)
T ss_pred             -ccEEEEEEEEccCCceeecccccCccEEEE----EcccccccCCeeecCC
Confidence             367777776554    68999999999987    2334556777777544

>PRK15467 ethanolamine utilization protein EutP; Provisional

Probab=98.12  E-value=4.9e-06  Score=62.01  Aligned_cols=57  Identities=23%  Similarity=0.279  Sum_probs=43.5

Q ss_pred             eecCCcc----cccHhHHhhhccccceEEEEEeccCCCCcchHHHHHHHHHcCCCeEEEEEeCC
Q psy9646         152 HTDCPGH----ADYIKNMITGTSQMDGAILVVAATDGAMPQTREHLLLAKQIGVTNIVVFINKF  211 (211)
Q Consensus       152 ~iDtPG~----~~~~~~~~~~~~~~d~~~~vvd~~~~~~~~~~~~~~~~~~~~~~~~i~~inK~  211 (211)
                      ++||||.    .++.+++..++..+|++++|+|+.++.......+++.  ..+.| +++++||+
T Consensus        41 ~iDtpG~~~~~~~~~~~~~~~~~~ad~il~v~d~~~~~s~~~~~~~~~--~~~~~-ii~v~nK~  101 (158)
T PRK15467         41 DIDTPGEYFSHPRWYHALITTLQDVDMLIYVHGANDPESRLPAGLLDI--GVSKR-QIAVISKT  101 (158)
T ss_pred             cccCCccccCCHHHHHHHHHHHhcCCEEEEEEeCCCcccccCHHHHhc--cCCCC-eEEEEEcc
Confidence            6999996    4677888888999999999999987765555444432  23556 78999995

>cd01868 Rab11_like Rab11-like

Probab=98.11  E-value=1.2e-05  Score=59.68  Aligned_cols=100  Identities=14%  Similarity=0.056  Sum_probs=57.9

Q ss_pred             hhhhhhcccccccccchhhcccceEEeEeEEEeeeCC--ceeEeecCCcccccHhHHhhhccccceEEEEEeccCCCCcc
Q psy9646         111 DKKLAKVKQYADIDNAPEEKARGITINVAHVEYATEN--RHYSHTDCPGHADYIKNMITGTSQMDGAILVVAATDGAMPQ  188 (211)
Q Consensus       111 ~~~~~~f~~~i~~~~~~~e~~rg~tv~~~~~~~~~~~--~~~~~iDtPG~~~~~~~~~~~~~~~d~~~~vvd~~~~~~~~  188 (211)
                      ..|++.+...+.......+..+....+.....+..++  ..+.+.||||+..+.......+..+|++++|.|+.+...-+
T Consensus        13 ~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~   92 (165)
T cd01868          13 GVGKSNLLSRFTRNEFNLDSKSTIGVEFATRSIQIDGKTIKAQIWDTAGQERYRAITSAYYRGAVGALLVYDITKKQTFE   92 (165)
T ss_pred             CCCHHHHHHHHhcCCCCCCCCCccceEEEEEEEEECCEEEEEEEEeCCChHHHHHHHHHHHCCCCEEEEEEECcCHHHHH
Confidence            4455555544432222222222233333333333444  46789999999988777777788999999999987533221


Q ss_pred             -hHHHHHHHHH---cCCCeEEEEEeCC
Q psy9646         189 -TREHLLLAKQ---IGVTNIVVFINKF  211 (211)
Q Consensus       189 -~~~~~~~~~~---~~~~~~i~~inK~  211 (211)
                       -.+++..+..   .+.| ++++.||+
T Consensus        93 ~~~~~~~~~~~~~~~~~p-i~vv~nK~  118 (165)
T cd01868          93 NVERWLKELRDHADSNIV-IMLVGNKS  118 (165)
T ss_pred             HHHHHHHHHHHhCCCCCe-EEEEEECc
Confidence             1223333333   2455 88899995

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

>cd04162 Arl9_Arfrp2_like Arl9/Arfrp2-like subfamily

Probab=98.10  E-value=8.4e-06  Score=60.96  Aligned_cols=69  Identities=23%  Similarity=0.257  Sum_probs=49.5

Q ss_pred             EeeeCCceeEeecCCcccccHhHHhhhccccceEEEEEeccCCCC-cchHHHHHHH-HH-cCCCeEEEEEeCC
Q psy9646         142 EYATENRHYSHTDCPGHADYIKNMITGTSQMDGAILVVAATDGAM-PQTREHLLLA-KQ-IGVTNIVVFINKF  211 (211)
Q Consensus       142 ~~~~~~~~~~~iDtPG~~~~~~~~~~~~~~~d~~~~vvd~~~~~~-~~~~~~~~~~-~~-~~~~~~i~~inK~  211 (211)
                      .+..++.++.+.||||+.+|.......+..+|++++|+|+.+... ...+..+..+ .. .++| ++++.||+
T Consensus        38 ~i~~~~~~l~i~Dt~G~~~~~~~~~~~~~~ad~ii~V~D~t~~~s~~~~~~~l~~~~~~~~~~p-iilv~NK~  109 (164)
T cd04162          38 AIPTQDAIMELLEIGGSQNLRKYWKRYLSGSQGLIFVVDSADSERLPLARQELHQLLQHPPDLP-LVVLANKQ  109 (164)
T ss_pred             EEeeCCeEEEEEECCCCcchhHHHHHHHhhCCEEEEEEECCCHHHHHHHHHHHHHHHhCCCCCc-EEEEEeCc
Confidence            345567789999999999987777777899999999999876532 2222222333 22 4666 88999995

Arl9 (Arf-like 9) was first identified as part of the Human Cancer Genome Project. It maps to chromosome 4q12 and is sometimes referred to as Arfrp2 (Arf-related protein 2). This is a novel subfamily identified in human cancers that is uncharacterized to date.

>cd04149 Arf6 Arf6 subfamily

Probab=98.10  E-value=9.9e-06  Score=60.85  Aligned_cols=68  Identities=21%  Similarity=0.256  Sum_probs=47.4

Q ss_pred             eeeCCceeEeecCCcccccHhHHhhhccccceEEEEEeccCCC-CcchHHHH-HHHHH---cCCCeEEEEEeCC
Q psy9646         143 YATENRHYSHTDCPGHADYIKNMITGTSQMDGAILVVAATDGA-MPQTREHL-LLAKQ---IGVTNIVVFINKF  211 (211)
Q Consensus       143 ~~~~~~~~~~iDtPG~~~~~~~~~~~~~~~d~~~~vvd~~~~~-~~~~~~~~-~~~~~---~~~~~~i~~inK~  211 (211)
                      +...+..+.+.||||++.|-......+..+|++++|+|+.+.. .......+ +.+..   .++| ++++.||+
T Consensus        48 ~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~a~~ii~v~D~t~~~s~~~~~~~~~~~~~~~~~~~~p-iilv~NK~  120 (168)
T cd04149          48 VTYKNVKFNVWDVGGQDKIRPLWRHYYTGTQGLIFVVDSADRDRIDEARQELHRIINDREMRDAL-LLVFANKQ  120 (168)
T ss_pred             EEECCEEEEEEECCCCHHHHHHHHHHhccCCEEEEEEeCCchhhHHHHHHHHHHHhcCHhhcCCc-EEEEEECc
Confidence            3446678999999999988766666778999999999987642 12222222 33321   3466 88999995

Arf6 (ADP ribosylation factor 6) proteins localize to the plasma membrane, where they perform a wide variety of functions. In its active, GTP-bound form, Arf6 is involved in cell spreading, Rac-induced formation of plasma membrane ruffles, cell migration, wound healing, and Fc-mediated phagocytosis. Arf6 appears to change the actin structure at the plasma membrane by activating Rac, a Rho family protein involved in membrane ruffling. Arf6 is required for and enhances Rac formation of ruffles. Arf6 can regulate dendritic branching in hippocampal neurons, and in yeast it localizes to the growing bud, where it plays a role in polarized growth and bud site selection. In leukocytes, Arf6 is required for chemokine-stimulated migration across endothelial cells. Arf6 also plays a role in down-regulation of beta2-adrenergic receptors and luteinizing hormone receptors by facilitating the release of sequestered arrestin to allow endocytosis. Arf6 is believed t

>cd04119 RJL RJL (RabJ-Like) subfamily

Probab=98.09  E-value=1.8e-05  Score=58.58  Aligned_cols=65  Identities=25%  Similarity=0.285  Sum_probs=45.4

Q ss_pred             CCceeEeecCCcccccHhHHhhhccccceEEEEEeccCCCC-cchHHHHHHHHH--------cCCCeEEEEEeCC
Q psy9646         146 ENRHYSHTDCPGHADYIKNMITGTSQMDGAILVVAATDGAM-PQTREHLLLAKQ--------IGVTNIVVFINKF  211 (211)
Q Consensus       146 ~~~~~~~iDtPG~~~~~~~~~~~~~~~d~~~~vvd~~~~~~-~~~~~~~~~~~~--------~~~~~~i~~inK~  211 (211)
                      ....+.+.||||++.|.......+..+|++++|+|..+... .....++..+..        .+.| ++++.||+
T Consensus        47 ~~~~l~i~Dt~G~~~~~~~~~~~~~~~d~~ilv~D~~~~~s~~~~~~~~~~~~~~~~~~~~~~~~p-iilv~nK~  120 (168)
T cd04119          47 KEVRVNFFDLSGHPEYLEVRNEFYKDTQGVLLVYDVTDRQSFEALDSWLKEMKQEGGPHGNMENIV-VVVCANKI  120 (168)
T ss_pred             eEEEEEEEECCccHHHHHHHHHHhccCCEEEEEEECCCHHHHHhHHHHHHHHHHhccccccCCCce-EEEEEEch
Confidence            34578899999999888777777889999999999876432 112223333322        2345 88999995

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.

>cd04108 Rab36_Rab34 Rab34/Rab36 subfamily

Probab=98.08  E-value=2.1e-05  Score=59.17  Aligned_cols=64  Identities=20%  Similarity=0.074  Sum_probs=45.3

Q ss_pred             ceeEeecCCcccccHhHHhhhccccceEEEEEeccCCC-CcchHHHHHHHHHcC---CCeEEEEEeCC
Q psy9646         148 RHYSHTDCPGHADYIKNMITGTSQMDGAILVVAATDGA-MPQTREHLLLAKQIG---VTNIVVFINKF  211 (211)
Q Consensus       148 ~~~~~iDtPG~~~~~~~~~~~~~~~d~~~~vvd~~~~~-~~~~~~~~~~~~~~~---~~~~i~~inK~  211 (211)
                      .++.+.||||+++|.......+..+|++++|.|+.... ......++....+..   .+++|+|.||+
T Consensus        49 ~~l~i~Dt~G~~~~~~~~~~~~~~ad~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~iilVgnK~  116 (170)
T cd04108          49 FSLQLWDTAGQERFKCIASTYYRGAQAIIIVFDLTDVASLEHTRQWLEDALKENDPSSVLLFLVGTKK  116 (170)
T ss_pred             EEEEEEeCCChHHHHhhHHHHhcCCCEEEEEEECcCHHHHHHHHHHHHHHHHhcCCCCCeEEEEEECh
Confidence            56889999999999877777789999999999996532 222233444433322   23378899995

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

>CHL00189 infB translation initiation factor 2; Provisional

Probab=98.07  E-value=0.00012  Score=66.93  Aligned_cols=195  Identities=14%  Similarity=0.102  Sum_probs=109.6

Q ss_pred             hHHHHHhhhCC--CCCCCCCCCeeEEEeeEEeecCCcEEEEEEEEEEEEecCCEEEEeecCceeeEEEEEEEecc-eecc
Q psy9646           2 ELLNQIDTYIP--QPVRDLDKPFYLPVEHTYSIPGRGTVVTGRLERGIVKKGMECEFTGYGRQFKTTVTGIEMFH-KILD   78 (211)
Q Consensus         2 ~ll~~l~~~i~--~p~~~~~~p~~~~v~~~~~~~~~G~v~~G~v~~G~i~~g~~v~i~p~~~~~~~~v~~i~~~~-~~~~   78 (211)
                      +|+++|....+  .+..+.+.|+...|-+.+..++.|++++|+|.+|++++||.+.+.|.    .++|+++...+ +++.
T Consensus       400 eLle~I~~l~e~~~lk~~~~~~~~g~V~e~~iD~~~G~V~~~~V~sGtLr~GD~vv~g~~----~gkVr~m~~~~~~~v~  475 (742)
T CHL00189        400 KLLETILLLAEIEDLKADPTQLAQGIILEAHLDKTKGPVATILVQNGTLHIGDIIVIGTS----YAKIRGMINSLGNKIN  475 (742)
T ss_pred             HHHHhhhhhhhhhcccCCCCCCceEEEEEEEEcCCCceEEEEEEEcCEEecCCEEEECCc----ceEEEEEEcCCCcCcc
Confidence            35555544221  12234557888889888888999999999999999999999998874    57899998554 7899


Q ss_pred             eecccCceehhccCCCcccccccccccccchhhhhhhhcccccccccchhhcccceEEeEeEEEeee-CCce---eEeec
Q psy9646          79 EAQAGDQLGALVKGMKRDEVNRGLIMAKPVLADKKLAKVKQYADIDNAPEEKARGITINVAHVEYAT-ENRH---YSHTD  154 (211)
Q Consensus        79 ~a~~G~~v~~~l~~~~~~~v~~G~ii~~~~~~~~~~~~f~~~i~~~~~~~e~~rg~tv~~~~~~~~~-~~~~---~~~iD  154 (211)
                      +|.||+.|.+  .++. .....|+.+..-.....++.-........  .....+..+.+-.+..... ....   ++=-|
T Consensus       476 ~a~pgdiV~I--~gl~-~~~~~Gd~l~v~~~e~~a~~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~iiKad  550 (742)
T CHL00189        476 LATPSSVVEI--WGLS-SVPATGEHFQVFNSEKEAKLKIIKNKENN--KKDTTKRITLSTTKTINKKDNKKQINLIIKTD  550 (742)
T ss_pred             EEcCCCceEe--cCcc-cCCCCCCEEEEeCCHHHHHHHHHHHHHHH--HHhhhcccchHHHHHHhhhcCCceeeEEEEeC
Confidence            9999999976  2221 23456777764322222111111000000  0000001110000000000 0111   23368


Q ss_pred             CCcccccHhHHhhhccccceEEEEEeccCCCCcchHHHHHHHHHcCCCeEEEEEe
Q psy9646         155 CPGHADYIKNMITGTSQMDGAILVVAATDGAMPQTREHLLLAKQIGVTNIVVFIN  209 (211)
Q Consensus       155 tPG~~~~~~~~~~~~~~~d~~~~vvd~~~~~~~~~~~~~~~~~~~~~~~~i~~in  209 (211)
                      +-|--+-+.+.+..+..-.+-+=++.+.-|.  -++.=..++...+ . +|+..|
T Consensus       551 ~~Gs~EAi~~~l~~~~~~~v~i~i~~~~vG~--it~~Dv~lA~~~~-a-~ii~Fn  601 (742)
T CHL00189        551 TQGSIEAIINSISQIPQKKVQLNILYASLGE--VTETDVEFASTTN-A-EILAFN  601 (742)
T ss_pred             CcchHHHHHHHHHhcCCCcEEEEEEEeecCC--CCHHHHHHHHhcC-C-EEEEee
Confidence            8887777777777776666777777775443  3333334444444 2 444444

>cd04101 RabL4 RabL4 (Rab-like4) subfamily

Probab=98.07  E-value=1.8e-05  Score=58.66  Aligned_cols=65  Identities=15%  Similarity=0.028  Sum_probs=46.6

Q ss_pred             CCceeEeecCCcccccHhHHhhhccccceEEEEEeccCCCCc-chHHHHHHHHHc--CCCeEEEEEeCC
Q psy9646         146 ENRHYSHTDCPGHADYIKNMITGTSQMDGAILVVAATDGAMP-QTREHLLLAKQI--GVTNIVVFINKF  211 (211)
Q Consensus       146 ~~~~~~~iDtPG~~~~~~~~~~~~~~~d~~~~vvd~~~~~~~-~~~~~~~~~~~~--~~~~~i~~inK~  211 (211)
                      ...++.+.||||++.+.......+..+|++++|+|......- .-+.+++.+...  +.| +++++||+
T Consensus        50 ~~~~l~i~Dt~G~~~~~~~~~~~~~~~d~ii~v~d~~~~~s~~~~~~~~~~~~~~~~~~p-~ilv~nK~  117 (164)
T cd04101          50 NTVELFIFDSAGQELYSDMVSNYWESPSVFILVYDVSNKASFENCSRWVNKVRTASKHMP-GVLVGNKM  117 (164)
T ss_pred             CEEEEEEEECCCHHHHHHHHHHHhCCCCEEEEEEECcCHHHHHHHHHHHHHHHHhCCCCC-EEEEEECc
Confidence            346788999999988877777888999999999998654321 123344444333  466 78899995

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.

>cd04150 Arf1_5_like Arf1-Arf5-like subfamily

Probab=98.07  E-value=1.1e-05  Score=59.90  Aligned_cols=68  Identities=22%  Similarity=0.264  Sum_probs=47.0

Q ss_pred             eeeCCceeEeecCCcccccHhHHhhhccccceEEEEEeccCCC-CcchHHHH-HHHHH---cCCCeEEEEEeCC
Q psy9646         143 YATENRHYSHTDCPGHADYIKNMITGTSQMDGAILVVAATDGA-MPQTREHL-LLAKQ---IGVTNIVVFINKF  211 (211)
Q Consensus       143 ~~~~~~~~~~iDtPG~~~~~~~~~~~~~~~d~~~~vvd~~~~~-~~~~~~~~-~~~~~---~~~~~~i~~inK~  211 (211)
                      ++....++.+.||||+..|.......+..+|++++|+|+...- ..+..+.+ +++..   .+.| ++++.||+
T Consensus        39 ~~~~~~~~~l~D~~G~~~~~~~~~~~~~~ad~~i~v~D~~~~~s~~~~~~~~~~~~~~~~~~~~p-iilv~NK~  111 (159)
T cd04150          39 VEYKNISFTVWDVGGQDKIRPLWRHYFQNTQGLIFVVDSNDRERIGEAREELQRMLNEDELRDAV-LLVFANKQ  111 (159)
T ss_pred             EEECCEEEEEEECCCCHhHHHHHHHHhcCCCEEEEEEeCCCHHHHHHHHHHHHHHHhcHHhcCCC-EEEEEECC
Confidence            4446778999999999988776666789999999999986532 12222222 22221   2355 88999996

This subfamily contains Arf1, Arf2, Arf3, Arf4, Arf5, and related proteins. Arfs1-5 are soluble proteins that are crucial for assembling coat proteins during vesicle formation. Each contains an N-terminal myristoylated amphipathic helix that is folded into the protein in the GDP-bound state. GDP/GTP exchange exposes the helix, which anchors to the membrane. Following GTP hydrolysis, the helix dissociates from the membrane and folds back into the protein. A general feature of Arf1-5 signaling may be the cooperation of two Arfs at the same site. Arfs1-5 are generally considered to be interchangeable in function and location, but some specific functions have been assigned. Arf1 localizes to the early/cis-Golgi, where it is activated by GBF1 and recruits the coat protein COPI. It also localizes to the trans-Golgi network (TGN), where it is activated by BIG1/BIG2 and recruits the AP1, AP3, AP4, and GGA proteins. Humans, but not rodents

>cd01876 YihA_EngB The YihA (EngB) subfamily

Probab=98.05  E-value=2.6e-05  Score=57.54  Aligned_cols=62  Identities=19%  Similarity=0.405  Sum_probs=47.1

Q ss_pred             eeEeecCCccccc-------------HhHHhhhccccceEEEEEeccCCCCcchHHHHHHHHHcCCCeEEEEEeCC
Q psy9646         149 HYSHTDCPGHADY-------------IKNMITGTSQMDGAILVVAATDGAMPQTREHLLLAKQIGVTNIVVFINKF  211 (211)
Q Consensus       149 ~~~~iDtPG~~~~-------------~~~~~~~~~~~d~~~~vvd~~~~~~~~~~~~~~~~~~~~~~~~i~~inK~  211 (211)
                      ++.++||||+...             ..........++++++++|..........++.+.+...+.| +++++||+
T Consensus        46 ~~~~~D~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~d~~~~~~~~~~~~~~~l~~~~~~-vi~v~nK~  120 (170)
T cd01876          46 KFRLVDLPGYGYAKVSKEVKEKWGKLIEEYLENRENLKGVVLLIDSRHGPTEIDLEMLDWLEELGIP-FLVVLTKA  120 (170)
T ss_pred             eEEEecCCCccccccCHHHHHHHHHHHHHHHHhChhhhEEEEEEEcCcCCCHhHHHHHHHHHHcCCC-EEEEEEch
Confidence            8999999996542             12223444567889999999887777777788888888888 77899995

This subfamily of GTPases is typified by the E. coli YihA, an essential protein involved in cell division control. YihA and its orthologs are small proteins that typically contain less than 200 amino acid residues and consists of the GTPase domain only (some of the eukaryotic homologs contain an N-terminal extension of about 120 residues that might be involved in organellar targeting). Homologs of yihA are found in most Gram-positive and Gram-negative pathogenic bacteria, with the exception of Mycobacterium tuberculosis. The broad-spectrum nature of YihA and its essentiality for cell viability in bacteria make it an attractive antibacterial target.

>PRK14845 translation initiation factor IF-2; Provisional

Probab=98.05  E-value=3e-05  Score=72.94  Aligned_cols=90  Identities=17%  Similarity=0.152  Sum_probs=68.6

Q ss_pred             CCCCCCCeeEEEeeEEeecCCcEEEEEEEEEEEEecCCEEEEeecCceeeEEEEEEEecc------------eecceecc
Q psy9646          15 VRDLDKPFYLPVEHTYSIPGRGTVVTGRLERGIVKKGMECEFTGYGRQFKTTVTGIEMFH------------KILDEAQA   82 (211)
Q Consensus        15 ~~~~~~p~~~~v~~~~~~~~~G~v~~G~v~~G~i~~g~~v~i~p~~~~~~~~v~~i~~~~------------~~~~~a~~   82 (211)
                      ....++|++++|.+++..+|.|++++|.|.+|.+++||.+.+.|.+....++|+++...+            +.+.++.|
T Consensus       681 ~~~~~~~~~g~VlEv~~~kG~G~vvt~iv~~G~Lk~GD~iv~g~~~~~i~~kVRaLl~p~pl~e~r~~~~~~~~~~~~~~  760 (1049)
T PRK14845        681 KLNVEGYAKGTILEVKEEKGLGTTIDAIIYDGTLRRGDTIVVGGPDDVIVTKVRALLKPKPLDEIRDPRDKFDPVDEVTA  760 (1049)
T ss_pred             ccCCCCceEEEEEEEEEecCceeEEEEEEEcCEEecCCEEEEccCCCcceEEEEEecCcccccccccccccccccccccC
Confidence            344678999999999999999999999999999999999999998655678999997421            35667777


Q ss_pred             cCceehhccCCCcccccccccccc
Q psy9646          83 GDQLGALVKGMKRDEVNRGLIMAK  106 (211)
Q Consensus        83 G~~v~~~l~~~~~~~v~~G~ii~~  106 (211)
                      +.-|.+...++  +.+..|+.+..
T Consensus       761 a~~vki~a~gl--~~~~aG~~~~v  782 (1049)
T PRK14845        761 AAGVKIAAPGL--EEVLAGSPIRI  782 (1049)
T ss_pred             CCceEEecCCc--cccCCCCeEEE
Confidence            76666543333  34466766543

>cd04156 ARLTS1 ARLTS1 subfamily

Probab=98.04  E-value=1.2e-05  Score=59.37  Aligned_cols=64  Identities=22%  Similarity=0.244  Sum_probs=45.8

Q ss_pred             CceeEeecCCcccccHhHHhhhccccceEEEEEeccCCCC-cchHH-HHHHHHH---cCCCeEEEEEeCC
Q psy9646         147 NRHYSHTDCPGHADYIKNMITGTSQMDGAILVVAATDGAM-PQTRE-HLLLAKQ---IGVTNIVVFINKF  211 (211)
Q Consensus       147 ~~~~~~iDtPG~~~~~~~~~~~~~~~d~~~~vvd~~~~~~-~~~~~-~~~~~~~---~~~~~~i~~inK~  211 (211)
                      ...+.+.||||+..+.......+..+|++++|+|+.+... ..... +.+.++.   .+.| +++++||+
T Consensus        43 ~~~l~i~D~~G~~~~~~~~~~~~~~~~~iv~v~D~~~~~~~~~~~~~~~~~~~~~~~~~~p-iilv~nK~  111 (160)
T cd04156          43 HLSLTVWDVGGQEKMRTVWKCYLENTDGLVYVVDSSDEARLDESQKELKHILKNEHIKGVP-VVLLANKQ  111 (160)
T ss_pred             ceEEEEEECCCCHhHHHHHHHHhccCCEEEEEEECCcHHHHHHHHHHHHHHHhchhhcCCC-EEEEEECc
Confidence            4678999999999887777777889999999999976541 11122 2222221   4667 88999995

ARLTS1 (Arf-like tumor suppressor gene 1), also known as Arl11, is a member of the Arf family of small GTPases that is believed to play a major role in apoptotic signaling. ARLTS1 is widely expressed and functions as a tumor suppressor gene in several human cancers. ARLTS1 is a low-penetrance suppressor that accounts for a small percentage of familial melanoma or familial chronic lymphocytic leukemia (CLL). ARLTS1 inactivation seems to occur most frequently through biallelic down-regulation by hypermethylation of the promoter. In breast cancer, ARLTS1 alterations were typically a combination of a hypomorphic polymorphism plus loss of heterozygosity. In a case of thyroid adenoma, ARLTS1 alterations were polymorphism plus promoter hypermethylation. The nonsense polymorphism Trp149Stop occurs with significantly greater frequency in familial cancer cases than in sporadic cancer cases, and the Cys148Arg polymorphism is associated with an increase in h

>smart00176 RAN Ran (Ras-related nuclear proteins) /TC4 subfamily of small GTPases

Probab=98.04  E-value=3e-05  Score=60.10  Aligned_cols=64  Identities=16%  Similarity=0.015  Sum_probs=47.8

Q ss_pred             CceeEeecCCcccccHhHHhhhccccceEEEEEeccCCCCcc-hHHHHHHHHH--cCCCeEEEEEeCC
Q psy9646         147 NRHYSHTDCPGHADYIKNMITGTSQMDGAILVVAATDGAMPQ-TREHLLLAKQ--IGVTNIVVFINKF  211 (211)
Q Consensus       147 ~~~~~~iDtPG~~~~~~~~~~~~~~~d~~~~vvd~~~~~~~~-~~~~~~~~~~--~~~~~~i~~inK~  211 (211)
                      ...+.+.||||+++|.......+..+|++++|.|......-+ .+.++..+.+  .++| +++|.||+
T Consensus        43 ~~~l~iwDt~G~e~~~~l~~~~~~~ad~~ilV~D~t~~~S~~~i~~w~~~i~~~~~~~p-iilvgNK~  109 (200)
T smart00176       43 PIRFNVWDTAGQEKFGGLRDGYYIQGQCAIIMFDVTARVTYKNVPNWHRDLVRVCENIP-IVLCGNKV  109 (200)
T ss_pred             EEEEEEEECCCchhhhhhhHHHhcCCCEEEEEEECCChHHHHHHHHHHHHHHHhCCCCC-EEEEEECc
Confidence            457889999999999877777889999999999998765322 2234443443  3577 88999996

Ran is involved in the active transport of proteins through nuclear pores.

>cd04120 Rab12 Rab12 subfamily

Probab=98.04  E-value=3.3e-05  Score=59.96  Aligned_cols=69  Identities=13%  Similarity=0.096  Sum_probs=48.4

Q ss_pred             EeeeCC--ceeEeecCCcccccHhHHhhhccccceEEEEEeccCCCCcc-hHHHHHHHHH---cCCCeEEEEEeCC
Q psy9646         142 EYATEN--RHYSHTDCPGHADYIKNMITGTSQMDGAILVVAATDGAMPQ-TREHLLLAKQ---IGVTNIVVFINKF  211 (211)
Q Consensus       142 ~~~~~~--~~~~~iDtPG~~~~~~~~~~~~~~~d~~~~vvd~~~~~~~~-~~~~~~~~~~---~~~~~~i~~inK~  211 (211)
                      .+..++  ..+.+.||+|++.|......-++.+|++++|.|..+...-+ ...++..+..   .++| ++++.||+
T Consensus        41 ~i~~~~~~v~l~iwDtaGqe~~~~l~~~y~~~ad~iIlVfDvtd~~Sf~~l~~w~~~i~~~~~~~~p-iilVgNK~  115 (202)
T cd04120          41 TVELRGKKIRLQIWDTAGQERFNSITSAYYRSAKGIILVYDITKKETFDDLPKWMKMIDKYASEDAE-LLLVGNKL  115 (202)
T ss_pred             EEEECCEEEEEEEEeCCCchhhHHHHHHHhcCCCEEEEEEECcCHHHHHHHHHHHHHHHHhCCCCCc-EEEEEECc
Confidence            344444  56789999999998877777788999999999987654322 2233344433   2466 88999995

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

>smart00177 ARF ARF-like small GTPases; ARF, ADP-ribosylation factor

Probab=98.04  E-value=2.2e-05  Score=59.29  Aligned_cols=69  Identities=23%  Similarity=0.240  Sum_probs=47.5

Q ss_pred             EeeeCCceeEeecCCcccccHhHHhhhccccceEEEEEeccCCC-CcchHHHHHHHHH----cCCCeEEEEEeCC
Q psy9646         142 EYATENRHYSHTDCPGHADYIKNMITGTSQMDGAILVVAATDGA-MPQTREHLLLAKQ----IGVTNIVVFINKF  211 (211)
Q Consensus       142 ~~~~~~~~~~~iDtPG~~~~~~~~~~~~~~~d~~~~vvd~~~~~-~~~~~~~~~~~~~----~~~~~~i~~inK~  211 (211)
                      .+...+..+.+.||||+..+......-+..+|++++|+|+.+.. .....+.+..+..    .+.| ++++.||+
T Consensus        51 ~~~~~~~~l~l~D~~G~~~~~~~~~~~~~~ad~ii~v~D~t~~~s~~~~~~~l~~~~~~~~~~~~p-iilv~NK~  124 (175)
T smart00177       51 TVTYKNISFTVWDVGGQDKIRPLWRHYYTNTQGLIFVVDSNDRDRIDEAREELHRMLNEDELRDAV-ILVFANKQ  124 (175)
T ss_pred             EEEECCEEEEEEECCCChhhHHHHHHHhCCCCEEEEEEECCCHHHHHHHHHHHHHHhhCHhhcCCc-EEEEEeCc
Confidence            34456778999999999988765555578999999999986542 1222333333321    2456 88999995

Ras homologues involved in vesicular transport. Activator of phospholipase D isoforms. Unlike Ras proteins they lack cysteine residues at their C-termini and therefore are unlikely to be prenylated. ARFs are N-terminally myristoylated. Contains ATP/GTP-binding motif (P-loop).

>cd00882 Ras_like_GTPase Ras-like GTPase superfamily

Probab=98.03  E-value=1e-05  Score=58.09  Aligned_cols=64  Identities=20%  Similarity=0.173  Sum_probs=48.7

Q ss_pred             CceeEeecCCcccccHhHHhhhccccceEEEEEeccCCCCcchHHH-----HHHHHHcCCCeEEEEEeCC
Q psy9646         147 NRHYSHTDCPGHADYIKNMITGTSQMDGAILVVAATDGAMPQTREH-----LLLAKQIGVTNIVVFINKF  211 (211)
Q Consensus       147 ~~~~~~iDtPG~~~~~~~~~~~~~~~d~~~~vvd~~~~~~~~~~~~-----~~~~~~~~~~~~i~~inK~  211 (211)
                      ...+.++|+||+..+.......+..+|++++|+|+..+........     .......+.| +++++||+
T Consensus        44 ~~~~~l~D~~g~~~~~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~-~ivv~nk~  112 (157)
T cd00882          44 KVKLQIWDTAGQERFRSLRRLYYRGADGIILVYDVTDRESFENVKEWLLLILINKEGENIP-IILVGNKI  112 (157)
T ss_pred             EEEEEEEecCChHHHHhHHHHHhcCCCEEEEEEECcCHHHHHHHHHHHHHHHHhhccCCCc-EEEEEecc
Confidence            5679999999999888877888899999999999987654443332     2233445666 88999995

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

>PTZ00099 rab6; Provisional

Probab=98.03  E-value=1.7e-05  Score=60.23  Aligned_cols=65  Identities=17%  Similarity=0.104  Sum_probs=45.9

Q ss_pred             CCceeEeecCCcccccHhHHhhhccccceEEEEEeccCCCC-cchHHHHHHH-HHc--CCCeEEEEEeCC
Q psy9646         146 ENRHYSHTDCPGHADYIKNMITGTSQMDGAILVVAATDGAM-PQTREHLLLA-KQI--GVTNIVVFINKF  211 (211)
Q Consensus       146 ~~~~~~~iDtPG~~~~~~~~~~~~~~~d~~~~vvd~~~~~~-~~~~~~~~~~-~~~--~~~~~i~~inK~  211 (211)
                      ...++.|.||||++.|.......+..+|++++|+|...... .....++..+ ...  ++| +|++.||+
T Consensus        27 ~~v~l~iwDt~G~e~~~~~~~~~~~~ad~~ilv~D~t~~~sf~~~~~w~~~i~~~~~~~~p-iilVgNK~   95 (176)
T PTZ00099         27 GPVRLQLWDTAGQERFRSLIPSYIRDSAAAIVVYDITNRQSFENTTKWIQDILNERGKDVI-IALVGNKT   95 (176)
T ss_pred             EEEEEEEEECCChHHhhhccHHHhCCCcEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCe-EEEEEECc
Confidence            34678899999999988777777899999999999876432 2222333333 322  345 78899995

>TIGR02528 EutP ethanolamine utilization protein, EutP

Probab=98.02  E-value=7.7e-06  Score=59.34  Aligned_cols=57  Identities=19%  Similarity=0.227  Sum_probs=42.1

Q ss_pred             EeecCCccc----ccHhHHhhhccccceEEEEEeccCCCCcchHHHHHHHHHcCCCeEEEEEeCC
Q psy9646         151 SHTDCPGHA----DYIKNMITGTSQMDGAILVVAATDGAMPQTREHLLLAKQIGVTNIVVFINKF  211 (211)
Q Consensus       151 ~~iDtPG~~----~~~~~~~~~~~~~d~~~~vvd~~~~~~~~~~~~~~~~~~~~~~~~i~~inK~  211 (211)
                      .++||||..    .+.+.+...+..+|++++|+|+.++...++..+.+.   .+.| +|+++||+
T Consensus        38 ~~iDt~G~~~~~~~~~~~~~~~~~~ad~vilv~d~~~~~s~~~~~~~~~---~~~p-~ilv~NK~   98 (142)
T TIGR02528        38 GAIDTPGEYVENRRLYSALIVTAADADVIALVQSATDPESRFPPGFASI---FVKP-VIGLVTKI   98 (142)
T ss_pred             eeecCchhhhhhHHHHHHHHHHhhcCCEEEEEecCCCCCcCCChhHHHh---ccCC-eEEEEEee
Confidence            689999973    445555567889999999999988876665544433   2346 77899996

This protein is found within operons which code for polyhedral organelles containing the enzyme ethanolamine ammonia lyase. The function of this gene is unknown, although the presence of an N-terminal GxxGxGK motif implies a GTP-binding site.

>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=98.01  E-value=1.9e-05  Score=59.00  Aligned_cols=65  Identities=20%  Similarity=0.152  Sum_probs=47.9

Q ss_pred             CceeEeecCCcccccH----hHHhhhccccceEEEEEeccCCCCcchHHHHHHHHHcCCCeEEEEEeCC
Q psy9646         147 NRHYSHTDCPGHADYI----KNMITGTSQMDGAILVVAATDGAMPQTREHLLLAKQIGVTNIVVFINKF  211 (211)
Q Consensus       147 ~~~~~~iDtPG~~~~~----~~~~~~~~~~d~~~~vvd~~~~~~~~~~~~~~~~~~~~~~~~i~~inK~  211 (211)
                      ...+.|+||||.....    ..+..-+..+|++++|+++.......+.+.+........+.+|+|+||+
T Consensus       100 ~~~~~lvDtPG~~~~~~~~~~~~~~~~~~~d~vi~V~~~~~~~~~~~~~~l~~~~~~~~~~~i~V~nk~  168 (168)
T PF00350_consen  100 LRNLTLVDTPGLNSTNSEHTEITEEYLPKADVVIFVVDANQDLTESDMEFLKQMLDPDKSRTIFVLNKA  168 (168)
T ss_dssp             SCSEEEEEEEEBHSSHTTTSHHHHHHHSTTEEEEEEEETTSTGGGHHHHHHHHHHTTTCSSEEEEEE-G
T ss_pred             ccceEEEeCCccccchhhhHHHHHHhhccCCEEEEEeccCcccchHHHHHHHHHhcCCCCeEEEEEcCC
Confidence            4569999999975422    3456666899999999999988876666666656555556688899995

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 ....

>cd01865 Rab3 Rab3 subfamily

Probab=98.01  E-value=3.6e-05  Score=57.32  Aligned_cols=63  Identities=16%  Similarity=0.108  Sum_probs=45.3

Q ss_pred             ceeEeecCCcccccHhHHhhhccccceEEEEEeccCCCC-cchHHHHHHHHHc---CCCeEEEEEeCC
Q psy9646         148 RHYSHTDCPGHADYIKNMITGTSQMDGAILVVAATDGAM-PQTREHLLLAKQI---GVTNIVVFINKF  211 (211)
Q Consensus       148 ~~~~~iDtPG~~~~~~~~~~~~~~~d~~~~vvd~~~~~~-~~~~~~~~~~~~~---~~~~~i~~inK~  211 (211)
                      ..+.+.||||+.+|.......+..+|++++|+|...... .....+++.+...   ..| ++++.||+
T Consensus        50 ~~~~l~Dt~g~~~~~~~~~~~~~~~~~~l~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p-iivv~nK~  116 (165)
T cd01865          50 VKLQIWDTAGQERYRTITTAYYRGAMGFILMYDITNEESFNAVQDWSTQIKTYSWDNAQ-VILVGNKC  116 (165)
T ss_pred             EEEEEEECCChHHHHHHHHHHccCCcEEEEEEECCCHHHHHHHHHHHHHHHHhCCCCCC-EEEEEECc
Confidence            568899999999988777778899999999999865422 1223334444332   345 88999996

The Rab3 subfamily contains Rab3A, Rab3B, Rab3C, and Rab3D. All four isoforms were found in mouse brain and endocrine tissues, with varying levels of expression. Rab3A, Rab3B, and Rab3C localized to synaptic and secretory vesicles; Rab3D was expressed at high levels only in adipose tissue, exocrine glands, and the endocrine pituitary, where it is localized to cytoplasmic secretory granules. Rab3 appears to control Ca2+-regulated exocytosis. The appropriate GDP/GTP exchange cycle of Rab3A is required for Ca2+-regulated exocytosis to occur, and interaction of the GTP-bound form of Rab3A with effector molecule(s) is widely believed to be essential for this process. Functionally, most studies point toward a role for Rab3 in the secretion of hormones and neurotransmitters. 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 promot

>cd04107 Rab32_Rab38 Rab38/Rab32 subfamily

Probab=98.01  E-value=3.2e-05  Score=59.77  Aligned_cols=64  Identities=14%  Similarity=0.015  Sum_probs=44.3

Q ss_pred             CceeEeecCCcccccHhHHhhhccccceEEEEEeccCCCCcc-hHHHHHHHH-------HcCCCeEEEEEeCC
Q psy9646         147 NRHYSHTDCPGHADYIKNMITGTSQMDGAILVVAATDGAMPQ-TREHLLLAK-------QIGVTNIVVFINKF  211 (211)
Q Consensus       147 ~~~~~~iDtPG~~~~~~~~~~~~~~~d~~~~vvd~~~~~~~~-~~~~~~~~~-------~~~~~~~i~~inK~  211 (211)
                      ...+.+.||||++.|......-+..+|++++|+|......-+ ...+...+.       ..++| ++++.||+
T Consensus        49 ~~~l~l~Dt~G~~~~~~~~~~~~~~a~~~ilv~D~t~~~s~~~~~~~~~~i~~~~~~~~~~~~p-iilv~NK~  120 (201)
T cd04107          49 VVRLQLWDIAGQERFGGMTRVYYRGAVGAIIVFDVTRPSTFEAVLKWKADLDSKVTLPNGEPIP-CLLLANKC  120 (201)
T ss_pred             EEEEEEEECCCchhhhhhHHHHhCCCCEEEEEEECCCHHHHHHHHHHHHHHHHhhcccCCCCCc-EEEEEECC
Confidence            456789999999988776677788999999999986543211 112222222       13567 88999995

Rab32 and Rab38 are members of the Rab family of small GTPases. Human Rab32 was first identified in platelets but it is expressed in a variety of cell types, where it functions as an A-kinase anchoring protein (AKAP). Rab38 has been shown to be melanocyte-specific. 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.

>cd04110 Rab35 Rab35 subfamily

Probab=98.01  E-value=3e-05  Score=59.86  Aligned_cols=63  Identities=22%  Similarity=0.134  Sum_probs=44.5

Q ss_pred             ceeEeecCCcccccHhHHhhhccccceEEEEEeccCCCCcc-hHHHHHHHHHc--CCCeEEEEEeCC
Q psy9646         148 RHYSHTDCPGHADYIKNMITGTSQMDGAILVVAATDGAMPQ-TREHLLLAKQI--GVTNIVVFINKF  211 (211)
Q Consensus       148 ~~~~~iDtPG~~~~~~~~~~~~~~~d~~~~vvd~~~~~~~~-~~~~~~~~~~~--~~~~~i~~inK~  211 (211)
                      ..+.+.||||++.|......-+..+|++++|+|+.+...-+ ...++..+...  ..| ++++.||+
T Consensus        55 ~~l~l~D~~G~~~~~~~~~~~~~~a~~iilv~D~~~~~s~~~~~~~~~~i~~~~~~~p-iivVgNK~  120 (199)
T cd04110          55 VKLQIWDTAGQERFRTITSTYYRGTHGVIVVYDVTNGESFVNVKRWLQEIEQNCDDVC-KVLVGNKN  120 (199)
T ss_pred             EEEEEEeCCCchhHHHHHHHHhCCCcEEEEEEECCCHHHHHHHHHHHHHHHHhCCCCC-EEEEEECc
Confidence            45789999999988777777788899999999987643211 22333433332  355 77899995

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

>cd04123 Rab21 Rab21 subfamily

Probab=98.00  E-value=2.9e-05  Score=57.17  Aligned_cols=63  Identities=27%  Similarity=0.233  Sum_probs=43.6

Q ss_pred             ceeEeecCCcccccHhHHhhhccccceEEEEEeccCCCCcch-HHHHHHHHH---cCCCeEEEEEeCC
Q psy9646         148 RHYSHTDCPGHADYIKNMITGTSQMDGAILVVAATDGAMPQT-REHLLLAKQ---IGVTNIVVFINKF  211 (211)
Q Consensus       148 ~~~~~iDtPG~~~~~~~~~~~~~~~d~~~~vvd~~~~~~~~~-~~~~~~~~~---~~~~~~i~~inK~  211 (211)
                      ..+.+.||||+..+.......+..+|++++|+|..++..-+. +.+++.+..   .++| +++++||+
T Consensus        49 ~~~~~~D~~g~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p-iiiv~nK~  115 (162)
T cd04123          49 IDLAIWDTAGQERYHALGPIYYRDADGAILVYDITDADSFQKVKKWIKELKQMRGNNIS-LVIVGNKI  115 (162)
T ss_pred             EEEEEEECCchHHHHHhhHHHhccCCEEEEEEECCCHHHHHHHHHHHHHHHHhCCCCCe-EEEEEECc
Confidence            468899999998877666666789999999999876543222 223233322   2466 78899995

The localization and function of Rab21 are not clearly defined, with conflicting data reported. Rab21 has been reported to localize in the ER in human intestinal epithelial cells, with partial colocalization with alpha-glucosidase, a late endosomal/lysosomal marker. More recently, Rab21 was shown to colocalize with and affect the morphology of early endosomes. In Dictyostelium, GTP-bound Rab21, together with two novel LIM domain proteins, LimF and ChLim, has been shown to regulate phagocytosis. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site

>cd04140 ARHI_like ARHI subfamily

Probab=98.00  E-value=2.5e-05  Score=58.26  Aligned_cols=65  Identities=18%  Similarity=0.097  Sum_probs=47.5

Q ss_pred             CCceeEeecCCcccccHhHHhhhccccceEEEEEeccCCCCc-chHHHHHHHHH------cCCCeEEEEEeCC
Q psy9646         146 ENRHYSHTDCPGHADYIKNMITGTSQMDGAILVVAATDGAMP-QTREHLLLAKQ------IGVTNIVVFINKF  211 (211)
Q Consensus       146 ~~~~~~~iDtPG~~~~~~~~~~~~~~~d~~~~vvd~~~~~~~-~~~~~~~~~~~------~~~~~~i~~inK~  211 (211)
                      ....+.+.||||+++|.......+..+|++++|.|......- ..+.+++.++.      .++| ++++.||+
T Consensus        47 ~~~~l~i~Dt~G~~~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~~~~~~~i~~~~~~~~~~~p-iilv~nK~  118 (165)
T cd04140          47 NICTLQITDTTGSHQFPAMQRLSISKGHAFILVYSVTSKQSLEELKPIYELICEIKGNNIEKIP-IMLVGNKC  118 (165)
T ss_pred             EEEEEEEEECCCCCcchHHHHHHhhcCCEEEEEEECCCHHHHHHHHHHHHHHHHHhcCCCCCCC-EEEEEECc
Confidence            345688999999999887777778899999999998765432 23344444443      3567 78999995

ARHI (A Ras homolog member I) is a member of the Ras family with several unique structural and functional properties. ARHI is expressed in normal human ovarian and breast tissue, but its expression is decreased or eliminated in breast and ovarian cancer. ARHI contains an N-terminal extension of 34 residues (human) that is required to retain its tumor suppressive activity. Unlike most other Ras family members, ARHI is maintained in the constitutively active (GTP-bound) state in resting cells and has modest GTPase activity. ARHI inhibits STAT3 (signal transducers and activators of transcription 3), a latent transcription factor whose abnormal activation plays a critical role in oncogenesis. 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. Due to

>cd00879 Sar1 Sar1 subfamily

Probab=97.99  E-value=1.3e-05  Score=61.21  Aligned_cols=70  Identities=21%  Similarity=0.251  Sum_probs=48.0

Q ss_pred             EEeeeCCceeEeecCCcccccHhHHhhhccccceEEEEEeccCCCC-cchHHHHHHHH----HcCCCeEEEEEeCC
Q psy9646         141 VEYATENRHYSHTDCPGHADYIKNMITGTSQMDGAILVVAATDGAM-PQTREHLLLAK----QIGVTNIVVFINKF  211 (211)
Q Consensus       141 ~~~~~~~~~~~~iDtPG~~~~~~~~~~~~~~~d~~~~vvd~~~~~~-~~~~~~~~~~~----~~~~~~~i~~inK~  211 (211)
                      ..+...+..+.+.||||+..+.......+..+|++++|+|+.+... ......+..+.    ..+.| ++++.||+
T Consensus        56 ~~i~~~~~~~~l~D~~G~~~~~~~~~~~~~~ad~iilV~D~~~~~s~~~~~~~~~~i~~~~~~~~~p-vivv~NK~  130 (190)
T cd00879          56 EELTIGNIKFKTFDLGGHEQARRLWKDYFPEVDGIVFLVDAADPERFQESKEELDSLLSDEELANVP-FLILGNKI  130 (190)
T ss_pred             EEEEECCEEEEEEECCCCHHHHHHHHHHhccCCEEEEEEECCcHHHHHHHHHHHHHHHcCccccCCC-EEEEEeCC
Confidence            4455566788899999998887666677789999999999875421 11222222222    24567 78899995

Sar1 is an essential component of COPII vesicle coats involved in export of cargo from the ER. The GTPase activity of Sar1 functions as a molecular switch to control protein-protein and protein-lipid interactions that direct vesicle budding from the ER. Activation of the GDP to the GTP-bound form of Sar1 involves the membrane-associated guanine nucleotide exchange factor (GEF) Sec12. Sar1 is unlike all Ras superfamily GTPases that use either myristoyl or prenyl groups to direct membrane association and function, in that Sar1 lacks such modification. Instead, Sar1 contains a unique nine-amino-acid N-terminal extension. This extension contains an evolutionarily conserved cluster of bulky hydrophobic amino acids, referred to as the Sar1-N-terminal activation recruitment (STAR) motif. The STAR motif mediates the recruitment of Sar1 to ER membranes and facilitates its interaction with mammalian Sec12 GEF leading to activation.

>cd00877 Ran Ran (Ras-related nuclear proteins) /TC4 subfamily of small GTPases

Probab=97.99  E-value=2.8e-05  Score=58.15  Aligned_cols=64  Identities=14%  Similarity=0.041  Sum_probs=44.2

Q ss_pred             CceeEeecCCcccccHhHHhhhccccceEEEEEeccCCCCcch-HHHHHHHHHc--CCCeEEEEEeCC
Q psy9646         147 NRHYSHTDCPGHADYIKNMITGTSQMDGAILVVAATDGAMPQT-REHLLLAKQI--GVTNIVVFINKF  211 (211)
Q Consensus       147 ~~~~~~iDtPG~~~~~~~~~~~~~~~d~~~~vvd~~~~~~~~~-~~~~~~~~~~--~~~~~i~~inK~  211 (211)
                      ...+.+.||||++++......-+..+|++++|+|......-+. +.++..+.+.  ++| ++++.||+
T Consensus        48 ~~~l~i~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~p-iiiv~nK~  114 (166)
T cd00877          48 KIRFNVWDTAGQEKFGGLRDGYYIGGQCAIIMFDVTSRVTYKNVPNWHRDLVRVCGNIP-IVLCGNKV  114 (166)
T ss_pred             EEEEEEEECCCChhhccccHHHhcCCCEEEEEEECCCHHHHHHHHHHHHHHHHhCCCCc-EEEEEEch
Confidence            3567889999998876555556678999999999876543222 2233333332  577 88999995

Ran GTPase is involved in diverse biological functions, such as nuclear transport, spindle formation during mitosis, DNA replication, and cell division. Among the Ras superfamily, Ran is a unique small G protein. It does not have a lipid modification motif at the C-terminus to bind to the membrane, which is often observed within the Ras superfamily. Ran may therefore interact with a wide range of proteins in various intracellular locations. Like other GTPases, Ran exists in GTP- and GDP-bound conformations that interact differently with effectors. Conversion between these forms and the assembly or disassembly of effector complexes requires the interaction of regulator proteins. The intrinsic GTPase activity of Ran is very low, but it is greatly stimulated by a GTPase-activating protein (RanGAP1) located in the cytoplasm. By contrast, RCC1, a guanine nucleotide exchange factor that generates RanGTP, is

>PTZ00133 ADP-ribosylation factor; Provisional

Probab=97.99  E-value=1.6e-05  Score=60.49  Aligned_cols=69  Identities=20%  Similarity=0.228  Sum_probs=47.5

Q ss_pred             EeeeCCceeEeecCCcccccHhHHhhhccccceEEEEEeccCCC-CcchHH-HHHHHHH---cCCCeEEEEEeCC
Q psy9646         142 EYATENRHYSHTDCPGHADYIKNMITGTSQMDGAILVVAATDGA-MPQTRE-HLLLAKQ---IGVTNIVVFINKF  211 (211)
Q Consensus       142 ~~~~~~~~~~~iDtPG~~~~~~~~~~~~~~~d~~~~vvd~~~~~-~~~~~~-~~~~~~~---~~~~~~i~~inK~  211 (211)
                      .+...+..+.+.||||++.+......-+..+|++++|+|+.+.- ...... +.+.+..   ...| ++++.||.
T Consensus        55 ~~~~~~~~~~l~D~~G~~~~~~~~~~~~~~ad~iI~v~D~t~~~s~~~~~~~l~~~~~~~~~~~~p-iilv~NK~  128 (182)
T PTZ00133         55 TVEYKNLKFTMWDVGGQDKLRPLWRHYYQNTNGLIFVVDSNDRERIGDAREELERMLSEDELRDAV-LLVFANKQ  128 (182)
T ss_pred             EEEECCEEEEEEECCCCHhHHHHHHHHhcCCCEEEEEEeCCCHHHHHHHHHHHHHHHhCHhhcCCC-EEEEEeCC
Confidence            34556788999999999988776677789999999999986432 111222 3223222   2355 88999995

>cd04141 Rit_Rin_Ric Rit/Rin/Ric subfamily

Probab=97.99  E-value=1.7e-05  Score=59.74  Aligned_cols=63  Identities=21%  Similarity=0.158  Sum_probs=45.7

Q ss_pred             ceeEeecCCcccccHhHHhhhccccceEEEEEeccCCCCcch-HHHHHHHHH----cCCCeEEEEEeCC
Q psy9646         148 RHYSHTDCPGHADYIKNMITGTSQMDGAILVVAATDGAMPQT-REHLLLAKQ----IGVTNIVVFINKF  211 (211)
Q Consensus       148 ~~~~~iDtPG~~~~~~~~~~~~~~~d~~~~vvd~~~~~~~~~-~~~~~~~~~----~~~~~~i~~inK~  211 (211)
                      ..+.+.||||..+|.......+..+|++++|.|..+...-+. ..+.+.+..    .++| ++++.||+
T Consensus        50 ~~l~i~Dt~G~~~~~~l~~~~~~~~d~~ilv~d~~~~~Sf~~~~~~~~~i~~~~~~~~~p-iilvgNK~  117 (172)
T cd04141          50 ALLDILDTAGQAEFTAMRDQYMRCGEGFIICYSVTDRHSFQEASEFKKLITRVRLTEDIP-LVLVGNKV  117 (172)
T ss_pred             EEEEEEeCCCchhhHHHhHHHhhcCCEEEEEEECCchhHHHHHHHHHHHHHHhcCCCCCC-EEEEEECh
Confidence            467889999999887777777889999999999876654332 223233322    3567 88999995

Rit (Ras-like protein in all tissues), Rin (Ras-like protein in neurons) and Ric (Ras-related protein which interacts with calmodulin) form a subfamily with several unique structural and functional characteristics. These proteins all lack a the C-terminal CaaX lipid-binding motif typical of Ras family proteins, and Rin and Ric contain calmodulin-binding domains. Rin, which is expressed only in neurons, induces neurite outgrowth in rat pheochromocytoma cells through its association with calmodulin and its activation of endogenous Rac/cdc42. Rit, which is ubiquitously expressed in mammals, inhibits growth-factor withdrawl-mediated apoptosis and induces neurite extension in pheochromocytoma cells. Rit and Rin are both able to form a ternary complex with PAR6, a cell polarity-regulating protein, and Rac/cdc42. This ternary complex is proposed to have physiological function in processes such as tumorigenesis. Activated Ric is likely to sign

>COG1084 Predicted GTPase [General function prediction only]

Probab=97.98  E-value=2.8e-05  Score=63.57  Aligned_cols=102  Identities=17%  Similarity=0.135  Sum_probs=62.7

Q ss_pred             cchhhhhhhhcccccccccchhhcc-cc-eEEeEeEEEeeeCCceeEeecCCcccc--------cHhHHhhhccc-cceE
Q psy9646         107 PVLADKKLAKVKQYADIDNAPEEKA-RG-ITINVAHVEYATENRHYSHTDCPGHAD--------YIKNMITGTSQ-MDGA  175 (211)
Q Consensus       107 ~~~~~~~~~~f~~~i~~~~~~~e~~-rg-~tv~~~~~~~~~~~~~~~~iDtPG~~~--------~~~~~~~~~~~-~d~~  175 (211)
                      .+.|..|+++|...+  ...+.|.. -. +|=.+..+.++.+..++=+|||||.-|        -..++..|+.. .+++
T Consensus       174 aG~PNVGKSSlv~~l--T~AkpEvA~YPFTTK~i~vGhfe~~~~R~QvIDTPGlLDRPl~ErN~IE~qAi~AL~hl~~~I  251 (346)
T COG1084         174 AGYPNVGKSSLVRKL--TTAKPEVAPYPFTTKGIHVGHFERGYLRIQVIDTPGLLDRPLEERNEIERQAILALRHLAGVI  251 (346)
T ss_pred             ecCCCCcHHHHHHHH--hcCCCccCCCCccccceeEeeeecCCceEEEecCCcccCCChHHhcHHHHHHHHHHHHhcCeE
Confidence            355667777776544  22222222 12 233455667777888899999999543        24667788875 5799


Q ss_pred             EEEEeccCC--CCcchH-HHHHHHHH-cCCCeEEEEEeCC
Q psy9646         176 ILVVAATDG--AMPQTR-EHLLLAKQ-IGVTNIVVFINKF  211 (211)
Q Consensus       176 ~~vvd~~~~--~~~~~~-~~~~~~~~-~~~~~~i~~inK~  211 (211)
                      +|++|..+.  ..-..+ .+++..+. .+.| +++|+||+
T Consensus       252 lF~~D~Se~cgy~lE~Q~~L~~eIk~~f~~p-~v~V~nK~  290 (346)
T COG1084         252 LFLFDPSETCGYSLEEQISLLEEIKELFKAP-IVVVINKI  290 (346)
T ss_pred             EEEEcCccccCCCHHHHHHHHHHHHHhcCCC-eEEEEecc
Confidence            999998743  332222 23444433 4444 88999996

>PTZ00369 Ras-like protein; Provisional

Probab=97.98  E-value=1.1e-05  Score=61.74  Aligned_cols=64  Identities=14%  Similarity=0.048  Sum_probs=45.5

Q ss_pred             CceeEeecCCcccccHhHHhhhccccceEEEEEeccCCCC-cchHHHHHHHHH----cCCCeEEEEEeCC
Q psy9646         147 NRHYSHTDCPGHADYIKNMITGTSQMDGAILVVAATDGAM-PQTREHLLLAKQ----IGVTNIVVFINKF  211 (211)
Q Consensus       147 ~~~~~~iDtPG~~~~~~~~~~~~~~~d~~~~vvd~~~~~~-~~~~~~~~~~~~----~~~~~~i~~inK~  211 (211)
                      ...+.+.||||+++|.......+..+|++++|+|+..... .....+...+.+    .++| ++++.||+
T Consensus        52 ~~~l~i~Dt~G~~~~~~l~~~~~~~~d~iilv~D~s~~~s~~~~~~~~~~i~~~~~~~~~p-iiiv~nK~  120 (189)
T PTZ00369         52 TCLLDILDTAGQEEYSAMRDQYMRTGQGFLCVYSITSRSSFEEIASFREQILRVKDKDRVP-MILVGNKC  120 (189)
T ss_pred             EEEEEEEeCCCCccchhhHHHHhhcCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCC-EEEEEECc
Confidence            3457789999999998777777889999999999875532 122233333322    2567 88899995

>PF09439 SRPRB: Signal recognition particle receptor beta subunit; InterPro: IPR019009 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=97.98  E-value=8.2e-06  Score=61.97  Aligned_cols=65  Identities=20%  Similarity=0.286  Sum_probs=41.7

Q ss_pred             CCceeEeecCCcccccHhHHhhh---ccccceEEEEEeccCCCCcchHHHHHHHHH--------cCCCeEEEEEeCC
Q psy9646         146 ENRHYSHTDCPGHADYIKNMITG---TSQMDGAILVVAATDGAMPQTREHLLLAKQ--------IGVTNIVVFINKF  211 (211)
Q Consensus       146 ~~~~~~~iDtPG~~~~~~~~~~~---~~~~d~~~~vvd~~~~~~~~~~~~~~~~~~--------~~~~~~i~~inK~  211 (211)
                      ....+.++|+|||.++-......   +..+.+++||||+.. ...+-++.++.+..        .+.+++.+++||.
T Consensus        47 ~~~~~~lvD~PGH~rlr~~~~~~~~~~~~~k~IIfvvDSs~-~~~~~~~~Ae~Ly~iL~~~~~~~~~~piLIacNK~  122 (181)
T PF09439_consen   47 KGKKLRLVDIPGHPRLRSKLLDELKYLSNAKGIIFVVDSST-DQKELRDVAEYLYDILSDTEVQKNKPPILIACNKQ  122 (181)
T ss_dssp             CGTCECEEEETT-HCCCHHHHHHHHHHGGEEEEEEEEETTT-HHHHHHHHHHHHHHHHHHHHCCTT--EEEEEEE-T
T ss_pred             CCCEEEEEECCCcHHHHHHHHHhhhchhhCCEEEEEEeCcc-chhhHHHHHHHHHHHHHhhhhccCCCCEEEEEeCc
Confidence            44678999999999987777766   788999999999863 11222333333311        1334488899994

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 []. The SR receptor is a monomer consisting of the loosely membrane-associated SR-alpha homologue FtsY, while the eukaryotic SR receptor is a heterodimer of SR-alpha (70 kDa) and SR-beta (25 kDa), both of which contain a GTP-binding domain []. SR-alpha regulates the targeting of SRP-ribosome-nascent polypeptide complexes to the translocon []. SR-alpha binds to the SRP54 subunit of the SRP complex. The SR-beta subunit is a transmembrane GTPase that anchors the SR-alpha subunit (a peripheral membrane GTPase) to the ER membrane []. SR-beta interacts with the N-terminal SRX-domain of SR-alpha, which is not present in the bacterial FtsY homologue. SR-beta also functions in recruiting the SRP-nascent polypeptide to the protein-conducting channel. The beta subunit of the signal recognition particle receptor (SRP) is a transmembrane GTPase, which anchors the alpha subunit to the endoplasmic reticulum membrane []. ; PDB: 2GED_B 1NRJ_B 2GO5_2 2FH5_B.

>PLN00223 ADP-ribosylation factor; Provisional

Probab=97.97  E-value=2.1e-05  Score=59.86  Aligned_cols=69  Identities=19%  Similarity=0.194  Sum_probs=46.8

Q ss_pred             EeeeCCceeEeecCCcccccHhHHhhhccccceEEEEEeccCCCC-cchHH-HHHHHHH---cCCCeEEEEEeCC
Q psy9646         142 EYATENRHYSHTDCPGHADYIKNMITGTSQMDGAILVVAATDGAM-PQTRE-HLLLAKQ---IGVTNIVVFINKF  211 (211)
Q Consensus       142 ~~~~~~~~~~~iDtPG~~~~~~~~~~~~~~~d~~~~vvd~~~~~~-~~~~~-~~~~~~~---~~~~~~i~~inK~  211 (211)
                      .++..+..+.+.||||+..|......-+..+|++++|+|+.+... ..... +...+..   .+.| ++++.||+
T Consensus        55 ~~~~~~~~~~i~D~~Gq~~~~~~~~~~~~~a~~iI~V~D~s~~~s~~~~~~~l~~~l~~~~~~~~p-iilv~NK~  128 (181)
T PLN00223         55 TVEYKNISFTVWDVGGQDKIRPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAV-LLVFANKQ  128 (181)
T ss_pred             EEEECCEEEEEEECCCCHHHHHHHHHHhccCCEEEEEEeCCcHHHHHHHHHHHHHHhcCHhhCCCC-EEEEEECC
Confidence            455667789999999998887655556789999999999875432 11122 2222211   2456 88999996

>cd04090 eEF2_II_snRNP Loc2 eEF2_C_snRNP, cd01514/C terminal domain:eEF2_C_snRNP: This family includes C-terminal portion of the spliceosomal human 116kD U5 small nuclear ribonucleoprotein (snRNP) protein (U5-116 kD) and, its yeast counterpart Snu114p

Probab=97.97  E-value=0.0001  Score=50.05  Aligned_cols=65  Identities=23%  Similarity=0.271  Sum_probs=47.0

Q ss_pred             EEEeeEEeecCC-cEEEEEEEEEEEEecCCEEEEeecC-------ceeeEEEEEEEecc----eecceecccCceeh
Q psy9646          24 LPVEHTYSIPGR-GTVVTGRLERGIVKKGMECEFTGYG-------RQFKTTVTGIEMFH----KILDEAQAGDQLGA   88 (211)
Q Consensus        24 ~~v~~~~~~~~~-G~v~~G~v~~G~i~~g~~v~i~p~~-------~~~~~~v~~i~~~~----~~~~~a~~G~~v~~   88 (211)
                      ..|..+...++. |.+..|||-+|.++.|+.|.+.-.+       .....+|..|....    .++++|.|||++++
T Consensus         3 a~VfK~~~~~~~~~~la~~RV~sGtl~~g~~v~~~~~~~~~~~~~~~~~~~i~~l~~~~g~~~~~v~~a~aGdIv~v   79 (94)
T cd04090           3 VHVTKLYSTSDGGSFWAFGRIYSGTIKKGQKVKVLGENYSLDDEEDMTICTIGRLWILGGRYKIEVNEAPAGNWVLI   79 (94)
T ss_pred             EEEEeeeecCCCCEEEEEEEEeeCeEcCCCEEEEECCCCCCccCCcEEEEEEeEEEEecCCCEEEcceeCCCCEEEE
Confidence            345555555665 6689999999999999999773211       11246677776554    68999999999987

This domain is homologous to domain II of the eukaryotic translational elongation factor EF-2. Yeast Snu114p is essential for cell viability and for splicing in vivo. U5-116 kD binds GTP. Experiments suggest that GTP binding and probably GTP hydrolysis is important for the function of the U5-116 kD/Snu114p. In complex with GTP, EF-2 promotes the translocation step of translation. During translocation the peptidyl-tRNA is moved from the A site to the P site, the uncharged tRNA from the P site to the E-site and, the mRNA is shifted one codon relative to the ribosome.

>cd01850 CDC_Septin CDC/Septin

Probab=97.97  E-value=5.8e-05  Score=61.42  Aligned_cols=76  Identities=20%  Similarity=0.306  Sum_probs=50.3

Q ss_pred             eEEeEeEEEeeeCC--ceeEeecCCcccccHh---------------------HHh-----hhcc--ccceEEEEEecc-
Q psy9646         134 ITINVAHVEYATEN--RHYSHTDCPGHADYIK---------------------NMI-----TGTS--QMDGAILVVAAT-  182 (211)
Q Consensus       134 ~tv~~~~~~~~~~~--~~~~~iDtPG~~~~~~---------------------~~~-----~~~~--~~d~~~~vvd~~-  182 (211)
                      ..+......++..+  .++.++||||..++..                     +..     ....  .+|++++++++. 
T Consensus        47 ~~i~~~~~~i~~~g~~~~l~iiDTpGfgd~~~~~~~~~~i~~yi~~q~~~~l~~e~~~~r~~~~~d~rvh~~ly~i~~~~  126 (276)
T cd01850          47 VEIKSSKAEIEENGVKLKLTVIDTPGFGDNINNSDCWKPIVDYIDDQFDQYLREESRIKRNPRIPDTRVHACLYFIEPTG  126 (276)
T ss_pred             eEEEEEEEEEEECCEEEEEEEEecCCccccccchhhHHHHHHHHHHHHHHHHHHHhhhcccccCCCCceEEEEEEEeCCC
Confidence            33444444444444  4689999999665421                     111     1222  478999999876 


Q ss_pred             CCCCcchHHHHHHHHHcCCCeEEEEEeCC
Q psy9646         183 DGAMPQTREHLLLAKQIGVTNIVVFINKF  211 (211)
Q Consensus       183 ~~~~~~~~~~~~~~~~~~~~~~i~~inK~  211 (211)
                      .++...+.+.++.+.. ++| +|+|+||+
T Consensus       127 ~~l~~~D~~~lk~l~~-~v~-vi~VinK~  153 (276)
T cd01850         127 HGLKPLDIEFMKRLSK-RVN-IIPVIAKA  153 (276)
T ss_pred             CCCCHHHHHHHHHHhc-cCC-EEEEEECC
Confidence            4777777888888875 778 78999996

Septins are a conserved family of GTP-binding proteins associated with diverse processes in dividing and non-dividing cells. They were first discovered in the budding yeast S. cerevisiae as a set of genes (CDC3, CDC10, CDC11 and CDC12) required for normal bud morphology. Septins are also present in metazoan cells, where they are required for cytokinesis in some systems, and implicated in a variety of other processes involving organization of the cell cortex and exocytosis. In humans, 12 septin genes generate dozens of polypeptides, many of which comprise heterooligomeric complexes. Since septin mutants are commonly defective in cytokinesis and formation of the neck formation of the neck filaments/septin rings, septins have been considered to be the primary constituents of the neck filaments. Septins belong to the GTPase superfamily for their conserved GTPase motifs and enzymatic activities.

>cd04116 Rab9 Rab9 subfamily

Probab=97.96  E-value=5.6e-05  Score=56.43  Aligned_cols=63  Identities=17%  Similarity=0.009  Sum_probs=42.4

Q ss_pred             ceeEeecCCcccccHhHHhhhccccceEEEEEeccCCCCcc-hHHHHHHHH-------HcCCCeEEEEEeCC
Q psy9646         148 RHYSHTDCPGHADYIKNMITGTSQMDGAILVVAATDGAMPQ-TREHLLLAK-------QIGVTNIVVFINKF  211 (211)
Q Consensus       148 ~~~~~iDtPG~~~~~~~~~~~~~~~d~~~~vvd~~~~~~~~-~~~~~~~~~-------~~~~~~~i~~inK~  211 (211)
                      ..+.+.||||++.|.......+..+|+++++.|......-+ -..+...+.       ..++| ++++.||+
T Consensus        54 ~~l~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~~p-iilv~nK~  124 (170)
T cd04116          54 VTLQIWDTAGQERFRSLRTPFYRGSDCCLLTFAVDDSQSFQNLSNWKKEFIYYADVKEPESFP-FVVLGNKN  124 (170)
T ss_pred             EEEEEEeCCChHHHHHhHHHHhcCCCEEEEEEECCCHHHHHhHHHHHHHHHHhcccccCCCCc-EEEEEECc
Confidence            45677899999988777777788999999999876543211 112222221       13467 88999995

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

>cd04122 Rab14 Rab14 subfamily

Probab=97.96  E-value=3.7e-05  Score=57.28  Aligned_cols=64  Identities=17%  Similarity=0.101  Sum_probs=45.4

Q ss_pred             CceeEeecCCcccccHhHHhhhccccceEEEEEeccCCCCc-chHHHHHHHHH---cCCCeEEEEEeCC
Q psy9646         147 NRHYSHTDCPGHADYIKNMITGTSQMDGAILVVAATDGAMP-QTREHLLLAKQ---IGVTNIVVFINKF  211 (211)
Q Consensus       147 ~~~~~~iDtPG~~~~~~~~~~~~~~~d~~~~vvd~~~~~~~-~~~~~~~~~~~---~~~~~~i~~inK~  211 (211)
                      ...+.+.||||+..|......-++.+|++++|+|..+...- .-..++.....   .+.| ++++.||+
T Consensus        50 ~~~l~i~Dt~G~~~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~-iiiv~nK~  117 (166)
T cd04122          50 KIKLQIWDTAGQERFRAVTRSYYRGAAGALMVYDITRRSTYNHLSSWLTDARNLTNPNTV-IFLIGNKA  117 (166)
T ss_pred             EEEEEEEECCCcHHHHHHHHHHhcCCCEEEEEEECCCHHHHHHHHHHHHHHHHhCCCCCe-EEEEEECc
Confidence            34678899999999988887888999999999998764321 12233333322   2345 88899995

Rab14 GTPases are localized to biosynthetic compartments, including the rough ER, the Golgi complex, and the trans-Golgi network, and to endosomal compartments, including early endosomal vacuoles and associated vesicles. Rab14 is believed to function in both the biosynthetic and recycling pathways between the Golgi and endosomal compartments. Rab14 has also been identified on GLUT4 vesicles, and has been suggested to help regulate GLUT4 translocation. In addition, Rab14 is believed to play a role in the regulation of phagocytosis. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GT

>cd04142 RRP22 RRP22 subfamily

Probab=97.95  E-value=3.3e-05  Score=59.74  Aligned_cols=63  Identities=19%  Similarity=0.089  Sum_probs=41.1

Q ss_pred             ceeEeecCCccccc--------HhHHhhhccccceEEEEEeccCCCCcc-hHHHHHHHH------HcCCCeEEEEEeCC
Q psy9646         148 RHYSHTDCPGHADY--------IKNMITGTSQMDGAILVVAATDGAMPQ-TREHLLLAK------QIGVTNIVVFINKF  211 (211)
Q Consensus       148 ~~~~~iDtPG~~~~--------~~~~~~~~~~~d~~~~vvd~~~~~~~~-~~~~~~~~~------~~~~~~~i~~inK~  211 (211)
                      ..+.++||||+++|        ......++..+|++++|+|+.....-+ ...+++.+.      ..++| ++++.||+
T Consensus        49 ~~l~i~Dt~G~~~~~~~~~~e~~~~~~~~~~~ad~iilv~D~~~~~S~~~~~~~~~~i~~~~~~~~~~~p-iiivgNK~  126 (198)
T cd04142          49 YDLHILDVPNMQRYPGTAGQEWMDPRFRGLRNSRAFILVYDICSPDSFHYVKLLRQQILETRPAGNKEPP-IVVVGNKR  126 (198)
T ss_pred             EEEEEEeCCCcccCCccchhHHHHHHHhhhccCCEEEEEEECCCHHHHHHHHHHHHHHHHhcccCCCCCC-EEEEEECc
Confidence            56779999997654        122445678999999999997643221 122223222      23567 88999995

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.

>cd04127 Rab27A Rab27a subfamily

Probab=97.95  E-value=4.1e-05  Score=57.72  Aligned_cols=63  Identities=17%  Similarity=0.095  Sum_probs=44.7

Q ss_pred             ceeEeecCCcccccHhHHhhhccccceEEEEEeccCCCCcc-hHHHHHHHHH----cCCCeEEEEEeCC
Q psy9646         148 RHYSHTDCPGHADYIKNMITGTSQMDGAILVVAATDGAMPQ-TREHLLLAKQ----IGVTNIVVFINKF  211 (211)
Q Consensus       148 ~~~~~iDtPG~~~~~~~~~~~~~~~d~~~~vvd~~~~~~~~-~~~~~~~~~~----~~~~~~i~~inK~  211 (211)
                      ..+.+.||||++.|......-+..+|++++|.|+.+...-+ -+.++..+..    .+.| +++|.||+
T Consensus        63 ~~~~i~Dt~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~p-iiiv~nK~  130 (180)
T cd04127          63 IHLQLWDTAGQERFRSLTTAFFRDAMGFLLIFDLTNEQSFLNVRNWMSQLQTHAYCENPD-IVLCGNKA  130 (180)
T ss_pred             EEEEEEeCCChHHHHHHHHHHhCCCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCc-EEEEEeCc
Confidence            56789999999998877777889999999999987533211 1223333333    2445 88899995

The Rab27a subfamily consists of Rab27a and its highly homologous isoform, Rab27b. Unlike most Rab proteins whose functions remain poorly defined, Rab27a has many known functions. Rab27a has multiple effector proteins, and depending on which effector it binds, Rab27a has different functions as well as tissue distribution and/or cellular localization. Putative functions have been assigned to Rab27a when associated with the effector proteins Slp1, Slp2, Slp3, Slp4, Slp5, DmSlp, rabphilin, Dm/Ce-rabphilin, Slac2-a, Slac2-b, Slac2-c, Noc2, JFC1, and Munc13-4. Rab27a has been associated with several human diseases, including hemophagocytic syndrome (Griscelli syndrome or GS), Hermansky-Pudlak syndrome, and choroidermia. In the case of GS, a rare, autosomal recessive disease, a Rab27a mutation is directly responsible for the disorder. When Rab27a is localized to the secretory granules of pancreatic beta cells, it is believed to mediate glucose-stimulated

>cd04139 RalA_RalB RalA/RalB subfamily

Probab=97.94  E-value=1.6e-05  Score=58.67  Aligned_cols=64  Identities=22%  Similarity=0.170  Sum_probs=45.9

Q ss_pred             CceeEeecCCcccccHhHHhhhccccceEEEEEeccCCCC-cchHHHHHHHHH----cCCCeEEEEEeCC
Q psy9646         147 NRHYSHTDCPGHADYIKNMITGTSQMDGAILVVAATDGAM-PQTREHLLLAKQ----IGVTNIVVFINKF  211 (211)
Q Consensus       147 ~~~~~~iDtPG~~~~~~~~~~~~~~~d~~~~vvd~~~~~~-~~~~~~~~~~~~----~~~~~~i~~inK~  211 (211)
                      ...+.++||||+.++.......++.+|++++++|....-. ......+.....    .++| +++++||+
T Consensus        47 ~~~~~i~D~~g~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~p-iiiv~NK~  115 (164)
T cd04139          47 DVQLNILDTAGQEDYAAIRDNYHRSGEGFLLVFSITDMESFTATAEFREQILRVKDDDNVP-LLLVGNKC  115 (164)
T ss_pred             EEEEEEEECCChhhhhHHHHHHhhcCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCC-EEEEEEcc
Confidence            3468889999999999999899999999999999764321 111222222222    4677 88999996

The Ral (Ras-like) subfamily consists of the highly homologous RalA and RalB. Ral proteins are believed to play a crucial role in tumorigenesis, metastasis, endocytosis, and actin cytoskeleton dynamics. Despite their high sequence similarity (80% sequence identity), nonoverlapping and opposing functions have been assigned to RalA and RalBs in tumor migration. In human bladder and prostate cancer cells, RalB promotes migration while RalA inhibits it. A Ral-specific set of GEFs has been identified that are activated by Ras binding. This RalGEF activity is enhanced by Ras binding to another of its target proteins, phosphatidylinositol 3-kinase (PI3K). Ral effectors include RLIP76/RalBP1, a Rac/cdc42 GAP, and the exocyst (Sec6/8) complex, a heterooctomeric protein complex that is involved in tethering vesicles to specific sites on the plasma membrane prior to exocytosis. In rat kidney cells, RalB is required for functional assembly of the exo

>cd04137 RheB Rheb (Ras Homolog Enriched in Brain) subfamily

Probab=97.94  E-value=1.2e-05  Score=60.82  Aligned_cols=64  Identities=22%  Similarity=0.151  Sum_probs=44.8

Q ss_pred             CceeEeecCCcccccHhHHhhhccccceEEEEEeccCCCCcc-hHHHHHHHH----HcCCCeEEEEEeCC
Q psy9646         147 NRHYSHTDCPGHADYIKNMITGTSQMDGAILVVAATDGAMPQ-TREHLLLAK----QIGVTNIVVFINKF  211 (211)
Q Consensus       147 ~~~~~~iDtPG~~~~~~~~~~~~~~~d~~~~vvd~~~~~~~~-~~~~~~~~~----~~~~~~~i~~inK~  211 (211)
                      ...+.++||||+.+|.......+..+|+++++.|......-+ .+..+..+.    ..+.| +|+++||+
T Consensus        48 ~~~~~l~D~~g~~~~~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~p-~ilv~NK~  116 (180)
T cd04137          48 DYHLEIVDTAGQDEYSILPQKYSIGIHGYILVYSVTSRKSFEVVKVIYDKILDMLGKESVP-IVLVGNKS  116 (180)
T ss_pred             EEEEEEEECCChHhhHHHHHHHHhhCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCC-EEEEEEch
Confidence            356789999999998777777888999999999987653222 122222222    23567 77999995

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

>PLN03118 Rab family protein; Provisional

Probab=97.93  E-value=3.9e-05  Score=59.74  Aligned_cols=64  Identities=14%  Similarity=0.045  Sum_probs=44.6

Q ss_pred             CceeEeecCCcccccHhHHhhhccccceEEEEEeccCCCCcchH-HHH-HHHHH----cCCCeEEEEEeCC
Q psy9646         147 NRHYSHTDCPGHADYIKNMITGTSQMDGAILVVAATDGAMPQTR-EHL-LLAKQ----IGVTNIVVFINKF  211 (211)
Q Consensus       147 ~~~~~~iDtPG~~~~~~~~~~~~~~~d~~~~vvd~~~~~~~~~~-~~~-~~~~~----~~~~~~i~~inK~  211 (211)
                      ..++.+.||||+++|.......+..+|++++|+|+.....-+.. ..+ ..+..    .+.| ++++.||+
T Consensus        61 ~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~vlv~D~~~~~sf~~~~~~~~~~~~~~~~~~~~~-~ilv~NK~  130 (211)
T PLN03118         61 RLKLTIWDTAGQERFRTLTSSYYRNAQGIILVYDVTRRETFTNLSDVWGKEVELYSTNQDCV-KMLVGNKV  130 (211)
T ss_pred             EEEEEEEECCCchhhHHHHHHHHhcCCEEEEEEECCCHHHHHHHHHHHHHHHHHhcCCCCCC-EEEEEECc
Confidence            35788999999999987777888899999999998764322221 122 22221    3456 77889995

>cd00157 Rho Rho (Ras homology) family

Probab=97.92  E-value=2.8e-05  Score=57.95  Aligned_cols=64  Identities=11%  Similarity=0.122  Sum_probs=44.1

Q ss_pred             CceeEeecCCcccccHhHHhhhccccceEEEEEeccCCCCcc--hHHHHHHHHHc--CCCeEEEEEeCC
Q psy9646         147 NRHYSHTDCPGHADYIKNMITGTSQMDGAILVVAATDGAMPQ--TREHLLLAKQI--GVTNIVVFINKF  211 (211)
Q Consensus       147 ~~~~~~iDtPG~~~~~~~~~~~~~~~d~~~~vvd~~~~~~~~--~~~~~~~~~~~--~~~~~i~~inK~  211 (211)
                      ...+.+.||||+.++.......+..+|++++++|+.....-+  ...++..+...  +.| ++++.||+
T Consensus        47 ~~~l~~~D~~g~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p-~ivv~nK~  114 (171)
T cd00157          47 QVNLGLWDTAGQEEYDRLRPLSYPNTDVFLICFSVDSPSSFENVKTKWIPEIRHYCPNVP-IILVGTKI  114 (171)
T ss_pred             EEEEEEEeCCCcccccccchhhcCCCCEEEEEEECCCHHHHHHHHHHHHHHHHhhCCCCC-EEEEEccH
Confidence            346889999999987666556678899999999987643211  12233333332  366 88999995

Members of the Rho family include RhoA, Cdc42, Rac, Rnd, Wrch1, RhoBTB, and Rop. There are 22 human Rho family members identified currently. These proteins are all involved in the reorganization of the actin cytoskeleton in response to external stimuli. They also have roles in cell transformation by Ras in cytokinesis, in focal adhesion formation and in the stimulation of stress-activated kinase. These various functions are controlled through distinct effector proteins and mediated through a GTP-binding/GTPase cycle involving three classes of regulating proteins: GAPs (GTPase-activating proteins), GEFs (guanine nucleotide exchange factors), and GDIs (guanine nucleotide dissociation inhibitors). Most Rho 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 Rho protein

>cd04146 RERG_RasL11_like RERG/RasL11-like subfamily

Probab=97.92  E-value=2e-05  Score=58.70  Aligned_cols=63  Identities=17%  Similarity=0.187  Sum_probs=42.9

Q ss_pred             ceeEeecCCcccc-cHhHHhhhccccceEEEEEeccCCCCcc-hHHHHHHHHH-----cCCCeEEEEEeCC
Q psy9646         148 RHYSHTDCPGHAD-YIKNMITGTSQMDGAILVVAATDGAMPQ-TREHLLLAKQ-----IGVTNIVVFINKF  211 (211)
Q Consensus       148 ~~~~~iDtPG~~~-~~~~~~~~~~~~d~~~~vvd~~~~~~~~-~~~~~~~~~~-----~~~~~~i~~inK~  211 (211)
                      ..+.+.||||+.. +.......+..+|++++++|+.....-+ .+.++..+..     .+.| +|++.||+
T Consensus        47 ~~~~i~D~~g~~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~p-iilv~nK~  116 (165)
T cd04146          47 VSLEILDTAGQQQADTEQLERSIRWADGFVLVYSITDRSSFDEISQLKQLIREIKKRDREIP-VILVGNKA  116 (165)
T ss_pred             EEEEEEECCCCcccccchHHHHHHhCCEEEEEEECCCHHHHHHHHHHHHHHHHHhcCCCCCC-EEEEEECC
Confidence            4578999999985 3444566778899999999997653322 2223333332     2577 88999996

RERG (Ras-related and Estrogen- Regulated Growth inhibitor) and Ras-like 11 are members of a novel subfamily of Ras that were identified based on their behavior in breast and prostate tumors, respectively. RERG expression was decreased or lost in a significant fraction of primary human breast tumors that lack estrogen receptor and are correlated with poor clinical prognosis. Elevated RERG expression correlated with favorable patient outcome in a breast tumor subtype that is positive for estrogen receptor expression. In contrast to most Ras proteins, RERG overexpression inhibited the growth of breast tumor cells in vitro and in vivo. RasL11 was found to be ubiquitously expressed in human tissue, but down-regulated in prostate tumors. Both RERG and RasL11 lack the C-terminal CaaX prenylation motif, where a = an aliphatic amino acid and X = any amino acid, and are localized primarily in the cytoplasm. Both are believed to have tu

>cd04121 Rab40 Rab40 subfamily

Probab=97.90  E-value=7.1e-05  Score=57.46  Aligned_cols=63  Identities=16%  Similarity=0.155  Sum_probs=45.6

Q ss_pred             ceeEeecCCcccccHhHHhhhccccceEEEEEeccCCCC-cchHHHHHHHHH--cCCCeEEEEEeCC
Q psy9646         148 RHYSHTDCPGHADYIKNMITGTSQMDGAILVVAATDGAM-PQTREHLLLAKQ--IGVTNIVVFINKF  211 (211)
Q Consensus       148 ~~~~~iDtPG~~~~~~~~~~~~~~~d~~~~vvd~~~~~~-~~~~~~~~~~~~--~~~~~~i~~inK~  211 (211)
                      ..+.+.||||++.|......-...+|++++|.|...... ...+.++..+..  .++| +|++.||+
T Consensus        55 ~~l~iwDt~G~~~~~~l~~~~~~~ad~illVfD~t~~~Sf~~~~~w~~~i~~~~~~~p-iilVGNK~  120 (189)
T cd04121          55 VKLQLWDTSGQGRFCTIFRSYSRGAQGIILVYDITNRWSFDGIDRWIKEIDEHAPGVP-KILVGNRL  120 (189)
T ss_pred             EEEEEEeCCCcHHHHHHHHHHhcCCCEEEEEEECcCHHHHHHHHHHHHHHHHhCCCCC-EEEEEECc
Confidence            567889999999888666566689999999999876543 222334444443  3566 88999995

This subfamily contains Rab40a, Rab40b, and Rab40c, which are all highly homologous. In rat, Rab40c is localized to the perinuclear recycling compartment (PRC), and is distributed in a tissue-specific manor, with high expression in brain, heart, kidney, and testis, low expression in lung and liver, and no expression in spleen and skeletal muscle. Rab40c is highly expressed in differentiated oligodendrocytes but minimally expressed in oligodendrocyte progenitors, suggesting a role in the vesicular transport of myelin components. Unlike most other Ras-superfamily proteins, Rab40c was shown to have a much lower affinity for GTP, and an affinity for GDP that is lower than for 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 d

>cd01874 Cdc42 Cdc42 subfamily

Probab=97.89  E-value=4.2e-05  Score=57.81  Aligned_cols=63  Identities=10%  Similarity=0.064  Sum_probs=44.7

Q ss_pred             ceeEeecCCcccccHhHHhhhccccceEEEEEeccCCCCcc-hH-HHHHHHHH--cCCCeEEEEEeCC
Q psy9646         148 RHYSHTDCPGHADYIKNMITGTSQMDGAILVVAATDGAMPQ-TR-EHLLLAKQ--IGVTNIVVFINKF  211 (211)
Q Consensus       148 ~~~~~iDtPG~~~~~~~~~~~~~~~d~~~~vvd~~~~~~~~-~~-~~~~~~~~--~~~~~~i~~inK~  211 (211)
                      .++.+.||||+++|.......+..+|++++|.|......-+ .. .++..+..  .++| +|++.||+
T Consensus        49 ~~l~i~Dt~G~~~~~~~~~~~~~~a~~~ilv~d~~~~~s~~~~~~~w~~~i~~~~~~~p-iilvgnK~  115 (175)
T cd01874          49 YTLGLFDTAGQEDYDRLRPLSYPQTDVFLVCFSVVSPSSFENVKEKWVPEITHHCPKTP-FLLVGTQI  115 (175)
T ss_pred             EEEEEEECCCccchhhhhhhhcccCCEEEEEEECCCHHHHHHHHHHHHHHHHHhCCCCC-EEEEEECH
Confidence            56789999999998766666788999999999987654322 22 23333332  2566 88999995

Cdc42 is an essential GTPase that belongs to the Rho family of Ras-like GTPases. These proteins act as molecular switches by responding to exogenous and/or endogenous signals and relaying those signals to activate downstream components of a biological pathway. Cdc42 transduces signals to the actin cytoskeleton to initiate and maintain polarized growth and to mitogen-activated protein morphogenesis. In the budding yeast Saccharomyces cerevisiae, Cdc42 plays an important role in multiple actin-dependent morphogenetic events such as bud emergence, mating-projection formation, and pseudohyphal growth. In mammalian cells, Cdc42 regulates a variety of actin-dependent events and induces the JNK/SAPK protein kinase cascade, which leads to the activation of transcription factors within the nucleus. Cdc42 mediates these processes through interactions with a myriad of downstream effectors, whose number and regulation we are just starting to understand. In addi

>smart00053 DYNc Dynamin, GTPase

Probab=97.88  E-value=4.8e-05  Score=60.50  Aligned_cols=63  Identities=14%  Similarity=0.022  Sum_probs=48.8

Q ss_pred             ceeEeecCCcccc-------------cHhHHhhhcc-ccceEEEEEeccCCCCcch-HHHHHHHHHcCCCeEEEEEeCC
Q psy9646         148 RHYSHTDCPGHAD-------------YIKNMITGTS-QMDGAILVVAATDGAMPQT-REHLLLAKQIGVTNIVVFINKF  211 (211)
Q Consensus       148 ~~~~~iDtPG~~~-------------~~~~~~~~~~-~~d~~~~vvd~~~~~~~~~-~~~~~~~~~~~~~~~i~~inK~  211 (211)
                      -.++++||||...             +.+.+...++ ..+.+++|+||..++..++ .++++.+...+.+ .|+|+||+
T Consensus       125 ~~ltLIDlPGl~~~~~~~~~~~~~~~i~~lv~~yi~~~~~IIL~Vvda~~d~~~~d~l~ia~~ld~~~~r-ti~ViTK~  202 (240)
T smart00053      125 LNLTLIDLPGITKVAVGDQPPDIEEQIKDMIKQFISKEECLILAVTPANVDLANSDALKLAKEVDPQGER-TIGVITKL  202 (240)
T ss_pred             CceEEEeCCCccccccCCccHHHHHHHHHHHHHHHhCccCeEEEEEECCCCCCchhHHHHHHHHHHcCCc-EEEEEECC
Confidence            4699999999752             1133555666 4569999999999988877 5788888888887 77899996

Large GTPases that mediate vesicle trafficking. Dynamin participates in the endocytic uptake of receptors, associated ligands, and plasma membrane following an exocytic event.

>cd04136 Rap_like Rap-like subfamily

Probab=97.88  E-value=4e-05  Score=56.61  Aligned_cols=63  Identities=16%  Similarity=0.071  Sum_probs=43.4

Q ss_pred             ceeEeecCCcccccHhHHhhhccccceEEEEEeccCCCC-cchHHHHHHHHH----cCCCeEEEEEeCC
Q psy9646         148 RHYSHTDCPGHADYIKNMITGTSQMDGAILVVAATDGAM-PQTREHLLLAKQ----IGVTNIVVFINKF  211 (211)
Q Consensus       148 ~~~~~iDtPG~~~~~~~~~~~~~~~d~~~~vvd~~~~~~-~~~~~~~~~~~~----~~~~~~i~~inK~  211 (211)
                      ..+.+.||||+++|......-+..+|++++|+|...... .....+++.+..    .+.| ++++.||+
T Consensus        49 ~~l~i~Dt~G~~~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~~~~~~~i~~~~~~~~~p-iilv~nK~  116 (163)
T cd04136          49 CMLEILDTAGTEQFTAMRDLYIKNGQGFVLVYSITSQSSFNDLQDLREQILRVKDTENVP-MVLVGNKC  116 (163)
T ss_pred             EEEEEEECCCccccchHHHHHhhcCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCC-EEEEEECc
Confidence            456789999999887666666788999999999865432 222233333332    2566 88899995

The Rap subfamily consists of the Rap1, Rap2, and RSR1. Rap subfamily proteins perform different cellular functions, depending on the isoform and its subcellular localization. For example, in rat salivary gland, neutrophils, and platelets, Rap1 localizes to secretory granules and is believed to regulate exocytosis or the formation of secretory granules. Rap1 has also been shown to localize in the Golgi of rat fibroblasts, zymogen granules, plasma membrane, and microsomal membrane of the pancreatic acini, as well as in the endocytic compartment of skeletal muscle cells and fibroblasts. Rap1 localizes in the nucleus of human oropharyngeal squamous cell carcinomas (SCCs) and cell lines. Rap1 plays a role in phagocytosis by controlling the binding of adhesion receptors (typically integrins) to their ligands. In yeast, Rap1 has been implicated in multiple functions, including activation and silencing of transcription and maintenance of telomeres.

>smart00174 RHO Rho (Ras homology) subfamily of Ras-like small GTPases

Probab=97.87  E-value=4e-05  Score=57.43  Aligned_cols=63  Identities=14%  Similarity=0.110  Sum_probs=44.0

Q ss_pred             ceeEeecCCcccccHhHHhhhccccceEEEEEeccCCCCcch--HHHHHHHHH--cCCCeEEEEEeCC
Q psy9646         148 RHYSHTDCPGHADYIKNMITGTSQMDGAILVVAATDGAMPQT--REHLLLAKQ--IGVTNIVVFINKF  211 (211)
Q Consensus       148 ~~~~~iDtPG~~~~~~~~~~~~~~~d~~~~vvd~~~~~~~~~--~~~~~~~~~--~~~~~~i~~inK~  211 (211)
                      ..+.+.||||+.+|.......+..+|+++++.|......-+.  ..++.....  .+.| +|++.||+
T Consensus        46 ~~~~i~Dt~G~~~~~~~~~~~~~~~d~~ilv~d~~~~~s~~~~~~~~~~~i~~~~~~~p-iilv~nK~  112 (174)
T smart00174       46 VELGLWDTAGQEDYDRLRPLSYPDTDVFLICFSVDSPASFENVKEKWYPEVKHFCPNTP-IILVGTKL  112 (174)
T ss_pred             EEEEEEECCCCcccchhchhhcCCCCEEEEEEECCCHHHHHHHHHHHHHHHHhhCCCCC-EEEEecCh
Confidence            457899999999887766667889999999999865422111  123333332  2567 88999995

Members of this subfamily of Ras-like small GTPases include Cdc42 and Rac, as well as Rho isoforms.

>PLN03110 Rab GTPase; Provisional

Probab=97.87  E-value=8.6e-05  Score=58.16  Aligned_cols=63  Identities=19%  Similarity=0.091  Sum_probs=45.9

Q ss_pred             ceeEeecCCcccccHhHHhhhccccceEEEEEeccCCCCcc-hHHHHHHHHH---cCCCeEEEEEeCC
Q psy9646         148 RHYSHTDCPGHADYIKNMITGTSQMDGAILVVAATDGAMPQ-TREHLLLAKQ---IGVTNIVVFINKF  211 (211)
Q Consensus       148 ~~~~~iDtPG~~~~~~~~~~~~~~~d~~~~vvd~~~~~~~~-~~~~~~~~~~---~~~~~~i~~inK~  211 (211)
                      ..+.+.||||++.|.......+..+|++++|.|..+...-+ ...++..+..   .++| ++++.||+
T Consensus        61 ~~l~l~Dt~G~~~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~p-iiiv~nK~  127 (216)
T PLN03110         61 VKAQIWDTAGQERYRAITSAYYRGAVGALLVYDITKRQTFDNVQRWLRELRDHADSNIV-IMMAGNKS  127 (216)
T ss_pred             EEEEEEECCCcHHHHHHHHHHhCCCCEEEEEEECCChHHHHHHHHHHHHHHHhCCCCCe-EEEEEECh
Confidence            46778999999998877777788999999999987543322 2334444443   3566 78899995

>cd04176 Rap2 Rap2 subgroup

Probab=97.86  E-value=4.5e-05  Score=56.54  Aligned_cols=63  Identities=14%  Similarity=0.063  Sum_probs=43.9

Q ss_pred             ceeEeecCCcccccHhHHhhhccccceEEEEEeccCCCC-cchHHHHHHHHH----cCCCeEEEEEeCC
Q psy9646         148 RHYSHTDCPGHADYIKNMITGTSQMDGAILVVAATDGAM-PQTREHLLLAKQ----IGVTNIVVFINKF  211 (211)
Q Consensus       148 ~~~~~iDtPG~~~~~~~~~~~~~~~d~~~~vvd~~~~~~-~~~~~~~~~~~~----~~~~~~i~~inK~  211 (211)
                      ..+.+.||||++.|......-+..+|++++|.|..+... ..-..++..+..    .++| ++++.||+
T Consensus        49 ~~l~i~Dt~G~~~~~~~~~~~~~~ad~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~p-iviv~nK~  116 (163)
T cd04176          49 SVLEILDTAGTEQFASMRDLYIKNGQGFIVVYSLVNQQTFQDIKPMRDQIVRVKGYEKVP-IILVGNKV  116 (163)
T ss_pred             EEEEEEECCCcccccchHHHHHhhCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCC-EEEEEECc
Confidence            346789999999887666666789999999999866432 122333333333    3577 88899995

The Rap2 subgroup is part of the Rap subfamily of the Ras family. It consists of Rap2a, Rap2b, and Rap2c. Both isoform 3 of the human mitogen-activated protein kinase kinase kinase kinase 4 (MAP4K4) and Traf2- and Nck-interacting kinase (TNIK) are putative effectors of Rap2 in mediating the activation of c-Jun N-terminal kinase (JNK) to regulate the actin cytoskeleton. In human platelets, Rap2 was shown to interact with the cytoskeleton by binding the actin filaments. In embryonic Xenopus development, Rap2 is necessary for the Wnt/beta-catenin signaling pathway. The Rap2 interacting protein 9 (RPIP9) is highly expressed in human breast carcinomas and correlates with a poor prognosis, suggesting a role for Rap2 in breast cancer oncogenesis. Rap2b, but not Rap2a, Rap2c, Rap1a, or Rap1b, is expressed in human red blood cells, where it is believed to be involved in vesiculation. A number of additional effector proteins for Rap2 have been identified, incl

>cd04118 Rab24 Rab24 subfamily

Probab=97.86  E-value=8.9e-05  Score=56.66  Aligned_cols=63  Identities=14%  Similarity=0.021  Sum_probs=43.7

Q ss_pred             ceeEeecCCcccccHhHHhhhccccceEEEEEeccCCCCcc-hHHHHHHHHHc--CCCeEEEEEeCC
Q psy9646         148 RHYSHTDCPGHADYIKNMITGTSQMDGAILVVAATDGAMPQ-TREHLLLAKQI--GVTNIVVFINKF  211 (211)
Q Consensus       148 ~~~~~iDtPG~~~~~~~~~~~~~~~d~~~~vvd~~~~~~~~-~~~~~~~~~~~--~~~~~i~~inK~  211 (211)
                      ..+.+.||||...+.......+..+|++++|+|..+...-+ .+.+++.+...  +.| +++|.||+
T Consensus        50 ~~l~i~D~~G~~~~~~~~~~~~~~~d~iilv~d~~~~~s~~~~~~~~~~i~~~~~~~p-iilv~nK~  115 (193)
T cd04118          50 VTLGIWDTAGSERYEAMSRIYYRGAKAAIVCYDLTDSSSFERAKFWVKELQNLEEHCK-IYLCGTKS  115 (193)
T ss_pred             EEEEEEECCCchhhhhhhHhhcCCCCEEEEEEECCCHHHHHHHHHHHHHHHhcCCCCC-EEEEEEcc
Confidence            34668999999887665556677899999999986543221 23344444433  567 88999995

Rab24 is distinct from other Rabs in several ways. It exists primarily in the GTP-bound state, having a low intrinsic GTPase activity; it is not efficiently geranyl-geranylated at the C-terminus; it does not form a detectable complex with Rab GDP-dissociation inhibitors (GDIs); and it has recently been shown to undergo tyrosine phosphorylation when overexpressed in vitro. The specific function of Rab24 still remains unknown. It is found in a transport route between ER-cis-Golgi and late endocytic compartments. It is putatively involved in an autophagic pathway, possibly directing misfolded proteins in the ER to degradative pathways. 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 facilita

>cd04175 Rap1 Rap1 subgroup

Probab=97.85  E-value=2.9e-05  Score=57.66  Aligned_cols=63  Identities=14%  Similarity=0.068  Sum_probs=44.0

Q ss_pred             ceeEeecCCcccccHhHHhhhccccceEEEEEeccCCCC-cchHHHHHHHHH----cCCCeEEEEEeCC
Q psy9646         148 RHYSHTDCPGHADYIKNMITGTSQMDGAILVVAATDGAM-PQTREHLLLAKQ----IGVTNIVVFINKF  211 (211)
Q Consensus       148 ~~~~~iDtPG~~~~~~~~~~~~~~~d~~~~vvd~~~~~~-~~~~~~~~~~~~----~~~~~~i~~inK~  211 (211)
                      ..+.+.||||++.|.......+..+|++++|.|...... .....++..+..    .+.| ++++.||+
T Consensus        49 ~~l~i~Dt~G~~~~~~~~~~~~~~~d~~ilv~d~~~~~s~~~~~~~~~~i~~~~~~~~~p-iilv~nK~  116 (164)
T cd04175          49 CMLEILDTAGTEQFTAMRDLYMKNGQGFVLVYSITAQSTFNDLQDLREQILRVKDTEDVP-MILVGNKC  116 (164)
T ss_pred             EEEEEEECCCcccchhHHHHHHhhCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCC-EEEEEECC
Confidence            446689999999988777777889999999999764432 112223333322    3567 88999995

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

>cd04132 Rho4_like Rho4-like subfamily

Probab=97.85  E-value=8e-05  Score=56.59  Aligned_cols=63  Identities=13%  Similarity=0.091  Sum_probs=44.0

Q ss_pred             ceeEeecCCcccccHhHHhhhccccceEEEEEeccCCCCcchH--HHHHHHHH--cCCCeEEEEEeCC
Q psy9646         148 RHYSHTDCPGHADYIKNMITGTSQMDGAILVVAATDGAMPQTR--EHLLLAKQ--IGVTNIVVFINKF  211 (211)
Q Consensus       148 ~~~~~iDtPG~~~~~~~~~~~~~~~d~~~~vvd~~~~~~~~~~--~~~~~~~~--~~~~~~i~~inK~  211 (211)
                      ..+.+.||||+++|.......+..+|++++|.|......-+..  .++.....  .++| +|++.||.
T Consensus        49 ~~l~i~Dt~G~~~~~~~~~~~~~~ad~ii~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p-iilv~nK~  115 (187)
T cd04132          49 IELALWDTAGQEEYDRLRPLSYPDVDVLLICYAVDNPTSLDNVEDKWFPEVNHFCPGTP-IMLVGLKT  115 (187)
T ss_pred             EEEEEEECCCchhHHHHHHHhCCCCCEEEEEEECCCHHHHHHHHHHHHHHHHHhCCCCC-EEEEEeCh
Confidence            4578899999998877666778899999999998764432221  12222221  3567 88999995

Rho4 is a GTPase that controls septum degradation by regulating secretion of Eng1 or Agn1 during cytokinesis. Rho4 also plays a role in cell morphogenesis. Rho4 regulates septation and cell morphology by controlling the actin cytoskeleton and cytoplasmic microtubules. The localization of Rho4 is modulated by Rdi1, which may function as a GDI, and by Rga9, which is believed to function as a GAP. In S. pombe, both Rho4 deletion and Rho4 overexpression result in a defective cell wall, suggesting a role for Rho4 in maintaining cell wall integrity. Most Rho 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 Rho proteins.

>smart00173 RAS Ras subfamily of RAS small GTPases

Probab=97.84  E-value=3.2e-05  Score=57.31  Aligned_cols=63  Identities=19%  Similarity=0.106  Sum_probs=44.2

Q ss_pred             ceeEeecCCcccccHhHHhhhccccceEEEEEeccCCCCc-chHHHHHHHHH----cCCCeEEEEEeCC
Q psy9646         148 RHYSHTDCPGHADYIKNMITGTSQMDGAILVVAATDGAMP-QTREHLLLAKQ----IGVTNIVVFINKF  211 (211)
Q Consensus       148 ~~~~~iDtPG~~~~~~~~~~~~~~~d~~~~vvd~~~~~~~-~~~~~~~~~~~----~~~~~~i~~inK~  211 (211)
                      ..+.+.||||+++|.......+..+|++++|.|+.....- ....+.+.+.+    .+.| ++++.||+
T Consensus        48 ~~l~i~Dt~g~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~p-ii~v~nK~  115 (164)
T smart00173       48 CLLDILDTAGQEEFSAMRDQYMRTGEGFLLVYSITDRQSFEEIKKFREQILRVKDRDDVP-IVLVGNKC  115 (164)
T ss_pred             EEEEEEECCCcccchHHHHHHHhhCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCC-EEEEEECc
Confidence            4677899999999987777778899999999998754321 11222222222    3567 88899995

Similar in fold and function to the bacterial EF-Tu GTPase. p21Ras couples receptor Tyr kinases and G protein receptors to protein kinase cascades

>cd00876 Ras Ras family

Probab=97.83  E-value=5.5e-05  Score=55.53  Aligned_cols=64  Identities=22%  Similarity=0.143  Sum_probs=45.4

Q ss_pred             CceeEeecCCcccccHhHHhhhccccceEEEEEeccCCCC-cchHHHHHHHHH----cCCCeEEEEEeCC
Q psy9646         147 NRHYSHTDCPGHADYIKNMITGTSQMDGAILVVAATDGAM-PQTREHLLLAKQ----IGVTNIVVFINKF  211 (211)
Q Consensus       147 ~~~~~~iDtPG~~~~~~~~~~~~~~~d~~~~vvd~~~~~~-~~~~~~~~~~~~----~~~~~~i~~inK~  211 (211)
                      ...+.++|+||+.++.......+..+|++++|+|...... .....++.....    .+.| +++++||+
T Consensus        46 ~~~~~l~D~~g~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~p-~ivv~nK~  114 (160)
T cd00876          46 TYTLDILDTAGQEEFSAMRDLYIRQGDGFILVYSITDRESFEEIKGYREQILRVKDDEDIP-IVLVGNKC  114 (160)
T ss_pred             EEEEEEEECCChHHHHHHHHHHHhcCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCc-EEEEEECC
Confidence            3568899999999988888888899999999999865432 112223333322    2566 88999996

The Ras family of the Ras superfamily includes classical N-Ras, H-Ras, and K-Ras, as well as R-Ras, Rap, Ral, Rheb, Rhes, ARHI, RERG, Rin/Rit, RSR1, RRP22, Ras2, Ras-dva, and RGK proteins. Ras proteins regulate cell growth, proliferation and differentiation. Ras is activated by guanine nucleotide exchange factors (GEFs) that release GDP and allow GTP binding. Many RasGEFs have been identified. These are sequestered in the cytosol until activation by growth factors triggers recruitment to the plasma membrane or Golgi, where the GEF colocalizes with Ras. Active GTP-bound Ras interacts with several effector proteins: among the best characterized are the Raf kinases, phosphatidylinositol 3-kinase (PI3K), RalGEFs and NORE/MST1. Most Ras proteins contain a lipid modification site at the C-terminus, with a typical sequence motif CaaX, where a = an aliphatic amino acid and X = any amino acid. Lipid binding is essential for membrane attachment, a key feature of m

>KOG1191|consensus

Probab=97.83  E-value=4.1e-05  Score=65.56  Aligned_cols=95  Identities=13%  Similarity=0.080  Sum_probs=70.8

Q ss_pred             chhhhhhhhcccccccc-cchhhcccceEEeEeEEEeeeCCceeEeecCCcccc---------cHhHHhhhccccceEEE
Q psy9646         108 VLADKKLAKVKQYADID-NAPEEKARGITINVAHVEYATENRHYSHTDCPGHAD---------YIKNMITGTSQMDGAIL  177 (211)
Q Consensus       108 ~~~~~~~~~f~~~i~~~-~~~~e~~rg~tv~~~~~~~~~~~~~~~~iDtPG~~~---------~~~~~~~~~~~~d~~~~  177 (211)
                      +.|..+++++...+.-+ ..=.....|.|.+.--..++..+..+.++||.|..+         -+..+..++..||++++
T Consensus       275 GrPNvGKSSLlNaL~~~drsIVSpv~GTTRDaiea~v~~~G~~v~L~DTAGiRe~~~~~iE~~gI~rA~k~~~~advi~~  354 (531)
T KOG1191|consen  275 GRPNVGKSSLLNALSREDRSIVSPVPGTTRDAIEAQVTVNGVPVRLSDTAGIREESNDGIEALGIERARKRIERADVILL  354 (531)
T ss_pred             cCCCCCHHHHHHHHhcCCceEeCCCCCcchhhheeEeecCCeEEEEEeccccccccCChhHHHhHHHHHHHHhhcCEEEE
Confidence            33445566655444321 122233557788877778889999999999999876         24667888999999999


Q ss_pred             EEeccCCCCcchHHHHHHHHHcCCC
Q psy9646         178 VVAATDGAMPQTREHLLLAKQIGVT  202 (211)
Q Consensus       178 vvd~~~~~~~~~~~~~~~~~~~~~~  202 (211)
                      |+|+.++.+.++..+.+.+...+.-
T Consensus       355 vvda~~~~t~sd~~i~~~l~~~~~g  379 (531)
T KOG1191|consen  355 VVDAEESDTESDLKIARILETEGVG  379 (531)
T ss_pred             EecccccccccchHHHHHHHHhccc
Confidence            9999999999998888888876654

>cd04138 H_N_K_Ras_like H-Ras/N-Ras/K-Ras subfamily

Probab=97.83  E-value=3.9e-05  Score=56.44  Aligned_cols=63  Identities=17%  Similarity=0.058  Sum_probs=43.1

Q ss_pred             ceeEeecCCcccccHhHHhhhccccceEEEEEeccCCCCcch-HHHHHHHH----HcCCCeEEEEEeCC
Q psy9646         148 RHYSHTDCPGHADYIKNMITGTSQMDGAILVVAATDGAMPQT-REHLLLAK----QIGVTNIVVFINKF  211 (211)
Q Consensus       148 ~~~~~iDtPG~~~~~~~~~~~~~~~d~~~~vvd~~~~~~~~~-~~~~~~~~----~~~~~~~i~~inK~  211 (211)
                      ..+.+.||||+++|......-+..+|++++|+|..+...-+. ..++....    ..+.| ++++.||+
T Consensus        49 ~~~~i~Dt~G~~~~~~l~~~~~~~~~~~i~v~~~~~~~s~~~~~~~~~~i~~~~~~~~~p-iivv~nK~  116 (162)
T cd04138          49 CLLDILDTAGQEEYSAMRDQYMRTGEGFLCVFAINSRKSFEDIHTYREQIKRVKDSDDVP-MVLVGNKC  116 (162)
T ss_pred             EEEEEEECCCCcchHHHHHHHHhcCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCC-EEEEEECc
Confidence            456789999999987777777788999999999865332111 12222222    23567 88999995

H-Ras, N-Ras, and K-Ras4A/4B are the prototypical members of the Ras family. These isoforms generate distinct signal outputs despite interacting with a common set of activators and effectors, and are strongly associated with oncogenic progression in tumor initiation. Mutated versions of Ras that are insensitive to GAP stimulation (and are therefore constitutively active) are found in a significant fraction of human cancers. Many Ras guanine nucleotide exchange factors (GEFs) have been identified. They are sequestered in the cytosol until activation by growth factors triggers recruitment to the plasma membrane or Golgi, where the GEF colocalizes with Ras. Active (GTP-bound) Ras interacts with several effector proteins that stimulate a variety of diverse cytoplasmic signaling activities. Some are known to positively mediate the oncogenic properties of Ras, including Raf, phosphatidylinositol 3-kinase (PI3K), RalGEFs, and Tiam1.

>cd04109 Rab28 Rab28 subfamily

Probab=97.80  E-value=0.00012  Score=57.13  Aligned_cols=64  Identities=14%  Similarity=0.039  Sum_probs=43.5

Q ss_pred             ceeEeecCCcccccHhHHhhhccccceEEEEEeccCCCC-cchHHHHHHHHHc-----CCCeEEEEEeCC
Q psy9646         148 RHYSHTDCPGHADYIKNMITGTSQMDGAILVVAATDGAM-PQTREHLLLAKQI-----GVTNIVVFINKF  211 (211)
Q Consensus       148 ~~~~~iDtPG~~~~~~~~~~~~~~~d~~~~vvd~~~~~~-~~~~~~~~~~~~~-----~~~~~i~~inK~  211 (211)
                      ..+.+.||||++.|......-+..+|++++|+|...... .....+...+...     ..+++++|.||+
T Consensus        50 ~~~~i~Dt~G~~~~~~l~~~~~~~ad~iilV~D~t~~~s~~~~~~w~~~l~~~~~~~~~~~piilVgNK~  119 (215)
T cd04109          50 VTLQVWDIGGQSIGGKMLDKYIYGAHAVFLVYDVTNSQSFENLEDWYSMVRKVLKSSETQPLVVLVGNKT  119 (215)
T ss_pred             EEEEEEECCCcHHHHHHHHHHhhcCCEEEEEEECCCHHHHHHHHHHHHHHHHhccccCCCceEEEEEECc
Confidence            567899999998876666666789999999999865432 2222333444332     123478899995

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

>cd04144 Ras2 Ras2 subfamily

Probab=97.80  E-value=4.9e-05  Score=58.16  Aligned_cols=63  Identities=19%  Similarity=0.149  Sum_probs=45.3

Q ss_pred             ceeEeecCCcccccHhHHhhhccccceEEEEEeccCCCCcc-hHHHHHHHHH------cCCCeEEEEEeCC
Q psy9646         148 RHYSHTDCPGHADYIKNMITGTSQMDGAILVVAATDGAMPQ-TREHLLLAKQ------IGVTNIVVFINKF  211 (211)
Q Consensus       148 ~~~~~iDtPG~~~~~~~~~~~~~~~d~~~~vvd~~~~~~~~-~~~~~~~~~~------~~~~~~i~~inK~  211 (211)
                      ..+.+.||||+++|.......+..+|++++|.|......-. -..++..+..      .+.| +|++.||+
T Consensus        47 ~~l~i~Dt~G~~~~~~~~~~~~~~ad~~ilv~d~~~~~s~~~~~~~~~~i~~~~~~~~~~~p-iilvgNK~  116 (190)
T cd04144          47 CMLEVLDTAGQEEYTALRDQWIREGEGFILVYSITSRSTFERVERFREQIQRVKDESAADVP-IMIVGNKC  116 (190)
T ss_pred             EEEEEEECCCchhhHHHHHHHHHhCCEEEEEEECCCHHHHHHHHHHHHHHHHHhcccCCCCC-EEEEEECh
Confidence            45788999999998877777888999999999986543212 2334343432      2466 88899995

The Ras2 subfamily, found exclusively in fungi, was first identified in Ustilago maydis. In U. maydis, Ras2 is regulated by Sql2, a protein that is homologous to GEFs (guanine nucleotide exchange factors) of the CDC25 family. Ras2 has been shown to induce filamentous growth, but the signaling cascade through which Ras2 and Sql2 regulate cell morphology is not known. 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.

>cd01857 HSR1_MMR1 HSR1/MMR1

Probab=97.79  E-value=5.7e-05  Score=55.07  Aligned_cols=49  Identities=12%  Similarity=0.149  Sum_probs=42.0

Q ss_pred             HhHHhhhccccceEEEEEeccCCCCcchHHHHHHHHHc--CCCeEEEEEeCC
Q psy9646         162 IKNMITGTSQMDGAILVVAATDGAMPQTREHLLLAKQI--GVTNIVVFINKF  211 (211)
Q Consensus       162 ~~~~~~~~~~~d~~~~vvd~~~~~~~~~~~~~~~~~~~--~~~~~i~~inK~  211 (211)
                      .++++.++..+|++++|+|+.++...++..+.+.+...  +.| +++++||+
T Consensus         2 ~~~~~~~i~~aD~vl~ViD~~~p~~~~~~~l~~~l~~~~~~k~-~iivlNK~   52 (141)
T cd01857           2 WRQLWRVVERSDIVVQIVDARNPLLFRPPDLERYVKEVDPRKK-NILLLNKA   52 (141)
T ss_pred             HHHHHHHHhhCCEEEEEEEccCCcccCCHHHHHHHHhccCCCc-EEEEEech
Confidence            35788999999999999999998888888888888776  777 77899996

Human HSR1, is localized to the human MHC class I region and is highly homologous to a putative GTP-binding protein, MMR1 from mouse. These proteins represent a new subfamily of GTP-binding proteins that has only eukaryote members. This subfamily shows a circular permutation of the GTPase signature motifs so that the C-terminal strands 5, 6, and 7 (strand 6 contains the G4 box with sequence NKXD) are relocated to the N terminus.

>cd04155 Arl3 Arl3 subfamily

Probab=97.76  E-value=6.4e-05  Score=56.25  Aligned_cols=69  Identities=20%  Similarity=0.195  Sum_probs=47.5

Q ss_pred             EeeeCCceeEeecCCcccccHhHHhhhccccceEEEEEeccCCCC-cchHHHHHH----HHHcCCCeEEEEEeCC
Q psy9646         142 EYATENRHYSHTDCPGHADYIKNMITGTSQMDGAILVVAATDGAM-PQTREHLLL----AKQIGVTNIVVFINKF  211 (211)
Q Consensus       142 ~~~~~~~~~~~iDtPG~~~~~~~~~~~~~~~d~~~~vvd~~~~~~-~~~~~~~~~----~~~~~~~~~i~~inK~  211 (211)
                      .++..+..+.++||||+..+.......+..+|++++|+|+.+... ......+..    ....++| +++++||+
T Consensus        52 ~i~~~~~~~~~~D~~G~~~~~~~~~~~~~~~~~ii~v~D~~~~~~~~~~~~~~~~~~~~~~~~~~p-~ivv~nK~  125 (173)
T cd04155          52 TVQSDGFKLNVWDIGGQRAIRPYWRNYFENTDCLIYVIDSADKKRLEEAGAELVELLEEEKLAGVP-VLVFANKQ  125 (173)
T ss_pred             EEEECCEEEEEEECCCCHHHHHHHHHHhcCCCEEEEEEeCCCHHHHHHHHHHHHHHHhChhhcCCC-EEEEEECC
Confidence            344567789999999998887777777889999999999865321 111222211    2234677 77899995

Arl3 (Arf-like 3) is an Arf family protein that differs from most Arf family members in the N-terminal extension. In is inactive, GDP-bound form, the N-terminal extension forms an elongated loop that is hydrophobically anchored into the membrane surface; however, it has been proposed that this region might form a helix in the GTP-bound form. The delta subunit of the rod-specific cyclic GMP phosphodiesterase type 6 (PDEdelta) is an Arl3 effector. Arl3 binds microtubules in a regulated manner to alter specific aspects of cytokinesis via interactions with retinitis pigmentosa 2 (RP2). It has been proposed that RP2 functions in concert with Arl3 to link the cell membrane and the cytoskeleton in photoreceptors as part of the cell signaling or vesicular transport machinery. In mice, the absence of Arl3 is associated with abnormal epithelial cell proliferation and cyst formation.

>cd01871 Rac1_like Rac1-like subfamily

Probab=97.76  E-value=9.4e-05  Score=55.86  Aligned_cols=64  Identities=14%  Similarity=0.102  Sum_probs=45.1

Q ss_pred             CceeEeecCCcccccHhHHhhhccccceEEEEEeccCCCCcch--HHHHHHHHH--cCCCeEEEEEeCC
Q psy9646         147 NRHYSHTDCPGHADYIKNMITGTSQMDGAILVVAATDGAMPQT--REHLLLAKQ--IGVTNIVVFINKF  211 (211)
Q Consensus       147 ~~~~~~iDtPG~~~~~~~~~~~~~~~d~~~~vvd~~~~~~~~~--~~~~~~~~~--~~~~~~i~~inK~  211 (211)
                      ..++.+.||||+++|.......+..+|++++|.|......-+.  ..++..+..  .++| +|++.||+
T Consensus        48 ~~~l~i~Dt~G~~~~~~~~~~~~~~~d~~ilv~d~~~~~sf~~~~~~~~~~~~~~~~~~p-iilvgnK~  115 (174)
T cd01871          48 PVNLGLWDTAGQEDYDRLRPLSYPQTDVFLICFSLVSPASFENVRAKWYPEVRHHCPNTP-IILVGTKL  115 (174)
T ss_pred             EEEEEEEECCCchhhhhhhhhhcCCCCEEEEEEECCCHHHHHHHHHHHHHHHHHhCCCCC-EEEEeeCh
Confidence            3567899999999887766677889999999999976432222  123333332  2466 88999995

The Rac1-like subfamily consists of Rac1, Rac2, and Rac3 proteins, plus the splice variant Rac1b that contains a 19-residue insertion near switch II relative to Rac1. While Rac1 is ubiquitously expressed, Rac2 and Rac3 are largely restricted to hematopoietic and neural tissues respectively. Rac1 stimulates the formation of actin lamellipodia and membrane ruffles. It also plays a role in cell-matrix adhesion and cell anoikis. In intestinal epithelial cells, Rac1 is an important regulator of migration and mediates apoptosis. Rac1 is also essential for RhoA-regulated actin stress fiber and focal adhesion complex formation. In leukocytes, Rac1 and Rac2 have distinct roles in regulating cell morphology, migration, and invasion, but are not essential for macrophage migration or chemotaxis. Rac3 has biochemical properties that are closely related to Rac1, such as effector interaction, nucleotide binding, and hydrolysis; Rac2 has a slower nucleoti

>cd04125 RabA_like RabA-like subfamily

Probab=97.75  E-value=0.00011  Score=56.03  Aligned_cols=63  Identities=17%  Similarity=0.089  Sum_probs=44.2

Q ss_pred             ceeEeecCCcccccHhHHhhhccccceEEEEEeccCCCC-cchHHHHHHHHHc---CCCeEEEEEeCC
Q psy9646         148 RHYSHTDCPGHADYIKNMITGTSQMDGAILVVAATDGAM-PQTREHLLLAKQI---GVTNIVVFINKF  211 (211)
Q Consensus       148 ~~~~~iDtPG~~~~~~~~~~~~~~~d~~~~vvd~~~~~~-~~~~~~~~~~~~~---~~~~~i~~inK~  211 (211)
                      ..+.+.||||+.+|......-+..+|++++|+|...... ..-..++..+...   ..| ++++.||+
T Consensus        49 ~~~~i~Dt~g~~~~~~~~~~~~~~~d~iilv~d~~~~~s~~~i~~~~~~i~~~~~~~~~-~ivv~nK~  115 (188)
T cd04125          49 IKLQIWDTNGQERFRSLNNSYYRGAHGYLLVYDVTDQESFENLKFWINEINRYARENVI-KVIVANKS  115 (188)
T ss_pred             EEEEEEECCCcHHHHhhHHHHccCCCEEEEEEECcCHHHHHHHHHHHHHHHHhCCCCCe-EEEEEECC
Confidence            456789999999888777788899999999999875432 1112233333332   345 78899995

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.

>cd04126 Rab20 Rab20 subfamily

Probab=97.75  E-value=0.00012  Score=57.56  Aligned_cols=67  Identities=13%  Similarity=0.024  Sum_probs=46.3

Q ss_pred             eeCCceeEeecCCcccccHhHHhhhccccceEEEEEeccCCCCcch-HHHHHHHHH---cCCCeEEEEEeCC
Q psy9646         144 ATENRHYSHTDCPGHADYIKNMITGTSQMDGAILVVAATDGAMPQT-REHLLLAKQ---IGVTNIVVFINKF  211 (211)
Q Consensus       144 ~~~~~~~~~iDtPG~~~~~~~~~~~~~~~d~~~~vvd~~~~~~~~~-~~~~~~~~~---~~~~~~i~~inK~  211 (211)
                      ......+.+.||||++.|......-+..+|++++|.|..+...-.. ...+..+..   .++| +|+|.||+
T Consensus        40 ~~~~~~l~iwDt~G~e~~~~l~~~~~~~ad~~IlV~Dvt~~~Sf~~l~~~~~~l~~~~~~~~p-iIlVgNK~  110 (220)
T cd04126          40 QWGPYNISIWDTAGREQFHGLGSMYCRGAAAVILTYDVSNVQSLEELEDRFLGLTDTANEDCL-FAVVGNKL  110 (220)
T ss_pred             EeeEEEEEEEeCCCcccchhhHHHHhccCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCc-EEEEEECc
Confidence            3455678999999999887666666789999999999876533222 222332322   2456 88999995

Rab20 is one of several Rab proteins that appear to be restricted in expression to the apical domain of murine polarized epithelial cells. It is expressed on the apical side of polarized kidney tubule and intestinal epithelial cells, and in non-polarized cells. It also localizes to vesico-tubular structures below the apical brush border of renal proximal tubule cells and in the apical region of duodenal epithelial cells. Rab20 has also been shown to colocalize with vacuolar H+-ATPases (V-ATPases) in mouse kidney cells, suggesting a role in the regulation of V-ATPase traffic in specific portions of the nephron. It was also shown to be one of several proteins whose expression is upregulated in human myelodysplastic syndrome (MDS) patients. 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-bo

>PLN03071 GTP-binding nuclear protein Ran; Provisional

Probab=97.74  E-value=0.00014  Score=57.13  Aligned_cols=64  Identities=14%  Similarity=-0.010  Sum_probs=44.4

Q ss_pred             CceeEeecCCcccccHhHHhhhccccceEEEEEeccCCCCcch-HHHHHHHHH--cCCCeEEEEEeCC
Q psy9646         147 NRHYSHTDCPGHADYIKNMITGTSQMDGAILVVAATDGAMPQT-REHLLLAKQ--IGVTNIVVFINKF  211 (211)
Q Consensus       147 ~~~~~~iDtPG~~~~~~~~~~~~~~~d~~~~vvd~~~~~~~~~-~~~~~~~~~--~~~~~~i~~inK~  211 (211)
                      ...+.+.||||++.|......-...+|++|+|.|......-+. ..++..+..  .++| +++|.||+
T Consensus        61 ~~~l~i~Dt~G~~~~~~~~~~~~~~~~~~ilvfD~~~~~s~~~i~~w~~~i~~~~~~~p-iilvgNK~  127 (219)
T PLN03071         61 KIRFYCWDTAGQEKFGGLRDGYYIHGQCAIIMFDVTARLTYKNVPTWHRDLCRVCENIP-IVLCGNKV  127 (219)
T ss_pred             EEEEEEEECCCchhhhhhhHHHcccccEEEEEEeCCCHHHHHHHHHHHHHHHHhCCCCc-EEEEEEch
Confidence            3578899999999886555555789999999999876543222 223333322  3567 88999995

>cd04177 RSR1 RSR1 subgroup

Probab=97.73  E-value=5.8e-05  Score=56.37  Aligned_cols=63  Identities=19%  Similarity=0.062  Sum_probs=43.8

Q ss_pred             ceeEeecCCcccccHhHHhhhccccceEEEEEeccCCCCcc-hHHHHHHHH----HcCCCeEEEEEeCC
Q psy9646         148 RHYSHTDCPGHADYIKNMITGTSQMDGAILVVAATDGAMPQ-TREHLLLAK----QIGVTNIVVFINKF  211 (211)
Q Consensus       148 ~~~~~iDtPG~~~~~~~~~~~~~~~d~~~~vvd~~~~~~~~-~~~~~~~~~----~~~~~~~i~~inK~  211 (211)
                      ..+.++||||+.+|.......+..+|++++|+|......-+ ...+.....    ..+.| ++++.||+
T Consensus        49 ~~~~i~Dt~G~~~~~~~~~~~~~~~~~~vlv~~~~~~~s~~~~~~~~~~i~~~~~~~~~p-iiiv~nK~  116 (168)
T cd04177          49 CDLEILDTAGTEQFTAMRELYIKSGQGFLLVYSVTSEASLNELGELREQVLRIKDSDNVP-MVLVGNKA  116 (168)
T ss_pred             EEEEEEeCCCcccchhhhHHHHhhCCEEEEEEECCCHHHHHHHHHHHHHHHHhhCCCCCC-EEEEEECh
Confidence            45678999999999877777788899999999986543211 122222222    24677 77899995

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

>cd01892 Miro2 Miro2 subfamily

Probab=97.73  E-value=0.00014  Score=54.53  Aligned_cols=63  Identities=13%  Similarity=-0.108  Sum_probs=42.4

Q ss_pred             ceeEeecCCcccccHhHHhhhccccceEEEEEeccCCCCc-chHHHHHHHHH-cCCCeEEEEEeCC
Q psy9646         148 RHYSHTDCPGHADYIKNMITGTSQMDGAILVVAATDGAMP-QTREHLLLAKQ-IGVTNIVVFINKF  211 (211)
Q Consensus       148 ~~~~~iDtPG~~~~~~~~~~~~~~~d~~~~vvd~~~~~~~-~~~~~~~~~~~-~~~~~~i~~inK~  211 (211)
                      ..+.+.|++|...+.......+..+|++++|+|+.+...- ...++++.+.. .++| +++++||+
T Consensus        54 ~~l~~~d~~g~~~~~~~~~~~~~~~d~~llv~d~~~~~s~~~~~~~~~~~~~~~~~p-~iiv~NK~  118 (169)
T cd01892          54 KYLILREVGEDEVAILLNDAELAACDVACLVYDSSDPKSFSYCAEVYKKYFMLGEIP-CLFVAAKA  118 (169)
T ss_pred             EEEEEEecCCcccccccchhhhhcCCEEEEEEeCCCHHHHHHHHHHHHHhccCCCCe-EEEEEEcc
Confidence            4577889999988866555567899999999998654211 11133333322 2566 88999995

Miro (mitochondrial Rho) proteins have tandem GTP-binding domains separated by a linker region containing putative calcium-binding EF hand motifs. Genes encoding Miro-like proteins were found in several eukaryotic organisms. This CD represents the putative GTPase domain in the C terminus of Miro proteins. These atypical Rho GTPases have roles in mitochondrial homeostasis and apoptosis. Most Rho proteins contain a lipid modification site at the C-terminus; however, Miro is one of few Rho subfamilies that lack this feature.

>cd04111 Rab39 Rab39 subfamily

Probab=97.73  E-value=8.1e-05  Score=58.08  Aligned_cols=64  Identities=14%  Similarity=0.087  Sum_probs=43.2

Q ss_pred             ceeEeecCCcccccHhHHhhhccccceEEEEEeccCCCC-cchHHHHHHHHHc---CCCeEEEEEeCC
Q psy9646         148 RHYSHTDCPGHADYIKNMITGTSQMDGAILVVAATDGAM-PQTREHLLLAKQI---GVTNIVVFINKF  211 (211)
Q Consensus       148 ~~~~~iDtPG~~~~~~~~~~~~~~~d~~~~vvd~~~~~~-~~~~~~~~~~~~~---~~~~~i~~inK~  211 (211)
                      ..+.+.||||++.|......-+..+|++++|.|..+... ..-..++......   ..++++++.||+
T Consensus        52 ~~l~i~Dt~G~~~~~~~~~~~~~~~d~iilv~D~~~~~Sf~~l~~~~~~i~~~~~~~~~~iilvgNK~  119 (211)
T cd04111          52 IKLQLWDTAGQERFRSITRSYYRNSVGVLLVFDITNRESFEHVHDWLEEARSHIQPHRPVFILVGHKC  119 (211)
T ss_pred             EEEEEEeCCcchhHHHHHHHHhcCCcEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCeEEEEEEcc
Confidence            468899999999887777777889999999999875432 1112233333221   223377889995

Found in eukaryotes, Rab39 is mainly found in epithelial cell lines, but is distributed widely in various human tissues and cell lines. It is believed to be a novel Rab protein involved in regulating Golgi-associated vesicular transport during cellular endocytosis. 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.

>cd04130 Wrch_1 Wrch-1 subfamily

Probab=97.72  E-value=0.00012  Score=54.93  Aligned_cols=63  Identities=11%  Similarity=0.078  Sum_probs=45.1

Q ss_pred             ceeEeecCCcccccHhHHhhhccccceEEEEEeccCCCCcc--hHHHHHHHHH--cCCCeEEEEEeCC
Q psy9646         148 RHYSHTDCPGHADYIKNMITGTSQMDGAILVVAATDGAMPQ--TREHLLLAKQ--IGVTNIVVFINKF  211 (211)
Q Consensus       148 ~~~~~iDtPG~~~~~~~~~~~~~~~d~~~~vvd~~~~~~~~--~~~~~~~~~~--~~~~~~i~~inK~  211 (211)
                      .++.+.||||+.+|.......++.+|++++|.|..+...-+  ...++..+..  .+.| ++++.||+
T Consensus        48 ~~~~i~Dt~G~~~~~~~~~~~~~~a~~~i~v~d~~~~~sf~~~~~~~~~~~~~~~~~~p-iilv~nK~  114 (173)
T cd04130          48 VRLQLCDTAGQDEFDKLRPLCYPDTDVFLLCFSVVNPSSFQNISEKWIPEIRKHNPKAP-IILVGTQA  114 (173)
T ss_pred             EEEEEEECCCChhhccccccccCCCcEEEEEEECCCHHHHHHHHHHHHHHHHhhCCCCC-EEEEeeCh
Confidence            46788999999988776666788999999999987554222  2234444433  3566 88999995

Wrch-1 (Wnt-1 responsive Cdc42 homolog) is a Rho family GTPase that shares significant sequence and functional similarity with Cdc42. Wrch-1 was first identified in mouse mammary epithelial cells, where its transcription is upregulated in Wnt-1 transformation. Wrch-1 contains N- and C-terminal extensions relative to cdc42, suggesting potential differences in cellular localization and function. The Wrch-1 N-terminal extension contains putative SH3 domain-binding motifs and has been shown to bind the SH3 domain-containing protein Grb2, which increases the level of active Wrch-1 in cells. Unlike Cdc42, which localizes to the cytosol and perinuclear membranes, Wrch-1 localizes extensively with the plasma membrane and endosomes. The membrane association, localization, and biological activity of Wrch-1 indicate an atypical model of regulation distinct from other Rho family GTPases. Most Rho proteins contain a lipid modification site at the C-terminus,

>cd04135 Tc10 TC10 subfamily

Probab=97.71  E-value=0.0001  Score=55.19  Aligned_cols=63  Identities=16%  Similarity=0.078  Sum_probs=43.6

Q ss_pred             ceeEeecCCcccccHhHHhhhccccceEEEEEeccCCCCcchH--HHHHHHH--HcCCCeEEEEEeCC
Q psy9646         148 RHYSHTDCPGHADYIKNMITGTSQMDGAILVVAATDGAMPQTR--EHLLLAK--QIGVTNIVVFINKF  211 (211)
Q Consensus       148 ~~~~~iDtPG~~~~~~~~~~~~~~~d~~~~vvd~~~~~~~~~~--~~~~~~~--~~~~~~~i~~inK~  211 (211)
                      ..+.++||||+.+|.......+..+|+++++.|..+.-.-+..  .+...+.  ..+.| ++++.||+
T Consensus        48 ~~~~i~Dt~G~~~~~~~~~~~~~~~~~~ilv~~~~~~~s~~~~~~~~~~~l~~~~~~~p-iivv~nK~  114 (174)
T cd04135          48 YLLGLYDTAGQEDYDRLRPLSYPMTDVFLICFSVVNPASFQNVKEEWVPELKEYAPNVP-YLLVGTQI  114 (174)
T ss_pred             EEEEEEeCCCcccccccccccCCCCCEEEEEEECCCHHHHHHHHHHHHHHHHhhCCCCC-EEEEeEch
Confidence            4577899999998876666677899999999998655332211  2233332  24677 78899995

TC10 is a Rho family protein that has been shown to induce microspike formation and neurite outgrowth in vitro. Its expression changes dramatically after peripheral nerve injury, suggesting an important role in promoting axonal outgrowth and regeneration. TC10 regulates translocation of insulin-stimulated GLUT4 in adipocytes and has also been shown to bind directly to Golgi COPI coat proteins. GTP-bound TC10 in vitro can bind numerous potential effectors. Depending on its subcellular localization and distinct functional domains, TC10 can differentially regulate two types of filamentous actin in adipocytes. TC10 mRNAs are highly expressed in three types of mouse muscle tissues: leg skeletal muscle, cardiac muscle, and uterus; they were also present in brain, with higher levels in adults than in newborns. TC10 has also been shown to play a role in regulating the expression of cystic fibrosis transmembrane conductance regulator (CFTR) through interacti

>cd04143 Rhes_like Rhes_like subfamily

Probab=97.70  E-value=0.00012  Score=58.59  Aligned_cols=63  Identities=14%  Similarity=0.053  Sum_probs=42.9

Q ss_pred             ceeEeecCCcccccHhHHhhhccccceEEEEEeccCCCC-cchHHHHHHHHH------------cCCCeEEEEEeCC
Q psy9646         148 RHYSHTDCPGHADYIKNMITGTSQMDGAILVVAATDGAM-PQTREHLLLAKQ------------IGVTNIVVFINKF  211 (211)
Q Consensus       148 ~~~~~iDtPG~~~~~~~~~~~~~~~d~~~~vvd~~~~~~-~~~~~~~~~~~~------------~~~~~~i~~inK~  211 (211)
                      .++.+.||+|+++|.......+..+|++++|.|...... .....+++.+..            .++| +|++.||+
T Consensus        48 ~~l~I~Dt~G~~~~~~~~~~~~~~ad~iIlVfdv~~~~Sf~~i~~~~~~I~~~k~~~~~~~~~~~~~p-iIivgNK~  123 (247)
T cd04143          48 YQLDILDTSGNHPFPAMRRLSILTGDVFILVFSLDNRESFEEVCRLREQILETKSCLKNKTKENVKIP-MVICGNKA  123 (247)
T ss_pred             EEEEEEECCCChhhhHHHHHHhccCCEEEEEEeCCCHHHHHHHHHHHHHHHHhhcccccccccCCCCc-EEEEEECc
Confidence            567899999999886555556788999999999875432 111223333322            2466 88999996

This subfamily includes Rhes (Ras homolog enriched in striatum) and Dexras1/AGS1 (activator of G-protein signaling 1). These proteins are homologous, but exhibit significant differences in tissue distribution and subcellular localization. Rhes is found primarily in the striatum of the brain, but is also expressed in other areas of the brain, such as the cerebral cortex, hippocampus, inferior colliculus, and cerebellum. Rhes expression is controlled by thyroid hormones. In rat PC12 cells, Rhes is farnesylated and localizes to the plasma membrane. Rhes binds and activates PI3K, and plays a role in coupling serpentine membrane receptors with heterotrimeric G-protein signaling. Rhes has recently been shown to be reduced under conditions of dopamine supersensitivity and may play a role in determining dopamine receptor sensitivity. Dexras1/AGS1 is a dexamethasone-induced Ras protein that is expressed primarily in the brain, with low expression l

>KOG0466|consensus

Probab=97.69  E-value=1.3e-05  Score=64.84  Aligned_cols=89  Identities=26%  Similarity=0.333  Sum_probs=72.3

Q ss_pred             HHHHHhhhCCCCCCCCCCCeeEEEeeEEeecC--------CcEEEEEEEEEEEEecCCEEEEeecCc------ee-----
Q psy9646           3 LLNQIDTYIPQPVRDLDKPFYLPVEHTYSIPG--------RGTVVTGRLERGIVKKGMECEFTGYGR------QF-----   63 (211)
Q Consensus         3 ll~~l~~~i~~p~~~~~~p~~~~v~~~~~~~~--------~G~v~~G~v~~G~i~~g~~v~i~p~~~------~~-----   63 (211)
                      +.|+|.+.+|.|.|+...|.||-|-+.|.++.        .|-+..|.+..|.+++|+.+.+.|.--      ..     
T Consensus       232 v~eyivkkIPvPvRdf~s~prlIVIRSFDVNkPG~ev~~lkGgvaggsil~Gvlkvg~~IEiRPGiv~kd~~g~~~C~Pi  311 (466)
T KOG0466|consen  232 VCEYIVKKIPVPVRDFTSPPRLIVIRSFDVNKPGSEVDDLKGGVAGGSILKGVLKVGQEIEIRPGIVTKDENGNIKCRPI  311 (466)
T ss_pred             HHHHHHhcCCCCccccCCCCcEEEEEeeccCCCCchhhcccCccccchhhhhhhhcCcEEEecCceeeecCCCcEEEeeH
Confidence            57889999999999999999999999999875        455889999999999999999998631      01     


Q ss_pred             eEEEEEEEecceecceecccCceehhcc
Q psy9646          64 KTTVTGIEMFHKILDEAQAGDQLGALVK   91 (211)
Q Consensus        64 ~~~v~~i~~~~~~~~~a~~G~~v~~~l~   91 (211)
                      -.+|.|+...+.+++.|.+|..+++-.+
T Consensus       312 ~SrI~sL~AE~n~L~~AvPGGLIGVGT~  339 (466)
T KOG0466|consen  312 FSRIVSLFAEQNDLQFAVPGGLIGVGTK  339 (466)
T ss_pred             HHHHHHHHhhhccceeecCCceeeeccc
Confidence            1245555566678899999999998554

>cd01870 RhoA_like RhoA-like subfamily

Probab=97.62  E-value=0.00014  Score=54.55  Aligned_cols=64  Identities=16%  Similarity=0.111  Sum_probs=42.6

Q ss_pred             CceeEeecCCcccccHhHHhhhccccceEEEEEeccCCCC-cch-HHHHHHHHH--cCCCeEEEEEeCC
Q psy9646         147 NRHYSHTDCPGHADYIKNMITGTSQMDGAILVVAATDGAM-PQT-REHLLLAKQ--IGVTNIVVFINKF  211 (211)
Q Consensus       147 ~~~~~~iDtPG~~~~~~~~~~~~~~~d~~~~vvd~~~~~~-~~~-~~~~~~~~~--~~~~~~i~~inK~  211 (211)
                      ..++.+.||||++++.......+..+|+++++.|...... ..- ..+...+..  .+.| ++++.||+
T Consensus        48 ~~~l~i~Dt~G~~~~~~~~~~~~~~~d~~i~v~~~~~~~s~~~~~~~~~~~~~~~~~~~p-iilv~nK~  115 (175)
T cd01870          48 QVELALWDTAGQEDYDRLRPLSYPDTDVILMCFSIDSPDSLENIPEKWTPEVKHFCPNVP-IILVGNKK  115 (175)
T ss_pred             EEEEEEEeCCCchhhhhccccccCCCCEEEEEEECCCHHHHHHHHHHHHHHHHhhCCCCC-EEEEeeCh
Confidence            3467899999999887665567789999999988764321 111 112222222  3667 88999995

The RhoA subfamily consists of RhoA, RhoB, and RhoC. RhoA promotes the formation of stress fibers and focal adhesions, regulating cell shape, attachment, and motility. RhoA can bind to multiple effector proteins, thereby triggering different downstream responses. In many cell types, RhoA mediates local assembly of the contractile ring, which is necessary for cytokinesis. RhoA is vital for muscle contraction; in vascular smooth muscle cells, RhoA plays a key role in cell contraction, differentiation, migration, and proliferation. RhoA activities appear to be elaborately regulated in a time- and space-dependent manner to control cytoskeletal changes. Most Rho 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 Rho proteins. RhoA and RhoC are observed only in geranyl

>PLN03108 Rab family protein; Provisional

Probab=97.59  E-value=0.00036  Score=54.33  Aligned_cols=63  Identities=22%  Similarity=0.143  Sum_probs=43.7

Q ss_pred             ceeEeecCCcccccHhHHhhhccccceEEEEEeccCCCCcc-hHHHHHHHHH---cCCCeEEEEEeCC
Q psy9646         148 RHYSHTDCPGHADYIKNMITGTSQMDGAILVVAATDGAMPQ-TREHLLLAKQ---IGVTNIVVFINKF  211 (211)
Q Consensus       148 ~~~~~iDtPG~~~~~~~~~~~~~~~d~~~~vvd~~~~~~~~-~~~~~~~~~~---~~~~~~i~~inK~  211 (211)
                      ..+.+.||||++.|......-+..+|++++|.|......-+ ...++..+..   .+.| ++++.||+
T Consensus        55 i~l~l~Dt~G~~~~~~~~~~~~~~ad~~vlv~D~~~~~s~~~l~~~~~~~~~~~~~~~p-iiiv~nK~  121 (210)
T PLN03108         55 IKLQIWDTAGQESFRSITRSYYRGAAGALLVYDITRRETFNHLASWLEDARQHANANMT-IMLIGNKC  121 (210)
T ss_pred             EEEEEEeCCCcHHHHHHHHHHhccCCEEEEEEECCcHHHHHHHHHHHHHHHHhcCCCCc-EEEEEECc
Confidence            35778999999988777777778999999999986543222 1223332322   2466 88999995

>cd04148 RGK RGK subfamily

Probab=97.57  E-value=0.00025  Score=55.75  Aligned_cols=63  Identities=17%  Similarity=0.150  Sum_probs=41.8

Q ss_pred             CCceeEeecCCcccccHhHHhhhcc-ccceEEEEEeccCCCC-cchHHHHHHHHH----cCCCeEEEEEeCC
Q psy9646         146 ENRHYSHTDCPGHADYIKNMITGTS-QMDGAILVVAATDGAM-PQTREHLLLAKQ----IGVTNIVVFINKF  211 (211)
Q Consensus       146 ~~~~~~~iDtPG~~~~~~~~~~~~~-~~d~~~~vvd~~~~~~-~~~~~~~~~~~~----~~~~~~i~~inK~  211 (211)
                      ....+.++||||++.+...  ..+. .+|++++|+|+.+... .....++..+..    .++| +|+|.||+
T Consensus        48 ~~~~l~i~Dt~G~~~~~~~--~~~~~~ad~iilV~d~td~~S~~~~~~~~~~l~~~~~~~~~p-iilV~NK~  116 (221)
T cd04148          48 EESTLVVIDHWEQEMWTED--SCMQYQGDAFVVVYSVTDRSSFERASELRIQLRRNRQLEDRP-IILVGNKS  116 (221)
T ss_pred             EEEEEEEEeCCCcchHHHh--HHhhcCCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCC-EEEEEECh
Confidence            4467889999999844333  2344 8999999999876532 112334444433    3567 88999995

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

>PF08477 Miro: Miro-like protein; InterPro: IPR013684 Mitochondrial Rho proteins (Miro-1, Q8IXI2 from SWISSPROT and Miro-2, Q8IXI1 from SWISSPROT) are atypical Rho GTPases

Probab=97.56  E-value=4.1e-05  Score=53.75  Aligned_cols=71  Identities=17%  Similarity=0.153  Sum_probs=45.1

Q ss_pred             EEEeeeCCceeEeecCCcccccHhHHhhhccccceEEEEEeccCCCC-cchHHHHHHHHH-----cCCCeEEEEEeCC
Q psy9646         140 HVEYATENRHYSHTDCPGHADYIKNMITGTSQMDGAILVVAATDGAM-PQTREHLLLAKQ-----IGVTNIVVFINKF  211 (211)
Q Consensus       140 ~~~~~~~~~~~~~iDtPG~~~~~~~~~~~~~~~d~~~~vvd~~~~~~-~~~~~~~~~~~~-----~~~~~~i~~inK~  211 (211)
                      ..........+.|.|++|...+.......+..+|++++|.|..+... ....++++.+..     ..+| +|++.||.
T Consensus        42 ~~~~~~~~~~~~~~d~~g~~~~~~~~~~~~~~~d~~ilv~D~s~~~s~~~~~~~~~~l~~~~~~~~~~p-iilv~nK~  118 (119)
T PF08477_consen   42 VIVVDGDRQSLQFWDFGGQEEFYSQHQFFLKKADAVILVYDLSDPESLEYLSQLLKWLKNIRKRDKNIP-IILVGNKS  118 (119)
T ss_dssp             EEEETTEEEEEEEEEESSSHCHHCTSHHHHHHSCEEEEEEECCGHHHHHHHHHHHHHHHHHHHHSSCSE-EEEEEE-T
T ss_pred             EEEecCCceEEEEEecCccceecccccchhhcCcEEEEEEcCCChHHHHHHHHHHHHHHHHHccCCCCC-EEEEEecc
Confidence            33333344458899999998877654445899999999999876542 222223222322     2477 88999995

They have a unique domain organisation, with tandem GTP-binding domains and two EF hand domains (IPR002048 from INTERPRO), that may bind calcium. They are also larger than classical small GTPases. It has been proposed that they are involved in mitochondrial homeostasis and apoptosis []. ; GO: 0005525 GTP binding, 0007264 small GTPase mediated signal transduction, 0005622 intracellular; PDB: 2IWR_A 2BMJ_A 3IHW_A 2ZEJ_A 3D6T_B 3DPU_A.

>cd04128 Spg1 Spg1p

Probab=97.54  E-value=0.00049  Score=52.39  Aligned_cols=63  Identities=13%  Similarity=0.167  Sum_probs=43.1

Q ss_pred             ceeEeecCCcccccHhHHhhhccccceEEEEEeccCCCCcch-HHHHHHHHHc--CCCeEEEEEeCC
Q psy9646         148 RHYSHTDCPGHADYIKNMITGTSQMDGAILVVAATDGAMPQT-REHLLLAKQI--GVTNIVVFINKF  211 (211)
Q Consensus       148 ~~~~~iDtPG~~~~~~~~~~~~~~~d~~~~vvd~~~~~~~~~-~~~~~~~~~~--~~~~~i~~inK~  211 (211)
                      ..+.+.||+|++.|.......+..+|++++|+|..+...-+. .+++..+...  ..++ |++.||+
T Consensus        49 ~~l~iwDt~G~~~~~~~~~~~~~~a~~iilv~D~t~~~s~~~i~~~~~~~~~~~~~~~p-ilVgnK~  114 (182)
T cd04128          49 ITFSIWDLGGQREFINMLPLVCNDAVAILFMFDLTRKSTLNSIKEWYRQARGFNKTAIP-ILVGTKY  114 (182)
T ss_pred             EEEEEEeCCCchhHHHhhHHHCcCCCEEEEEEECcCHHHHHHHHHHHHHHHHhCCCCCE-EEEEEch
Confidence            457889999999987766677889999999999866533222 2344444332  2232 4789995

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

>PRK13768 GTPase; Provisional

Probab=97.52  E-value=0.00018  Score=57.81  Aligned_cols=63  Identities=21%  Similarity=0.352  Sum_probs=43.6

Q ss_pred             ceeEeecCCccccc------HhHHhhhccc--cceEEEEEeccCCCCcchHHHHHHHH-----HcCCCeEEEEEeCC
Q psy9646         148 RHYSHTDCPGHADY------IKNMITGTSQ--MDGAILVVAATDGAMPQTREHLLLAK-----QIGVTNIVVFINKF  211 (211)
Q Consensus       148 ~~~~~iDtPG~~~~------~~~~~~~~~~--~d~~~~vvd~~~~~~~~~~~~~~~~~-----~~~~~~~i~~inK~  211 (211)
                      ..++++||||+.++      .......+..  ++++++|+|+..+..+.+.....++.     ..+.| +++++||+
T Consensus        97 ~~~~~~d~~g~~~~~~~~~~~~~~~~~l~~~~~~~ii~liD~~~~~~~~d~~~~~~l~~~~~~~~~~~-~i~v~nK~  172 (253)
T PRK13768         97 ADYVLVDTPGQMELFAFRESGRKLVERLSGSSKSVVVFLIDAVLAKTPSDFVSLLLLALSVQLRLGLP-QIPVLNKA  172 (253)
T ss_pred             CCEEEEeCCcHHHHHhhhHHHHHHHHHHHhcCCeEEEEEechHHhCCHHHHHHHHHHHHHHHHHcCCC-EEEEEEhH
Confidence            36899999997653      2223333333  89999999998877766655444332     56888 67899995

>cd04133 Rop_like Rop subfamily

Probab=97.50  E-value=0.00036  Score=52.93  Aligned_cols=64  Identities=17%  Similarity=0.143  Sum_probs=46.7

Q ss_pred             CceeEeecCCcccccHhHHhhhccccceEEEEEeccCCCCcch--HHHHHHHHH--cCCCeEEEEEeCC
Q psy9646         147 NRHYSHTDCPGHADYIKNMITGTSQMDGAILVVAATDGAMPQT--REHLLLAKQ--IGVTNIVVFINKF  211 (211)
Q Consensus       147 ~~~~~~iDtPG~~~~~~~~~~~~~~~d~~~~vvd~~~~~~~~~--~~~~~~~~~--~~~~~~i~~inK~  211 (211)
                      ..++.+.||+|++.|.......+..+|++++|.|......-+.  +.++..++.  .++| +|+|.||+
T Consensus        48 ~v~l~i~Dt~G~~~~~~~~~~~~~~a~~~ilvyd~~~~~Sf~~~~~~w~~~i~~~~~~~p-iilvgnK~  115 (176)
T cd04133          48 TVNLGLWDTAGQEDYNRLRPLSYRGADVFVLAFSLISRASYENVLKKWVPELRHYAPNVP-IVLVGTKL  115 (176)
T ss_pred             EEEEEEEECCCCccccccchhhcCCCcEEEEEEEcCCHHHHHHHHHHHHHHHHHhCCCCC-EEEEEeCh
Confidence            3567899999999998777778899999999999875543222  234444443  3566 88999995

The Rop (Rho-related protein from plants) subfamily plays a role in diverse cellular processes, including cytoskeletal organization, pollen and vegetative cell growth, hormone responses, stress responses, and pathogen resistance. Rops are able to regulate several downstream pathways to amplify a specific signal by acting as master switches early in the signaling cascade. They transmit a variety of extracellular and intracellular signals. Rops are involved in establishing cell polarity in root-hair development, root-hair elongation, pollen-tube growth, cell-shape formation, responses to hormones such as abscisic acid (ABA) and auxin, responses to abiotic stresses such as oxygen deprivation, and disease resistance and disease susceptibility. An individual Rop can have a unique function or an overlapping function shared with other Rop proteins; in addition, a given Rop-regulated function can be controlled by one or multiple Rop proteins. For example,

>cd04117 Rab15 Rab15 subfamily

Probab=97.48  E-value=0.00078  Score=49.98  Aligned_cols=63  Identities=16%  Similarity=0.119  Sum_probs=43.4

Q ss_pred             ceeEeecCCcccccHhHHhhhccccceEEEEEeccCCCC-cchHHHHHHHHHc---CCCeEEEEEeCC
Q psy9646         148 RHYSHTDCPGHADYIKNMITGTSQMDGAILVVAATDGAM-PQTREHLLLAKQI---GVTNIVVFINKF  211 (211)
Q Consensus       148 ~~~~~iDtPG~~~~~~~~~~~~~~~d~~~~vvd~~~~~~-~~~~~~~~~~~~~---~~~~~i~~inK~  211 (211)
                      .++.+.||||...|..........+|++++|.|....-. .....++......   +.| ++++.||.
T Consensus        49 ~~l~i~D~~g~~~~~~~~~~~~~~~~~~i~v~d~~~~~sf~~~~~~~~~~~~~~~~~~~-iilvgnK~  115 (161)
T cd04117          49 VRIQIWDTAGQERYQTITKQYYRRAQGIFLVYDISSERSYQHIMKWVSDVDEYAPEGVQ-KILIGNKA  115 (161)
T ss_pred             EEEEEEeCCCcHhHHhhHHHHhcCCcEEEEEEECCCHHHHHHHHHHHHHHHHhCCCCCe-EEEEEECc
Confidence            457789999999887777777889999999999765422 1122233333232   355 78899995

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

>cd04134 Rho3 Rho3 subfamily

Probab=97.47  E-value=0.00028  Score=53.90  Aligned_cols=63  Identities=16%  Similarity=0.141  Sum_probs=43.0

Q ss_pred             ceeEeecCCcccccHhHHhhhccccceEEEEEeccCCCCcch--HHHHHHHHH--cCCCeEEEEEeCC
Q psy9646         148 RHYSHTDCPGHADYIKNMITGTSQMDGAILVVAATDGAMPQT--REHLLLAKQ--IGVTNIVVFINKF  211 (211)
Q Consensus       148 ~~~~~iDtPG~~~~~~~~~~~~~~~d~~~~vvd~~~~~~~~~--~~~~~~~~~--~~~~~~i~~inK~  211 (211)
                      ..+.+.||||++.|..........+|++++|.|......-+.  ..++..+..  .+.| +|+|.||+
T Consensus        48 ~~l~i~Dt~G~~~~~~l~~~~~~~a~~~ilv~dv~~~~sf~~~~~~~~~~i~~~~~~~p-iilvgNK~  114 (189)
T cd04134          48 IELSLWDTAGQEEFDRLRSLSYADTDVIMLCFSVDSPDSLENVESKWLGEIREHCPGVK-LVLVALKC  114 (189)
T ss_pred             EEEEEEECCCChhccccccccccCCCEEEEEEECCCHHHHHHHHHHHHHHHHHhCCCCC-EEEEEECh
Confidence            467899999998876555556788999999998765532222  123344433  2566 88999995

Rho3 is a member of the Rho family found only in fungi. Rho3 is believed to regulate cell polarity by interacting with the diaphanous/formin family protein For3 to control both the actin cytoskeleton and microtubules. Rho3 is also believed to have a direct role in exocytosis that is independent of its role in regulating actin polarity. The function in exocytosis may be two-pronged: first, in the transport of post-Golgi vesicles from the mother cell to the bud, mediated by myosin (Myo2); second, in the docking and fusion of vesicles to the plasma membrane, mediated by an exocyst (Exo70) protein. Most Rho 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 Rho proteins.

>PF10662 PduV-EutP: Ethanolamine utilisation - propanediol utilisation; InterPro: IPR012381 Members of this family function in ethanolamine [] and propanediol [] degradation pathways

Probab=97.47  E-value=0.00021  Score=52.13  Aligned_cols=57  Identities=19%  Similarity=0.307  Sum_probs=41.3

Q ss_pred             EeecCCc----ccccHhHHhhhccccceEEEEEeccCCCCcchHHHHHHHHHcCCCeEEEEEeCC
Q psy9646         151 SHTDCPG----HADYIKNMITGTSQMDGAILVVAATDGAMPQTREHLLLAKQIGVTNIVVFINKF  211 (211)
Q Consensus       151 ~~iDtPG----~~~~~~~~~~~~~~~d~~~~vvd~~~~~~~~~~~~~~~~~~~~~~~~i~~inK~  211 (211)
                      .+|||||    +..|.+..+....+||.++++.||.+....-...   ++.....| +|=||||+
T Consensus        39 ~~IDTPGEyiE~~~~y~aLi~ta~dad~V~ll~dat~~~~~~pP~---fa~~f~~p-vIGVITK~   99 (143)
T PF10662_consen   39 NTIDTPGEYIENPRFYHALIVTAQDADVVLLLQDATEPRSVFPPG---FASMFNKP-VIGVITKI   99 (143)
T ss_pred             cEEECChhheeCHHHHHHHHHHHhhCCEEEEEecCCCCCccCCch---hhcccCCC-EEEEEECc
Confidence            4699999    5567888888889999999999998765433222   23344556 66788885

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

>cd04131 Rnd Rnd subfamily

Probab=97.45  E-value=0.00058  Score=51.80  Aligned_cols=63  Identities=10%  Similarity=0.026  Sum_probs=44.4

Q ss_pred             ceeEeecCCcccccHhHHhhhccccceEEEEEeccCCCCcch--HHHHHHHHHc--CCCeEEEEEeCC
Q psy9646         148 RHYSHTDCPGHADYIKNMITGTSQMDGAILVVAATDGAMPQT--REHLLLAKQI--GVTNIVVFINKF  211 (211)
Q Consensus       148 ~~~~~iDtPG~~~~~~~~~~~~~~~d~~~~vvd~~~~~~~~~--~~~~~~~~~~--~~~~~i~~inK~  211 (211)
                      ..+.+.||||++.|..........+|++++|.|......-+.  ..+...++..  ..| +|+|.||+
T Consensus        49 ~~l~iwDt~G~~~~~~~~~~~~~~a~~~ilvfdit~~~Sf~~~~~~w~~~i~~~~~~~~-iilVgnK~  115 (178)
T cd04131          49 IELSLWDTSGSPYYDNVRPLCYPDSDAVLICFDISRPETLDSVLKKWRGEIQEFCPNTK-VLLVGCKT  115 (178)
T ss_pred             EEEEEEECCCchhhhhcchhhcCCCCEEEEEEECCChhhHHHHHHHHHHHHHHHCCCCC-EEEEEECh
Confidence            457789999999887666667789999999999865543222  2343444332  456 88999995

The Rnd subfamily contains Rnd1/Rho6, Rnd2/Rho7, and Rnd3/RhoE/Rho8. These novel Rho family proteins have substantial structural differences compared to other Rho members, including N- and C-terminal extensions relative to other Rhos. Rnd3/RhoE is farnesylated at the C-terminal prenylation site, unlike most other Rho proteins that are geranylgeranylated. In addition, Rnd members are unable to hydrolyze GTP and are resistant to GAP activity. They are believed to exist only in the GTP-bound conformation, and are antagonists of RhoA activity. Most Rho 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 Rho proteins. Due to the presence of truncated sequences in this CD, the lipid modification site is not available for annotation.

>cd03110 Fer4_NifH_child This protein family's function is unkown

Probab=97.42  E-value=0.00043  Score=52.38  Aligned_cols=63  Identities=24%  Similarity=0.329  Sum_probs=48.9

Q ss_pred             CCceeEeecCCcccccHhHHhhhccccceEEEEEeccCCCCcchHHHHHHHHHcCCCeEEEEEeCC
Q psy9646         146 ENRHYSHTDCPGHADYIKNMITGTSQMDGAILVVAATDGAMPQTREHLLLAKQIGVTNIVVFINKF  211 (211)
Q Consensus       146 ~~~~~~~iDtPG~~~~~~~~~~~~~~~d~~~~vvd~~~~~~~~~~~~~~~~~~~~~~~~i~~inK~  211 (211)
                      ..+.++++|||+..  ...+..++..+|.+++++.....-.....+.++.+++.+.+ +.+++||+
T Consensus        91 ~~~d~viiDtpp~~--~~~~~~~l~~aD~vliv~~~~~~~~~~~~~~~~~l~~~~~~-~~vV~N~~  153 (179)
T cd03110          91 EGAELIIIDGPPGI--GCPVIASLTGADAALLVTEPTPSGLHDLERAVELVRHFGIP-VGVVINKY  153 (179)
T ss_pred             cCCCEEEEECcCCC--cHHHHHHHHcCCEEEEEecCCcccHHHHHHHHHHHHHcCCC-EEEEEeCC
Confidence            56789999999653  23566778899999999998655445567788888888888 66889985

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

>COG0532 InfB Translation initiation factor 2 (IF-2; GTPase) [Translation, ribosomal structure and biogenesis]

Probab=97.37  E-value=0.00099  Score=57.88  Aligned_cols=91  Identities=16%  Similarity=0.344  Sum_probs=74.0

Q ss_pred             CCCCCCCCeeEEEeeEEeecCCcEEEEEEEEEEEEecCCEEEEeecCc-eeeEEEEEEEecceecceecccCceehhccC
Q psy9646          14 PVRDLDKPFYLPVEHTYSIPGRGTVVTGRLERGIVKKGMECEFTGYGR-QFKTTVTGIEMFHKILDEAQAGDQLGALVKG   92 (211)
Q Consensus        14 p~~~~~~p~~~~v~~~~~~~~~G~v~~G~v~~G~i~~g~~v~i~p~~~-~~~~~v~~i~~~~~~~~~a~~G~~v~~~l~~   92 (211)
                      |.....---..-+..+|..++.|.++...|..|.++.|..+.+.-++. -...+|.|++.+++++.++.+|..|++.+++
T Consensus       406 p~~~e~~~g~~~~r~v~~~~k~g~IaG~~V~~G~ikr~~~v~~~rd~~vi~~G~i~sLk~~kddv~ev~~G~ecgI~i~~  485 (509)
T COG0532         406 PEKKERVIGLAEVRAVFKLPKVGAIAGCMVTEGVIKRGAPVRVVRDGVVIYEGEVESLKRFKDDVKEVRKGQECGIAIEN  485 (509)
T ss_pred             hhhhhhcccceEEEEEEEcCCCCeEEEEEEecCEEecCCcEEEEeCCeEEEeeEEEeeeccCccHhHhccCcEEEEEecC
Confidence            433333333456778888899999999999999999999998874443 2258999999999999999999999999996


Q ss_pred             CCcccccccccccc
Q psy9646          93 MKRDEVNRGLIMAK  106 (211)
Q Consensus        93 ~~~~~v~~G~ii~~  106 (211)
                        -.+++.||++-.
T Consensus       486 --~~di~~gD~le~  497 (509)
T COG0532         486 --YRDIKEGDILEV  497 (509)
T ss_pred             --cccCCCCCEEEE
Confidence              678999988753

>cd01875 RhoG RhoG subfamily

Probab=97.35  E-value=0.00083  Score=51.46  Aligned_cols=63  Identities=14%  Similarity=0.071  Sum_probs=43.1

Q ss_pred             ceeEeecCCcccccHhHHhhhccccceEEEEEeccCCCCcch-H-HHHHHHHH--cCCCeEEEEEeCC
Q psy9646         148 RHYSHTDCPGHADYIKNMITGTSQMDGAILVVAATDGAMPQT-R-EHLLLAKQ--IGVTNIVVFINKF  211 (211)
Q Consensus       148 ~~~~~iDtPG~~~~~~~~~~~~~~~d~~~~vvd~~~~~~~~~-~-~~~~~~~~--~~~~~~i~~inK~  211 (211)
                      ..+.+.||||++.|......-...+|++++|.|......-+. + .+...+..  .++| ++++.||.
T Consensus        51 ~~l~i~Dt~G~e~~~~l~~~~~~~a~~~ilvydit~~~Sf~~~~~~w~~~i~~~~~~~p-iilvgNK~  117 (191)
T cd01875          51 VSLNLWDTAGQEEYDRLRTLSYPQTNVFIICFSIASPSSYENVRHKWHPEVCHHCPNVP-ILLVGTKK  117 (191)
T ss_pred             EEEEEEECCCchhhhhhhhhhccCCCEEEEEEECCCHHHHHHHHHHHHHHHHhhCCCCC-EEEEEeCh
Confidence            457789999999987665566789999999999865432111 1 12222222  3567 88999994

RhoG is a GTPase with high sequence similarity to members of the Rac subfamily, including the regions involved in effector recognition and binding. However, RhoG does not bind to known Rac1 and Cdc42 effectors, including proteins containing a Cdc42/Rac interacting binding (CRIB) motif. Instead, RhoG interacts directly with Elmo, an upstream regulator of Rac1, in a GTP-dependent manner and forms a ternary complex with Dock180 to induce activation of Rac1. The RhoG-Elmo-Dock180 pathway is required for activation of Rac1 and cell spreading mediated by integrin, as well as for neurite outgrowth induced by nerve growth factor. Thus RhoG activates Rac1 through Elmo and Dock180 to control cell morphology. RhoG has also been shown to play a role in caveolar trafficking and has a novel role in signaling the neutrophil respiratory burst stimulated by G protein-coupled receptor (GPCR) agonists. Most Rho proteins contain a lipid modification site at the C-termin

>cd03702 IF2_mtIF2_II This family represents the domain II of bacterial Initiation Factor 2 (IF2) and its eukaryotic mitochondrial homologue mtIF2

Probab=97.33  E-value=0.0019  Score=43.78  Aligned_cols=74  Identities=23%  Similarity=0.154  Sum_probs=57.5

Q ss_pred             EEeeEEeecCCcEEEEEEEEEEEEecCCEEEEeecCceeeEEEEEEEecc-eecceecccCceehhccCCCcccc-cccc
Q psy9646          25 PVEHTYSIPGRGTVVTGRLERGIVKKGMECEFTGYGRQFKTTVTGIEMFH-KILDEAQAGDQLGALVKGMKRDEV-NRGL  102 (211)
Q Consensus        25 ~v~~~~~~~~~G~v~~G~v~~G~i~~g~~v~i~p~~~~~~~~v~~i~~~~-~~~~~a~~G~~v~~~l~~~~~~~v-~~G~  102 (211)
                      .|-+....++.|.+.+.-|.+|++++||.+.....    ..+|+++...+ +++.+|.||+.|.+.  ++  .++ ..|+
T Consensus         4 ~VlE~~~~~g~G~vatviV~~GtL~~Gd~iv~G~~----~gkVr~l~d~~g~~v~~a~Ps~~V~I~--G~--~~~P~aGd   75 (95)
T cd03702           4 VVIESKLDKGRGPVATVLVQNGTLKVGDVLVAGTT----YGKVRAMFDENGKRVKEAGPSTPVEIL--GL--KGVPQAGD   75 (95)
T ss_pred             EEEEEEecCCCCccEEEEEEcCeEeCCCEEEEccc----ccEEEEEECCCCCCCCEECCCCcEEEc--CC--CCCCCCCC
Confidence            45566667889999999999999999999887654    56899998777 799999999999872  22  233 5566


Q ss_pred             cccc
Q psy9646         103 IMAK  106 (211)
Q Consensus       103 ii~~  106 (211)
                      .+..
T Consensus        76 ~~~~   79 (95)
T cd03702          76 KFLV   79 (95)
T ss_pred             EEEE
Confidence            6554

IF2, the largest initiation factor is an essential GTP binding protein. In E. coli three natural forms of IF2 exist in the cell, IF2alpha, IF2beta1, and IF2beta2. Bacterial IF-2 is structurally and functionally related to eukaryotic mitochondrial mtIF-2.

>cd04173 Rnd2_Rho7 Rnd2/Rho7 subfamily

Probab=97.31  E-value=0.00076  Score=53.14  Aligned_cols=63  Identities=10%  Similarity=0.036  Sum_probs=44.2

Q ss_pred             ceeEeecCCcccccHhHHhhhccccceEEEEEeccCCCCcch-HH-HHHHHHH--cCCCeEEEEEeCC
Q psy9646         148 RHYSHTDCPGHADYIKNMITGTSQMDGAILVVAATDGAMPQT-RE-HLLLAKQ--IGVTNIVVFINKF  211 (211)
Q Consensus       148 ~~~~~iDtPG~~~~~~~~~~~~~~~d~~~~vvd~~~~~~~~~-~~-~~~~~~~--~~~~~~i~~inK~  211 (211)
                      ..+.+.||+|++.|..........+|++++|.|..+...-+. .. +......  .++| +|+|.||+
T Consensus        49 v~L~iwDt~G~e~~~~l~~~~~~~~d~illvfdis~~~Sf~~i~~~w~~~~~~~~~~~p-iiLVgnK~  115 (222)
T cd04173          49 IELNMWDTSGSSYYDNVRPLAYPDSDAVLICFDISRPETLDSVLKKWQGETQEFCPNAK-VVLVGCKL  115 (222)
T ss_pred             EEEEEEeCCCcHHHHHHhHHhccCCCEEEEEEECCCHHHHHHHHHHHHHHHHhhCCCCC-EEEEEECc
Confidence            457789999999888777778899999999999876532111 11 2222222  3567 88999995

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

>cd04172 Rnd3_RhoE_Rho8 Rnd3/RhoE/Rho8 subfamily

Probab=97.30  E-value=0.001  Score=50.67  Aligned_cols=63  Identities=10%  Similarity=0.033  Sum_probs=44.4

Q ss_pred             ceeEeecCCcccccHhHHhhhccccceEEEEEeccCCCCcch--HHHHHHHHHc--CCCeEEEEEeCC
Q psy9646         148 RHYSHTDCPGHADYIKNMITGTSQMDGAILVVAATDGAMPQT--REHLLLAKQI--GVTNIVVFINKF  211 (211)
Q Consensus       148 ~~~~~iDtPG~~~~~~~~~~~~~~~d~~~~vvd~~~~~~~~~--~~~~~~~~~~--~~~~~i~~inK~  211 (211)
                      ..+.+.||+|.+.|.......+..+|++++|.|......-+.  ..++..++..  +.| +|+|.||+
T Consensus        53 ~~l~iwDtaG~e~~~~~~~~~~~~ad~~ilvyDit~~~Sf~~~~~~w~~~i~~~~~~~p-iilVgNK~  119 (182)
T cd04172          53 IELSLWDTSGSPYYDNVRPLSYPDSDAVLICFDISRPETLDSVLKKWKGEIQEFCPNTK-MLLVGCKS  119 (182)
T ss_pred             EEEEEEECCCchhhHhhhhhhcCCCCEEEEEEECCCHHHHHHHHHHHHHHHHHHCCCCC-EEEEeECh
Confidence            457789999999887766677889999999999865533222  2233333332  456 88999995

Rnd3/RhoE/Rho8 is a member of the novel Rho subfamily Rnd, together with Rnd1/Rho6 and Rnd2/Rho7. Rnd3/RhoE is known to bind the serine-threonine kinase ROCK I. Unphosphorylated Rnd3/RhoE associates primarily with membranes, but ROCK I-phosphorylated Rnd3/RhoE localizes in the cytosol. Phosphorylation of Rnd3/RhoE correlates with its activity in disrupting RhoA-induced stress fibers and inhibiting Ras-induced fibroblast transformation. In cells that lack stress fibers, such as macrophages and monocytes, Rnd3/RhoE induces a redistribution of actin, causing morphological changes in the cell. In addition, Rnd3/RhoE has been shown to inhibit cell cycle progression in G1 phase at a point upstream of the pRb family pocket protein checkpoint. Rnd3/RhoE has also been shown to inhibit Ras- and Raf-induced fibroblast transformation. In mammary epithelial tumor cells, Rnd3/RhoE regulates the assembly of the apical junction complex and tight

>PRK09563 rbgA GTPase YlqF; Reviewed

Probab=97.30  E-value=0.00033  Score=57.32  Aligned_cols=54  Identities=17%  Similarity=0.119  Sum_probs=43.2

Q ss_pred             CCcccc-cHhHHhhhccccceEEEEEeccCCCCcchHHHHHHHHHcCCCeEEEEEeCC
Q psy9646         155 CPGHAD-YIKNMITGTSQMDGAILVVAATDGAMPQTREHLLLAKQIGVTNIVVFINKF  211 (211)
Q Consensus       155 tPG~~~-~~~~~~~~~~~~d~~~~vvd~~~~~~~~~~~~~~~~~~~~~~~~i~~inK~  211 (211)
                      -|||.. -.+++...+..+|++++|+|+..+.......+.+...  +.| +++++||+
T Consensus         7 fpgHm~k~~~~l~~~l~~aDvIL~VvDar~p~~~~~~~l~~~~~--~kp-~iiVlNK~   61 (287)
T PRK09563          7 FPGHMAKARREIKENLKLVDVVIEVLDARIPLSSENPMIDKIIG--NKP-RLLILNKS   61 (287)
T ss_pred             cHHHHHHHHHHHHHHhhhCCEEEEEEECCCCCCCCChhHHHHhC--CCC-EEEEEEch
Confidence            589863 5688999999999999999998887777766655543  566 77999995

>cd04174 Rnd1_Rho6 Rnd1/Rho6 subfamily

Probab=97.30  E-value=0.0012  Score=52.40  Aligned_cols=63  Identities=14%  Similarity=0.033  Sum_probs=44.9

Q ss_pred             ceeEeecCCcccccHhHHhhhccccceEEEEEeccCCCCcch--HHHHHHHHH--cCCCeEEEEEeCC
Q psy9646         148 RHYSHTDCPGHADYIKNMITGTSQMDGAILVVAATDGAMPQT--REHLLLAKQ--IGVTNIVVFINKF  211 (211)
Q Consensus       148 ~~~~~iDtPG~~~~~~~~~~~~~~~d~~~~vvd~~~~~~~~~--~~~~~~~~~--~~~~~~i~~inK~  211 (211)
                      ..+.+.||+|.+.|.......+..+|++++|.|......-+.  ..++..+..  .+.| +|+|.||+
T Consensus        61 v~l~iwDTaG~e~~~~~~~~~~~~ad~vIlVyDit~~~Sf~~~~~~w~~~i~~~~~~~p-iilVgNK~  127 (232)
T cd04174          61 VELSLWDTSGSPYYDNVRPLCYSDSDAVLLCFDISRPETVDSALKKWKAEIMDYCPSTR-ILLIGCKT  127 (232)
T ss_pred             EEEEEEeCCCchhhHHHHHHHcCCCcEEEEEEECCChHHHHHHHHHHHHHHHHhCCCCC-EEEEEECc
Confidence            457789999999887766677899999999999875543221  223344433  2456 88999995

Rnd1/Rho6 is a member of the novel Rho subfamily Rnd, together with Rnd2/Rho7 and Rnd3/RhoE/Rho8. Rnd1/Rho6 binds GTP but does not hydrolyze it to GDP, indicating that it is constitutively active. In rat, Rnd1/Rho6 is highly expressed in the cerebral cortex and hippocampus during synapse formation, and plays a role in spine formation. Rnd1/Rho6 is also expressed in the liver and in endothelial cells, and is upregulated in uterine myometrial cells during pregnancy. Like Rnd3/RhoE/Rho8, Rnd1/Rho6 is believed to function as an antagonist to RhoA. Most Rho 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 Rho proteins. Due to the presence of truncated sequences in this CD, the lipid modification site is not available for annotation.

>cd04102 RabL3 RabL3 (Rab-like3) subfamily

Probab=97.29  E-value=0.0016  Score=50.59  Aligned_cols=38  Identities=21%  Similarity=0.113  Sum_probs=31.8

Q ss_pred             ceeEeecCCcccccHhHHhhhccccceEEEEEeccCCC
Q psy9646         148 RHYSHTDCPGHADYIKNMITGTSQMDGAILVVAATDGA  185 (211)
Q Consensus       148 ~~~~~iDtPG~~~~~~~~~~~~~~~d~~~~vvd~~~~~  185 (211)
                      ..+.+.||+|++.|......-+..+|++++|.|....-
T Consensus        54 ~~l~IwDtaG~e~~~~l~~~~yr~ad~iIlVyDvtn~~   91 (202)
T cd04102          54 FFVELWDVGGSESVKSTRAVFYNQVNGIILVHDLTNRK   91 (202)
T ss_pred             EEEEEEecCCchhHHHHHHHHhCcCCEEEEEEECcChH
Confidence            45789999999998776666788999999999987654

RabL3s 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, RabL3 lacks a prenylation site at the C-terminus. The specific function of RabL3 remains unknown.

>PLN00116 translation elongation factor EF-2 subunit; Provisional

Probab=97.28  E-value=0.0018  Score=60.55  Aligned_cols=87  Identities=23%  Similarity=0.397  Sum_probs=61.9

Q ss_pred             hHHHHHhhhCCCCCC-------------------------CCCCCeeEEEeeEEeecCCcE-EEEEEEEEEEEecCCEEE
Q psy9646           2 ELLNQIDTYIPQPVR-------------------------DLDKPFYLPVEHTYSIPGRGT-VVTGRLERGIVKKGMECE   55 (211)
Q Consensus         2 ~ll~~l~~~i~~p~~-------------------------~~~~p~~~~v~~~~~~~~~G~-v~~G~v~~G~i~~g~~v~   55 (211)
                      .||+++.+++|.|..                         +.++|+...|.-++..++.|. +..+||-+|+++.|+.|.
T Consensus       331 ~Lld~i~~~lPsP~~~~~~~~~~~~~~~~~~~~~~~~~~~d~~~pl~a~VfK~~~~~~~g~~l~~~RVysGtL~~g~~v~  410 (843)
T PLN00116        331 ALLEMIIFHLPSPAKAQRYRVENLYEGPLDDKYATAIRNCDPNGPLMLYVSKMIPASDKGRFFAFGRVFSGTVATGMKVR  410 (843)
T ss_pred             HHHHHHHHhCCChHHhhhHHhhhccCCCCCccccchhhcCCCCCCeEEEEEeeeecCCCCeEEEEEEEEeeeecCCCEEE
Confidence            578888888877731                         113578777777776677787 899999999999999997


Q ss_pred             EeecCce--ee-----EEEEEEEecc----eecceecccCceeh
Q psy9646          56 FTGYGRQ--FK-----TTVTGIEMFH----KILDEAQAGDQLGA   88 (211)
Q Consensus        56 i~p~~~~--~~-----~~v~~i~~~~----~~~~~a~~G~~v~~   88 (211)
                      +...+..  .+     .+|..|....    .+++++.|||++++
T Consensus       411 v~~~n~~~~~~~~~~~~~v~~l~~~~g~~~~~v~~~~AGdI~ai  454 (843)
T PLN00116        411 IMGPNYVPGEKKDLYVKSVQRTVIWMGKKQESVEDVPCGNTVAM  454 (843)
T ss_pred             EeCCCCCCCCccccceeEhheEEEecCCCceECcEECCCCEEEE
Confidence            6433210  01     2454444332    68999999999987

>cd04104 p47_IIGP_like p47 (47-kDa) family

Probab=97.28  E-value=0.00074  Score=52.05  Aligned_cols=59  Identities=15%  Similarity=0.159  Sum_probs=44.1

Q ss_pred             ceeEeecCCcccc-------cHhHHhhhccccceEEEEEeccCCCCcchHHHHHHHHHcCCCeEEEEEeCC
Q psy9646         148 RHYSHTDCPGHAD-------YIKNMITGTSQMDGAILVVAATDGAMPQTREHLLLAKQIGVTNIVVFINKF  211 (211)
Q Consensus       148 ~~~~~iDtPG~~~-------~~~~~~~~~~~~d~~~~vvd~~~~~~~~~~~~~~~~~~~~~~~~i~~inK~  211 (211)
                      ..+.++||||..+       |++.  .++..+|+.+++.+  ......+..+++.++..+.| +++|+||+
T Consensus        52 ~~l~l~DtpG~~~~~~~~~~~l~~--~~~~~~d~~l~v~~--~~~~~~d~~~~~~l~~~~~~-~ilV~nK~  117 (197)
T cd04104          52 PNVTLWDLPGIGSTAFPPDDYLEE--MKFSEYDFFIIISS--TRFSSNDVKLAKAIQCMGKK-FYFVRTKV  117 (197)
T ss_pred             CCceEEeCCCCCcccCCHHHHHHH--hCccCcCEEEEEeC--CCCCHHHHHHHHHHHHhCCC-EEEEEecc
Confidence            4689999999753       3322  24567898888754  45677777888888888877 88999996

The p47 GTPase family consists of several highly homologous proteins, including IGTP, TGTP/Mg21, IRG-47, GTPI, LRG-47, and IIGP1. They are found in higher eukaryotes where they play a role in immune resistance against intracellular pathogens. p47 proteins exist at low resting levels in mouse cells, but are strongly induced by Type II interferon (IFN-gamma). ITGP is critical for resistance to Toxoplasma gondii infection and in involved in inhibition of Coxsackievirus-B3-induced apoptosis. TGTP was shown to limit vesicular stomatitis virus (VSV) infection of fibroblasts in vitro. IRG-47 is involved in resistance to T. gondii infection. LRG-47 has been implicated in resistance to T. gondii, Listeria monocytogenes, Leishmania, and mycobacterial infections. IIGP1 has been shown to localize to the ER and to the Golgi membranes in IFN-induced cells and inflamed tissues. In macrophages, IIGP1 interacts with hook3, a microtubule binding protei

>COG0370 FeoB Fe2+ transport system protein B [Inorganic ion transport and metabolism]

Probab=97.26  E-value=0.0015  Score=58.35  Aligned_cols=101  Identities=14%  Similarity=0.081  Sum_probs=70.7

Q ss_pred             chhhhhhhhcccccccccchhhcccceEEeEeEEEeeeCCceeEeecCCcccccH----hH--Hhhh--ccccceEEEEE
Q psy9646         108 VLADKKLAKVKQYADIDNAPEEKARGITINVAHVEYATENRHYSHTDCPGHADYI----KN--MITG--TSQMDGAILVV  179 (211)
Q Consensus       108 ~~~~~~~~~f~~~i~~~~~~~e~~rg~tv~~~~~~~~~~~~~~~~iDtPG~~~~~----~~--~~~~--~~~~d~~~~vv  179 (211)
                      +.|..+|+.+-..+--.+...--=.|.|++..-+.+...++++.++|.||...+.    ++  +..-  =...|+++-|+
T Consensus        10 GNPNvGKTtlFN~LTG~~q~VgNwpGvTVEkkeg~~~~~~~~i~ivDLPG~YSL~~~S~DE~Var~~ll~~~~D~ivnVv   89 (653)
T COG0370          10 GNPNVGKTTLFNALTGANQKVGNWPGVTVEKKEGKLKYKGHEIEIVDLPGTYSLTAYSEDEKVARDFLLEGKPDLIVNVV   89 (653)
T ss_pred             cCCCccHHHHHHHHhccCceecCCCCeeEEEEEEEEEecCceEEEEeCCCcCCCCCCCchHHHHHHHHhcCCCCEEEEEc
Confidence            4456677766555544555555567899999999999999999999999965442    11  1111  24679999999


Q ss_pred             eccCCCCcchHHHHHHHHHcCCCeEEEEEeCC
Q psy9646         180 AATDGAMPQTREHLLLAKQIGVTNIVVFINKF  211 (211)
Q Consensus       180 d~~~~~~~~~~~~~~~~~~~~~~~~i~~inK~  211 (211)
                      ||..=  +..-.+.-++.+.|+| +|+++|++
T Consensus        90 DAtnL--eRnLyltlQLlE~g~p-~ilaLNm~  118 (653)
T COG0370          90 DATNL--ERNLYLTLQLLELGIP-MILALNMI  118 (653)
T ss_pred             ccchH--HHHHHHHHHHHHcCCC-eEEEeccH
Confidence            98432  2223345567789999 88999975

>cd01853 Toc34_like Toc34-like (Translocon at the Outer-envelope membrane of Chloroplasts)

Probab=97.18  E-value=0.004  Score=49.94  Aligned_cols=78  Identities=15%  Similarity=0.132  Sum_probs=47.6

Q ss_pred             eEEeEeEEEeeeCCceeEeecCCcccccH------hHHhh----hc--cccceEEEEEeccC-CCCcchHHHHHHHHH-c
Q psy9646         134 ITINVAHVEYATENRHYSHTDCPGHADYI------KNMIT----GT--SQMDGAILVVAATD-GAMPQTREHLLLAKQ-I  199 (211)
Q Consensus       134 ~tv~~~~~~~~~~~~~~~~iDtPG~~~~~------~~~~~----~~--~~~d~~~~vvd~~~-~~~~~~~~~~~~~~~-~  199 (211)
                      .|........+..+..+.++||||..+..      +.+..    -+  ...|+++++..... .....+..+++.+.. .
T Consensus        65 ~T~~~~~~~~~~~g~~i~vIDTPGl~~~~~~~~~~~~~~~~I~~~l~~~~idvIL~V~rlD~~r~~~~d~~llk~I~e~f  144 (249)
T cd01853          65 ETLRVREVSGTVDGFKLNIIDTPGLLESVMDQRVNRKILSSIKRYLKKKTPDVVLYVDRLDMYRRDYLDLPLLRAITDSF  144 (249)
T ss_pred             ceEEEEEEEEEECCeEEEEEECCCcCcchhhHHHHHHHHHHHHHHHhccCCCEEEEEEcCCCCCCCHHHHHHHHHHHHHh
Confidence            45555555566778899999999977651      12222    22  25688888865432 344555566666654 4


Q ss_pred             CC---CeEEEEEeCC
Q psy9646         200 GV---TNIVVFINKF  211 (211)
Q Consensus       200 ~~---~~~i~~inK~  211 (211)
                      |.   .++|+|+||+
T Consensus       145 G~~i~~~~ivV~T~~  159 (249)
T cd01853         145 GPSIWRNAIVVLTHA  159 (249)
T ss_pred             ChhhHhCEEEEEeCC
Confidence            42   2477889885

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.

>PLN00023 GTP-binding protein; Provisional

Probab=97.12  E-value=0.0029  Score=52.49  Aligned_cols=63  Identities=21%  Similarity=0.136  Sum_probs=44.3

Q ss_pred             ceeEeecCCcccccHhHHhhhccccceEEEEEeccCCCC-cchHHHHHHHHHc---------------CCCeEEEEEeCC
Q psy9646         148 RHYSHTDCPGHADYIKNMITGTSQMDGAILVVAATDGAM-PQTREHLLLAKQI---------------GVTNIVVFINKF  211 (211)
Q Consensus       148 ~~~~~iDtPG~~~~~~~~~~~~~~~d~~~~vvd~~~~~~-~~~~~~~~~~~~~---------------~~~~~i~~inK~  211 (211)
                      ..+.+.||+|++.|......-+..+|++|+|.|....-. ..-..+++.+...               .+| +|+|.||+
T Consensus        83 v~LqIWDTAGqErfrsL~~~yyr~AdgiILVyDITdr~SFenL~kWl~eI~~~~~~s~p~~s~~~~~~~ip-IILVGNK~  161 (334)
T PLN00023         83 FFVELWDVSGHERYKDCRSLFYSQINGVIFVHDLSQRRTKTSLQKWASEVAATGTFSAPLGSGGPGGLPVP-YIVIGNKA  161 (334)
T ss_pred             EEEEEEECCCChhhhhhhHHhccCCCEEEEEEeCCCHHHHHHHHHHHHHHHHhcccccccccccccCCCCc-EEEEEECc
Confidence            458899999999987666666889999999999865332 1222344444432               255 88999995

>PF00025 Arf: ADP-ribosylation factor family The prints entry specific to Sar1 proteins The Prosite entry specific to Sar1 proteins; InterPro: IPR006689 Small GTPases form an independent superfamily within the larger class of regulatory GTP hydrolases

Probab=97.10  E-value=0.0024  Score=48.26  Aligned_cols=72  Identities=19%  Similarity=0.212  Sum_probs=48.5

Q ss_pred             eEEEeeeCCceeEeecCCcccccHhHHhhhccccceEEEEEeccCCC-CcchHHHHHHHHH----cCCCeEEEEEeCC
Q psy9646         139 AHVEYATENRHYSHTDCPGHADYIKNMITGTSQMDGAILVVAATDGA-MPQTREHLLLAKQ----IGVTNIVVFINKF  211 (211)
Q Consensus       139 ~~~~~~~~~~~~~~iDtPG~~~~~~~~~~~~~~~d~~~~vvd~~~~~-~~~~~~~~~~~~~----~~~~~~i~~inK~  211 (211)
                      ....+...+..+.+.|.+|+..+...-..-+..+|+++||+|+.+.- ..+.++.+..+..    .++| +++++||.
T Consensus        49 ~~~~i~~~~~~~~~~d~gG~~~~~~~w~~y~~~~~~iIfVvDssd~~~l~e~~~~L~~ll~~~~~~~~p-iLIl~NK~  125 (175)
T PF00025_consen   49 NIEEIKYKGYSLTIWDLGGQESFRPLWKSYFQNADGIIFVVDSSDPERLQEAKEELKELLNDPELKDIP-ILILANKQ  125 (175)
T ss_dssp             EEEEEEETTEEEEEEEESSSGGGGGGGGGGHTTESEEEEEEETTGGGGHHHHHHHHHHHHTSGGGTTSE-EEEEEEST
T ss_pred             ccceeeeCcEEEEEEeccccccccccceeeccccceeEEEEecccceeecccccchhhhcchhhcccce-EEEEeccc
Confidence            34456668889999999998776544444557899999999997542 2333333333322    3566 77899994

This superfamily contains proteins that control a vast number of important processes and possess a common, structurally preserved GTP-binding domain [, ]. Sequence comparisons of small G proteins from various species have revealed that they are conserved in primary structures at the level of 30-55% similarity []. Crystallographic analysis of various small G proteins revealed the presence of a 20 kDa catalytic domain that is unique for the whole superfamily [, ]. The domain is built of five alpha helices (A1-A5), six beta-strands (B1-B6) and five polypeptide loops (G1-G5). A structural comparison of the GTP- and GDP-bound form, allows one to distinguish two functional loop regions: switch I and switch II that surround the gamma-phosphate group of the nucleotide. The G1 loop (also called the P-loop) that connects the B1 strand and the A1 helix is responsible for the binding of the phosphate groups. The G3 loop provides residues for Mg(2+) and phosphate binding and is located at the N terminus of the A2 helix. The G1 and G3 loops are sequentially similar to Walker A and Walker B boxes that are found in other nucleotide binding motifs. The G2 loop connects the A1 helix and the B2 strand and contains a conserved Thr residue responsible for Mg(2+) binding. The guanine base is recognised by the G4 and G5 loops. The consensus sequence NKXD of the G4 loop contains Lys and Asp residues directly interacting with the nucleotide. Part of the G5 loop located between B6 and A5 acts as a recognition site for the guanine base []. The small GTPase superfamily can be divided into at least 8 different families, including: Arf small GTPases. GTP-binding proteins involved in protein trafficking by modulating vesicle budding and uncoating within the Golgi apparatus. Ran small GTPases. GTP-binding proteins involved in nucleocytoplasmic transport. Required for the import of proteins into the nucleus and also for RNA export. Rab small GTPases. GTP-binding proteins involved in vesicular traffic. Rho small GTPases. GTP-binding proteins that control cytoskeleton reorganisation. Ras small GTPases. GTP-binding proteins involved in signalling pathways. Sar1 small GTPases. Small GTPase component of the coat protein complex II (COPII) which promotes the formation of transport vesicles from the endoplasmic reticulum (ER). Mitochondrial Rho (Miro). Small GTPase domain found in mitochondrial proteins involved in mitochondrial trafficking. Roc small GTPases domain. Small GTPase domain always found associated with the COR domain. This entry represents a branch of the small GTPase superfamily that includes the ADP ribosylation factor Arf, Arl (Arf-like), Arp (Arf-related proteins) and the remotely related Sar (Secretion-associated and Ras-related) proteins. Arf proteins are major regulators of vesicle biogenesis in intracellular traffic []. They cycle between inactive GDP-bound and active GTP-bound forms that bind selectively to effectors. The classical structural GDP/GTP switch is characterised by conformational changes at the so-called switch 1 and switch 2 regions, which bind tightly to the gamma-phosphate of GTP but poorly or not at all to the GDP nucleotide. Structural studies of Arf1 and Arf6 have revealed that although these proteins feature the switch 1 and 2 conformational changes, they depart from other small GTP-binding proteins in that they use an additional, unique switch to propagate structural information from one side of the protein to the other. The GDP/GTP structural cycles of human Arf1 and Arf6 feature a unique conformational change that affects the beta2-beta3 strands connecting switch 1 and switch 2 (interswitch) and also the amphipathic helical N terminus. In GDP-bound Arf1 and Arf6, the interswitch is retracted and forms a pocket to which the N-terminal helix binds, the latter serving as a molecular hasp to maintain the inactive conformation. In the GTP-bound form of these proteins, the interswitch undergoes a two-residue register shift that pulls switch 1 and switch 2 up, restoring an active conformation that can bind GTP. In this conformation, the interswitch projects out of the protein and extrudes the N-terminal hasp by occluding its binding pocket.; GO: 0005525 GTP binding; PDB: 2H57_B 2W83_B 3N5C_B 2J5X_A 3LVR_E 2BAO_A 3LVQ_E 2A5F_A 3PCR_B 1E0S_A ....

>cd01896 DRG The developmentally regulated GTP-binding protein (DRG) subfamily is an uncharacterized member of the Obg family, an evolutionary branch of GTPase superfamily proteins

Probab=97.09  E-value=0.0016  Score=51.63  Aligned_cols=66  Identities=15%  Similarity=0.130  Sum_probs=46.4

Q ss_pred             EEeEeEEEeeeCCceeEeecCCcccc-------cHhHHhhhccccceEEEEEeccCCCCcchHHHHHHHHHcCC
Q psy9646         135 TINVAHVEYATENRHYSHTDCPGHAD-------YIKNMITGTSQMDGAILVVAATDGAMPQTREHLLLAKQIGV  201 (211)
Q Consensus       135 tv~~~~~~~~~~~~~~~~iDtPG~~~-------~~~~~~~~~~~~d~~~~vvd~~~~~~~~~~~~~~~~~~~~~  201 (211)
                      |.......+..++.++.++||||+.+       +..++...+..+|++++|+|+.... .+-..+.+.+...|+
T Consensus        34 T~~~~~g~~~~~~~~i~l~DtpG~~~~~~~~~~~~~~~l~~~~~ad~il~V~D~t~~~-~~~~~~~~~l~~~gi  106 (233)
T cd01896          34 TLTCVPGVLEYKGAKIQLLDLPGIIEGAADGKGRGRQVIAVARTADLILMVLDATKPE-GHREILERELEGVGI  106 (233)
T ss_pred             cccceEEEEEECCeEEEEEECCCcccccccchhHHHHHHHhhccCCEEEEEecCCcch-hHHHHHHHHHHHcCc
Confidence            44444455666788999999999753       3456677889999999999986543 244456666766654

GTPases act as molecular switches regulating diverse cellular processes. DRG2 and DRG1 comprise the DRG subfamily in eukaryotes. In view of their widespread expression in various tissues and high conservation among distantly related species in eukaryotes and archaea, DRG proteins may regulate fundamental cellular processes. It is proposed that the DRG subfamily proteins play their physiological roles through RNA binding.

>PTZ00416 elongation factor 2; Provisional

Probab=97.02  E-value=0.0052  Score=57.54  Aligned_cols=87  Identities=18%  Similarity=0.371  Sum_probs=61.6

Q ss_pred             hHHHHHhhhCCCCCC-------------------------CCCCCeeEEEeeEEeecCCcE-EEEEEEEEEEEecCCEEE
Q psy9646           2 ELLNQIDTYIPQPVR-------------------------DLDKPFYLPVEHTYSIPGRGT-VVTGRLERGIVKKGMECE   55 (211)
Q Consensus         2 ~ll~~l~~~i~~p~~-------------------------~~~~p~~~~v~~~~~~~~~G~-v~~G~v~~G~i~~g~~v~   55 (211)
                      .||+++..++|.|..                         +.++|+...|.-+...++.|. +...||-+|+++.|++|.
T Consensus       327 ~Lld~i~~~lPsP~~~~~~~~~~~~~~~~~~~~~~~~~~~d~~~plva~VfK~~~~~~~g~~~s~~RV~SGtL~~g~~v~  406 (836)
T PTZ00416        327 TLLEMIVDHLPSPKEAQKYRVENLYEGPMDDEAANAIRNCDPNGPLMMYISKMVPTSDKGRFYAFGRVFSGTVATGQKVR  406 (836)
T ss_pred             HHHHHHHHhCCChhHhCchhhhccccCCCCccccceeeccCCCCCeEEEEEeeeecCCCCcEEEEEEEEeeeecCCCEEE
Confidence            588999998887731                         113467666776666678888 799999999999999997


Q ss_pred             EeecCce---ee----EEEEEEEecc----eecceecccCceeh
Q psy9646          56 FTGYGRQ---FK----TTVTGIEMFH----KILDEAQAGDQLGA   88 (211)
Q Consensus        56 i~p~~~~---~~----~~v~~i~~~~----~~~~~a~~G~~v~~   88 (211)
                      +...+..   ..    .+|..+....    .++++|.||+++++
T Consensus       407 v~~~~~~~~~~e~~~~~~i~~l~~~~g~~~~~v~~v~AGdI~~i  450 (836)
T PTZ00416        407 IQGPNYVPGKKEDLFEKNIQRTVLMMGRYVEQIEDVPCGNTVGL  450 (836)
T ss_pred             EeCCCCCCCCcccchheecceeEEecCCCceECcEECCCCEEEE
Confidence            6433210   01    1355554333    68999999999987

>COG1100 GTPase SAR1 and related small G proteins [General function prediction only]

Probab=97.02  E-value=0.0036  Score=48.65  Aligned_cols=63  Identities=21%  Similarity=0.188  Sum_probs=48.4

Q ss_pred             ceeEeecCCcccccHhHHhhhccccceEEEEEeccC--CCCcchHHHHHHHHHcC---CCeEEEEEeCC
Q psy9646         148 RHYSHTDCPGHADYIKNMITGTSQMDGAILVVAATD--GAMPQTREHLLLAKQIG---VTNIVVFINKF  211 (211)
Q Consensus       148 ~~~~~iDtPG~~~~~~~~~~~~~~~d~~~~vvd~~~--~~~~~~~~~~~~~~~~~---~~~~i~~inK~  211 (211)
                      ..+.+.||+|+.+|..-+..-...+++++++.|...  ......+.+...+....   .| ++++.||+
T Consensus        54 ~~~~~~Dt~gq~~~~~~~~~y~~~~~~~l~~~d~~~~~~~~~~~~~~~~~l~~~~~~~~~-iilv~nK~  121 (219)
T COG1100          54 IKLQLWDTAGQEEYRSLRPEYYRGANGILIVYDSTLRESSDELTEEWLEELRELAPDDVP-ILLVGNKI  121 (219)
T ss_pred             EEEEeecCCCHHHHHHHHHHHhcCCCEEEEEEecccchhhhHHHHHHHHHHHHhCCCCce-EEEEeccc
Confidence            457789999999998888788899999999999874  33444555665665544   66 88999995

>KOG0090|consensus

Probab=97.01  E-value=0.0034  Score=48.54  Aligned_cols=75  Identities=15%  Similarity=0.225  Sum_probs=48.5

Q ss_pred             EEeEeEEEeeeCCceeEeecCCcccccHhHHhhhcc---ccceEEEEEeccCCCCcchHHHH----HHHHH----cCCCe
Q psy9646         135 TINVAHVEYATENRHYSHTDCPGHADYIKNMITGTS---QMDGAILVVAATDGAMPQTREHL----LLAKQ----IGVTN  203 (211)
Q Consensus       135 tv~~~~~~~~~~~~~~~~iDtPG~~~~~~~~~~~~~---~~d~~~~vvd~~~~~~~~~~~~~----~~~~~----~~~~~  203 (211)
                      ++.-....|-.+.....++|-|||.+.-.....=+.   .+-+++||||+..-.. .-+...    ..+..    .+.|+
T Consensus        69 Siepn~a~~r~gs~~~~LVD~PGH~rlR~kl~e~~~~~~~akaiVFVVDSa~f~k-~vrdvaefLydil~~~~~~~~~~~  147 (238)
T KOG0090|consen   69 SIEPNEATYRLGSENVTLVDLPGHSRLRRKLLEYLKHNYSAKAIVFVVDSATFLK-NVRDVAEFLYDILLDSRVKKNKPP  147 (238)
T ss_pred             eeccceeeEeecCcceEEEeCCCcHHHHHHHHHHccccccceeEEEEEeccccch-hhHHHHHHHHHHHHhhccccCCCC
Confidence            344444555566666899999999988766666665   7889999999865442 222222    22211    23444


Q ss_pred             EEEEEeC
Q psy9646         204 IVVFINK  210 (211)
Q Consensus       204 ~i~~inK  210 (211)
                      +.++.||
T Consensus       148 vLIaCNK  154 (238)
T KOG0090|consen  148 VLIACNK  154 (238)
T ss_pred             EEEEecc
Confidence            8889998

>COG4108 PrfC Peptide chain release factor RF-3 [Translation, ribosomal structure and biogenesis]

Probab=96.84  E-value=0.0026  Score=54.25  Aligned_cols=100  Identities=20%  Similarity=0.381  Sum_probs=73.1

Q ss_pred             hHHHHHhhhCCCCC-CCCC-----------CCeeEEEeeEEeecCCcEEEEEEEEEEEEecCCEEEEeecCceeeEEEEE
Q psy9646           2 ELLNQIDTYIPQPV-RDLD-----------KPFYLPVEHTYSIPGRGTVVTGRLERGIVKKGMECEFTGYGRQFKTTVTG   69 (211)
Q Consensus         2 ~ll~~l~~~i~~p~-~~~~-----------~p~~~~v~~~~~~~~~G~v~~G~v~~G~i~~g~~v~i~p~~~~~~~~v~~   69 (211)
                      .+|+++....|.|. +..+           ..|-|-|+--...+.+.++.--||.||+...|+++...-.|+  +.+++.
T Consensus       266 ~~L~~~~~~AP~P~~~~a~~~~v~p~e~kfsGFVFKIQANMDp~HRDRIAFmRv~SGkferGMkv~h~rtGK--~~~ls~  343 (528)
T COG4108         266 HFLDALVDWAPSPRARQADTREVEPTEDKFSGFVFKIQANMDPKHRDRIAFMRVCSGKFERGMKVTHVRTGK--DVKLSD  343 (528)
T ss_pred             HHHHHHHhhCCCCCcccCCcCcccCCCCccceEEEEEEcCCCcccccceeEEEeccccccCCceeeeeecCC--ceEecc
Confidence            57889988777663 2221           136666666666678999999999999999999999887775  555544


Q ss_pred             EEec----ceecceecccCceehhccCCCccccccccccccc
Q psy9646          70 IEMF----HKILDEAQAGDQLGALVKGMKRDEVNRGLIMAKP  107 (211)
Q Consensus        70 i~~~----~~~~~~a~~G~~v~~~l~~~~~~~v~~G~ii~~~  107 (211)
                      -+.+    ++.+++|.|||++++.    +.--++.||+++..
T Consensus       344 ~~~f~A~dRe~ve~A~aGDIIGl~----nhG~~~IGDT~t~G  381 (528)
T COG4108         344 ALTFMAQDRETVEEAYAGDIIGLH----NHGTIQIGDTFTEG  381 (528)
T ss_pred             hHhhhhhhhhhhhhccCCCeEecc----CCCceeecceeecC
Confidence            4322    2678999999999983    33457888888754

>PTZ00132 GTP-binding nuclear protein Ran; Provisional

Probab=96.83  E-value=0.0047  Score=48.11  Aligned_cols=65  Identities=14%  Similarity=-0.003  Sum_probs=42.8

Q ss_pred             CCceeEeecCCcccccHhHHhhhccccceEEEEEeccCCCCcchH-HHHHHHHH--cCCCeEEEEEeCC
Q psy9646         146 ENRHYSHTDCPGHADYIKNMITGTSQMDGAILVVAATDGAMPQTR-EHLLLAKQ--IGVTNIVVFINKF  211 (211)
Q Consensus       146 ~~~~~~~iDtPG~~~~~~~~~~~~~~~d~~~~vvd~~~~~~~~~~-~~~~~~~~--~~~~~~i~~inK~  211 (211)
                      ....+.+.||||+.+|-.....-...+|+++++.|..+...-+.. .++..+..  .++| ++++.||+
T Consensus        56 ~~i~i~~~Dt~g~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~-i~lv~nK~  123 (215)
T PTZ00132         56 GPICFNVWDTAGQEKFGGLRDGYYIKGQCAIIMFDVTSRITYKNVPNWHRDIVRVCENIP-IVLVGNKV  123 (215)
T ss_pred             eEEEEEEEECCCchhhhhhhHHHhccCCEEEEEEECcCHHHHHHHHHHHHHHHHhCCCCC-EEEEEECc
Confidence            445788899999988765555556788999999998765432221 22222221  3466 77889995

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

Probab=96.82  E-value=0.002  Score=50.66  Aligned_cols=63  Identities=21%  Similarity=0.296  Sum_probs=50.7

Q ss_pred             CCceeEeecC-CcccccHhHHhhhccccceEEEEEeccCCCCcchHHHHHHHHHcCCCeEEEEEeCC
Q psy9646         146 ENRHYSHTDC-PGHADYIKNMITGTSQMDGAILVVAATDGAMPQTREHLLLAKQIGVTNIVVFINKF  211 (211)
Q Consensus       146 ~~~~~~~iDt-PG~~~~~~~~~~~~~~~d~~~~vvd~~~~~~~~~~~~~~~~~~~~~~~~i~~inK~  211 (211)
                      +.+.++++|| .|.+-|-+-+   ...+|.++.|+|....-....+++-+++...|++++.+++||+
T Consensus       132 ~~~e~VivDtEAGiEHfgRg~---~~~vD~vivVvDpS~~sl~taeri~~L~~elg~k~i~~V~NKv  195 (255)
T COG3640         132 NRYEVVIVDTEAGIEHFGRGT---IEGVDLVIVVVDPSYKSLRTAERIKELAEELGIKRIFVVLNKV  195 (255)
T ss_pred             ccCcEEEEecccchhhhcccc---ccCCCEEEEEeCCcHHHHHHHHHHHHHHHHhCCceEEEEEeec
Confidence            3467899999 6666665433   4678999999998766667788899999999988899999996

>PF00071 Ras: Ras family; InterPro: IPR001806 Small GTPases form an independent superfamily within the larger class of regulatory GTP hydrolases

Probab=96.79  E-value=0.0056  Score=45.01  Aligned_cols=66  Identities=18%  Similarity=0.086  Sum_probs=44.8

Q ss_pred             CCceeEeecCCcccccHhHHhhhccccceEEEEEeccCCCC-cchHHHHHHHHHcC--CCeEEEEEeCC
Q psy9646         146 ENRHYSHTDCPGHADYIKNMITGTSQMDGAILVVAATDGAM-PQTREHLLLAKQIG--VTNIVVFINKF  211 (211)
Q Consensus       146 ~~~~~~~iDtPG~~~~~~~~~~~~~~~d~~~~vvd~~~~~~-~~~~~~~~~~~~~~--~~~~i~~inK~  211 (211)
                      ....+.+.|++|+..|......-+..+|+++++.|....-. ..-+.++..+....  -++++++.||.
T Consensus        46 ~~~~l~i~D~~g~~~~~~~~~~~~~~~~~~ii~fd~~~~~S~~~~~~~~~~i~~~~~~~~~iivvg~K~  114 (162)
T PF00071_consen   46 KPVNLEIWDTSGQERFDSLRDIFYRNSDAIIIVFDVTDEESFENLKKWLEEIQKYKPEDIPIIVVGNKS  114 (162)
T ss_dssp             EEEEEEEEEETTSGGGHHHHHHHHTTESEEEEEEETTBHHHHHTHHHHHHHHHHHSTTTSEEEEEEETT
T ss_pred             cccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccceeeeccc
Confidence            33468889999999887766677889999999999754422 22233444443332  24488888984

This superfamily contains proteins that control a vast number of important processes and possess a common, structurally preserved GTP-binding domain [, ]. Sequence comparisons of small G proteins from various species have revealed that they are conserved in primary structures at the level of 30-55% similarity []. Crystallographic analysis of various small G proteins revealed the presence of a 20 kDa catalytic domain that is unique for the whole superfamily [, ]. The domain is built of five alpha helices (A1-A5), six beta-strands (B1-B6) and five polypeptide loops (G1-G5). A structural comparison of the GTP- and GDP-bound form, allows one to distinguish two functional loop regions: switch I and switch II that surround the gamma-phosphate group of the nucleotide. The G1 loop (also called the P-loop) that connects the B1 strand and the A1 helix is responsible for the binding of the phosphate groups. The G3 loop provides residues for Mg(2+) and phosphate binding and is located at the N terminus of the A2 helix. The G1 and G3 loops are sequentially similar to Walker A and Walker B boxes that are found in other nucleotide binding motifs. The G2 loop connects the A1 helix and the B2 strand and contains a conserved Thr residue responsible for Mg(2+) binding. The guanine base is recognised by the G4 and G5 loops. The consensus sequence NKXD of the G4 loop contains Lys and Asp residues directly interacting with the nucleotide. Part of the G5 loop located between B6 and A5 acts as a recognition site for the guanine base []. The small GTPase superfamily can be divided into at least 8 different families, including: Arf small GTPases. GTP-binding proteins involved in protein trafficking by modulating vesicle budding and uncoating within the Golgi apparatus. Ran small GTPases. GTP-binding proteins involved in nucleocytoplasmic transport. Required for the import of proteins into the nucleus and also for RNA export. Rab small GTPases. GTP-binding proteins involved in vesicular traffic. Rho small GTPases. GTP-binding proteins that control cytoskeleton reorganisation. Ras small GTPases. GTP-binding proteins involved in signalling pathways. Sar1 small GTPases. Small GTPase component of the coat protein complex II (COPII) which promotes the formation of transport vesicles from the endoplasmic reticulum (ER). Mitochondrial Rho (Miro). Small GTPase domain found in mitochondrial proteins involved in mitochondrial trafficking. Roc small GTPases domain. Small GTPase domain always found associated with the COR domain. ; GO: 0005525 GTP binding, 0007264 small GTPase mediated signal transduction; PDB: 1M7B_A 2V55_B 3EG5_C 3LAW_A 1YHN_A 1T91_B 1HE8_B 3SEA_B 3T5G_A 1XTS_A ....

>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=96.70  E-value=0.003  Score=43.67  Aligned_cols=60  Identities=18%  Similarity=0.256  Sum_probs=45.0

Q ss_pred             eeEeecCCcccccHhHHhhhccccceEEEEEeccCCCCcchHHHHHHHHHcCCC---eEEEEEeC
Q psy9646         149 HYSHTDCPGHADYIKNMITGTSQMDGAILVVAATDGAMPQTREHLLLAKQIGVT---NIVVFINK  210 (211)
Q Consensus       149 ~~~~iDtPG~~~~~~~~~~~~~~~d~~~~vvd~~~~~~~~~~~~~~~~~~~~~~---~~i~~inK  210 (211)
                      .++++|||+...  ......+..+|.+++++++...-.....+.++.+++.+.+   ++.+++|+
T Consensus        44 D~IIiDtpp~~~--~~~~~~l~~aD~vlvvv~~~~~s~~~~~~~~~~l~~~~~~~~~~~~lVvNr  106 (106)
T cd03111          44 DYVVVDLGRSLD--EVSLAALDQADRVFLVTQQDLPSIRNAKRLLELLRVLDYSLPAKIELVLNR  106 (106)
T ss_pred             CEEEEeCCCCcC--HHHHHHHHHcCeEEEEecCChHHHHHHHHHHHHHHHcCCCCcCceEEEecC
Confidence            689999998654  3345677889999999998655556667777777776654   57788986

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.

>cd04129 Rho2 Rho2 subfamily

Probab=96.69  E-value=0.0051  Score=46.78  Aligned_cols=63  Identities=11%  Similarity=0.065  Sum_probs=40.5

Q ss_pred             ceeEeecCCcccccHhHHhhhccccceEEEEEeccCCCCcch--HHHHHHHHH--cCCCeEEEEEeCC
Q psy9646         148 RHYSHTDCPGHADYIKNMITGTSQMDGAILVVAATDGAMPQT--REHLLLAKQ--IGVTNIVVFINKF  211 (211)
Q Consensus       148 ~~~~~iDtPG~~~~~~~~~~~~~~~d~~~~vvd~~~~~~~~~--~~~~~~~~~--~~~~~~i~~inK~  211 (211)
                      ..+.+.||||+..+.......+..+|+++++.|......-+.  ..++..+..  ..+| +|++.||+
T Consensus        49 ~~l~i~Dt~g~~~~~~~~~~~~~~a~~~llv~~i~~~~s~~~~~~~~~~~i~~~~~~~p-iilvgnK~  115 (187)
T cd04129          49 VQLALWDTAGQEEYERLRPLSYSKAHVILIGFAVDTPDSLENVRTKWIEEVRRYCPNVP-VILVGLKK  115 (187)
T ss_pred             EEEEEEECCCChhccccchhhcCCCCEEEEEEECCCHHHHHHHHHHHHHHHHHhCCCCC-EEEEeeCh
Confidence            357789999988775444445688999999988754322111  123333332  2466 88999995

Rho2 is a fungal GTPase that plays a role in cell morphogenesis, control of cell wall integrity, control of growth polarity, and maintenance of growth direction. Rho2 activates the protein kinase C homolog Pck2, and Pck2 controls Mok1, the major (1-3) alpha-D-glucan synthase. Together with Rho1 (RhoA), Rho2 regulates the construction of the cell wall. Unlike Rho1, Rho2 is not an essential protein, but its overexpression is lethal. Most Rho 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 proper intracellular localization via membrane attachment. As with other Rho family GTPases, the GDP/GTP cycling is regulated by GEFs (guanine nucleotide exchange factors), GAPs (GTPase-activating proteins) and GDIs (guanine nucleotide dissociation inhibitors).

>cd03701 IF2_IF5B_II IF2_IF5B_II: This family represents the domain II of prokaryotic Initiation Factor 2 (IF2) and its archeal and eukaryotic homologue aeIF5B

Probab=96.65  E-value=0.015  Score=39.49  Aligned_cols=60  Identities=25%  Similarity=0.180  Sum_probs=49.4

Q ss_pred             EEeeEEeecCCcEEEEEEEEEEEEecCCEEEEeecCceeeEEEEEEEecc-eecceecccCceeh
Q psy9646          25 PVEHTYSIPGRGTVVTGRLERGIVKKGMECEFTGYGRQFKTTVTGIEMFH-KILDEAQAGDQLGA   88 (211)
Q Consensus        25 ~v~~~~~~~~~G~v~~G~v~~G~i~~g~~v~i~p~~~~~~~~v~~i~~~~-~~~~~a~~G~~v~~   88 (211)
                      .|-+.-..++.|++.+.-|.+|++++||.+.....    ..+|+++...+ +.+.+|.|++.|.+
T Consensus         4 ~ViE~~~~~g~G~vatviV~~GtL~~Gd~iv~G~~----~GkVr~~~d~~g~~v~~a~Ps~~v~i   64 (95)
T cd03701           4 TVIESKLDKGRGPVATVIVQNGTLKKGDVIVAGGT----YGKIRTMVDENGKALLEAGPSTPVEI   64 (95)
T ss_pred             EEEEEEecCCCCeeEEEEEEcCeEecCCEEEECCc----cceEEEEECCCCCCccccCCCCCEEE
Confidence            45566667899999999999999999999887654    57788987665 68999999998843

IF2, the largest initiation factor is an essential GTP binding protein. In E. coli three natural forms of IF2 exist in the cell, IF2alpha, IF2beta1, and IF2beta2. Disruption of the eIF5B gene (FUN12) in yeast causes a severe slow-growth phenotype, associated with a defect in translation. eIF5B has a function analogous to prokaryotic IF2 in mediating the joining of the 60S ribosomal subunit. The eIF5B consists of three N-terminal domains (I, II, II) connected by a long helix to domain IV. Domain I is a G domain, domain II and IV are beta-barrels and domain III has a novel alpha-beta-alpha sandwich fold. The G domain and the beta-barrel domain II display a similar structure and arrangement to the homologous domains in EF1A, eEF1A and aeIF2gamma.

>cd03703 aeIF5B_II aeIF5B_II: This family represents the domain II of archeal and eukaryotic aeIF5B

Probab=96.59  E-value=0.028  Score=39.08  Aligned_cols=79  Identities=18%  Similarity=0.187  Sum_probs=58.8

Q ss_pred             EEeeEEeecCCcEEEEEEEEEEEEecCCEEEEeecCceeeEEEEEEEecce-----------ecceecccCceehhccCC
Q psy9646          25 PVEHTYSIPGRGTVVTGRLERGIVKKGMECEFTGYGRQFKTTVTGIEMFHK-----------ILDEAQAGDQLGALVKGM   93 (211)
Q Consensus        25 ~v~~~~~~~~~G~v~~G~v~~G~i~~g~~v~i~p~~~~~~~~v~~i~~~~~-----------~~~~a~~G~~v~~~l~~~   93 (211)
                      .|-++-..++.|++..--+.+|++++||.+.+........++|+++...+.           .+.++.|..-+-+...++
T Consensus         4 tVlEvk~~~G~G~t~dvIl~~GtL~~GD~Iv~g~~~Gpi~tkVRaLl~~~~~~E~r~~~~~~~vk~v~aa~gvkI~~~gL   83 (110)
T cd03703           4 TVLEVKEEEGLGTTIDVILYDGTLREGDTIVVCGLNGPIVTKVRALLKPQPLKELRVKSRFIHVKEVKAAAGVKILAPDL   83 (110)
T ss_pred             EEEEEEEcCCCceEEEEEEECCeEecCCEEEEccCCCCceEEEeEecCCCCchhhccccccceeeEEecCCCcEEEeCCC
Confidence            455667778999999999999999999999997765556789999987763           677787666555544433


Q ss_pred             Cccccccccccc
Q psy9646          94 KRDEVNRGLIMA  105 (211)
Q Consensus        94 ~~~~v~~G~ii~  105 (211)
                        +++..|+.+.
T Consensus        84 --~~v~aG~~~~   93 (110)
T cd03703          84 --EKAIAGSPLL   93 (110)
T ss_pred             --ccccCCCEEE
Confidence              3456676654

aeIF5B is a homologue of prokaryotic Initiation Factor 2 (IF2). Disruption of the eIF5B gene (FUN12) in yeast causes a severe slow-growth phenotype, associated with a defect in translation. eIF5B has a function analogous to prokaryotic IF2 in mediating the joining of joining of 60S subunits. The eIF5B consists of three N-terminal domains (I, II, II) connected by a long helix to domain IV. Domain I is a G domain, domain II and IV are beta-barrels and domain III has a novel alpha-beta-alpha sandwich fold. The G domain and the beta-barrel domain II display a similar structure and arrangement to the homologous domains of EF1A, eEF1A and aeIF2gamma.

>TIGR02836 spore_IV_A stage IV sporulation protein A

Probab=96.58  E-value=0.0062  Score=52.05  Aligned_cols=63  Identities=11%  Similarity=0.162  Sum_probs=47.6

Q ss_pred             ceeEeecCCcccc-------------------------cHhHHh----hhcc-ccceEEEEE-ecc------CCCCcchH
Q psy9646         148 RHYSHTDCPGHAD-------------------------YIKNMI----TGTS-QMDGAILVV-AAT------DGAMPQTR  190 (211)
Q Consensus       148 ~~~~~iDtPG~~~-------------------------~~~~~~----~~~~-~~d~~~~vv-d~~------~~~~~~~~  190 (211)
                      ..+.++||+|..+                         |..++.    ..+. .+|.+++|. |+.      +.....++
T Consensus        91 ~~VrlIDcvG~~v~GalG~~r~~k~RmV~TPW~d~~IPF~~AAeiGT~kVI~dhstIgivVtTDgsi~dI~Re~y~~aEe  170 (492)
T TIGR02836        91 FKVRLVDCVGYTVKGALGYMEEDKPRMVSTPWYDYEIPFEEAAEIGTRKVIQEHSTIGVVVTTDGTITDIPREDYVEAEE  170 (492)
T ss_pred             ccEEEEECCCcccCCCccceeccccccccCCcccccCchhhhhhhhHHHHHHhcCcEEEEEEcCCCccccccccchHHHH
Confidence            5788999999442                         333333    3444 789999998 875      55566778


Q ss_pred             HHHHHHHHcCCCeEEEEEeCC
Q psy9646         191 EHLLLAKQIGVTNIVVFINKF  211 (211)
Q Consensus       191 ~~~~~~~~~~~~~~i~~inK~  211 (211)
                      ++++.+++.++| +|+++||.
T Consensus       171 ~~i~eLk~~~kP-fiivlN~~  190 (492)
T TIGR02836       171 RVIEELKELNKP-FIILLNST  190 (492)
T ss_pred             HHHHHHHhcCCC-EEEEEECc
Confidence            899999999999 88999985

A comparative genome analysis of all sequenced genomes of shows a number of proteins conserved strictly among the endospore-forming subset of the Firmicutes. This protein, a member of this panel, is designated stage IV sporulation protein A. It acts in the mother cell compartment and plays a role in spore coat morphogenesis.

>TIGR00991 3a0901s02IAP34 GTP-binding protein (Chloroplast Envelope Protein Translocase)

Probab=96.56  E-value=0.016  Score=47.75  Aligned_cols=70  Identities=11%  Similarity=0.061  Sum_probs=42.4

Q ss_pred             EEeeeCCceeEeecCCccccc---HhHHhhhcc------ccceEEEEEecc-CCCCcchHHHHHHHHHc-C---CCeEEE
Q psy9646         141 VEYATENRHYSHTDCPGHADY---IKNMITGTS------QMDGAILVVAAT-DGAMPQTREHLLLAKQI-G---VTNIVV  206 (211)
Q Consensus       141 ~~~~~~~~~~~~iDtPG~~~~---~~~~~~~~~------~~d~~~~vvd~~-~~~~~~~~~~~~~~~~~-~---~~~~i~  206 (211)
                      ......+.++.++||||..+.   .++....++      ..|++++|.... ......++.+++.+... |   -.+.|+
T Consensus        79 ~~~~~~G~~l~VIDTPGL~d~~~~~e~~~~~ik~~l~~~g~DvVLyV~rLD~~R~~~~DkqlLk~Iqe~FG~~iw~~~IV  158 (313)
T TIGR00991        79 VSRTRAGFTLNIIDTPGLIEGGYINDQAVNIIKRFLLGKTIDVLLYVDRLDAYRVDTLDGQVIRAITDSFGKDIWRKSLV  158 (313)
T ss_pred             EEEEECCeEEEEEECCCCCchHHHHHHHHHHHHHHhhcCCCCEEEEEeccCcccCCHHHHHHHHHHHHHhhhhhhccEEE
Confidence            334457889999999997753   122222222      589999995432 23555666666666542 3   133677


Q ss_pred             EEeC
Q psy9646         207 FINK  210 (211)
Q Consensus       207 ~inK  210 (211)
                      ++++
T Consensus       159 VfTh  162 (313)
T TIGR00991       159 VLTH  162 (313)
T ss_pred             EEEC
Confidence            7775

>KOG0465|consensus

Probab=96.53  E-value=0.0073  Score=53.43  Aligned_cols=99  Identities=24%  Similarity=0.310  Sum_probs=66.3

Q ss_pred             ChHHHHHhhhCCCCCC--------------------CCCC-CeeEEEeeEEeecCCcEEEEEEEEEEEEecCCEEEEeec
Q psy9646           1 MELLNQIDTYIPQPVR--------------------DLDK-PFYLPVEHTYSIPGRGTVVTGRLERGIVKKGMECEFTGY   59 (211)
Q Consensus         1 ~~ll~~l~~~i~~p~~--------------------~~~~-p~~~~v~~~~~~~~~G~v~~G~v~~G~i~~g~~v~i~p~   59 (211)
                      +.|||++.+++|-|.-                    ..++ ||.-...-+...++ |..-.-||-+|.++.||.+.=.-+
T Consensus       297 QPlLDAVvdYLPsP~Ev~n~a~~ke~~~~ekv~l~~~~d~~Pfv~LAFKle~g~f-GqLTyvRvYqG~L~kG~~iyN~rt  375 (721)
T KOG0465|consen  297 QPLLDAVVDYLPSPSEVENYALNKETNSKEKVTLSPSRDKDPFVALAFKLEEGRF-GQLTYVRVYQGTLSKGDTIYNVRT  375 (721)
T ss_pred             chHHHHHHHhCCChhhhcccccccCCCCccceEeccCCCCCceeeeEEEeeecCc-cceEEEEEeeeeecCCcEEEecCC
Confidence            3688998888876621                    0122 55555444444455 888889999999999998876555


Q ss_pred             CceeeEEEEEEEecc----eecceecccCceehhccCCCccccccccccccc
Q psy9646          60 GRQFKTTVTGIEMFH----KILDEAQAGDQLGALVKGMKRDEVNRGLIMAKP  107 (211)
Q Consensus        60 ~~~~~~~v~~i~~~~----~~~~~a~~G~~v~~~l~~~~~~~v~~G~ii~~~  107 (211)
                      ++  +.++..+-..|    ++++++.|||++++  -|+   +...|+++.+.
T Consensus       376 gK--Kvrv~RL~rmHa~~medV~~v~AG~I~al--fGi---dcasGDTftd~  420 (721)
T KOG0465|consen  376 GK--KVRVGRLVRMHANDMEDVNEVLAGDICAL--FGI---DCASGDTFTDK  420 (721)
T ss_pred             Cc--eeEhHHHhHhcccccchhhhhhccceeee--ecc---ccccCceeccC
Confidence            54  66666654333    68999999999986  222   55566666543

>cd01873 RhoBTB RhoBTB subfamily

Probab=96.52  E-value=0.0081  Score=46.26  Aligned_cols=62  Identities=11%  Similarity=0.036  Sum_probs=41.3

Q ss_pred             CceeEeecCCcccccHhHHhhhccccceEEEEEeccCCCCcc-hH-HHHHHHHH--cCCCeEEEEEeCC
Q psy9646         147 NRHYSHTDCPGHADYIKNMITGTSQMDGAILVVAATDGAMPQ-TR-EHLLLAKQ--IGVTNIVVFINKF  211 (211)
Q Consensus       147 ~~~~~~iDtPG~~~~~~~~~~~~~~~d~~~~vvd~~~~~~~~-~~-~~~~~~~~--~~~~~~i~~inK~  211 (211)
                      ...+.+.||+|+++...  ......+|++++|.|......-+ .+ .++..++.  .++| +|++.||+
T Consensus        65 ~v~l~iwDTaG~~~~~~--~~~~~~ad~iilv~d~t~~~Sf~~~~~~w~~~i~~~~~~~p-iilvgNK~  130 (195)
T cd01873          65 SVSLRLWDTFGDHDKDR--RFAYGRSDVVLLCFSIASPNSLRNVKTMWYPEIRHFCPRVP-VILVGCKL  130 (195)
T ss_pred             EEEEEEEeCCCChhhhh--cccCCCCCEEEEEEECCChhHHHHHHHHHHHHHHHhCCCCC-EEEEEEch
Confidence            45678999999976432  23568999999999986554322 22 23343433  2566 88999995

Members of the RhoBTB subfamily of Rho GTPases are present in vertebrates, Drosophila, and Dictyostelium. RhoBTB proteins are characterized by a modular organization, consisting of a GTPase domain, a proline rich region, a tandem of two BTB (Broad-Complex, Tramtrack, and Bric a brac) domains, and a C-terminal region of unknown function. RhoBTB proteins may act as docking points for multiple components participating in signal transduction cascades. RhoBTB genes appeared upregulated in some cancer cell lines, suggesting a participation of RhoBTB proteins in the pathogenesis of particular tumors. Note that the Dictyostelium RacA GTPase domain is more closely related to Rac proteins than to RhoBTB proteins, where RacA actually belongs. Thus, the Dictyostelium RacA is not included here. Most Rho proteins contain a lipid modification site at the C-terminus; however, RhoBTB is one of few Rho subfamilies that lack this feature.

>cd00066 G-alpha G protein alpha subunit

Probab=96.45  E-value=0.011  Score=49.23  Aligned_cols=75  Identities=19%  Similarity=0.267  Sum_probs=51.1

Q ss_pred             EeEeEEEeeeCCceeEeecCCcccccHhHHhhhccccceEEEEEeccCCC-----------CcchHHHHHHHHH----cC
Q psy9646         136 INVAHVEYATENRHYSHTDCPGHADYIKNMITGTSQMDGAILVVAATDGA-----------MPQTREHLLLAKQ----IG  200 (211)
Q Consensus       136 v~~~~~~~~~~~~~~~~iDtPG~~~~~~~~~~~~~~~d~~~~vvd~~~~~-----------~~~~~~~~~~~~~----~~  200 (211)
                      .......+..++..+.++|++|++..-+.-..-..++++++||+|..+--           ...+...++.+..    .+
T Consensus       149 ~Gi~~~~f~~~~~~~~~~DvgGq~~~R~kW~~~f~~v~~iifvv~lsd~d~~~~e~~~~nrl~esl~~f~~i~~~~~~~~  228 (317)
T cd00066         149 TGIVETKFTIKNLKFRMFDVGGQRSERKKWIHCFEDVTAIIFVVALSEYDQVLFEDESTNRMQESLNLFDSICNSRWFAN  228 (317)
T ss_pred             CCeeEEEEEecceEEEEECCCCCcccchhHHHHhCCCCEEEEEEEchhcccccccCCcchHHHHHHHHHHHHHhCccccC
Confidence            34445556677888999999999876666666678999999999987531           1222233333322    35


Q ss_pred             CCeEEEEEeCC
Q psy9646         201 VTNIVVFINKF  211 (211)
Q Consensus       201 ~~~~i~~inK~  211 (211)
                      .| +++++||.
T Consensus       229 ~p-ill~~NK~  238 (317)
T cd00066         229 TS-IILFLNKK  238 (317)
T ss_pred             CC-EEEEccCh
Confidence            67 88999994

The alpha subunit of G proteins contains the guanine nucleotide binding site. The heterotrimeric GNP-binding proteins are signal transducers that communicate signals from many hormones, neurotransmitters, chemokines, and autocrine and paracrine factors. Extracellular signals are received by receptors, which activate the G proteins, which in turn route the signals to several distinct intracellular signaling pathways. The alpha subunit of G proteins is a weak GTPase. In the resting state, heterotrimeric G proteins are associated at the cytosolic face of the plasma membrane and the alpha subunit binds to GDP. Upon activation by a receptor GDP is replaced with GTP, and the G-alpha/GTP complex dissociates from the beta and gamma subunits. This results in activation of downstream signaling pathways, such as cAMP synthesis by adenylyl cyclase, which is terminated when GTP is hydrolized and the heterotrimers reconstitute.

>COG2262 HflX GTPases [General function prediction only]

Probab=96.43  E-value=0.0078  Score=50.93  Aligned_cols=64  Identities=22%  Similarity=0.282  Sum_probs=44.9

Q ss_pred             CceeEeecCCcccc-----c---HhHHhhhccccceEEEEEeccCCCC-cchHHHHHHHHHc---CCCeEEEEEeCC
Q psy9646         147 NRHYSHTDCPGHAD-----Y---IKNMITGTSQMDGAILVVAATDGAM-PQTREHLLLAKQI---GVTNIVVFINKF  211 (211)
Q Consensus       147 ~~~~~~iDtPG~~~-----~---~~~~~~~~~~~d~~~~vvd~~~~~~-~~~~~~~~~~~~~---~~~~~i~~inK~  211 (211)
                      +.++.+.||-|+-.     +   .+.+......||+.+.|||+.+.-. .+-....+.+...   ..| +|+|.||+
T Consensus       239 g~~vlLtDTVGFI~~LP~~LV~AFksTLEE~~~aDlllhVVDaSdp~~~~~~~~v~~vL~el~~~~~p-~i~v~NKi  314 (411)
T COG2262         239 GRKVLLTDTVGFIRDLPHPLVEAFKSTLEEVKEADLLLHVVDASDPEILEKLEAVEDVLAEIGADEIP-IILVLNKI  314 (411)
T ss_pred             CceEEEecCccCcccCChHHHHHHHHHHHHhhcCCEEEEEeecCChhHHHHHHHHHHHHHHcCCCCCC-EEEEEecc
Confidence            57899999999442     2   3455566678999999999987732 3333455555554   456 88999995

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

Probab=96.38  E-value=0.0092  Score=44.71  Aligned_cols=61  Identities=21%  Similarity=0.341  Sum_probs=45.5

Q ss_pred             eeEeecCCcccccHhHHhhhccccceEEEEEeccCCCCcchHHHHHHHHHcCCCeEEEEEeCC
Q psy9646         149 HYSHTDCPGHADYIKNMITGTSQMDGAILVVAATDGAMPQTREHLLLAKQIGVTNIVVFINKF  211 (211)
Q Consensus       149 ~~~~iDtPG~~~~~~~~~~~~~~~d~~~~vvd~~~~~~~~~~~~~~~~~~~~~~~~i~~inK~  211 (211)
                      .++++|||+....  ....++..+|.+++++++...-.......++.++..+.+.+.+++|++
T Consensus        64 d~viiD~p~~~~~--~~~~~l~~ad~viiv~~~~~~s~~~~~~~~~~~~~~~~~~~~iv~N~~  124 (179)
T cd02036          64 DYILIDSPAGIER--GFITAIAPADEALLVTTPEISSLRDADRVKGLLEALGIKVVGVIVNRV  124 (179)
T ss_pred             CEEEEECCCCCcH--HHHHHHHhCCcEEEEeCCCcchHHHHHHHHHHHHHcCCceEEEEEeCC
Confidence            7899999986433  455678899999999998765555566677777776766566788974

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.

>KOG0052|consensus

Probab=96.29  E-value=0.0039  Score=52.34  Aligned_cols=111  Identities=24%  Similarity=0.349  Sum_probs=91.1

Q ss_pred             EeeEEeecCCcEEEEEEEEEEEEecCCEEEEeecCceeeEEEEEEEecceecceecccCceehhccCCCccccccccccc
Q psy9646          26 VEHTYSIPGRGTVVTGRLERGIVKKGMECEFTGYGRQFKTTVTGIEMFHKILDEAQAGDQLGALVKGMKRDEVNRGLIMA  105 (211)
Q Consensus        26 v~~~~~~~~~G~v~~G~v~~G~i~~g~~v~i~p~~~~~~~~v~~i~~~~~~~~~a~~G~~v~~~l~~~~~~~v~~G~ii~  105 (211)
                      .+++|+..+.|      +..|.++.++.+...|...  +.++++.++++..-.++.+|++++++..+++..++.+|.++.
T Consensus       186 ~~~~~~~~g~~------~~t~iie~~~~v~~~~~~~--~~~vk~~~~~~~a~s~~~p~~~vG~~~~~v~v~~i~~gnV~~  257 (391)
T KOG0052|consen  186 LQDVYKIGGIG------VETGISEPGMDVTFAPSGV--TTEVKSVKVHHEAGSEDLPGDNVGFNVKNVSVKDIDRGNVVG  257 (391)
T ss_pred             hccceeeccee------eeeeeccCccceecccccc--ccccccEEEEeccCccCCCcceeeeecccCccCcccccceec
Confidence            44555544444      8889999999999888864  888999999998888999999999999999999999998776


Q ss_pred             c-cchhhhhhhhcccccccccchhhcccceEEeEeEEEee
Q psy9646         106 K-PVLADKKLAKVKQYADIDNAPEEKARGITINVAHVEYA  144 (211)
Q Consensus       106 ~-~~~~~~~~~~f~~~i~~~~~~~e~~rg~tv~~~~~~~~  144 (211)
                      . +..++.....|.++.....++-.+..+++-.+.+++.+
T Consensus       258 dsK~~p~~~~~g~t~qviilnhpgqis~gy~pvldcht~h  297 (391)
T KOG0052|consen  258 DSKNDPPVEAAGFTAQVIILNHPGQISVGYAPVLDCHTAH  297 (391)
T ss_pred             ccccCCccccccceeeEEEecCccccCCCccccccccccc
Confidence            4 55667777888888888999999999998888766654

>smart00275 G_alpha G protein alpha subunit

Probab=96.24  E-value=0.019  Score=48.24  Aligned_cols=77  Identities=17%  Similarity=0.243  Sum_probs=52.9

Q ss_pred             eEEeEeEEEeeeCCceeEeecCCcccccHhHHhhhccccceEEEEEeccCCC-----------CcchHHHHHHHHH----
Q psy9646         134 ITINVAHVEYATENRHYSHTDCPGHADYIKNMITGTSQMDGAILVVAATDGA-----------MPQTREHLLLAKQ----  198 (211)
Q Consensus       134 ~tv~~~~~~~~~~~~~~~~iDtPG~~~~~~~~~~~~~~~d~~~~vvd~~~~~-----------~~~~~~~~~~~~~----  198 (211)
                      -|.......+...+..+.++|.+|++.+-+.-..-..++++++||+|..+--           ...+...++.+..    
T Consensus       170 ~T~Gi~~~~f~~~~~~~~~~DvgGqr~~R~kW~~~f~~v~~IiFvvdlSd~d~~~~Ed~~~nrl~esl~~f~~l~~~~~~  249 (342)
T smart00275      170 PTTGIQETAFIVKKLFFRMFDVGGQRSERKKWIHCFDNVTAIIFCVALSEYDQVLEEDESTNRMQESLNLFESICNSRWF  249 (342)
T ss_pred             CccceEEEEEEECCeEEEEEecCCchhhhhhHHHHhCCCCEEEEEEECcccccchhccCcchHHHHHHHHHHHHHcCccc
Confidence            3444455567778888999999999877666666778999999999987521           1223333333332    


Q ss_pred             cCCCeEEEEEeCC
Q psy9646         199 IGVTNIVVFINKF  211 (211)
Q Consensus       199 ~~~~~~i~~inK~  211 (211)
                      .+.| +++++||.
T Consensus       250 ~~~p-iil~~NK~  261 (342)
T smart00275      250 ANTS-IILFLNKI  261 (342)
T ss_pred             cCCc-EEEEEecH
Confidence            3566 88999994

Subunit of G proteins that contains the guanine nucleotide binding site

>PF04670 Gtr1_RagA: Gtr1/RagA G protein conserved region; InterPro: IPR006762 GTR1 was first identified in Saccharomyces cerevisiae (Baker's yeast) as a suppressor of a mutation in RCC1

Probab=96.24  E-value=0.025  Score=44.80  Aligned_cols=78  Identities=23%  Similarity=0.292  Sum_probs=45.9

Q ss_pred             ceEEeEeEEEeee-CCceeEeecCCcccccHhH-----HhhhccccceEEEEEeccCCCCcchHH----HHHHHHHc--C
Q psy9646         133 GITINVAHVEYAT-ENRHYSHTDCPGHADYIKN-----MITGTSQMDGAILVVAATDGAMPQTRE----HLLLAKQI--G  200 (211)
Q Consensus       133 g~tv~~~~~~~~~-~~~~~~~iDtPG~~~~~~~-----~~~~~~~~d~~~~vvd~~~~~~~~~~~----~~~~~~~~--~  200 (211)
                      +.|.+.....+.. ..-.+.+.|+||+.+|+..     ...-++.+++.|+|+|+...-...+..    .++.+.+.  +
T Consensus        32 ~~T~~ve~~~v~~~~~~~l~iwD~pGq~~~~~~~~~~~~~~if~~v~~LIyV~D~qs~~~~~~l~~~~~~i~~l~~~sp~  111 (232)
T PF04670_consen   32 EPTIDVEKSHVRFLSFLPLNIWDCPGQDDFMENYFNSQREEIFSNVGVLIYVFDAQSDDYDEDLAYLSDCIEALRQYSPN  111 (232)
T ss_dssp             ----SEEEEEEECTTSCEEEEEEE-SSCSTTHTTHTCCHHHHHCTESEEEEEEETT-STCHHHHHHHHHHHHHHHHHSTT
T ss_pred             CCcCCceEEEEecCCCcEEEEEEcCCccccccccccccHHHHHhccCEEEEEEEcccccHHHHHHHHHHHHHHHHHhCCC
Confidence            3455555555543 3458999999999987665     455678999999999998333333222    33334333  3


Q ss_pred             CCeEEEEEeCC
Q psy9646         201 VTNIVVFINKF  211 (211)
Q Consensus       201 ~~~~i~~inK~  211 (211)
                      ++ +.+++.||
T Consensus       112 ~~-v~vfiHK~  121 (232)
T PF04670_consen  112 IK-VFVFIHKM  121 (232)
T ss_dssp             -E-EEEEEE-C
T ss_pred             Ce-EEEEEeec
Confidence            44 66789986

RCC1 catalyzes guanine nucleotide exchange on Ran, a well characterised nuclear Ras-like small G protein that plays an essential role in the import and export of proteins and RNAs across the nuclear membrane through the nuclear pore complex. RCC1 is located inside the nucleus, bound to chromatin. The concentration of GTP within the cell is ~30 times higher than the concentration of GDP, thus resulting in the preferential production of the GTP form of Ran by RCC1 within the nucleus. Gtr1p is located within both the cytoplasm and the nucleus and has been reported to play a role in cell growth. Biochemical analysis revealed that Gtr1 is in fact a G protein of the Ras family. The RagA/B proteins are the human homologues of Gtr1 and Rag A and Gtr1p belong to the sixth subfamily of the Ras-like small GTPase superfamily []. ; GO: 0005525 GTP binding, 0005634 nucleus, 0005737 cytoplasm; PDB: 3R7W_B 2Q3F_B 3LLU_A.

>COG3596 Predicted GTPase [General function prediction only]

Probab=96.21  E-value=0.016  Score=46.66  Aligned_cols=65  Identities=15%  Similarity=0.238  Sum_probs=51.1

Q ss_pred             CCceeEeecCCcccc-------cHhHHhhhccccceEEEEEeccCCCCcchHHHHHHHHHcCC-CeEEEEEeC
Q psy9646         146 ENRHYSHTDCPGHAD-------YIKNMITGTSQMDGAILVVAATDGAMPQTREHLLLAKQIGV-TNIVVFINK  210 (211)
Q Consensus       146 ~~~~~~~iDtPG~~~-------~~~~~~~~~~~~d~~~~vvd~~~~~~~~~~~~~~~~~~~~~-~~~i~~inK  210 (211)
                      .++.+++.||||..+       +.+....-+...|.+++++++.+.--..+...+......+. .+++++||-
T Consensus        85 ~~~~l~lwDtPG~gdg~~~D~~~r~~~~d~l~~~DLvL~l~~~~draL~~d~~f~~dVi~~~~~~~~i~~VtQ  157 (296)
T COG3596          85 DGENLVLWDTPGLGDGKDKDAEHRQLYRDYLPKLDLVLWLIKADDRALGTDEDFLRDVIILGLDKRVLFVVTQ  157 (296)
T ss_pred             cccceEEecCCCcccchhhhHHHHHHHHHHhhhccEEEEeccCCCccccCCHHHHHHHHHhccCceeEEEEeh
Confidence            457899999999776       55667777788999999999988877777777777766555 558888884

>KOG1954|consensus

Probab=96.19  E-value=0.01  Score=49.70  Aligned_cols=63  Identities=21%  Similarity=0.178  Sum_probs=48.3

Q ss_pred             ceeEeecCCccc-----------ccHhHHhhhccccceEEEEEeccC-CCCcchHHHHHHHHHcCCCeEEEEEeCC
Q psy9646         148 RHYSHTDCPGHA-----------DYIKNMITGTSQMDGAILVVAATD-GAMPQTREHLLLAKQIGVTNIVVFINKF  211 (211)
Q Consensus       148 ~~~~~iDtPG~~-----------~~~~~~~~~~~~~d~~~~vvd~~~-~~~~~~~~~~~~~~~~~~~~~i~~inK~  211 (211)
                      .+++++||||.-           +|......=++.+|.++++.|+.. .+.+...+++..++...-+ +=+|+||.
T Consensus       147 e~vtiVdtPGILsgeKQrisR~ydF~~v~~WFaeR~D~IiLlfD~hKLDIsdEf~~vi~aLkG~Edk-iRVVLNKA  221 (532)
T KOG1954|consen  147 ESVTIVDTPGILSGEKQRISRGYDFTGVLEWFAERVDRIILLFDAHKLDISDEFKRVIDALKGHEDK-IRVVLNKA  221 (532)
T ss_pred             hheeeeccCcccccchhcccccCChHHHHHHHHHhccEEEEEechhhccccHHHHHHHHHhhCCcce-eEEEeccc
Confidence            478999999943           466666566678999999999863 4667788899999876654 55789994

>KOG0078|consensus

Probab=96.18  E-value=0.044  Score=42.29  Aligned_cols=75  Identities=15%  Similarity=0.127  Sum_probs=52.6

Q ss_pred             EeEeEEEeeeCCce--eEeecCCcccccHhHHhhhccccceEEEEEeccCCC-CcchHHHHHHHHH---cCCCeEEEEEe
Q psy9646         136 INVAHVEYATENRH--YSHTDCPGHADYIKNMITGTSQMDGAILVVAATDGA-MPQTREHLLLAKQ---IGVTNIVVFIN  209 (211)
Q Consensus       136 v~~~~~~~~~~~~~--~~~iDtPG~~~~~~~~~~~~~~~d~~~~vvd~~~~~-~~~~~~~~~~~~~---~~~~~~i~~in  209 (211)
                      ++...-+.+.++.+  .-+.||.|++.|-.-.-+-...|+++++|.|..... +...+.+++..++   .+++ +++|-|
T Consensus        47 IDFk~kti~l~g~~i~lQiWDtaGQerf~ti~~sYyrgA~gi~LvyDitne~Sfeni~~W~~~I~e~a~~~v~-~~LvGN  125 (207)
T KOG0078|consen   47 IDFKIKTIELDGKKIKLQIWDTAGQERFRTITTAYYRGAMGILLVYDITNEKSFENIRNWIKNIDEHASDDVV-KILVGN  125 (207)
T ss_pred             EEEEEEEEEeCCeEEEEEEEEcccchhHHHHHHHHHhhcCeeEEEEEccchHHHHHHHHHHHHHHhhCCCCCc-EEEeec
Confidence            34444444444443  457999999999988888889999999999986543 3444445555544   3577 779999


Q ss_pred             CC
Q psy9646         210 KF  211 (211)
Q Consensus       210 K~  211 (211)
                      |+
T Consensus       126 K~  127 (207)
T KOG0078|consen  126 KC  127 (207)
T ss_pred             cc
Confidence            96

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

Probab=96.14  E-value=0.02  Score=42.80  Aligned_cols=64  Identities=20%  Similarity=0.282  Sum_probs=47.1

Q ss_pred             CCceeEeecCCcccccHhHHhhhc--cccceEEEEEeccCCCCcchHHHHHHHHHcCCCeEEEEEeCC
Q psy9646         146 ENRHYSHTDCPGHADYIKNMITGT--SQMDGAILVVAATDGAMPQTREHLLLAKQIGVTNIVVFINKF  211 (211)
Q Consensus       146 ~~~~~~~iDtPG~~~~~~~~~~~~--~~~d~~~~vvd~~~~~~~~~~~~~~~~~~~~~~~~i~~inK~  211 (211)
                      .++.++++|||+...  ......+  ..+|.+++++.+...-.....+.++.+.+.+.+.+-+++|++
T Consensus        66 ~~yD~VIiD~pp~~~--~~~~~~~~~~~ad~viiV~~p~~~s~~~~~~~~~~l~~~~~~~~gvv~N~~  131 (169)
T cd02037          66 GELDYLVIDMPPGTG--DEHLTLAQSLPIDGAVIVTTPQEVALDDVRKAIDMFKKVNIPILGVVENMS  131 (169)
T ss_pred             CCCCEEEEeCCCCCc--HHHHHHHhccCCCeEEEEECCchhhHHHHHHHHHHHHhcCCCeEEEEEcCC
Confidence            456799999998632  2233333  678999999987655556677888999999988666788874

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.

>KOG0092|consensus

Probab=96.12  E-value=0.02  Score=43.58  Aligned_cols=64  Identities=20%  Similarity=0.191  Sum_probs=49.5

Q ss_pred             ceeEeecCCcccccHhHHhhhccccceEEEEEeccCCC-CcchHHHHHHHHHcCCCeEEE--EEeCC
Q psy9646         148 RHYSHTDCPGHADYIKNMITGTSQMDGAILVVAATDGA-MPQTREHLLLAKQIGVTNIVV--FINKF  211 (211)
Q Consensus       148 ~~~~~iDtPG~~~~~~~~~~~~~~~d~~~~vvd~~~~~-~~~~~~~~~~~~~~~~~~~i~--~inK~  211 (211)
                      -++.+=||.|+++|-.-+-.=.++|+++|+|-|..+.- +...+.+++.+++..-|.+++  |-||+
T Consensus        54 ikfeIWDTAGQERy~slapMYyRgA~AAivvYDit~~~SF~~aK~WvkeL~~~~~~~~vialvGNK~  120 (200)
T KOG0092|consen   54 IKFEIWDTAGQERYHSLAPMYYRGANAAIVVYDITDEESFEKAKNWVKELQRQASPNIVIALVGNKA  120 (200)
T ss_pred             EEEEEEEcCCcccccccccceecCCcEEEEEEecccHHHHHHHHHHHHHHHhhCCCCeEEEEecchh
Confidence            56778999999998777666778999999999987554 355667888888877676655  67874

>KOG0084|consensus

Probab=96.00  E-value=0.066  Score=40.98  Aligned_cols=89  Identities=13%  Similarity=0.103  Sum_probs=61.9

Q ss_pred             ccccchhhcccceEEeEeEEEeeeCCc--eeEeecCCcccccHhHHhhhccccceEEEEEeccCCCC-cchHHHHHHHHH
Q psy9646         122 DIDNAPEEKARGITINVAHVEYATENR--HYSHTDCPGHADYIKNMITGTSQMDGAILVVAATDGAM-PQTREHLLLAKQ  198 (211)
Q Consensus       122 ~~~~~~~e~~rg~tv~~~~~~~~~~~~--~~~~iDtPG~~~~~~~~~~~~~~~d~~~~vvd~~~~~~-~~~~~~~~~~~~  198 (211)
                      .-+..+.+-...+-++....+++..+.  .+-+=||.|+++|-.-+.+=.+.|+++|+|-|..+... ..-..++..+.+
T Consensus        30 ~~~~f~e~~~sTIGVDf~~rt~e~~gk~iKlQIWDTAGQERFrtit~syYR~ahGii~vyDiT~~~SF~~v~~Wi~Ei~~  109 (205)
T KOG0084|consen   30 KDDTFTESYISTIGVDFKIRTVELDGKTIKLQIWDTAGQERFRTITSSYYRGAHGIIFVYDITKQESFNNVKRWIQEIDR  109 (205)
T ss_pred             ccCCcchhhcceeeeEEEEEEeeecceEEEEEeeeccccHHHhhhhHhhccCCCeEEEEEEcccHHHhhhHHHHHHHhhh
Confidence            345555555555666666666666654  45678999999999888888899999999999876543 333334444544


Q ss_pred             c---CCCeEEEEEeCC
Q psy9646         199 I---GVTNIVVFINKF  211 (211)
Q Consensus       199 ~---~~~~~i~~inK~  211 (211)
                      .   ++| .++|-||+
T Consensus       110 ~~~~~v~-~lLVGNK~  124 (205)
T KOG0084|consen  110 YASENVP-KLLVGNKC  124 (205)
T ss_pred             hccCCCC-eEEEeecc
Confidence            3   456 56899995

>KOG0073|consensus

Probab=95.99  E-value=0.038  Score=41.10  Aligned_cols=81  Identities=19%  Similarity=0.195  Sum_probs=53.3

Q ss_pred             chhhcccceEEeEeEEEeeeCCceeEeecCCcccccHhHHhhhccccceEEEEEeccCCCC-cchHHHHHHH----HHcC
Q psy9646         126 APEEKARGITINVAHVEYATENRHYSHTDCPGHADYIKNMITGTSQMDGAILVVAATDGAM-PQTREHLLLA----KQIG  200 (211)
Q Consensus       126 ~~~e~~rg~tv~~~~~~~~~~~~~~~~iDtPG~~~~~~~~~~~~~~~d~~~~vvd~~~~~~-~~~~~~~~~~----~~~~  200 (211)
                      .......|+.++    +++.+++++++-|..|+..+...=..=.+.+|+.++|+|+.+..- .+....+..+    +..|
T Consensus        42 ~~i~pt~gf~Ik----tl~~~~~~L~iwDvGGq~~lr~~W~nYfestdglIwvvDssD~~r~~e~~~~L~~lL~eerlaG  117 (185)
T KOG0073|consen   42 DTISPTLGFQIK----TLEYKGYTLNIWDVGGQKTLRSYWKNYFESTDGLIWVVDSSDRMRMQECKQELTELLVEERLAG  117 (185)
T ss_pred             cccCCccceeeE----EEEecceEEEEEEcCCcchhHHHHHHhhhccCeEEEEEECchHHHHHHHHHHHHHHHhhhhhcC
Confidence            333444444444    677899999999999987765544445578899999999865542 2223333333    3357


Q ss_pred             CCeEEEEEeCC
Q psy9646         201 VTNIVVFINKF  211 (211)
Q Consensus       201 ~~~~i~~inK~  211 (211)
                      .| ++++.||.
T Consensus       118 ~~-~Lvlank~  127 (185)
T KOG0073|consen  118 AP-LLVLANKQ  127 (185)
T ss_pred             Cc-eEEEEecC
Confidence            67 67889983

>cd01855 YqeH YqeH

Probab=95.99  E-value=0.015  Score=44.41  Aligned_cols=51  Identities=10%  Similarity=-0.093  Sum_probs=35.3

Q ss_pred             ccccHhHHhhhccccceEEEEEeccCCCCcchHHHHHHHHHcCCCeEEEEEeCC
Q psy9646         158 HADYIKNMITGTSQMDGAILVVAATDGAMPQTREHLLLAKQIGVTNIVVFINKF  211 (211)
Q Consensus       158 ~~~~~~~~~~~~~~~d~~~~vvd~~~~~~~~~~~~~~~~~~~~~~~~i~~inK~  211 (211)
                      +..|.......+..+|++++|+|+.+........+.  ....+.| +++++||+
T Consensus        21 ~~~~~~~l~~~~~~ad~il~VvD~~~~~~~~~~~l~--~~~~~~~-~ilV~NK~   71 (190)
T cd01855          21 EDFILNLLSSISPKKALVVHVVDIFDFPGSLIPRLR--LFGGNNP-VILVGNKI   71 (190)
T ss_pred             HHHHHHHHHhcccCCcEEEEEEECccCCCccchhHH--HhcCCCc-EEEEEEch
Confidence            333566677777999999999999876544444442  2234566 77999996

YqeH is an essential GTP-binding protein. Depletion of YqeH induces an excess initiation of DNA replication, suggesting that it negatively controls initiation of chromosome replication. The YqeH subfamily is common in eukaryotes and sporadically present in bacteria with probable acquisition by plants from chloroplasts. Proteins of the YqeH family contain all sequence motifs typical of the vast class of P-loop-containing GTPases, but show a circular permutation, with a G4-G1-G3 pattern of motifs as opposed to the regular G1-G3-G4 pattern seen in most GTPases.

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

Probab=95.94  E-value=0.022  Score=45.73  Aligned_cols=60  Identities=22%  Similarity=0.202  Sum_probs=48.5

Q ss_pred             ceeEeecCCcccccHhHHhhhccccceEEEEEeccCCCCcchHHHHHHHHHcCCCeEEEEEeC
Q psy9646         148 RHYSHTDCPGHADYIKNMITGTSQMDGAILVVAATDGAMPQTREHLLLAKQIGVTNIVVFINK  210 (211)
Q Consensus       148 ~~~~~iDtPG~~~~~~~~~~~~~~~d~~~~vvd~~~~~~~~~~~~~~~~~~~~~~~~i~~inK  210 (211)
                      ....++|+|=-  --..+.+++..+|++++|...+..-....++++++++.+++| ..+++||
T Consensus       164 ~~~~IIDsaaG--~gCpVi~sl~~aD~ai~VTEPTp~glhD~kr~~el~~~f~ip-~~iViNr  223 (284)
T COG1149         164 ADLLIIDSAAG--TGCPVIASLKGADLAILVTEPTPFGLHDLKRALELVEHFGIP-TGIVINR  223 (284)
T ss_pred             cceeEEecCCC--CCChHHHhhccCCEEEEEecCCccchhHHHHHHHHHHHhCCc-eEEEEec
Confidence            36788999632  125688999999999999998766666778899999999999 5578998

>PF06858 NOG1: Nucleolar GTP-binding protein 1 (NOG1); InterPro: IPR010674 This domain represents a conserved region of approximately 60 residues in length within nucleolar GTP-binding protein 1 (NOG1)

Probab=95.88  E-value=0.044  Score=33.38  Aligned_cols=48  Identities=15%  Similarity=0.253  Sum_probs=25.8

Q ss_pred             hHHhhhccc-cceEEEEEeccCCCC--cch-HHHHHHHHH-c-CCCeEEEEEeCC
Q psy9646         163 KNMITGTSQ-MDGAILVVAATDGAM--PQT-REHLLLAKQ-I-GVTNIVVFINKF  211 (211)
Q Consensus       163 ~~~~~~~~~-~d~~~~vvd~~~~~~--~~~-~~~~~~~~~-~-~~~~~i~~inK~  211 (211)
                      .++..|++. .++++|++|..+.-.  -.+ ..+++..+. . +.| +++|+||+
T Consensus         4 ~qai~AL~hL~~~ilfi~D~Se~CGysie~Q~~L~~~ik~~F~~~P-~i~V~nK~   57 (58)
T PF06858_consen    4 MQAITALAHLADAILFIIDPSEQCGYSIEEQLSLFKEIKPLFPNKP-VIVVLNKI   57 (58)
T ss_dssp             HHHHHGGGGT-SEEEEEE-TT-TTSS-HHHHHHHHHHHHHHTTTS--EEEEE--T
T ss_pred             HHHHHHHHhhcceEEEEEcCCCCCCCCHHHHHHHHHHHHHHcCCCC-EEEEEecc
Confidence            456677764 579999999874433  222 223444443 3 566 77999996

The NOG1 family includes eukaryotic, bacterial and archaeal proteins. In Saccharomyces cerevisiae, the NOG1 gene has been shown to be essential for cell viability, suggesting that NOG1 may play an important role in nucleolar functions. In particular, NOG1 is believed to be functionally linked to ribosome biogenesis, which occurs in the nucleolus. In eukaryotes, NOG1 mutants were found to disrupt the biogenesis of the 60S ribosomal subunit []. The DRG and OBG proteins as well as the prokaryotic NOG-like proteins are homologous throughout their length to the amino half of eukaryotic NOG1, which contains the GTP binding motifs (IPR006073 from INTERPRO); the N-terminal GTP-binding motif is required for function.; GO: 0005525 GTP binding; PDB: 2E87_A.

>KOG0075|consensus

Probab=95.80  E-value=0.052  Score=39.72  Aligned_cols=71  Identities=18%  Similarity=0.150  Sum_probs=46.7

Q ss_pred             EEEeeeCCceeEeecCCcccccHhHHhhhccccceEEEEEeccCCCC-cchHH----HHHHHHHcCCCeEEEEEeCC
Q psy9646         140 HVEYATENRHYSHTDCPGHADYIKNMITGTSQMDGAILVVAATDGAM-PQTRE----HLLLAKQIGVTNIVVFINKF  211 (211)
Q Consensus       140 ~~~~~~~~~~~~~iDtPG~~~~~~~~~~~~~~~d~~~~vvd~~~~~~-~~~~~----~~~~~~~~~~~~~i~~inK~  211 (211)
                      ...++-+.-.+.+-|.||+..|-..-..=-..+|+++++|||.+.-. +..+.    ++..-.-.|+| +.+.-||+
T Consensus        57 mrk~tkgnvtiklwD~gGq~rfrsmWerycR~v~aivY~VDaad~~k~~~sr~EL~~LL~k~~l~gip-~LVLGnK~  132 (186)
T KOG0075|consen   57 MRKVTKGNVTIKLWDLGGQPRFRSMWERYCRGVSAIVYVVDAADPDKLEASRSELHDLLDKPSLTGIP-LLVLGNKI  132 (186)
T ss_pred             eEEeccCceEEEEEecCCCccHHHHHHHHhhcCcEEEEEeecCCcccchhhHHHHHHHhcchhhcCCc-EEEecccc
Confidence            34455556678889999998886544444578999999999986322 22222    22222346888 66778885

>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=95.74  E-value=0.016  Score=46.10  Aligned_cols=62  Identities=15%  Similarity=0.215  Sum_probs=33.5

Q ss_pred             eeEeecCCccccc------HhHHhhhccc--cceEEEEEeccCCCCcchHH-----HHHHHHHcCCCeEEEEEeCC
Q psy9646         149 HYSHTDCPGHADY------IKNMITGTSQ--MDGAILVVAATDGAMPQTRE-----HLLLAKQIGVTNIVVFINKF  211 (211)
Q Consensus       149 ~~~~iDtPG~~~~------~~~~~~~~~~--~d~~~~vvd~~~~~~~~~~~-----~~~~~~~~~~~~~i~~inK~  211 (211)
                      .+.++||||+.++      .......+..  .=++++++|+..--.+..--     .+....+.+.| .|.++||+
T Consensus        92 ~y~l~DtPGQiElf~~~~~~~~i~~~L~~~~~~~~v~LvD~~~~~~~~~f~s~~L~s~s~~~~~~lP-~vnvlsK~  166 (238)
T PF03029_consen   92 DYLLFDTPGQIELFTHSDSGRKIVERLQKNGRLVVVFLVDSSFCSDPSKFVSSLLLSLSIMLRLELP-HVNVLSKI  166 (238)
T ss_dssp             SEEEEE--SSHHHHHHSHHHHHHHHTSSS----EEEEEE-GGG-SSHHHHHHHHHHHHHHHHHHTSE-EEEEE--G
T ss_pred             cEEEEeCCCCEEEEEechhHHHHHHHHhhhcceEEEEEEecccccChhhHHHHHHHHHHHHhhCCCC-EEEeeecc
Confidence            6889999997764      4445555553  33788899987554432211     11123447899 66899995

; GO: 0000166 nucleotide binding; PDB: 1YR7_A 1YRA_B 1YR8_A 1YR6_A 1YR9_A 1YRB_A 2OXR_A.

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

Probab=95.72  E-value=0.021  Score=41.40  Aligned_cols=62  Identities=16%  Similarity=0.133  Sum_probs=42.4

Q ss_pred             ceeEeecCCcccccHhHHhhhccccceEEEEEeccCCCCcchHHHHHHHHHc-CCCeEEEEEeCC
Q psy9646         148 RHYSHTDCPGHADYIKNMITGTSQMDGAILVVAATDGAMPQTREHLLLAKQI-GVTNIVVFINKF  211 (211)
Q Consensus       148 ~~~~~iDtPG~~~~~~~~~~~~~~~d~~~~vvd~~~~~~~~~~~~~~~~~~~-~~~~~i~~inK~  211 (211)
                      +.++++|||+.  +.......+..+|.++++++....-...+...++.+... +.+.+.+++|++
T Consensus        45 yd~VIiD~p~~--~~~~~~~~l~~aD~vviv~~~~~~s~~~~~~~l~~l~~~~~~~~~~lVvN~~  107 (139)
T cd02038          45 YDYIIIDTGAG--ISDNVLDFFLAADEVIVVTTPEPTSITDAYALIKKLAKQLRVLNFRVVVNRA  107 (139)
T ss_pred             CCEEEEECCCC--CCHHHHHHHHhCCeEEEEcCCChhHHHHHHHHHHHHHHhcCCCCEEEEEeCC
Confidence            67899999985  344556788999999999997544333444555555432 334466889985

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.

>PF04548 AIG1: AIG1 family; InterPro: IPR006703 This entry represents a domain found in Arabidopsis protein AIG1 which appears to be involved in plant resistance to bacteria

Probab=95.71  E-value=0.034  Score=43.39  Aligned_cols=69  Identities=20%  Similarity=0.283  Sum_probs=42.0

Q ss_pred             EEEeeeCCceeEeecCCccccc-------HhHHhh----hccccceEEEEEeccCCCCcchHHHHHHHHH-cC---CCeE
Q psy9646         140 HVEYATENRHYSHTDCPGHADY-------IKNMIT----GTSQMDGAILVVAATDGAMPQTREHLLLAKQ-IG---VTNI  204 (211)
Q Consensus       140 ~~~~~~~~~~~~~iDtPG~~~~-------~~~~~~----~~~~~d~~~~vvd~~~~~~~~~~~~~~~~~~-~~---~~~~  204 (211)
                      .......+.++.++||||..+-       .+++..    .....+++++|+... .++..++..++.+.. .|   .+.+
T Consensus        41 ~~~~~~~g~~v~VIDTPGl~d~~~~~~~~~~~i~~~l~~~~~g~ha~llVi~~~-r~t~~~~~~l~~l~~~FG~~~~k~~  119 (212)
T PF04548_consen   41 KYSGEVDGRQVTVIDTPGLFDSDGSDEEIIREIKRCLSLCSPGPHAFLLVIPLG-RFTEEDREVLELLQEIFGEEIWKHT  119 (212)
T ss_dssp             EEEEEETTEEEEEEE--SSEETTEEHHHHHHHHHHHHHHTTT-ESEEEEEEETT-B-SHHHHHHHHHHHHHHCGGGGGGE
T ss_pred             eeeeeecceEEEEEeCCCCCCCcccHHHHHHHHHHHHHhccCCCeEEEEEEecC-cchHHHHHHHHHHHHHccHHHHhHh
Confidence            3344678899999999996542       233333    334679999999987 677777777766654 33   2345


Q ss_pred             EEEEe
Q psy9646         205 VVFIN  209 (211)
Q Consensus       205 i~~in  209 (211)
                      |++.+
T Consensus       120 ivvfT  124 (212)
T PF04548_consen  120 IVVFT  124 (212)
T ss_dssp             EEEEE
T ss_pred             hHHhh
Confidence            55554

The Arabidopsis disease resistance gene RPS2 is involved in recognition of bacterial pathogens carrying the avirulence gene avrRpt2. AIG1 (avrRpt2-induced gene) exhibits RPS2- and avrRpt2-dependent induction early after infection with Pseudomonas syringae carrying avrRpt2 []. The domain is also apparently found in a number of mammalian proteins, for example the rat immune-associated nucleotide 4 protein. ; GO: 0005525 GTP binding; PDB: 3LXX_A 3BB4_A 3DEF_A 3BB3_A 2J3E_A 3V70_B 3BB1_A 1H65_B 2XTP_A 3P1J_C ....

>TIGR01007 eps_fam capsular exopolysaccharide family

Probab=95.69  E-value=0.036  Score=42.75  Aligned_cols=65  Identities=20%  Similarity=0.149  Sum_probs=46.2

Q ss_pred             CCceeEeecCCcccccHhHHhhhccccceEEEEEeccCCCCcchHHHHHHHHHcCCCeEEEEEeCC
Q psy9646         146 ENRHYSHTDCPGHADYIKNMITGTSQMDGAILVVAATDGAMPQTREHLLLAKQIGVTNIVVFINKF  211 (211)
Q Consensus       146 ~~~~~~~iDtPG~~~~~~~~~~~~~~~d~~~~vvd~~~~~~~~~~~~~~~~~~~~~~~~i~~inK~  211 (211)
                      ..+.++++|||....... ...-...+|.+++++++...-.....+.++.+...+.+.+-+++||+
T Consensus       126 ~~yD~ViiD~pp~~~~~~-~~~~~~~~D~vilV~~~~~~~~~~~~~~~~~l~~~~~~~~gvVlN~~  190 (204)
T TIGR01007       126 KYFDYIIIDTPPIGTVTD-AAIIARACDASILVTDAGEIKKRDVQKAKEQLEQTGSNFLGVVLNKV  190 (204)
T ss_pred             hcCCEEEEeCCCccccch-HHHHHHhCCeEEEEEECCCCCHHHHHHHHHHHHhCCCCEEEEEEeCc
Confidence            346789999997432222 22233568999999998666556667778888888888666789984

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.

>KOG1144|consensus

Probab=95.69  E-value=0.014  Score=52.96  Aligned_cols=72  Identities=22%  Similarity=0.230  Sum_probs=52.7

Q ss_pred             CeeEEEeeEEeecCCcEE-EEEEEEEEEEecCCEEEEeecCceeeEEEEEEEecceecceecccCceehhccC
Q psy9646          21 PFYLPVEHTYSIPGRGTV-VTGRLERGIVKKGMECEFTGYGRQFKTTVTGIEMFHKILDEAQAGDQLGALVKG   92 (211)
Q Consensus        21 p~~~~v~~~~~~~~~G~v-~~G~v~~G~i~~g~~v~i~p~~~~~~~~v~~i~~~~~~~~~a~~G~~v~~~l~~   92 (211)
                      |+.+.|-.-+-.+.++++ +.-.|+.|.+++|..+.+..-..-.-.+|.||++++++++.|..|+-|++.|.+
T Consensus       935 Pc~L~ilpn~ifN~RdPiv~GV~V~~GilkiGTPiCv~~r~~~~lG~v~Sie~Nh~~vd~akkGqeVaiKie~ 1007 (1064)
T KOG1144|consen  935 PCVLQILPNCIFNKRDPIVLGVDVEEGILKIGTPICVPKREFIDLGRVASIENNHKPVDYAKKGQEVAIKIEA 1007 (1064)
T ss_pred             eeehhhhhHhhccCCCCeEEEEEeecCeeecCCceEEeccceeeeeeeeeecccCcccchhhcCCeEEEEEec
Confidence            444444442222456665 466899999999999886543222357899999999999999999999998875

>PTZ00258 GTP-binding protein; Provisional

Probab=95.46  E-value=0.019  Score=48.92  Aligned_cols=35  Identities=23%  Similarity=0.249  Sum_probs=28.8

Q ss_pred             ceeEeecCCcccc-------cHhHHhhhccccceEEEEEecc
Q psy9646         148 RHYSHTDCPGHAD-------YIKNMITGTSQMDGAILVVAAT  182 (211)
Q Consensus       148 ~~~~~iDtPG~~~-------~~~~~~~~~~~~d~~~~vvd~~  182 (211)
                      .++.|+||||...       +....+..++.+|++++|||+.
T Consensus        85 aqi~lvDtpGLv~ga~~g~gLg~~fL~~Ir~aD~il~VVd~f  126 (390)
T PTZ00258         85 AQLDITDIAGLVKGASEGEGLGNAFLSHIRAVDGIYHVVRAF  126 (390)
T ss_pred             CCeEEEECCCcCcCCcchhHHHHHHHHHHHHCCEEEEEEeCC
Confidence            4699999999542       4556788889999999999984

>KOG0094|consensus

Probab=95.40  E-value=0.11  Score=39.84  Aligned_cols=74  Identities=14%  Similarity=0.074  Sum_probs=51.8

Q ss_pred             eEeEEEeeeCCceeEeecCCcccccHhHHhhhccccceEEEEEeccCC-CCcchHHHHHHHHHcCCC--e-EEEEEeC
Q psy9646         137 NVAHVEYATENRHYSHTDCPGHADYIKNMITGTSQMDGAILVVAATDG-AMPQTREHLLLAKQIGVT--N-IVVFINK  210 (211)
Q Consensus       137 ~~~~~~~~~~~~~~~~iDtPG~~~~~~~~~~~~~~~d~~~~vvd~~~~-~~~~~~~~~~~~~~~~~~--~-~i~~inK  210 (211)
                      .+....++.....+-+=||.|+++|-.-+-+=+++++++++|-|..+. -+.++..+++-+.+.+-.  . +++|-||
T Consensus        60 lskt~~l~d~~vrLQlWDTAGQERFrslipsY~Rds~vaviVyDit~~~Sfe~t~kWi~dv~~e~gs~~viI~LVGnK  137 (221)
T KOG0094|consen   60 LSKTMYLEDRTVRLQLWDTAGQERFRSLIPSYIRDSSVAVIVYDITDRNSFENTSKWIEDVRRERGSDDVIIFLVGNK  137 (221)
T ss_pred             EEEEEEEcCcEEEEEEEecccHHHHhhhhhhhccCCeEEEEEEeccccchHHHHHHHHHHHHhccCCCceEEEEEccc
Confidence            333344444445566799999999998888888999999999997643 457777777777654322  2 4456777

>TIGR01969 minD_arch cell division ATPase MinD, archaeal

Probab=95.37  E-value=0.047  Score=43.27  Aligned_cols=64  Identities=17%  Similarity=0.377  Sum_probs=44.3

Q ss_pred             CCceeEeecCCcccccHhHHhhhccccceEEEEEeccCCCCcchHHHHHHHHHcCCCeEEEEEeCC
Q psy9646         146 ENRHYSHTDCPGHADYIKNMITGTSQMDGAILVVAATDGAMPQTREHLLLAKQIGVTNIVVFINKF  211 (211)
Q Consensus       146 ~~~~~~~iDtPG~~~~~~~~~~~~~~~d~~~~vvd~~~~~~~~~~~~~~~~~~~~~~~~i~~inK~  211 (211)
                      .++.++++|||+...  ..+..++..+|.+++++++...-........+.+...+.+.+-+++|+.
T Consensus       107 ~~yD~VIiD~p~~~~--~~~~~~l~~ad~vliv~~~~~~s~~~~~~~~~~~~~~~~~~~~vv~N~~  170 (251)
T TIGR01969       107 DDTDFLLIDAPAGLE--RDAVTALAAADELLLVVNPEISSITDALKTKIVAEKLGTAILGVVLNRV  170 (251)
T ss_pred             hhCCEEEEeCCCccC--HHHHHHHHhCCeEEEEECCCCchHHHHHHHHHHHHhcCCceEEEEEECC
Confidence            346799999998643  3455667789999999987544333444555666677777555788974

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.

>cd04103 Centaurin_gamma Centaurin gamma

Probab=95.30  E-value=0.065  Score=39.64  Aligned_cols=58  Identities=17%  Similarity=0.078  Sum_probs=38.4

Q ss_pred             ceeEeecCCcccccHhHHhhhccccceEEEEEeccCCCCcch-HHHHHHHHHc----CCCeEEEEEeCC
Q psy9646         148 RHYSHTDCPGHADYIKNMITGTSQMDGAILVVAATDGAMPQT-REHLLLAKQI----GVTNIVVFINKF  211 (211)
Q Consensus       148 ~~~~~iDtPG~~~~~~~~~~~~~~~d~~~~vvd~~~~~~~~~-~~~~~~~~~~----~~~~~i~~inK~  211 (211)
                      ..+.+-||+|....     .-...+|++++|.|....-.-+. ..++..+...    ++| ++++.||.
T Consensus        47 ~~l~i~D~~g~~~~-----~~~~~~~~~ilv~d~~~~~sf~~~~~~~~~i~~~~~~~~~p-iilvgnK~  109 (158)
T cd04103          47 HLLLIRDEGGAPDA-----QFASWVDAVIFVFSLENEASFQTVYNLYHQLSSYRNISEIP-LILVGTQD  109 (158)
T ss_pred             EEEEEEECCCCCch-----hHHhcCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCC-EEEEeeHH
Confidence            45778999999752     22367899999999876543333 3344444332    356 88999994

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.

>COG5192 BMS1 GTP-binding protein required for 40S ribosome biogenesis [Translation, ribosomal structure and biogenesis]

Probab=95.26  E-value=0.054  Score=47.96  Aligned_cols=63  Identities=19%  Similarity=0.315  Sum_probs=53.2

Q ss_pred             eCCceeEeecCCcccccHhHHhhhccccceEEEEEeccCCCCcchHHHHHHHHHcCCCeEEEEEeC
Q psy9646         145 TENRHYSHTDCPGHADYIKNMITGTSQMDGAILVVAATDGAMPQTREHLLLAKQIGVTNIVVFINK  210 (211)
Q Consensus       145 ~~~~~~~~iDtPG~~~~~~~~~~~~~~~d~~~~vvd~~~~~~~~~~~~~~~~~~~~~~~~i~~inK  210 (211)
                      .+..+++|+.+|   +=+.+|+.-...||++++++|+.-|..-.|.+.+.++...|.|++.-|++.
T Consensus       110 gK~RRiTflEcp---~Dl~~miDvaKIaDLVlLlIdgnfGfEMETmEFLnil~~HGmPrvlgV~Th  172 (1077)
T COG5192         110 GKTRRITFLECP---SDLHQMIDVAKIADLVLLLIDGNFGFEMETMEFLNILISHGMPRVLGVVTH  172 (1077)
T ss_pred             cceeEEEEEeCh---HHHHHHHhHHHhhheeEEEeccccCceehHHHHHHHHhhcCCCceEEEEee
Confidence            355789999999   335677788899999999999999999999999999999999987556653

>PHA02518 ParA-like protein; Provisional

Probab=95.23  E-value=0.053  Score=41.79  Aligned_cols=63  Identities=13%  Similarity=0.102  Sum_probs=39.6

Q ss_pred             CCceeEeecCCcccccHhHHhhhccccceEEEEEeccCCCCcchHHHHHHHHH-----cCCCeEEEEEeC
Q psy9646         146 ENRHYSHTDCPGHADYIKNMITGTSQMDGAILVVAATDGAMPQTREHLLLAKQ-----IGVTNIVVFINK  210 (211)
Q Consensus       146 ~~~~~~~iDtPG~~~~~~~~~~~~~~~d~~~~vvd~~~~~~~~~~~~~~~~~~-----~~~~~~i~~inK  210 (211)
                      ..+.++++||||..  ...+..++..+|.+++++.....-.....+.++.+..     .+.+.+.++.|+
T Consensus        75 ~~~d~viiD~p~~~--~~~~~~~l~~aD~viip~~ps~~~~~~~~~~~~~~~~~~~~~~~~~~~~iv~n~  142 (211)
T PHA02518         75 SGYDYVVVDGAPQD--SELARAALRIADMVLIPVQPSPFDIWAAPDLVELIKARQEVTDGLPKFAFIISR  142 (211)
T ss_pred             ccCCEEEEeCCCCc--cHHHHHHHHHCCEEEEEeCCChhhHHHHHHHHHHHHHHHhhCCCCceEEEEEec
Confidence            34679999999974  3446678889999999998754333333333333332     245544456665

>COG1163 DRG Predicted GTPase [General function prediction only]

Probab=95.23  E-value=0.032  Score=46.02  Aligned_cols=66  Identities=12%  Similarity=0.114  Sum_probs=48.1

Q ss_pred             EEeEeEEEeeeCCceeEeecCCcccc-------cHhHHhhhccccceEEEEEeccCCCCcchHHHHHHHHHcCC
Q psy9646         135 TINVAHVEYATENRHYSHTDCPGHAD-------YIKNMITGTSQMDGAILVVAATDGAMPQTREHLLLAKQIGV  201 (211)
Q Consensus       135 tv~~~~~~~~~~~~~~~~iDtPG~~~-------~~~~~~~~~~~~d~~~~vvd~~~~~~~~~~~~~~~~~~~~~  201 (211)
                      |...-.+-+++++.+|=++|+||.-.       .-+++++.++.||++++|+|+.+.... -..+.+.+...|+
T Consensus        97 Tl~~VPG~l~Y~ga~IQild~Pgii~gas~g~grG~~vlsv~R~ADlIiiVld~~~~~~~-~~~i~~ELe~~GI  169 (365)
T COG1163          97 TLEPVPGMLEYKGAQIQLLDLPGIIEGASSGRGRGRQVLSVARNADLIIIVLDVFEDPHH-RDIIERELEDVGI  169 (365)
T ss_pred             ecccccceEeecCceEEEEcCcccccCcccCCCCcceeeeeeccCCEEEEEEecCCChhH-HHHHHHHHHhcCe
Confidence            44444556778899999999999542       346788999999999999999766532 3346666666664

>cd03112 CobW_like The function of this protein family is unkown

Probab=95.22  E-value=0.025  Score=42.01  Aligned_cols=61  Identities=20%  Similarity=0.153  Sum_probs=38.8

Q ss_pred             CceeEeecCCccccc---H-----hHHhhhccccceEEEEEeccCCCCc--chHHHHHHHHHcCCCeEEEEEeCC
Q psy9646         147 NRHYSHTDCPGHADY---I-----KNMITGTSQMDGAILVVAATDGAMP--QTREHLLLAKQIGVTNIVVFINKF  211 (211)
Q Consensus       147 ~~~~~~iDtPG~~~~---~-----~~~~~~~~~~d~~~~vvd~~~~~~~--~~~~~~~~~~~~~~~~~i~~inK~  211 (211)
                      ..+++|+||||..+-   +     +..+.+....|.+++++|+......  .......++...  . + +++||+
T Consensus        86 ~~d~I~IEt~G~~~p~~~~~~~~~~~~~~~~~~~d~vv~vvDa~~~~~~~~~~~~~~~Qi~~a--d-~-ivlnk~  156 (158)
T cd03112          86 AFDRIVIETTGLADPGPVAQTFFMDEELAERYLLDGVITLVDAKHANQHLDQQTEAQSQIAFA--D-R-ILLNKT  156 (158)
T ss_pred             CCCEEEEECCCcCCHHHHHHHHhhchhhhcceeeccEEEEEEhhHhHHHhhccHHHHHHHHHC--C-E-EEEecc
Confidence            357899999997642   2     3345667788999999998644321  122344455443  3 4 578995

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.

>KOG0469|consensus

Probab=95.16  E-value=0.012  Score=51.16  Aligned_cols=87  Identities=22%  Similarity=0.382  Sum_probs=60.1

Q ss_pred             CCCCCeeEEEeeEEeecCCcEEE-EEEEEEEEEecCCEEEEeecC----ceeeEEEEEEE-------ecceecceecccC
Q psy9646          17 DLDKPFYLPVEHTYSIPGRGTVV-TGRLERGIVKKGMECEFTGYG----RQFKTTVTGIE-------MFHKILDEAQAGD   84 (211)
Q Consensus        17 ~~~~p~~~~v~~~~~~~~~G~v~-~G~v~~G~i~~g~~v~i~p~~----~~~~~~v~~i~-------~~~~~~~~a~~G~   84 (211)
                      +.++|+.|.|+.....+..|+-+ -|||-+|++..|+++.+...+    +.....+|+|+       ++-++++...+|.
T Consensus       373 D~~aplmmYvSKMvPtsDkgRFyAFGRVFsG~v~~G~KvRiqgPnY~PGkkedl~~K~iqRtvlMMGr~vepied~PaGN  452 (842)
T KOG0469|consen  373 DPKAPLMMYVSKMVPTSDKGRFYAFGRVFSGKVFTGLKVRIQGPNYVPGKKEDLYIKAIQRTVLMMGRFVEPIEDCPAGN  452 (842)
T ss_pred             CCCCCeEEeeeeccccCCCceEEEEeeeecceeccCcEEEEeCCCCCCCcHHHHHHHHHHHHHHHhcccccccccCCCCc
Confidence            56789999999998888888865 899999999999999994322    11123344443       2237899999999


Q ss_pred             ceehhccCCCccccccccccc
Q psy9646          85 QLGALVKGMKRDEVNRGLIMA  105 (211)
Q Consensus        85 ~v~~~l~~~~~~~v~~G~ii~  105 (211)
                      ++++  -+++.--++.|.+-.
T Consensus       453 IiGl--vGvDqfLvKtGTiTt  471 (842)
T KOG0469|consen  453 IIGL--VGVDQFLVKTGTITT  471 (842)
T ss_pred             EEEE--eehhHhhhccCceee
Confidence            9986  233333344454433

>TIGR01968 minD_bact septum site-determining protein MinD

Probab=95.13  E-value=0.035  Score=44.24  Aligned_cols=63  Identities=21%  Similarity=0.378  Sum_probs=44.5

Q ss_pred             CceeEeecCCcccccHhHHhhhccccceEEEEEeccCCCCcchHHHHHHHHHcCCCeEEEEEeCC
Q psy9646         147 NRHYSHTDCPGHADYIKNMITGTSQMDGAILVVAATDGAMPQTREHLLLAKQIGVTNIVVFINKF  211 (211)
Q Consensus       147 ~~~~~~iDtPG~~~~~~~~~~~~~~~d~~~~vvd~~~~~~~~~~~~~~~~~~~~~~~~i~~inK~  211 (211)
                      .+.++++|||+...  .....++..+|.+++++.+...-.......++.+...+...+.+++|++
T Consensus       111 ~~D~viiD~p~~~~--~~~~~~l~~aD~viiv~~~~~~s~~~~~~~~~~l~~~~~~~~~iviN~~  173 (261)
T TIGR01968       111 EFDYVIIDCPAGIE--SGFRNAVAPADEAIVVTTPEVSAVRDADRVIGLLEAKGIEKIHLIVNRL  173 (261)
T ss_pred             hCCEEEEeCCCCcC--HHHHHHHHhCCeEEEEcCCCcHHHHHHHHHHHHHHHcCCCceEEEEeCc
Confidence            46789999998643  2345667889999999987544444556677777777754466788874

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.

>cd01900 YchF YchF subfamily

Probab=95.12  E-value=0.027  Score=45.77  Aligned_cols=34  Identities=15%  Similarity=0.184  Sum_probs=27.4

Q ss_pred             eeEeecCCcccc-------cHhHHhhhccccceEEEEEecc
Q psy9646         149 HYSHTDCPGHAD-------YIKNMITGTSQMDGAILVVAAT  182 (211)
Q Consensus       149 ~~~~iDtPG~~~-------~~~~~~~~~~~~d~~~~vvd~~  182 (211)
                      ++.|+|+||..+       +.......++.+|++++|||+.
T Consensus        63 ~i~lvD~pGl~~~a~~~~glg~~fL~~i~~~D~li~VV~~f  103 (274)
T cd01900          63 TIEFVDIAGLVKGASKGEGLGNKFLSHIREVDAIAHVVRCF  103 (274)
T ss_pred             EEEEEECCCcCCCCchhhHHHHHHHHHHHhCCEEEEEEeCc
Confidence            689999999542       4456777789999999999984

YchF is a member of the Obg family, which includes four other subfamilies of GTPases: Obg, DRG, Ygr210, and NOG1. Obg is an essential gene that is involved in DNA replication in C. crescentus and Streptomyces griseus and is associated with the ribosome. Several members of the family, including YchF, possess the TGS domain related to the RNA-binding proteins. Experimental data and genomic analysis suggest that YchF may be part of a nucleoprotein complex and may function as a GTP-dependent translational factor.

>KOG1489|consensus

Probab=95.07  E-value=0.078  Score=43.68  Aligned_cols=78  Identities=13%  Similarity=0.131  Sum_probs=47.1

Q ss_pred             eEEeEeEEEeeeCCc-eeEeecCCcccc-------cHhHHhhhccccceEEEEEeccCCC----CcchHHHHHHHHH---
Q psy9646         134 ITINVAHVEYATENR-HYSHTDCPGHAD-------YIKNMITGTSQMDGAILVVAATDGA----MPQTREHLLLAKQ---  198 (211)
Q Consensus       134 ~tv~~~~~~~~~~~~-~~~~iDtPG~~~-------~~~~~~~~~~~~d~~~~vvd~~~~~----~~~~~~~~~~~~~---  198 (211)
                      +|+.-+..+...+++ |+.+-|.||.-+       +--+.+.=++.++..+||||...+.    +.+-+.+++.+..   
T Consensus       229 TTL~P~iG~v~yddf~q~tVADiPGiI~GAh~nkGlG~~FLrHiER~~~l~fVvD~s~~~~~~p~~~~~lL~~ELe~yek  308 (366)
T KOG1489|consen  229 TTLRPHIGTVNYDDFSQITVADIPGIIEGAHMNKGLGYKFLRHIERCKGLLFVVDLSGKQLRNPWQQLQLLIEELELYEK  308 (366)
T ss_pred             eeeccccceeeccccceeEeccCccccccccccCcccHHHHHHHHhhceEEEEEECCCcccCCHHHHHHHHHHHHHHHhh
Confidence            444445555555554 499999999331       2334445567789999999998762    2222333333322   


Q ss_pred             -cCCCeEEEEEeCC
Q psy9646         199 -IGVTNIVVFINKF  211 (211)
Q Consensus       199 -~~~~~~i~~inK~  211 (211)
                       +.-++.++|+|||
T Consensus       309 ~L~~rp~liVaNKi  322 (366)
T KOG1489|consen  309 GLADRPALIVANKI  322 (366)
T ss_pred             hhccCceEEEEecc
Confidence             2333366899997

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

Probab=94.99  E-value=0.065  Score=41.93  Aligned_cols=64  Identities=11%  Similarity=0.023  Sum_probs=46.7

Q ss_pred             ceeEeecCCcccccHhH-Hhhhccc--cceEEEEEeccCCCCcchHHHHHHHHHcCCCeEEEEEeCC
Q psy9646         148 RHYSHTDCPGHADYIKN-MITGTSQ--MDGAILVVAATDGAMPQTREHLLLAKQIGVTNIVVFINKF  211 (211)
Q Consensus       148 ~~~~~iDtPG~~~~~~~-~~~~~~~--~d~~~~vvd~~~~~~~~~~~~~~~~~~~~~~~~i~~inK~  211 (211)
                      +.++++|||-....... +...+.+  +|.+++|+.....-..+.++.++.++..+.+..-+++|++
T Consensus       114 yD~IIiD~pp~~~~~~~l~~~~l~~~~~~~vllV~~p~~~s~~~~~~~l~~l~~~~~~~~glVlN~~  180 (217)
T cd02035         114 YDVIVFDTAPTGHTLRLLVRELLTDPERTSFRLVTLPEKLPLYETERAITELALYGIPVDAVVVNRV  180 (217)
T ss_pred             CCEEEECCCCchHHHHHHHHHHccCCCceEEEEEeCCCccHHHHHHHHHHHHHHCCCCCCEEEEeCC
Confidence            77999999854333222 3344444  4899999998766667788899999999988666789984

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.

>CHL00175 minD septum-site determining protein; Validated

Probab=94.98  E-value=0.043  Score=44.58  Aligned_cols=63  Identities=21%  Similarity=0.313  Sum_probs=44.4

Q ss_pred             CceeEeecCCcccccHhHHhhhccccceEEEEEeccCCCCcchHHHHHHHHHcCCCeEEEEEeCC
Q psy9646         147 NRHYSHTDCPGHADYIKNMITGTSQMDGAILVVAATDGAMPQTREHLLLAKQIGVTNIVVFINKF  211 (211)
Q Consensus       147 ~~~~~~iDtPG~~~~~~~~~~~~~~~d~~~~vvd~~~~~~~~~~~~~~~~~~~~~~~~i~~inK~  211 (211)
                      .+.++++|||+..  ......++..+|.++++++....--......++.+...+.+.+-+++|++
T Consensus       126 ~yD~VIiDtpp~~--~~~~~~~l~~aD~viiV~~p~~~si~~~~~~~~~l~~~~~~~~~lvvN~~  188 (281)
T CHL00175        126 GYDYILIDCPAGI--DVGFINAIAPAQEAIVVTTPEITAIRDADRVAGLLEANGIYNVKLLVNRV  188 (281)
T ss_pred             CCCEEEEeCCCCC--CHHHHHHHHhcCeeEEEcCCChHHHHHHHHHHHHHHHcCCCceEEEEecc
Confidence            4679999999863  33455667789999999886543334555667777777766566788974

>KOG0087|consensus

Probab=94.98  E-value=0.087  Score=40.78  Aligned_cols=98  Identities=15%  Similarity=0.088  Sum_probs=62.4

Q ss_pred             hhhhcccccccccchhhcccceEEeEeEEEeeeCCce--eEeecCCcccccHhHHhhhccccceEEEEEeccCCCC-cch
Q psy9646         113 KLAKVKQYADIDNAPEEKARGITINVAHVEYATENRH--YSHTDCPGHADYIKNMITGTSQMDGAILVVAATDGAM-PQT  189 (211)
Q Consensus       113 ~~~~f~~~i~~~~~~~e~~rg~tv~~~~~~~~~~~~~--~~~iDtPG~~~~~~~~~~~~~~~d~~~~vvd~~~~~~-~~~  189 (211)
                      |++.+..+...+....+....+-++....+...++..  ..+=||.|+++|-.-.-+=.+.|-++++|-|.....+ ..-
T Consensus        26 GKsnLlsRftrnEF~~~SksTIGvef~t~t~~vd~k~vkaqIWDTAGQERyrAitSaYYrgAvGAllVYDITr~~Tfenv  105 (222)
T KOG0087|consen   26 GKSNLLSRFTRNEFSLESKSTIGVEFATRTVNVDGKTVKAQIWDTAGQERYRAITSAYYRGAVGALLVYDITRRQTFENV  105 (222)
T ss_pred             chhHHHHHhcccccCcccccceeEEEEeeceeecCcEEEEeeecccchhhhccccchhhcccceeEEEEechhHHHHHHH
Confidence            4444444443444455555555566666666655544  4578999999987444344478899999999865543 444


Q ss_pred             HHHHHHHHHc---CCCeEEEEEeCC
Q psy9646         190 REHLLLAKQI---GVTNIVVFINKF  211 (211)
Q Consensus       190 ~~~~~~~~~~---~~~~~i~~inK~  211 (211)
                      .++++.|+..   +++ ++++-||+
T Consensus       106 ~rWL~ELRdhad~niv-imLvGNK~  129 (222)
T KOG0087|consen  106 ERWLKELRDHADSNIV-IMLVGNKS  129 (222)
T ss_pred             HHHHHHHHhcCCCCeE-EEEeecch
Confidence            5566777654   355 67788985

>PRK09601 GTP-binding protein YchF; Reviewed

Probab=94.91  E-value=0.038  Score=46.66  Aligned_cols=35  Identities=14%  Similarity=0.218  Sum_probs=28.4

Q ss_pred             ceeEeecCCcccc-------cHhHHhhhccccceEEEEEecc
Q psy9646         148 RHYSHTDCPGHAD-------YIKNMITGTSQMDGAILVVAAT  182 (211)
Q Consensus       148 ~~~~~iDtPG~~~-------~~~~~~~~~~~~d~~~~vvd~~  182 (211)
                      .++.++|+||..+       +....+..++.+|++++|||+.
T Consensus        66 a~i~lvD~pGL~~~a~~g~glg~~fL~~i~~aD~li~VVd~f  107 (364)
T PRK09601         66 ATIEFVDIAGLVKGASKGEGLGNQFLANIREVDAIVHVVRCF  107 (364)
T ss_pred             ceEEEEECCCCCCCCChHHHHHHHHHHHHHhCCEEEEEEeCC
Confidence            3689999999542       4456777889999999999985

>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=94.82  E-value=0.1  Score=39.10  Aligned_cols=63  Identities=22%  Similarity=0.310  Sum_probs=37.1

Q ss_pred             CCceeEeecCCcccc----cHhHHhhhc--cccceEEEEEeccCCCCcchHHHHHHHHHcCCCeEEEEEeCC
Q psy9646         146 ENRHYSHTDCPGHAD----YIKNMITGT--SQMDGAILVVAATDGAMPQTREHLLLAKQIGVTNIVVFINKF  211 (211)
Q Consensus       146 ~~~~~~~iDtPG~~~----~~~~~~~~~--~~~d~~~~vvd~~~~~~~~~~~~~~~~~~~~~~~~i~~inK~  211 (211)
                      .++.++++||||...    .+.++....  ...|.+++|+|+..+.. .-+...+..+..++.  -+++||+
T Consensus        81 ~~~d~viiDt~g~~~~~~~~l~~l~~l~~~~~~~~~~lVv~~~~~~~-~~~~~~~~~~~~~~~--~viltk~  149 (173)
T cd03115          81 ENFDVVIVDTAGRLQIDENLMEELKKIKRVVKPDEVLLVVDAMTGQD-AVNQAKAFNEALGIT--GVILTKL  149 (173)
T ss_pred             CCCCEEEEECcccchhhHHHHHHHHHHHhhcCCCeEEEEEECCCChH-HHHHHHHHHhhCCCC--EEEEECC
Confidence            345688999999753    333332221  24799999999854322 223344444455654  3567985

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.

>cd01856 YlqF YlqF

Probab=94.78  E-value=0.058  Score=40.43  Aligned_cols=48  Identities=17%  Similarity=0.073  Sum_probs=35.6

Q ss_pred             CCccc-ccHhHHhhhccccceEEEEEeccCCCCcchHHHHHHHHHcCCCeE
Q psy9646         155 CPGHA-DYIKNMITGTSQMDGAILVVAATDGAMPQTREHLLLAKQIGVTNI  204 (211)
Q Consensus       155 tPG~~-~~~~~~~~~~~~~d~~~~vvd~~~~~~~~~~~~~~~~~~~~~~~~  204 (211)
                      -|||- +.+.++...++.||++++|+|+.++....+..+++.+  .+.|.+
T Consensus         2 ~~~~~~~~~~~~~~~i~~aD~il~v~D~~~~~~~~~~~i~~~~--~~k~~i   50 (171)
T cd01856           2 FPGHMAKALRQIKEKLKLVDLVIEVRDARIPLSSRNPLLEKIL--GNKPRI   50 (171)
T ss_pred             CchHHHHHHHHHHHHHhhCCEEEEEeeccCccCcCChhhHhHh--cCCCEE
Confidence            47865 4678899999999999999999887766665555544  245633

Proteins of the YlqF family contain all sequence motifs typical of the vast class of P-loop-containing GTPases, but show a circular permutation, with a G4-G1-G3 pattern of motifs as opposed to the regular G1-G3-G4 pattern seen in most GTPases. The YlqF subfamily is represented in a phylogenetically diverse array of bacteria (including gram-positive bacteria, proteobacteria, Synechocystis, Borrelia, and Thermotoga) and in all eukaryotes.

>KOG0070|consensus

Probab=94.69  E-value=0.068  Score=40.39  Aligned_cols=71  Identities=18%  Similarity=0.157  Sum_probs=47.6

Q ss_pred             EEEeeeCCceeEeecCCcccccHhHHhhhccccceEEEEEeccCCCC--cchHHHHHHHHH---cCCCeEEEEEeCC
Q psy9646         140 HVEYATENRHYSHTDCPGHADYIKNMITGTSQMDGAILVVAATDGAM--PQTREHLLLAKQ---IGVTNIVVFINKF  211 (211)
Q Consensus       140 ~~~~~~~~~~~~~iDtPG~~~~~~~~~~~~~~~d~~~~vvd~~~~~~--~~~~~~~~~~~~---~~~~~~i~~inK~  211 (211)
                      ...+++++..+.+-|..|+..+..--..=....++++||||+.+..-  ..-.++.+.+..   .+.| ++++.||.
T Consensus        53 VE~v~ykn~~f~vWDvGGq~k~R~lW~~Y~~~t~~lIfVvDS~Dr~Ri~eak~eL~~~l~~~~l~~~~-llv~aNKq  128 (181)
T KOG0070|consen   53 VETVEYKNISFTVWDVGGQEKLRPLWKHYFQNTQGLIFVVDSSDRERIEEAKEELHRMLAEPELRNAP-LLVFANKQ  128 (181)
T ss_pred             eeEEEEcceEEEEEecCCCcccccchhhhccCCcEEEEEEeCCcHHHHHHHHHHHHHHHcCcccCCce-EEEEechh
Confidence            34566678899999999997766555555678899999999975542  222223333322   2455 77889984

>PRK01889 GTPase RsgA; Reviewed

Probab=94.43  E-value=0.087  Score=44.54  Aligned_cols=42  Identities=19%  Similarity=0.245  Sum_probs=33.5

Q ss_pred             ccccceEEEEEeccCCCCc-chHHHHHHHHHcCCCeEEEEEeCC
Q psy9646         169 TSQMDGAILVVAATDGAMP-QTREHLLLAKQIGVTNIVVFINKF  211 (211)
Q Consensus       169 ~~~~d~~~~vvd~~~~~~~-~~~~~~~~~~~~~~~~~i~~inK~  211 (211)
                      ++.+|.+++|+++...... ...+++..+...++++ ++++||+
T Consensus       110 aANvD~vliV~s~~p~~~~~~ldr~L~~a~~~~i~p-iIVLNK~  152 (356)
T PRK01889        110 AANVDTVFIVCSLNHDFNLRRIERYLALAWESGAEP-VIVLTKA  152 (356)
T ss_pred             EEeCCEEEEEEecCCCCChhHHHHHHHHHHHcCCCE-EEEEECh
Confidence            5778999999999766655 4566788888999995 5799996

>KOG0093|consensus

Probab=94.39  E-value=0.1  Score=38.21  Aligned_cols=62  Identities=16%  Similarity=0.117  Sum_probs=43.1

Q ss_pred             eeEeecCCcccccHhHHhhhccccceEEEEEeccCCCC-cchHHHHHHHH---HcCCCeEEEEEeCC
Q psy9646         149 HYSHTDCPGHADYIKNMITGTSQMDGAILVVAATDGAM-PQTREHLLLAK---QIGVTNIVVFINKF  211 (211)
Q Consensus       149 ~~~~iDtPG~~~~~~~~~~~~~~~d~~~~vvd~~~~~~-~~~~~~~~~~~---~~~~~~~i~~inK~  211 (211)
                      .+-+-||.|++.+-.-+..-.+++++.+++-|...... ..-+.+.-+.+   ..+.+ +|++-||+
T Consensus        71 klQiwDTagqEryrtiTTayyRgamgfiLmyDitNeeSf~svqdw~tqIktysw~naq-vilvgnKC  136 (193)
T KOG0093|consen   71 KLQIWDTAGQERYRTITTAYYRGAMGFILMYDITNEESFNSVQDWITQIKTYSWDNAQ-VILVGNKC  136 (193)
T ss_pred             EEEEEecccchhhhHHHHHHhhccceEEEEEecCCHHHHHHHHHHHHHheeeeccCce-EEEEeccc
Confidence            45578999999977666667789999999999864432 11222333332   34666 88999996

>KOG2484|consensus

Probab=94.33  E-value=0.093  Score=44.43  Aligned_cols=62  Identities=18%  Similarity=0.134  Sum_probs=45.0

Q ss_pred             eEeecCCccc-ccHhHHhhhccccceEEEEEeccCCCCcchHHHHHHH-HHcCCCeEEEEEeCC
Q psy9646         150 YSHTDCPGHA-DYIKNMITGTSQMDGAILVVAATDGAMPQTREHLLLA-KQIGVTNIVVFINKF  211 (211)
Q Consensus       150 ~~~iDtPG~~-~~~~~~~~~~~~~d~~~~vvd~~~~~~~~~~~~~~~~-~~~~~~~~i~~inK~  211 (211)
                      ..-.|.+++. .|.++...-++.+|++|-|+||++.......+.=++. ...|-+.+|+++||+
T Consensus       124 ~~~~~~~~s~kaY~ke~rkvve~sDVVleVlDARDPlgtR~~~vE~~V~~~~gnKkLILVLNK~  187 (435)
T KOG2484|consen  124 ENALDNEESKKAYDKEFRKVVEASDVVLEVLDARDPLGTRCPEVEEAVLQAHGNKKLILVLNKI  187 (435)
T ss_pred             hhhccchhhHHHHHHHHHHHHhhhheEEEeeeccCCCCCCChhHHHHHHhccCCceEEEEeehh
Confidence            3446666655 3678888899999999999999998875544443333 245546689999996

>KOG1486|consensus

Probab=94.26  E-value=0.086  Score=42.15  Aligned_cols=61  Identities=16%  Similarity=0.119  Sum_probs=42.3

Q ss_pred             EEEeeeCCceeEeecCCcccc-------cHhHHhhhccccceEEEEEeccCCCCcchHHHHHHHHHcCC
Q psy9646         140 HVEYATENRHYSHTDCPGHAD-------YIKNMITGTSQMDGAILVVAATDGAMPQTREHLLLAKQIGV  201 (211)
Q Consensus       140 ~~~~~~~~~~~~~iDtPG~~~-------~~~~~~~~~~~~d~~~~vvd~~~~~~~~~~~~~~~~~~~~~  201 (211)
                      .+-.++++..|-++|-||.-.       --+++++..+-||.+++|+||..... |-..+-+.+...|+
T Consensus       101 pGvi~y~ga~IQllDLPGIieGAsqgkGRGRQviavArtaDlilMvLDatk~e~-qr~~le~ELe~vGi  168 (364)
T KOG1486|consen  101 PGVIHYNGANIQLLDLPGIIEGASQGKGRGRQVIAVARTADLILMVLDATKSED-QREILEKELEAVGI  168 (364)
T ss_pred             cceEEecCceEEEecCcccccccccCCCCCceEEEEeecccEEEEEecCCcchh-HHHHHHHHHHHhce
Confidence            344667888999999999543       34678888889999999999977642 22223344555443

>PRK12289 GTPase RsgA; Reviewed

Probab=94.18  E-value=0.12  Score=43.69  Aligned_cols=42  Identities=29%  Similarity=0.415  Sum_probs=30.3

Q ss_pred             ccccceEEEEEeccCCCCc--chHHHHHHHHHcCCCeEEEEEeCC
Q psy9646         169 TSQMDGAILVVAATDGAMP--QTREHLLLAKQIGVTNIVVFINKF  211 (211)
Q Consensus       169 ~~~~d~~~~vvd~~~~~~~--~~~~~~~~~~~~~~~~~i~~inK~  211 (211)
                      ++.+|.+++|+|+.+....  ...+++..+...++| +|+|+||+
T Consensus        87 ~aNvD~vLlV~d~~~p~~~~~~LdR~L~~a~~~~ip-~ILVlNK~  130 (352)
T PRK12289         87 VANADQILLVFALAEPPLDPWQLSRFLVKAESTGLE-IVLCLNKA  130 (352)
T ss_pred             hhcCCEEEEEEECCCCCCCHHHHHHHHHHHHHCCCC-EEEEEEch
Confidence            6789999999998754322  224455556667888 67899996

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

Probab=94.16  E-value=0.12  Score=37.95  Aligned_cols=57  Identities=16%  Similarity=0.179  Sum_probs=35.7

Q ss_pred             CceeEeecCCcccccHhHHhhhccccceEEEEEeccCCCCcchHHHHHHHHHcCCCeEEEEEeCC
Q psy9646         147 NRHYSHTDCPGHADYIKNMITGTSQMDGAILVVAATDGAMPQTREHLLLAKQIGVTNIVVFINKF  211 (211)
Q Consensus       147 ~~~~~~iDtPG~~~~~~~~~~~~~~~d~~~~vvd~~~~~~~~~~~~~~~~~~~~~~~~i~~inK~  211 (211)
                      ++.++|+||||..   ......+..||.++++....   ......+++. .-...-.+ +++||+
T Consensus        91 ~~D~iiIDtaG~~---~~~~~~~~~Ad~~ivv~tpe---~~D~y~~~k~-~~~~~~~~-~~~~k~  147 (148)
T cd03114          91 GFDVIIVETVGVG---QSEVDIASMADTTVVVMAPG---AGDDIQAIKA-GIMEIADI-VVVNKA  147 (148)
T ss_pred             CCCEEEEECCccC---hhhhhHHHhCCEEEEEECCC---chhHHHHhhh-hHhhhcCE-EEEeCC
Confidence            5679999999964   34456888999999988764   1222223222 22222324 789996

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.

>KOG1532|consensus

Probab=94.10  E-value=0.26  Score=40.06  Aligned_cols=64  Identities=20%  Similarity=0.267  Sum_probs=39.9

Q ss_pred             CceeEeecCCcccc-cHhH-----Hhhhc--cccceEEEEEeccCCCCcchHH--HHH---HHHHcCCCeEEEEEeCC
Q psy9646         147 NRHYSHTDCPGHAD-YIKN-----MITGT--SQMDGAILVVAATDGAMPQTRE--HLL---LAKQIGVTNIVVFINKF  211 (211)
Q Consensus       147 ~~~~~~iDtPG~~~-~~~~-----~~~~~--~~~d~~~~vvd~~~~~~~~~~~--~~~---~~~~~~~~~~i~~inK~  211 (211)
                      ..++.+|||||+-+ |...     ...++  ..--++++++|....-.+.+-.  .+.   ++.+.+.| +|++.||.
T Consensus       115 ~~~~~liDTPGQIE~FtWSAsGsIIte~lass~ptvv~YvvDt~rs~~p~tFMSNMlYAcSilyktklp-~ivvfNK~  191 (366)
T KOG1532|consen  115 EFDYVLIDTPGQIEAFTWSASGSIITETLASSFPTVVVYVVDTPRSTSPTTFMSNMLYACSILYKTKLP-FIVVFNKT  191 (366)
T ss_pred             ccCEEEEcCCCceEEEEecCCccchHhhHhhcCCeEEEEEecCCcCCCchhHHHHHHHHHHHHHhccCC-eEEEEecc
Confidence            35689999999654 3222     22222  2335888899986665544322  223   34567899 88999995

>COG4917 EutP Ethanolamine utilization protein [Amino acid transport and metabolism]

Probab=94.09  E-value=0.06  Score=38.33  Aligned_cols=35  Identities=34%  Similarity=0.460  Sum_probs=29.1

Q ss_pred             eecCCc----ccccHhHHhhhccccceEEEEEeccCCCC
Q psy9646         152 HTDCPG----HADYIKNMITGTSQMDGAILVVAATDGAM  186 (211)
Q Consensus       152 ~iDtPG----~~~~~~~~~~~~~~~d~~~~vvd~~~~~~  186 (211)
                      .|||||    |..+.+.......++|+++++-.+.++..
T Consensus        41 ~IDTPGEy~~~~~~Y~aL~tt~~dadvi~~v~~and~~s   79 (148)
T COG4917          41 DIDTPGEYFEHPRWYHALITTLQDADVIIYVHAANDPES   79 (148)
T ss_pred             ccCCchhhhhhhHHHHHHHHHhhccceeeeeecccCccc
Confidence            589999    55666778888899999999999988853

>KOG0098|consensus

Probab=94.09  E-value=0.27  Score=37.50  Aligned_cols=73  Identities=19%  Similarity=0.142  Sum_probs=50.8

Q ss_pred             eEEEeeeCCce--eEeecCCcccccHhHHhhhccccceEEEEEeccCCC-CcchHHHHHHHHHcCCCe--EEEEEeCC
Q psy9646         139 AHVEYATENRH--YSHTDCPGHADYIKNMITGTSQMDGAILVVAATDGA-MPQTREHLLLAKQIGVTN--IVVFINKF  211 (211)
Q Consensus       139 ~~~~~~~~~~~--~~~iDtPG~~~~~~~~~~~~~~~d~~~~vvd~~~~~-~~~~~~~~~~~~~~~~~~--~i~~inK~  211 (211)
                      ....++..+++  +.+-||.||+.|-.-+-+-.+.+-++|||-|..... +..-..++.-++..+.+.  ++++-||+
T Consensus        44 g~r~~~id~k~IKlqiwDtaGqe~frsv~~syYr~a~GalLVydit~r~sF~hL~~wL~D~rq~~~~NmvImLiGNKs  121 (216)
T KOG0098|consen   44 GARMVTIDGKQIKLQIWDTAGQESFRSVTRSYYRGAAGALLVYDITRRESFNHLTSWLEDARQHSNENMVIMLIGNKS  121 (216)
T ss_pred             ceeEEEEcCceEEEEEEecCCcHHHHHHHHHHhccCcceEEEEEccchhhHHHHHHHHHHHHHhcCCCcEEEEEcchh
Confidence            34445555554  567999999999988888899999999999976443 233344556666654333  45567884

>KOG0395|consensus

Probab=94.03  E-value=0.23  Score=38.29  Aligned_cols=66  Identities=20%  Similarity=0.148  Sum_probs=45.7

Q ss_pred             eCCceeEeecCCcccccHhHHhhhccccceEEEEEeccCCC-CcchHHHHHHHH----HcCCCeEEEEEeCC
Q psy9646         145 TENRHYSHTDCPGHADYIKNMITGTSQMDGAILVVAATDGA-MPQTREHLLLAK----QIGVTNIVVFINKF  211 (211)
Q Consensus       145 ~~~~~~~~iDtPG~~~~~~~~~~~~~~~d~~~~vvd~~~~~-~~~~~~~~~~~~----~~~~~~~i~~inK~  211 (211)
                      .+...+.++||+|.++|.......+..+|+-++|.+..+.- +.....+.+++.    ...+| +++|.||+
T Consensus        48 ~~~~~l~ilDt~g~~~~~~~~~~~~~~~~gF~lVysitd~~SF~~~~~l~~~I~r~~~~~~~P-ivlVGNK~  118 (196)
T KOG0395|consen   48 GEVCMLEILDTAGQEEFSAMRDLYIRNGDGFLLVYSITDRSSFEEAKQLREQILRVKGRDDVP-IILVGNKC  118 (196)
T ss_pred             CEEEEEEEEcCCCcccChHHHHHhhccCcEEEEEEECCCHHHHHHHHHHHHHHHHhhCcCCCC-EEEEEEcc
Confidence            34456679999999888877777788889999998876443 233333434432    23467 88999995

>KOG0076|consensus

Probab=93.99  E-value=0.071  Score=40.07  Aligned_cols=75  Identities=21%  Similarity=0.199  Sum_probs=51.2

Q ss_pred             eEEeEeEEEeeeCCceeEeecCCcccccHhHHhhhc-cccceEEEEEeccCCC-C----cchHHHHHHHHHcCCCeEEEE
Q psy9646         134 ITINVAHVEYATENRHYSHTDCPGHADYIKNMITGT-SQMDGAILVVAATDGA-M----PQTREHLLLAKQIGVTNIVVF  207 (211)
Q Consensus       134 ~tv~~~~~~~~~~~~~~~~iDtPG~~~~~~~~~~~~-~~~d~~~~vvd~~~~~-~----~~~~~~~~~~~~~~~~~~i~~  207 (211)
                      .|+.+...+....+..+.|.|-.|++.. +.++..+ +.++++++++||.+.. .    .+.+.+.+.=...|+| +++.
T Consensus        55 ~tvgLnig~i~v~~~~l~fwdlgGQe~l-rSlw~~yY~~~H~ii~viDa~~~eR~~~~~t~~~~v~~~E~leg~p-~L~l  132 (197)
T KOG0076|consen   55 PTVGLNIGTIEVCNAPLSFWDLGGQESL-RSLWKKYYWLAHGIIYVIDATDRERFEESKTAFEKVVENEKLEGAP-VLVL  132 (197)
T ss_pred             cccceeecceeeccceeEEEEcCChHHH-HHHHHHHHHHhceeEEeecCCCHHHHHHHHHHHHHHHHHHHhcCCc-hhhh
Confidence            3555556666667889999999998644 4555554 7899999999998632 2    2223344444557899 5577


Q ss_pred             EeC
Q psy9646         208 INK  210 (211)
Q Consensus       208 inK  210 (211)
                      +||
T Consensus       133 ank  135 (197)
T KOG0076|consen  133 ANK  135 (197)
T ss_pred             cch
Confidence            887

>TIGR01425 SRP54_euk signal recognition particle protein SRP54

Probab=93.78  E-value=0.18  Score=43.64  Aligned_cols=62  Identities=24%  Similarity=0.289  Sum_probs=37.7

Q ss_pred             CCceeEeecCCcccc----cHhHHhhh--ccccceEEEEEeccCCCCcchHHHHHHHH-HcCCCeEEEEEeCC
Q psy9646         146 ENRHYSHTDCPGHAD----YIKNMITG--TSQMDGAILVVAATDGAMPQTREHLLLAK-QIGVTNIVVFINKF  211 (211)
Q Consensus       146 ~~~~~~~iDtPG~~~----~~~~~~~~--~~~~d~~~~vvd~~~~~~~~~~~~~~~~~-~~~~~~~i~~inK~  211 (211)
                      .++.++|+||||...    ++.++..-  ....|-++||+||..|...  ...++... ..++.  -+++||+
T Consensus       181 ~~~DvViIDTaGr~~~d~~lm~El~~i~~~~~p~e~lLVlda~~Gq~a--~~~a~~F~~~~~~~--g~IlTKl  249 (429)
T TIGR01425       181 ENFDIIIVDTSGRHKQEDSLFEEMLQVAEAIQPDNIIFVMDGSIGQAA--EAQAKAFKDSVDVG--SVIITKL  249 (429)
T ss_pred             CCCCEEEEECCCCCcchHHHHHHHHHHhhhcCCcEEEEEeccccChhH--HHHHHHHHhccCCc--EEEEECc
Confidence            357899999999553    34443332  2346889999999766432  22333332 23444  3568985

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.

>TIGR00064 ftsY signal recognition particle-docking protein FtsY

Probab=93.76  E-value=0.17  Score=41.15  Aligned_cols=63  Identities=21%  Similarity=0.296  Sum_probs=36.7

Q ss_pred             CCceeEeecCCcccccHhH-------Hhhhcc-----ccceEEEEEeccCCCCcchHHHHHHHHHcCCCeEEEEEeCC
Q psy9646         146 ENRHYSHTDCPGHADYIKN-------MITGTS-----QMDGAILVVAATDGAMPQTREHLLLAKQIGVTNIVVFINKF  211 (211)
Q Consensus       146 ~~~~~~~iDtPG~~~~~~~-------~~~~~~-----~~d~~~~vvd~~~~~~~~~~~~~~~~~~~~~~~~i~~inK~  211 (211)
                      .++.++++||||.......       +.....     ..|..++|+|+..+-... .......+..++..  +++||+
T Consensus       153 ~~~D~ViIDT~G~~~~d~~~~~el~~~~~~~~~~~~~~~~~~~LVl~a~~~~~~~-~~~~~f~~~~~~~g--~IlTKl  227 (272)
T TIGR00064       153 RNIDVVLIDTAGRLQNKVNLMDELKKIKRVIKKVDKDAPDEVLLVLDATTGQNAL-EQAKVFNEAVGLTG--IILTKL  227 (272)
T ss_pred             CCCCEEEEeCCCCCcchHHHHHHHHHHHHHHhcccCCCCceEEEEEECCCCHHHH-HHHHHHHhhCCCCE--EEEEcc
Confidence            4567999999996542222       222222     389999999996442211 22333334456553  568885

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.

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

Probab=93.76  E-value=0.041  Score=41.73  Aligned_cols=62  Identities=19%  Similarity=0.219  Sum_probs=44.4

Q ss_pred             ceeEeecCCcccccHhHHhhhccccceEEEEEeccCCCCcchHHHHHHHHHcCC--CeEEEEEeCC
Q psy9646         148 RHYSHTDCPGHADYIKNMITGTSQMDGAILVVAATDGAMPQTREHLLLAKQIGV--TNIVVFINKF  211 (211)
Q Consensus       148 ~~~~~iDtPG~~~~~~~~~~~~~~~d~~~~vvd~~~~~~~~~~~~~~~~~~~~~--~~~i~~inK~  211 (211)
                      +.++++|||+.....  +..++..+|.+++++++..--......+++.++..+.  +.+-+++||+
T Consensus        95 yD~iiiD~~~~~~~~--~~~~l~~ad~viv~~~~~~~~i~~~~~~~~~l~~~~~~~~~~~vv~N~v  158 (195)
T PF01656_consen   95 YDYIIIDTPPGLSDP--VRNALAAADYVIVPIEPDPSSIEGAERLIELLKRLGKKLKIIGVVINRV  158 (195)
T ss_dssp             SSEEEEEECSSSSHH--HHHHHHTSSEEEEEEESSHHHHHHHHHHHHHHHHHTHTEEEEEEEEEEE
T ss_pred             ccceeecccccccHH--HHHHHHhCceeeeecCCcHHHHHHHHHHHHHHHHhccccceEEEEEeee
Confidence            679999999864433  6678889999999999754333455667777777773  3345688874

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 ....

>cd01854 YjeQ_engC YjeQ/EngC

Probab=93.68  E-value=0.11  Score=42.44  Aligned_cols=42  Identities=19%  Similarity=0.282  Sum_probs=30.8

Q ss_pred             ccccceEEEEEeccCCC-C-cchHHHHHHHHHcCCCeEEEEEeCC
Q psy9646         169 TSQMDGAILVVAATDGA-M-PQTREHLLLAKQIGVTNIVVFINKF  211 (211)
Q Consensus       169 ~~~~d~~~~vvd~~~~~-~-~~~~~~~~~~~~~~~~~~i~~inK~  211 (211)
                      ++.+|.+++|+|+.+.. . ....+++..+...++| +++++||+
T Consensus        76 ~anvD~vllV~d~~~p~~s~~~ldr~L~~~~~~~ip-~iIVlNK~  119 (287)
T cd01854          76 AANVDQLVIVVSLNEPFFNPRLLDRYLVAAEAAGIE-PVIVLTKA  119 (287)
T ss_pred             EEeCCEEEEEEEcCCCCCCHHHHHHHHHHHHHcCCC-EEEEEEHH
Confidence            46789999999998775 2 2223456666777888 67899995

YjeQ (YloQ in Bacillus subtilis) represents a protein family whose members are broadly conserved in bacteria and have been shown to be essential to the growth of E. coli and B. subtilis. Proteins of the YjeQ family contain all sequence motifs typical of the vast class of P-loop-containing GTPases, but show a circular permutation, with a G4-G1-G3 pattern of motifs as opposed to the regular G1-G3-G4 pattern seen in most GTPases. All YjeQ family proteins display a unique domain architecture, which includes an N-terminal OB-fold RNA-binding domain, the central permuted GTPase domain, and a zinc knuckle-like C-terminal cysteine domain. This domain architecture suggests a role for YjeQ as a regulator of translation.

>PRK00098 GTPase RsgA; Reviewed

Probab=93.61  E-value=0.15  Score=41.94  Aligned_cols=42  Identities=29%  Similarity=0.491  Sum_probs=30.4

Q ss_pred             ccccceEEEEEeccCCCCcc--hHHHHHHHHHcCCCeEEEEEeCC
Q psy9646         169 TSQMDGAILVVAATDGAMPQ--TREHLLLAKQIGVTNIVVFINKF  211 (211)
Q Consensus       169 ~~~~d~~~~vvd~~~~~~~~--~~~~~~~~~~~~~~~~i~~inK~  211 (211)
                      ++.+|.+++|+|+.+.....  ..+++..+...++| +++++||+
T Consensus        78 aaniD~vllV~d~~~p~~~~~~idr~L~~~~~~~ip-~iIVlNK~  121 (298)
T PRK00098         78 AANVDQAVLVFAAKEPDFSTDLLDRFLVLAEANGIK-PIIVLNKI  121 (298)
T ss_pred             eecCCEEEEEEECCCCCCCHHHHHHHHHHHHHCCCC-EEEEEEhH
Confidence            67899999999996543322  23455556778888 66899995

>PRK13849 putative crown gall tumor protein VirC1; Provisional

Probab=93.60  E-value=0.13  Score=40.72  Aligned_cols=62  Identities=8%  Similarity=0.074  Sum_probs=38.4

Q ss_pred             CCceeEeecCCcccccHhHHhhhccccceEEEEEeccCCCCcchHHHHHHHH------HcCCCeEEEEEeC
Q psy9646         146 ENRHYSHTDCPGHADYIKNMITGTSQMDGAILVVAATDGAMPQTREHLLLAK------QIGVTNIVVFINK  210 (211)
Q Consensus       146 ~~~~~~~iDtPG~~~~~~~~~~~~~~~d~~~~vvd~~~~~~~~~~~~~~~~~------~~~~~~~i~~inK  210 (211)
                      +++.++||||||+..  ..+..++..+|.+|+.+.+...-.....+.++.+.      +.+.| ..+++|.
T Consensus        82 ~~yD~iiID~pp~~~--~~~~~al~~aD~vliP~~ps~~d~~~~~~~~~~v~~~~~~~~~~l~-~~iv~~~  149 (231)
T PRK13849         82 QGFDYALADTHGGSS--ELNNTIIASSNLLLIPTMLTPLDIDEALSTYRYVIELLLSENLAIP-TAILRQR  149 (231)
T ss_pred             CCCCEEEEeCCCCcc--HHHHHHHHHCCEEEEeccCcHHHHHHHHHHHHHHHHHHHHhCCCCC-eEEEEEe
Confidence            457899999999764  44667888999998877664322222333332222      23566 4467775

>cd01859 MJ1464 MJ1464

Probab=93.11  E-value=0.28  Score=35.98  Aligned_cols=38  Identities=16%  Similarity=0.123  Sum_probs=28.7

Q ss_pred             hhhccccceEEEEEeccCCCCcchHHHHHHHHHcCCCe
Q psy9646         166 ITGTSQMDGAILVVAATDGAMPQTREHLLLAKQIGVTN  203 (211)
Q Consensus       166 ~~~~~~~d~~~~vvd~~~~~~~~~~~~~~~~~~~~~~~  203 (211)
                      ...+..+|++++|+|+.++...++.++...+...+.|.
T Consensus         7 ~~i~~~aD~vl~V~D~~~~~~~~~~~l~~~~~~~~~p~   44 (156)
T cd01859           7 RRIIKESDVVLEVLDARDPELTRSRKLERYVLELGKKL   44 (156)
T ss_pred             HHHHhhCCEEEEEeeCCCCcccCCHHHHHHHHhCCCcE
Confidence            34445699999999998887777777766666677773

This family represents archaeal GTPase typified by the protein MJ1464 from Methanococcus jannaschii. The members of this family show a circular permutation of the GTPase signature motifs so that C-terminal strands 5, 6, and 7 (strands 6 contain the NKxD motif) are relocated to the N terminus.

>cd02032 Bchl_like This family of proteins contains bchL and chlL

Probab=93.07  E-value=0.24  Score=39.86  Aligned_cols=64  Identities=11%  Similarity=0.005  Sum_probs=38.6

Q ss_pred             CceeEeecCCcccccHhHHhhhccccceEEEEEeccCCCCcchHHHHHHHH----HcCCCeEEEEEeCC
Q psy9646         147 NRHYSHTDCPGHADYIKNMITGTSQMDGAILVVAATDGAMPQTREHLLLAK----QIGVTNIVVFINKF  211 (211)
Q Consensus       147 ~~~~~~iDtPG~~~~~~~~~~~~~~~d~~~~vvd~~~~~~~~~~~~~~~~~----~~~~~~~i~~inK~  211 (211)
                      ++-+++|||||.... ..+..++..||.+++++.+...-.....+.++.++    ..+++..-+++|++
T Consensus       115 ~yD~vIIDt~g~~~~-~~~~~al~~aD~vlip~~p~~~~l~~~~~~~~~i~~~~~~~~l~~~giV~Nr~  182 (267)
T cd02032         115 EYDVILFDVLGDVVC-GGFAAPLNYADYALIVTDNDFDSIFAANRIAAAVREKAKTYKVRLAGLIANRT  182 (267)
T ss_pred             cCCEEEEeCCCCccc-ccchhhhhhcCEEEEEecCCcccHHHHHHHHHHHHHHhhccCCceEEEEEeCC
Confidence            567999999986422 12445688999999998875332223333333332    33555334578874

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.

>KOG2486|consensus

Probab=93.01  E-value=0.47  Score=38.53  Aligned_cols=65  Identities=17%  Similarity=0.195  Sum_probs=47.3

Q ss_pred             CCceeEeecCCccc----------ccHhHHhhhcc---ccceEEEEEeccCCCCcchHHHHHHHHHcCCCeEEEEEeCC
Q psy9646         146 ENRHYSHTDCPGHA----------DYIKNMITGTS---QMDGAILVVAATDGAMPQTREHLLLAKQIGVTNIVVFINKF  211 (211)
Q Consensus       146 ~~~~~~~iDtPG~~----------~~~~~~~~~~~---~~d~~~~vvd~~~~~~~~~~~~~~~~~~~~~~~~i~~inK~  211 (211)
                      -+..+..+|-||..          ++.+-+.+-+.   .-=.+.+++|+..++.+.+-..+..|.+.++| +.++.|||
T Consensus       181 v~~~~~~vDlPG~~~a~y~~~~~~d~~~~t~~Y~leR~nLv~~FLLvd~sv~i~~~D~~~i~~~ge~~VP-~t~vfTK~  258 (320)
T KOG2486|consen  181 VGKSWYEVDLPGYGRAGYGFELPADWDKFTKSYLLERENLVRVFLLVDASVPIQPTDNPEIAWLGENNVP-MTSVFTKC  258 (320)
T ss_pred             ccceEEEEecCCcccccCCccCcchHhHhHHHHHHhhhhhheeeeeeeccCCCCCCChHHHHHHhhcCCC-eEEeeehh
Confidence            45678999999922          22222222222   22356678999999999999999999999999 77899996

>KOG0082|consensus

Probab=92.68  E-value=0.5  Score=39.76  Aligned_cols=80  Identities=18%  Similarity=0.252  Sum_probs=54.4

Q ss_pred             ccceEEeEeEEEeeeCCceeEeecCCcccccHhHHhhhccccceEEEEEeccCC--CC---------cchHHHHHHHHH-
Q psy9646         131 ARGITINVAHVEYATENRHYSHTDCPGHADYIKNMITGTSQMDGAILVVAATDG--AM---------PQTREHLLLAKQ-  198 (211)
Q Consensus       131 ~rg~tv~~~~~~~~~~~~~~~~iDtPG~~~~~~~~~~~~~~~d~~~~vvd~~~~--~~---------~~~~~~~~~~~~-  198 (211)
                      .|--|.-+.-..|+.++..+.++|.+|++--.+.-..-..++++++|+++-.+-  +.         .++..+++-..+ 
T Consensus       178 ~R~~T~GI~e~~F~~k~~~f~~~DvGGQRseRrKWihcFe~v~aviF~vslSeYdq~l~ED~~~NRM~eS~~LF~sI~n~  257 (354)
T KOG0082|consen  178 SRVPTTGIVEVEFTIKGLKFRMFDVGGQRSERKKWIHCFEDVTAVIFCVSLSEYDQVLEEDETTNRMHESLKLFESICNN  257 (354)
T ss_pred             hccCcCCeeEEEEEeCCCceEEEeCCCcHHHhhhHHHhhcCCCEEEEEEehhhhhhhcccccchhHHHHHHHHHHHHhcC
Confidence            344455566677888889999999999886666666788999999999986522  11         123333333322 


Q ss_pred             ---cCCCeEEEEEeCC
Q psy9646         199 ---IGVTNIVVFINKF  211 (211)
Q Consensus       199 ---~~~~~~i~~inK~  211 (211)
                         ...+ +|+++||.
T Consensus       258 ~~F~~ts-iiLFLNK~  272 (354)
T KOG0082|consen  258 KWFANTS-IILFLNKK  272 (354)
T ss_pred             cccccCc-EEEEeecH
Confidence               2345 89999994

>KOG0095|consensus

Probab=92.41  E-value=1  Score=33.14  Aligned_cols=70  Identities=16%  Similarity=0.049  Sum_probs=47.7

Q ss_pred             EEeeeCCce--eEeecCCcccccHhHHhhhccccceEEEEEeccCCCC-cchHHHHHHHHHc---CCCeEEEEEeCC
Q psy9646         141 VEYATENRH--YSHTDCPGHADYIKNMITGTSQMDGAILVVAATDGAM-PQTREHLLLAKQI---GVTNIVVFINKF  211 (211)
Q Consensus       141 ~~~~~~~~~--~~~iDtPG~~~~~~~~~~~~~~~d~~~~vvd~~~~~~-~~~~~~~~~~~~~---~~~~~i~~inK~  211 (211)
                      -+++.++.+  +-+-||.|+++|-.-+.+=.+.|++.+++-|....+. .--.+++......   ++- -|+|-||+
T Consensus        47 ktvev~gekiklqiwdtagqerfrsitqsyyrsahalilvydiscqpsfdclpewlreie~yan~kvl-kilvgnk~  122 (213)
T KOG0095|consen   47 KTVEVNGEKIKLQIWDTAGQERFRSITQSYYRSAHALILVYDISCQPSFDCLPEWLREIEQYANNKVL-KILVGNKI  122 (213)
T ss_pred             EEEEECCeEEEEEEeeccchHHHHHHHHHHhhhcceEEEEEecccCcchhhhHHHHHHHHHHhhcceE-EEeecccc
Confidence            345555544  5578999999999888888899999999999875543 3334444444332   222 35788985

>TIGR03596 GTPase_YlqF ribosome biogenesis GTP-binding protein YlqF

Probab=92.06  E-value=0.17  Score=41.20  Aligned_cols=42  Identities=17%  Similarity=0.087  Sum_probs=31.8

Q ss_pred             CCccc-ccHhHHhhhccccceEEEEEeccCCCCcchHHHHHHH
Q psy9646         155 CPGHA-DYIKNMITGTSQMDGAILVVAATDGAMPQTREHLLLA  196 (211)
Q Consensus       155 tPG~~-~~~~~~~~~~~~~d~~~~vvd~~~~~~~~~~~~~~~~  196 (211)
                      -|||. +..+++...++.+|++++|+||..+.......+.+.+
T Consensus         4 fpgHm~k~~~~~~~~l~~aDvVl~V~Dar~p~~~~~~~i~~~l   46 (276)
T TIGR03596         4 FPGHMAKARREIKEKLKLVDVVIEVLDARIPLSSRNPMIDEIR   46 (276)
T ss_pred             ChHHHHHHHHHHHHHHhhCCEEEEEEeCCCCCCCCChhHHHHH
Confidence            48986 4678899999999999999999877655444444433

Members of this protein family are GTP-binding proteins involved in ribosome biogenesis, including the essential YlqF protein of Bacillus subtilis, which is an essential protein. They are related to Era, EngA, and other GTPases of ribosome biogenesis, but are circularly permuted. This family is not universal, and is not present in Escherichia coli, and so is not as well studied as some other GTPases. This model is built for bacterial members.

>PRK09435 membrane ATPase/protein kinase; Provisional

Probab=92.00  E-value=0.12  Score=43.18  Aligned_cols=32  Identities=9%  Similarity=-0.024  Sum_probs=23.8

Q ss_pred             CCceeEeecCCcccccHhHHhhhccccceEEEEEe
Q psy9646         146 ENRHYSHTDCPGHADYIKNMITGTSQMDGAILVVA  180 (211)
Q Consensus       146 ~~~~~~~iDtPG~~~~~~~~~~~~~~~d~~~~vvd  180 (211)
                      .++.++|+||+|...-.   ......||.++++++
T Consensus       147 ~g~d~viieT~Gv~qs~---~~i~~~aD~vlvv~~  178 (332)
T PRK09435        147 AGYDVILVETVGVGQSE---TAVAGMVDFFLLLQL  178 (332)
T ss_pred             cCCCEEEEECCCCccch---hHHHHhCCEEEEEec
Confidence            45789999999987322   224667999999976

>smart00785 AARP2CN AARP2CN (NUC121) domain

Probab=91.96  E-value=1.6  Score=28.68  Aligned_cols=70  Identities=20%  Similarity=0.284  Sum_probs=51.1

Q ss_pred             hHHHHHhhhCCCCCCCCCCCeeEEEeeEEeecC------Cc-EEEEEEEEEEEEecCCEEEEeecCceeeEEEEEEEecc
Q psy9646           2 ELLNQIDTYIPQPVRDLDKPFYLPVEHTYSIPG------RG-TVVTGRLERGIVKKGMECEFTGYGRQFKTTVTGIEMFH   74 (211)
Q Consensus         2 ~ll~~l~~~i~~p~~~~~~p~~~~v~~~~~~~~------~G-~v~~G~v~~G~i~~g~~v~i~p~~~~~~~~v~~i~~~~   74 (211)
                      .|+..|-..-+.|-...+....|.++++...+.      .+ ..++|.|....++++..|.|...|   ...|++|+...
T Consensus         4 nL~R~i~~~k~~~l~WR~~rpY~lad~~e~~~~~~~~~~~~~l~v~GyvRG~~l~~n~lVHIpG~G---Dfqi~~I~~~~   80 (83)
T smart00785        4 NLLRFLSVMKPRPLSWRDQHPYMLADRVEDITDEEDPKVDRTLVVYGYVRGTGLNANQLVHIPGLG---DFQISKIEALP   80 (83)
T ss_pred             HHHHHHHhccCCCCcccCCCCeEEEEEeEecCCCCCCccCcEEEEEEEEcCCCCCCCCEEEeCCcC---CeEeeEEeecC
Confidence            466667664444556667777888998887542      23 458999999999999999987776   47788887644

This domain is the central domain of AARP2. It is weakly similar to the GTP-binding domain of elongation factor TU PUBMED:15112237.

>PRK10416 signal recognition particle-docking protein FtsY; Provisional

Probab=91.81  E-value=0.47  Score=39.52  Aligned_cols=63  Identities=16%  Similarity=0.240  Sum_probs=36.2

Q ss_pred             CCceeEeecCCcccc----cHhH---Hhhhc-----cccceEEEEEeccCCCCcchHHHHHHHHHcCCCeEEEEEeCC
Q psy9646         146 ENRHYSHTDCPGHAD----YIKN---MITGT-----SQMDGAILVVAATDGAMPQTREHLLLAKQIGVTNIVVFINKF  211 (211)
Q Consensus       146 ~~~~~~~iDtPG~~~----~~~~---~~~~~-----~~~d~~~~vvd~~~~~~~~~~~~~~~~~~~~~~~~i~~inK~  211 (211)
                      .++.++++||||...    .+.+   +...+     ...+..++|+||..+..... +........++. - +++||+
T Consensus       195 ~~~D~ViIDTaGr~~~~~~l~~eL~~~~~v~~~~~~~~p~~~~LVl~a~~g~~~~~-~a~~f~~~~~~~-g-iIlTKl  269 (318)
T PRK10416        195 RGIDVLIIDTAGRLHNKTNLMEELKKIKRVIKKADPDAPHEVLLVLDATTGQNALS-QAKAFHEAVGLT-G-IILTKL  269 (318)
T ss_pred             CCCCEEEEeCCCCCcCCHHHHHHHHHHHHHHhhhcCCCCceEEEEEECCCChHHHH-HHHHHHhhCCCC-E-EEEECC
Confidence            456799999999643    2222   22221     24678899999986543322 222223334544 2 568885

>PF08142 AARP2CN: AARP2CN (NUC121) domain; InterPro: IPR012948 This domain is the central domain of AARP2 (asparagine and aspartate rich protein 2)

Probab=91.65  E-value=2.1  Score=28.33  Aligned_cols=72  Identities=22%  Similarity=0.312  Sum_probs=52.6

Q ss_pred             hHHHHHhhhCCCCCCCCCCCeeEEEeeEEeecCC--------cE-EEEEEEEEEEEecCCEEEEeecCceeeEEEEEEEe
Q psy9646           2 ELLNQIDTYIPQPVRDLDKPFYLPVEHTYSIPGR--------GT-VVTGRLERGIVKKGMECEFTGYGRQFKTTVTGIEM   72 (211)
Q Consensus         2 ~ll~~l~~~i~~p~~~~~~p~~~~v~~~~~~~~~--------G~-v~~G~v~~G~i~~g~~v~i~p~~~~~~~~v~~i~~   72 (211)
                      .|+..|-..-+.|-...+....|.++++...+..        |+ .++|.|....++++..|.|..-|   ...+++|+.
T Consensus         4 nl~R~i~~~k~~~i~WR~~r~y~lad~~e~~~~~~~~~~~~~~~l~v~GyvRG~~l~~n~lVHIpG~G---DFqi~~I~~   80 (85)
T PF08142_consen    4 NLLRFISVQKPRPISWRDQRPYMLADRVEFVPDPEDESENEDGTLKVYGYVRGSPLSVNQLVHIPGVG---DFQISKIES   80 (85)
T ss_pred             HHHHHHHhCccCCCccccCCCeEEEEEEEecCCccccccCCceEEEEEEEEccccccCCCEEEeCCcC---CeEeeEeee
Confidence            4667777744445556677779999998887653        24 57999999999999999987766   467777776


Q ss_pred             ccee
Q psy9646          73 FHKI   76 (211)
Q Consensus        73 ~~~~   76 (211)
                      ...+
T Consensus        81 ~~DP   84 (85)
T PF08142_consen   81 LPDP   84 (85)
T ss_pred             cCCC
Confidence            5443

It is weakly similar to the GTP-binding domain of elongation factor TU []. PfAARP2 is an antigen from Plasmodium falciparum of 150 kDa, which is encoded by a unique gene on chromosome 1 []. The central region of Pfaarp2 contains blocks of repetitions encoding asparagine and aspartate residues. ; GO: 0042254 ribosome biogenesis, 0005634 nucleus

>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=91.61  E-value=0.38  Score=37.12  Aligned_cols=62  Identities=19%  Similarity=0.295  Sum_probs=38.0

Q ss_pred             CCceeEeecCCcccccH-------hHHhhhccccceEEEEEeccCCCCcchHHHHHHHHHcCCCeEEEEEeCC
Q psy9646         146 ENRHYSHTDCPGHADYI-------KNMITGTSQMDGAILVVAATDGAMPQTREHLLLAKQIGVTNIVVFINKF  211 (211)
Q Consensus       146 ~~~~~~~iDtPG~~~~~-------~~~~~~~~~~d~~~~vvd~~~~~~~~~~~~~~~~~~~~~~~~i~~inK~  211 (211)
                      +++.+++|||||.....       ++....+ ..+-+++|+++..+.... ..........++..+  +++|+
T Consensus        82 ~~~D~vlIDT~Gr~~~d~~~~~el~~~~~~~-~~~~~~LVlsa~~~~~~~-~~~~~~~~~~~~~~l--IlTKl  150 (196)
T PF00448_consen   82 KGYDLVLIDTAGRSPRDEELLEELKKLLEAL-NPDEVHLVLSATMGQEDL-EQALAFYEAFGIDGL--ILTKL  150 (196)
T ss_dssp             TTSSEEEEEE-SSSSTHHHHHHHHHHHHHHH-SSSEEEEEEEGGGGGHHH-HHHHHHHHHSSTCEE--EEEST
T ss_pred             cCCCEEEEecCCcchhhHHHHHHHHHHhhhc-CCccceEEEecccChHHH-HHHHHHhhcccCceE--EEEee
Confidence            44679999999965432       2233333 567899999997764332 245455555677744  47874

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 ....

>KOG0394|consensus

Probab=91.56  E-value=0.33  Score=36.93  Aligned_cols=60  Identities=15%  Similarity=0.042  Sum_probs=40.8

Q ss_pred             EeecCCcccccHhHHhhhccccceEEEEEeccCC--CCcchHHHHHHHHH------cCCCeEEEEEeCC
Q psy9646         151 SHTDCPGHADYIKNMITGTSQMDGAILVVAATDG--AMPQTREHLLLAKQ------IGVTNIVVFINKF  211 (211)
Q Consensus       151 ~~iDtPG~~~~~~~~~~~~~~~d~~~~vvd~~~~--~~~~~~~~~~~~~~------~~~~~~i~~inK~  211 (211)
                      -+=||.|+++|-+--..-.+.||+++++-|....  ....+..+-+++..      ...| +|++-||+
T Consensus        61 QiWDTAGQERFqsLg~aFYRgaDcCvlvydv~~~~Sfe~L~~Wr~EFl~qa~~~~Pe~FP-FVilGNKi  128 (210)
T KOG0394|consen   61 QIWDTAGQERFQSLGVAFYRGADCCVLVYDVNNPKSFENLENWRKEFLIQASPQDPETFP-FVILGNKI  128 (210)
T ss_pred             EEEecccHHHhhhcccceecCCceEEEEeecCChhhhccHHHHHHHHHHhcCCCCCCccc-EEEEcccc
Confidence            3579999999987777778999999999776533  22333333333333      2356 88889986

>TIGR00157 ribosome small subunit-dependent GTPase A

Probab=91.42  E-value=0.31  Score=38.93  Aligned_cols=43  Identities=19%  Similarity=0.305  Sum_probs=31.1

Q ss_pred             hccccceEEEEEeccCCCC--cchHHHHHHHHHcCCCeEEEEEeCC
Q psy9646         168 GTSQMDGAILVVAATDGAM--PQTREHLLLAKQIGVTNIVVFINKF  211 (211)
Q Consensus       168 ~~~~~d~~~~vvd~~~~~~--~~~~~~~~~~~~~~~~~~i~~inK~  211 (211)
                      -++.+|.+++|.|+.+...  ..-.+++..+...++| +++++||+
T Consensus        33 ~~~n~D~viiV~d~~~p~~s~~~l~r~l~~~~~~~i~-~vIV~NK~   77 (245)
T TIGR00157        33 IVANIDQIVIVSSAVLPELSLNQLDRFLVVAEAQNIE-PIIVLNKI   77 (245)
T ss_pred             ccccCCEEEEEEECCCCCCCHHHHHHHHHHHHHCCCC-EEEEEECc
Confidence            4678899999999876542  2334455566667888 67899996

The Aquifex aeolicus ortholog is split into consecutive open reading frames. Consequently, this model was build in fragment mode (-f option).

>TIGR03815 CpaE_hom_Actino helicase/secretion neighborhood CpaE-like protein

Probab=91.39  E-value=0.27  Score=40.78  Aligned_cols=61  Identities=13%  Similarity=0.043  Sum_probs=41.4

Q ss_pred             CceeEeecCCcccccHhHHhhhccccceEEEEEeccCCCCcchHHHHHHHHHcCCCeEEEEEeC
Q psy9646         147 NRHYSHTDCPGHADYIKNMITGTSQMDGAILVVAATDGAMPQTREHLLLAKQIGVTNIVVFINK  210 (211)
Q Consensus       147 ~~~~~~iDtPG~~~~~~~~~~~~~~~d~~~~vvd~~~~~~~~~~~~~~~~~~~~~~~~i~~inK  210 (211)
                      .+.++++|||+....  .+...+..+|.++++++....-.....++++.+...+.+ +-+++|+
T Consensus       204 ~~D~VIID~p~~~~~--~~~~~L~~AD~vliV~~~~~~sl~~a~r~l~~l~~~~~~-~~lVv~~  264 (322)
T TIGR03815       204 GGDLVVVDLPRRLTP--AAETALESADLVLVVVPADVRAVAAAARVCPELGRRNPD-LRLVVRG  264 (322)
T ss_pred             cCCEEEEeCCCCCCH--HHHHHHHHCCEEEEEcCCcHHHHHHHHHHHHHHhhhCCC-eEEEEeC
Confidence            467899999987543  367788999999999986433334455566666655533 4455664

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.

>TIGR00750 lao LAO/AO transport system ATPase

Probab=91.38  E-value=0.44  Score=39.26  Aligned_cols=58  Identities=9%  Similarity=0.076  Sum_probs=34.7

Q ss_pred             CCceeEeecCCcccccHhHHhhhccccceEEEEEeccCCCCcchHHHHHHHHHcCCCeEEEEEeCC
Q psy9646         146 ENRHYSHTDCPGHADYIKNMITGTSQMDGAILVVAATDGAMPQTREHLLLAKQIGVTNIVVFINKF  211 (211)
Q Consensus       146 ~~~~~~~iDtPG~~~~~~~~~~~~~~~d~~~~vvd~~~~~~~~~~~~~~~~~~~~~~~~i~~inK~  211 (211)
                      .++.++|+||||...   .....+..+|.++++.....   ..+....... -.+.| .++++||+
T Consensus       125 ~g~D~viidT~G~~~---~e~~i~~~aD~i~vv~~~~~---~~el~~~~~~-l~~~~-~ivv~NK~  182 (300)
T TIGR00750       125 AGYDVIIVETVGVGQ---SEVDIANMADTFVVVTIPGT---GDDLQGIKAG-LMEIA-DIYVVNKA  182 (300)
T ss_pred             CCCCEEEEeCCCCch---hhhHHHHhhceEEEEecCCc---cHHHHHHHHH-Hhhhc-cEEEEEcc
Confidence            467899999999652   22345667898888865321   1221221211 13566 46899996

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.

>KOG0080|consensus

Probab=90.99  E-value=0.56  Score=34.97  Aligned_cols=79  Identities=15%  Similarity=0.105  Sum_probs=52.7

Q ss_pred             ceEEeEeEEEeeeCCceeEeecCCcccccHhHHhhhccccceEEEEEeccCCCC-cchHHHHHHHHHcCCCe---EEEEE
Q psy9646         133 GITINVAHVEYATENRHYSHTDCPGHADYIKNMITGTSQMDGAILVVAATDGAM-PQTREHLLLAKQIGVTN---IVVFI  208 (211)
Q Consensus       133 g~tv~~~~~~~~~~~~~~~~iDtPG~~~~~~~~~~~~~~~d~~~~vvd~~~~~~-~~~~~~~~~~~~~~~~~---~i~~i  208 (211)
                      |..+++..........++.+-||.|+++|-.-+-+=.+.|-++++|-|....-. ..-..+++.+..+...+   .++|-
T Consensus        45 GvDFkvk~m~vdg~~~KlaiWDTAGqErFRtLTpSyyRgaqGiIlVYDVT~Rdtf~kLd~W~~Eld~Ystn~diikmlVg  124 (209)
T KOG0080|consen   45 GVDFKVKVMQVDGKRLKLAIWDTAGQERFRTLTPSYYRGAQGIILVYDVTSRDTFVKLDIWLKELDLYSTNPDIIKMLVG  124 (209)
T ss_pred             eeeEEEEEEEEcCceEEEEEEeccchHhhhccCHhHhccCceeEEEEEccchhhHHhHHHHHHHHHhhcCCccHhHhhhc
Confidence            455566677777777889999999999998777777889999999999754322 11122333343332111   23577


Q ss_pred             eCC
Q psy9646         209 NKF  211 (211)
Q Consensus       209 nK~  211 (211)
                      |||
T Consensus       125 NKi  127 (209)
T KOG0080|consen  125 NKI  127 (209)
T ss_pred             ccc
Confidence            875

>KOG1424|consensus

Probab=90.86  E-value=0.41  Score=42.01  Aligned_cols=57  Identities=14%  Similarity=0.145  Sum_probs=40.5

Q ss_pred             CCcccc--cHhHHhhhccccceEEEEEeccCCCCcchHHHHHHHHHcCC-CeEEEEEeCC
Q psy9646         155 CPGHAD--YIKNMITGTSQMDGAILVVAATDGAMPQTREHLLLAKQIGV-TNIVVFINKF  211 (211)
Q Consensus       155 tPG~~~--~~~~~~~~~~~~d~~~~vvd~~~~~~~~~~~~~~~~~~~~~-~~~i~~inK~  211 (211)
                      ||--++  +-++.|+.++.+|+++.+|||+....--...+-...+...- +..++++||+
T Consensus       156 TpFErNLE~WRQLWRVlErSDivvqIVDARnPllfr~~dLe~Yvke~d~~K~~~LLvNKa  215 (562)
T KOG1424|consen  156 TPFERNLEIWRQLWRVLERSDIVVQIVDARNPLLFRSPDLEDYVKEVDPSKANVLLVNKA  215 (562)
T ss_pred             chhhhCHHHHHHHHHHHhhcceEEEEeecCCccccCChhHHHHHhccccccceEEEEehh
Confidence            776443  46889999999999999999998876444444344444332 4467899995

>TIGR03029 EpsG chain length determinant protein tyrosine kinase EpsG

Probab=90.80  E-value=0.72  Score=37.25  Aligned_cols=63  Identities=11%  Similarity=0.167  Sum_probs=45.3

Q ss_pred             CceeEeecCCcccccHhHHhhhccccceEEEEEeccCCCCcchHHHHHHHHHcCCCeEEEEEeC
Q psy9646         147 NRHYSHTDCPGHADYIKNMITGTSQMDGAILVVAATDGAMPQTREHLLLAKQIGVTNIVVFINK  210 (211)
Q Consensus       147 ~~~~~~iDtPG~~~~~~~~~~~~~~~d~~~~vvd~~~~~~~~~~~~~~~~~~~~~~~~i~~inK  210 (211)
                      .+-++++|||-.... ..+..-...+|.+++|+.+..--....++.++.++..+.+.+=+|+|+
T Consensus       212 ~yD~ViiD~pp~~~~-~d~~~~~~~~d~vilV~~~~~t~~~~~~~~~~~l~~~~~~~~G~VlN~  274 (274)
T TIGR03029       212 DYDVVIVDTPSAEHS-SDAQIVATRARGTLIVSRVNETRLHELTSLKEHLSGVGVRVVGAVLNQ  274 (274)
T ss_pred             cCCEEEEeCCCcccc-cHHHHHHHhCCeEEEEEECCCCCHHHHHHHHHHHHhCCCCEEEEEeCC
Confidence            467999999965332 233344567899999999866555666778888888888855557885

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).

>KOG0077|consensus

Probab=90.78  E-value=0.28  Score=36.74  Aligned_cols=66  Identities=18%  Similarity=0.192  Sum_probs=43.3

Q ss_pred             eCCceeEeecCCcccccHhHHhhhccccceEEEEEeccCCCC-cchHHHHHHHHH----cCCCeEEEEEeCC
Q psy9646         145 TENRHYSHTDCPGHADYIKNMITGTSQMDGAILVVAATDGAM-PQTREHLLLAKQ----IGVTNIVVFINKF  211 (211)
Q Consensus       145 ~~~~~~~~iDtPG~~~~~~~~~~~~~~~d~~~~vvd~~~~~~-~~~~~~~~~~~~----~~~~~~i~~inK~  211 (211)
                      ..+-.+.-+|-.||..--+--..-+..+|++++++|+.+..- ...++.++.+..    ..+| +++..|||
T Consensus        61 Ig~m~ftt~DLGGH~qArr~wkdyf~~v~~iv~lvda~d~er~~es~~eld~ll~~e~la~vp-~lilgnKI  131 (193)
T KOG0077|consen   61 IGGMTFTTFDLGGHLQARRVWKDYFPQVDAIVYLVDAYDQERFAESKKELDALLSDESLATVP-FLILGNKI  131 (193)
T ss_pred             ecCceEEEEccccHHHHHHHHHHHHhhhceeEeeeehhhHHHhHHHHHHHHHHHhHHHHhcCc-ceeecccc
Confidence            445566778999996544444445567899999999975543 333444444422    4678 55778996

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

Probab=90.74  E-value=0.46  Score=32.16  Aligned_cols=45  Identities=13%  Similarity=0.054  Sum_probs=30.7

Q ss_pred             ceeEeecCCcccccHhHHhhhccccceEEEEEeccCCCCcchHHHHH
Q psy9646         148 RHYSHTDCPGHADYIKNMITGTSQMDGAILVVAATDGAMPQTREHLL  194 (211)
Q Consensus       148 ~~~~~iDtPG~~~~~~~~~~~~~~~d~~~~vvd~~~~~~~~~~~~~~  194 (211)
                      +.++++|+|+...  .....++..+|.+++++++...-.....+.++
T Consensus        40 ~d~viiD~p~~~~--~~~~~~l~~ad~viv~~~~~~~s~~~~~~~~~   84 (104)
T cd02042          40 YDYIIIDTPPSLG--LLTRNALAAADLVLIPVQPSPLDLDGLEKLLE   84 (104)
T ss_pred             CCEEEEeCcCCCC--HHHHHHHHHCCEEEEeccCCHHHHHHHHHHHH
Confidence            6789999999743  33447788899999999875443333344433

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.

>TIGR03597 GTPase_YqeH ribosome biogenesis GTPase YqeH

Probab=90.28  E-value=0.61  Score=39.50  Aligned_cols=49  Identities=16%  Similarity=0.087  Sum_probs=32.3

Q ss_pred             ccHhHHhhhccccceEEEEEeccCCCCcchHHHHHHHHHcCCCeEEEEEeCC
Q psy9646         160 DYIKNMITGTSQMDGAILVVAATDGAMPQTREHLLLAKQIGVTNIVVFINKF  211 (211)
Q Consensus       160 ~~~~~~~~~~~~~d~~~~vvd~~~~~~~~~~~~~~~~~~~~~~~~i~~inK~  211 (211)
                      +|.+.+..-...+|++++|+|+.+....-..++.+.+.  +.| +++++||+
T Consensus        52 ~f~~~l~~~~~~~~~Il~VvD~~d~~~s~~~~l~~~~~--~~p-iilV~NK~  100 (360)
T TIGR03597        52 DFLNLLNSLGDSNALIVYVVDIFDFEGSLIPELKRFVG--GNP-VLLVGNKI  100 (360)
T ss_pred             HHHHHHhhcccCCcEEEEEEECcCCCCCccHHHHHHhC--CCC-EEEEEEch
Confidence            45554433346788999999997766554445544432  456 78999996

This family describes YqeH, a member of a larger family of GTPases involved in ribosome biogenesis. Like YqlF, it shows a cyclical permutation relative to GTPases EngA (in which the GTPase domain is duplicated), Era, and others. Members of this protein family are found in a relatively small number of bacterial species, including Bacillus subtilis but not Escherichia coli.

>PRK10818 cell division inhibitor MinD; Provisional

Probab=90.23  E-value=0.68  Score=37.25  Aligned_cols=49  Identities=12%  Similarity=0.159  Sum_probs=34.6

Q ss_pred             CceeEeecCCcccccHhHHhhhccccceEEEEEeccCCCCcchHHHHHHHH
Q psy9646         147 NRHYSHTDCPGHADYIKNMITGTSQMDGAILVVAATDGAMPQTREHLLLAK  197 (211)
Q Consensus       147 ~~~~~~iDtPG~~~~~~~~~~~~~~~d~~~~vvd~~~~~~~~~~~~~~~~~  197 (211)
                      .+.++++|+|+...  .....++..+|.+++++++...-......+++.+.
T Consensus       113 ~yd~viiD~p~~~~--~~~~~~l~~ad~vivv~~p~~~sl~~~~~~l~~i~  161 (270)
T PRK10818        113 DFEFIVCDSPAGIE--TGALMALYFADEAIITTNPEVSSVRDSDRILGILA  161 (270)
T ss_pred             CCCEEEEeCCCCcc--HHHHHHHHhCCeEEEEcCCCchHHHhHHHHHHHHH
Confidence            46789999998754  34556788999999999986444444455555553

>KOG2423|consensus

Probab=90.22  E-value=0.77  Score=39.22  Aligned_cols=49  Identities=14%  Similarity=0.116  Sum_probs=38.9

Q ss_pred             hHHhhhccccceEEEEEeccCCCCcchHHHHHHHHHcC-CCeEEEEEeCC
Q psy9646         163 KNMITGTSQMDGAILVVAATDGAMPQTREHLLLAKQIG-VTNIVVFINKF  211 (211)
Q Consensus       163 ~~~~~~~~~~d~~~~vvd~~~~~~~~~~~~~~~~~~~~-~~~~i~~inK~  211 (211)
                      .+.+.-+..+|+++-|+||++.+...-..+-+.++... -+++|+++||+
T Consensus       205 ~ELyKViDSSDVvvqVlDARDPmGTrc~~ve~ylkke~phKHli~vLNKv  254 (572)
T KOG2423|consen  205 GELYKVIDSSDVVVQVLDARDPMGTRCKHVEEYLKKEKPHKHLIYVLNKV  254 (572)
T ss_pred             HHHHHhhcccceeEEeeeccCCcccccHHHHHHHhhcCCcceeEEEeecc
Confidence            45677788899999999999998777666766676543 56689999996

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

Probab=90.14  E-value=0.56  Score=37.75  Aligned_cols=64  Identities=14%  Similarity=0.031  Sum_probs=37.2

Q ss_pred             CCceeEeecCCcccccHhHHhhhccccceEEEEEeccCCCCcchHHHHHHHH----HcCCCeEEEEEeC
Q psy9646         146 ENRHYSHTDCPGHADYIKNMITGTSQMDGAILVVAATDGAMPQTREHLLLAK----QIGVTNIVVFINK  210 (211)
Q Consensus       146 ~~~~~~~iDtPG~~~~~~~~~~~~~~~d~~~~vvd~~~~~~~~~~~~~~~~~----~~~~~~~i~~inK  210 (211)
                      +++-+++|||||..... .+..++..||.+++++.+...-.......++.++    ..+++..-+++|+
T Consensus       116 ~~yD~viIDt~g~~~~~-~~~~~l~~AD~viip~~~~~~sl~~~~~~~~~i~~~~~~~~l~i~giv~N~  183 (270)
T PRK13185        116 DDYDVILFDVLGDVVCG-GFAAPLQYADYALIVTANDFDSIFAANRIAAAIQAKAKNYKVRLAGVIANR  183 (270)
T ss_pred             ccCCEEEEecCCCcccC-cccchhhhCcEEEEEecCchhhHHHHHHHHHHHHhhhhccCCCceEEEEec
Confidence            45779999999864222 2345678899999998764322222233333322    3455533357786

>PRK00771 signal recognition particle protein Srp54; Provisional

Probab=90.11  E-value=0.89  Score=39.56  Aligned_cols=37  Identities=24%  Similarity=0.278  Sum_probs=26.5

Q ss_pred             ceeEeecCCcccccHhH------HhhhccccceEEEEEeccCC
Q psy9646         148 RHYSHTDCPGHADYIKN------MITGTSQMDGAILVVAATDG  184 (211)
Q Consensus       148 ~~~~~iDtPG~~~~~~~------~~~~~~~~d~~~~vvd~~~~  184 (211)
                      +.++++||||......+      ...++..+|.+++|+|+..+
T Consensus       176 ~DvVIIDTAGr~~~d~~lm~El~~l~~~~~pdevlLVvda~~g  218 (437)
T PRK00771        176 ADVIIVDTAGRHALEEDLIEEMKEIKEAVKPDEVLLVIDATIG  218 (437)
T ss_pred             CCEEEEECCCcccchHHHHHHHHHHHHHhcccceeEEEecccc
Confidence            36899999996654322      22445568999999999775

>cd01899 Ygr210 Ygr210 subfamily

Probab=90.02  E-value=0.56  Score=39.06  Aligned_cols=36  Identities=19%  Similarity=0.206  Sum_probs=28.4

Q ss_pred             ceeEeecCCcc----cc---cHhHHhhhccccceEEEEEeccC
Q psy9646         148 RHYSHTDCPGH----AD---YIKNMITGTSQMDGAILVVAATD  183 (211)
Q Consensus       148 ~~~~~iDtPG~----~~---~~~~~~~~~~~~d~~~~vvd~~~  183 (211)
                      .++.++||||.    +.   +....+..++.||++++|+|+..
T Consensus        69 v~i~l~D~aGlv~ga~~~~glg~~fL~~ir~aD~ii~Vvd~~~  111 (318)
T cd01899          69 VPVELIDVAGLVPGAHEGKGLGNKFLDDLRDADALIHVVDASG  111 (318)
T ss_pred             ceEEEEECCCCCCCccchhhHHHHHHHHHHHCCEEEEEEeCCC
Confidence            46899999997    22   33456777999999999999963

Ygr210 is a member of Obg-like family and present in archaea and fungi. They are characterized by a distinct glycine-rich motif immediately following the Walker B motif. The Ygr210 and YyaF/YchF subfamilies appear to form one major branch of the Obg-like family. Among eukaryotes, the Ygr210 subfamily is represented only in fungi. These fungal proteins form a tight cluster with their archaeal orthologs, which suggests the possibility of horizontal transfer from archaea to fungi.

>PRK14722 flhF flagellar biosynthesis regulator FlhF; Provisional

Probab=90.01  E-value=0.71  Score=39.31  Aligned_cols=52  Identities=15%  Similarity=0.098  Sum_probs=32.6

Q ss_pred             CCceeEeecCCccc---ccHhHHhhhccc---cceEEEEEeccCCCCcchHHHHHHHH
Q psy9646         146 ENRHYSHTDCPGHA---DYIKNMITGTSQ---MDGAILVVAATDGAMPQTREHLLLAK  197 (211)
Q Consensus       146 ~~~~~~~iDtPG~~---~~~~~~~~~~~~---~d~~~~vvd~~~~~~~~~~~~~~~~~  197 (211)
                      .++.+++|||||..   .+..+....+..   .+-.++|+++..+....++.+.....
T Consensus       214 ~~~DlVLIDTaG~~~~d~~l~e~La~L~~~~~~~~~lLVLsAts~~~~l~evi~~f~~  271 (374)
T PRK14722        214 RNKHMVLIDTIGMSQRDRTVSDQIAMLHGADTPVQRLLLLNATSHGDTLNEVVQAYRS  271 (374)
T ss_pred             cCCCEEEEcCCCCCcccHHHHHHHHHHhccCCCCeEEEEecCccChHHHHHHHHHHHH
Confidence            45689999999966   333344444433   34569999998776555544444433

>KOG0448|consensus

Probab=89.95  E-value=0.55  Score=42.57  Aligned_cols=61  Identities=20%  Similarity=0.171  Sum_probs=41.3

Q ss_pred             eeEeecCCccc---ccHhHHhhhccccceEEEEEeccCCCCcchHHHHHHHHHcCCCeEEEEEeC
Q psy9646         149 HYSHTDCPGHA---DYIKNMITGTSQMDGAILVVAATDGAMPQTREHLLLAKQIGVTNIVVFINK  210 (211)
Q Consensus       149 ~~~~iDtPG~~---~~~~~~~~~~~~~d~~~~vvd~~~~~~~~~~~~~~~~~~~~~~~~i~~inK  210 (211)
                      -+.++|.||..   .+-..+-.-..++|+.+||+.|..-.+-..+..+..+ ..+.|.++++.||
T Consensus       207 DivliDsPGld~~se~tswid~~cldaDVfVlV~NaEntlt~sek~Ff~~v-s~~KpniFIlnnk  270 (749)
T KOG0448|consen  207 DIVLIDSPGLDVDSELTSWIDSFCLDADVFVLVVNAENTLTLSEKQFFHKV-SEEKPNIFILNNK  270 (749)
T ss_pred             cceeccCCCCCCchhhhHHHHHHhhcCCeEEEEecCccHhHHHHHHHHHHh-hccCCcEEEEech
Confidence            58899999954   2334444555789999999998666554444444444 4457877666776

>KOG0079|consensus

Probab=89.82  E-value=2  Score=31.60  Aligned_cols=72  Identities=18%  Similarity=0.120  Sum_probs=46.6

Q ss_pred             eEEEeeeCCc--eeEeecCCcccccHhHHhhhccccceEEEEEeccCCCC-cchHHHHHHHHHc--CCCeEEEEEeCC
Q psy9646         139 AHVEYATENR--HYSHTDCPGHADYIKNMITGTSQMDGAILVVAATDGAM-PQTREHLLLAKQI--GVTNIVVFINKF  211 (211)
Q Consensus       139 ~~~~~~~~~~--~~~~iDtPG~~~~~~~~~~~~~~~d~~~~vvd~~~~~~-~~~~~~~~~~~~~--~~~~~i~~inK~  211 (211)
                      ...+...++.  .+-+-||.|++.|-.-.-.=.+..+++++|-|...+.. ..-+++++.+...  .+| -++|-||.
T Consensus        46 kirTv~i~G~~VkLqIwDtAGqErFrtitstyyrgthgv~vVYDVTn~ESF~Nv~rWLeei~~ncdsv~-~vLVGNK~  122 (198)
T KOG0079|consen   46 KIRTVDINGDRVKLQIWDTAGQERFRTITSTYYRGTHGVIVVYDVTNGESFNNVKRWLEEIRNNCDSVP-KVLVGNKN  122 (198)
T ss_pred             EEEEeecCCcEEEEEEeecccHHHHHHHHHHHccCCceEEEEEECcchhhhHhHHHHHHHHHhcCcccc-ceecccCC
Confidence            3444444444  45678999998886444444456789999999876653 4556666666553  356 45888883

>KOG1490|consensus

Probab=89.75  E-value=0.53  Score=41.32  Aligned_cols=63  Identities=14%  Similarity=0.199  Sum_probs=34.0

Q ss_pred             ceeEeecCCcccc-----cH---hHHhhhcccc-ceEEEEEeccCCCC--cchHH-HHHHHHH--cCCCeEEEEEeCC
Q psy9646         148 RHYSHTDCPGHAD-----YI---KNMITGTSQM-DGAILVVAATDGAM--PQTRE-HLLLAKQ--IGVTNIVVFINKF  211 (211)
Q Consensus       148 ~~~~~iDtPG~~~-----~~---~~~~~~~~~~-d~~~~vvd~~~~~~--~~~~~-~~~~~~~--~~~~~~i~~inK~  211 (211)
                      .++-.+||||.-+     .+   -+.+.|++.- -++|++.|-.+.-.  ...+- ++.-.+.  .+.| .|+|+||+
T Consensus       215 lrwQViDTPGILD~plEdrN~IEmqsITALAHLraaVLYfmDLSe~CGySva~QvkLfhsIKpLFaNK~-~IlvlNK~  291 (620)
T KOG1490|consen  215 LRWQVIDTPGILDRPEEDRNIIEMQIITALAHLRSAVLYFMDLSEMCGYSVAAQVKLYHSIKPLFANKV-TILVLNKI  291 (620)
T ss_pred             eeeeecCCccccCcchhhhhHHHHHHHHHHHHhhhhheeeeechhhhCCCHHHHHHHHHHhHHHhcCCc-eEEEeecc
Confidence            3567899999543     21   2344555544 46778888754332  22221 2222221  2445 77999996

>PRK14974 cell division protein FtsY; Provisional

Probab=89.72  E-value=0.9  Score=38.12  Aligned_cols=61  Identities=18%  Similarity=0.233  Sum_probs=35.4

Q ss_pred             CceeEeecCCcccc----cHhHHhhh--ccccceEEEEEeccCCCCcchHHHHHH-HHHcCCCeEEEEEeCC
Q psy9646         147 NRHYSHTDCPGHAD----YIKNMITG--TSQMDGAILVVAATDGAMPQTREHLLL-AKQIGVTNIVVFINKF  211 (211)
Q Consensus       147 ~~~~~~iDtPG~~~----~~~~~~~~--~~~~d~~~~vvd~~~~~~~~~~~~~~~-~~~~~~~~~i~~inK~  211 (211)
                      ++.+++|||||...    ++.++..-  ....|..++|+|+..|-  ...+.++. ....++..  +++||+
T Consensus       222 ~~DvVLIDTaGr~~~~~~lm~eL~~i~~~~~pd~~iLVl~a~~g~--d~~~~a~~f~~~~~~~g--iIlTKl  289 (336)
T PRK14974        222 GIDVVLIDTAGRMHTDANLMDELKKIVRVTKPDLVIFVGDALAGN--DAVEQAREFNEAVGIDG--VILTKV  289 (336)
T ss_pred             CCCEEEEECCCccCCcHHHHHHHHHHHHhhCCceEEEeeccccch--hHHHHHHHHHhcCCCCE--EEEeee
Confidence            45699999999653    33332211  23468999999996653  22222222 23456663  467885

>TIGR00993 3a0901s04IAP86 chloroplast protein import component Toc86/159, G and M domains

Probab=89.70  E-value=1.5  Score=40.10  Aligned_cols=68  Identities=13%  Similarity=0.046  Sum_probs=37.4

Q ss_pred             eeeCCceeEeecCCccccc----------HhHHhhhcc--ccceEEEEEeccCC-CCcchHHHHHHHHH-cC---CCeEE
Q psy9646         143 YATENRHYSHTDCPGHADY----------IKNMITGTS--QMDGAILVVAATDG-AMPQTREHLLLAKQ-IG---VTNIV  205 (211)
Q Consensus       143 ~~~~~~~~~~iDtPG~~~~----------~~~~~~~~~--~~d~~~~vvd~~~~-~~~~~~~~~~~~~~-~~---~~~~i  205 (211)
                      ....+.++.+|||||..+.          ++.+...++  ..|++|+|...... ...++...++.+.. .|   .+..|
T Consensus       161 ~~idG~~L~VIDTPGL~dt~~dq~~neeILk~Ik~~Lsk~gpDVVLlV~RLd~~~~D~eD~~aLr~Iq~lFG~~Iwk~tI  240 (763)
T TIGR00993       161 GLVQGVKIRVIDTPGLKSSASDQSKNEKILSSVKKFIKKNPPDIVLYVDRLDMQTRDSNDLPLLRTITDVLGPSIWFNAI  240 (763)
T ss_pred             EEECCceEEEEECCCCCccccchHHHHHHHHHHHHHHhcCCCCEEEEEEeCCCccccHHHHHHHHHHHHHhCHHhHcCEE
Confidence            3456788999999997753          122322333  47888888754322 22234445555532 22   33456


Q ss_pred             EEEeC
Q psy9646         206 VFINK  210 (211)
Q Consensus       206 ~~inK  210 (211)
                      |+.+.
T Consensus       241 VVFTh  245 (763)
T TIGR00993       241 VTLTH  245 (763)
T ss_pred             EEEeC
Confidence            66653

The long precursor of the 86K protein originally described is proposed to have three domains. The N-terminal A-domain is acidic, repetitive, weakly conserved, readily removed by proteolysis during chloroplast isolation, and not required for protein translocation. The other domains are designated G (GTPase) and M (membrane anchor); this family includes most of the G domain and all of M.

>CHL00072 chlL photochlorophyllide reductase subunit L

Probab=89.50  E-value=0.68  Score=37.98  Aligned_cols=64  Identities=9%  Similarity=-0.036  Sum_probs=37.9

Q ss_pred             CceeEeecCCcccccHhHHhhhccccceEEEEEeccCCCCcchHHHHHHHHHc----CCCeEEEEEeCC
Q psy9646         147 NRHYSHTDCPGHADYIKNMITGTSQMDGAILVVAATDGAMPQTREHLLLAKQI----GVTNIVVFINKF  211 (211)
Q Consensus       147 ~~~~~~iDtPG~~~~~~~~~~~~~~~d~~~~vvd~~~~~~~~~~~~~~~~~~~----~~~~~i~~inK~  211 (211)
                      ++.++++||||.-. ...+..++..||.+++++++...-......+++.++..    +.+..-+++|+.
T Consensus       115 ~yD~IiIDt~~~l~-~~a~~aal~~AD~viIp~~p~~~sl~~~~~l~~~i~~~~~~~~l~~~gvv~n~~  182 (290)
T CHL00072        115 EYDIILFDVLGDVV-CGGFAAPLNYADYCIIITDNGFDALFAANRIAASVREKARTHPLRLAGLVGNRT  182 (290)
T ss_pred             cCCEEEEecCCcce-echhhhhhhcCCEEEEEecCCHHHHHHHHHHHHHHHHHhccCCCceEEEEEeCC
Confidence            46799999998621 12234567889999999886433223333444444332    344344677874

>KOG1145|consensus

Probab=89.43  E-value=0.57  Score=41.57  Aligned_cols=69  Identities=26%  Similarity=0.180  Sum_probs=59.2

Q ss_pred             CCCCCCeeEEEeeEEeecCCcEEEEEEEEEEEEecCCEEEEeecCceeeEEEEEEEecc-eecceecccCceeh
Q psy9646          16 RDLDKPFYLPVEHTYSIPGRGTVVTGRLERGIVKKGMECEFTGYGRQFKTTVTGIEMFH-KILDEAQAGDQLGA   88 (211)
Q Consensus        16 ~~~~~p~~~~v~~~~~~~~~G~v~~G~v~~G~i~~g~~v~i~p~~~~~~~~v~~i~~~~-~~~~~a~~G~~v~~   88 (211)
                      -+.++|+.-.|-+..-.+++|.+.+--|..|+++.|+-+...-+    =++|+.+.-.+ +++++|.|++.|.+
T Consensus       322 A~p~g~~eg~VIES~vdkg~G~~aT~iVkrGTLkKG~vlV~G~~----w~KVr~l~D~nGk~i~~A~Ps~pv~V  391 (683)
T KOG1145|consen  322 ADPKGPAEGWVIESSVDKGRGPVATVIVKRGTLKKGSVLVAGKS----WCKVRALFDHNGKPIDEATPSQPVEV  391 (683)
T ss_pred             cCCCCCceEEEEEeeecCCccceeEEEEeccccccccEEEEech----hhhhhhhhhcCCCCccccCCCCceEe
Confidence            34678899999999999999999999999999999998876655    36788887666 79999999999986

>PRK09602 translation-associated GTPase; Reviewed

Probab=89.34  E-value=0.55  Score=40.33  Aligned_cols=35  Identities=23%  Similarity=0.207  Sum_probs=28.1

Q ss_pred             ceeEeecCCccc-------ccHhHHhhhccccceEEEEEecc
Q psy9646         148 RHYSHTDCPGHA-------DYIKNMITGTSQMDGAILVVAAT  182 (211)
Q Consensus       148 ~~~~~iDtPG~~-------~~~~~~~~~~~~~d~~~~vvd~~  182 (211)
                      .++.|+||||..       .+....+..++.+|++++|+|+.
T Consensus        72 ~~i~i~D~aGl~~ga~~g~glg~~fL~~ir~ad~ll~Vvd~~  113 (396)
T PRK09602         72 IPVELIDVAGLVPGAHEGRGLGNQFLDDLRQADALIHVVDAS  113 (396)
T ss_pred             eeEEEEEcCCcCCCccchhhHHHHHHHHHHHCCEEEEEEeCC
Confidence            467899999953       24446777899999999999996

>COG1161 Predicted GTPases [General function prediction only]

Probab=89.28  E-value=0.62  Score=38.83  Aligned_cols=57  Identities=21%  Similarity=0.183  Sum_probs=44.0

Q ss_pred             eecCCccc-ccHhHHhhhccccceEEEEEeccCCCCcchHHHHHHHHHcCCCeEEEEEeCC
Q psy9646         152 HTDCPGHA-DYIKNMITGTSQMDGAILVVAATDGAMPQTREHLLLAKQIGVTNIVVFINKF  211 (211)
Q Consensus       152 ~iDtPG~~-~~~~~~~~~~~~~d~~~~vvd~~~~~~~~~~~~~~~~~~~~~~~~i~~inK~  211 (211)
                      +-+.|||. ++.++...-+..+|+++-|+||.+........+-+....  .+ .++++||+
T Consensus        14 i~~~~g~~~k~~~~~~~~~~~~d~vvevvDar~P~~s~~~~l~~~v~~--k~-~i~vlNK~   71 (322)
T COG1161          14 IQWFPGHMKKAKRQLKEVLKSVDVVVEVVDARDPLGTRNPELERIVKE--KP-KLLVLNKA   71 (322)
T ss_pred             ccCCCCchHHHHHHHHHhcccCCEEEEEEeccccccccCccHHHHHcc--CC-cEEEEehh
Confidence            44569976 467888899999999999999999988777766665543  23 36889995

>PRK10037 cell division protein; Provisional

Probab=89.24  E-value=0.9  Score=36.21  Aligned_cols=58  Identities=19%  Similarity=0.155  Sum_probs=37.6

Q ss_pred             CCceeEeecCCcccccHhHHhhhccccceEEEEEeccCCCCcchHHHHHHHHHcCCCeEEEEEeCC
Q psy9646         146 ENRHYSHTDCPGHADYIKNMITGTSQMDGAILVVAATDGAMPQTREHLLLAKQIGVTNIVVFINKF  211 (211)
Q Consensus       146 ~~~~~~~iDtPG~~~~~~~~~~~~~~~d~~~~vvd~~~~~~~~~~~~~~~~~~~~~~~~i~~inK~  211 (211)
                      .++.+++||||+...  ..+..++..||.+++++.+..      ..+++..+....+.+.+++|++
T Consensus       116 ~~yD~iiIDtpp~~~--~~~~~al~aaD~vlvpv~~~~------~~~i~~~~~~~~~~~~i~~n~~  173 (250)
T PRK10037        116 GRYQWILLDLPRGAS--PLTRQLLSLCDHSLAIVNVDA------NCHIRLHQQALPAGAHILINDL  173 (250)
T ss_pred             CCCCEEEEECCCCcc--HHHHHHHHhCCEEEEEcCcCH------HHHHhhhccccCCCeEEEEecC
Confidence            457899999999854  457788899999999998631      1233444332222344567763

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

Probab=89.23  E-value=0.72  Score=37.07  Aligned_cols=65  Identities=15%  Similarity=0.020  Sum_probs=37.3

Q ss_pred             CCceeEeecCCcccccHhHHhhhccccceEEEEEeccCCCCcchHHHHHHHHH----cCCCeEEEEEeCC
Q psy9646         146 ENRHYSHTDCPGHADYIKNMITGTSQMDGAILVVAATDGAMPQTREHLLLAKQ----IGVTNIVVFINKF  211 (211)
Q Consensus       146 ~~~~~~~iDtPG~~~~~~~~~~~~~~~d~~~~vvd~~~~~~~~~~~~~~~~~~----~~~~~~i~~inK~  211 (211)
                      .++.++++||||.-... .+..++..||.+++++.....-......+++.+..    .+++..-+++|++
T Consensus       114 ~~yD~ViID~~~~~~~~-~~~~~l~aAD~vlip~~~~~~sl~~~~~l~~~i~~~~~~~~l~~~gIV~N~~  182 (268)
T TIGR01281       114 DDYDVILFDVLGDVVCG-GFATPLQYADYALVVAANDFDALFAANRIAASVQEKAKNYDVRLAGIIGNRS  182 (268)
T ss_pred             ccCCEEEEecCCccccC-ccccchhhcCEEEEEecCchhHHHHHHHHHHHHHHHhhcCCCceEEEEEeCC
Confidence            45789999999853211 12245788999999876532211223334333332    3455444678874

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.

>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=89.02  E-value=0.74  Score=35.70  Aligned_cols=65  Identities=12%  Similarity=-0.018  Sum_probs=37.3

Q ss_pred             CCceeEeecCCcccccHhHHhhhcc--ccceEEEEEeccCCCCcchHHHHHHHHHc----CCCeEEEEEeCC
Q psy9646         146 ENRHYSHTDCPGHADYIKNMITGTS--QMDGAILVVAATDGAMPQTREHLLLAKQI----GVTNIVVFINKF  211 (211)
Q Consensus       146 ~~~~~~~iDtPG~~~~~~~~~~~~~--~~d~~~~vvd~~~~~~~~~~~~~~~~~~~----~~~~~i~~inK~  211 (211)
                      +++.++++||||...... ....+.  .||.++++++...--......+++.++..    +.+..-+++||+
T Consensus       115 ~~yD~ilID~~g~~~~~~-~~~~l~~~~ad~vliv~~p~~~sl~~~~~l~~~i~~~~~~~~~~~~gvv~N~~  185 (212)
T cd02117         115 DDLDVVLYDVLGDVVCGG-FAMPIREGKADEIYIVTSGEFMALYAANNICKGIRKYAKSGGVRLGGLICNSR  185 (212)
T ss_pred             cCCCEEEEecCCCceecc-cccccccccCcEEEEEecccHHHHHHHHHHHHHHHHhCcccCCcEEEEEEeCC
Confidence            467899999988642111 112333  79999999986432222233344444443    444344678874

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

>PF00503 G-alpha: G-protein alpha subunit; InterPro: IPR001019 Guanine nucleotide binding proteins (G proteins) are membrane-associated, heterotrimeric proteins composed of three subunits: alpha (IPR001019 from INTERPRO), beta (IPR001632 from INTERPRO) and gamma (IPR001770 from INTERPRO) []

Probab=88.98  E-value=1.6  Score=37.21  Aligned_cols=77  Identities=17%  Similarity=0.269  Sum_probs=49.0

Q ss_pred             eEEeEeEEEeee-CCceeEeecCCcccccHhHHhhhccccceEEEEEeccCCCC-----------cchHHHHHHHHH---
Q psy9646         134 ITINVAHVEYAT-ENRHYSHTDCPGHADYIKNMITGTSQMDGAILVVAATDGAM-----------PQTREHLLLAKQ---  198 (211)
Q Consensus       134 ~tv~~~~~~~~~-~~~~~~~iDtPG~~~~~~~~~~~~~~~d~~~~vvd~~~~~~-----------~~~~~~~~~~~~---  198 (211)
                      .|.-+.-..+.. .+..+.++|..|++.--+.-..-+.++++++|+++-.+-=.           .++..+++.+..   
T Consensus       221 ~T~Gi~e~~f~~~~~~~~~~~DvGGqr~eRkKW~~~F~~v~~vif~vsls~ydq~~~ed~~~nrl~esl~lF~~i~~~~~  300 (389)
T PF00503_consen  221 KTTGITEIDFNFSGSRKFRLIDVGGQRSERKKWIHCFEDVTAVIFVVSLSEYDQTLYEDPNTNRLHESLNLFESICNNPW  300 (389)
T ss_dssp             --SSEEEEEEEE-TTEEEEEEEETSSGGGGGGGGGGGTTESEEEEEEEGGGGGSBESSSTTSBHHHHHHHHHHHHHTSGG
T ss_pred             CCCCeeEEEEEeecccccceecCCCCchhhhhHHHHhccccEEEEeecccchhhhhcccchHHHHHHHHHHHHHHHhCcc
Confidence            344444556667 88899999999998666666666789999999999642111           122333333322   


Q ss_pred             -cCCCeEEEEEeCC
Q psy9646         199 -IGVTNIVVFINKF  211 (211)
Q Consensus       199 -~~~~~~i~~inK~  211 (211)
                       .+.| +||++||+
T Consensus       301 ~~~~~-iil~lnK~  313 (389)
T PF00503_consen  301 FKNTP-IILFLNKI  313 (389)
T ss_dssp             GTTSE-EEEEEE-H
T ss_pred             cccCc-eEEeeecH
Confidence             2345 89999994

G proteins and their receptors (GPCRs) form one of the most prevalent signalling systems in mammalian cells, regulating systems as diverse as sensory perception, cell growth and hormonal regulation []. At the cell surface, the binding of ligands such as hormones and neurotransmitters to a GPCR activates the receptor by causing a conformational change, which in turn activates the bound G protein on the intracellular-side of the membrane. The activated receptor promotes the exchange of bound GDP for GTP on the G protein alpha subunit. GTP binding changes the conformation of switch regions within the alpha subunit, which allows the bound trimeric G protein (inactive) to be released from the receptor, and to dissociate into active alpha subunit (GTP-bound) and beta/gamma dimer. The alpha subunit and the beta/gamma dimer go on to activate distinct downstream effectors, such as adenylyl cyclase, phosphodiesterases, phospholipase C, and ion channels. These effectors in turn regulate the intracellular concentrations of secondary messengers, such as cAMP, diacylglycerol, sodium or calcium cations, which ultimately lead to a physiological response, usually via the downstream regulation of gene transcription. The cycle is completed by the hydrolysis of alpha subunit-bound GTP to GDP, resulting in the re-association of the alpha and beta/gamma subunits and their binding to the receptor, which terminates the signal []. The length of the G protein signal is controlled by the duration of the GTP-bound alpha subunit, which can be regulated by RGS (regulator of G protein signalling) proteins (IPR000342 from INTERPRO) or by covalent modifications []. There are several isoforms of each subunit, many of which have splice variants, which together can make up hundreds of combinations of G proteins. The specific combination of subunits in heterotrimeric G proteins affects not only which receptor it can bind to, but also which downstream target is affected, providing the means to target specific physiological processes in response to specific external stimuli [, ]. G proteins carry lipid modifications on one or more of their subunits to target them to the plasma membrane and to contribute to protein interactions. This family consists of the G protein alpha subunit, which acts as a weak GTPase. G protein classes are defined based on the sequence and function of their alpha subunits, which in mammals fall into four main categories: G(S)alpha, G(Q)alpha, G(I)alpha and G(12)alpha; there are also fungal and plant classes of alpha subunits. The alpha subunit consists of two domains: a GTP-binding domain and a helical insertion domain (IPR011025 from INTERPRO). The GTP-binding domain is homologous to Ras-like small GTPases, and includes switch regions I and II, which change conformation during activation. The switch regions are loops of alpha-helices with conformations sensitive to guanine nucleotides. The helical insertion domain is inserted into the GTP-binding domain before switch region I and is unique to heterotrimeric G proteins. This helical insertion domain functions to sequester the guanine nucleotide at the interface with the GTP-binding domain and must be displaced to enable nucleotide dissociation.; GO: 0004871 signal transducer activity, 0019001 guanyl nucleotide binding, 0007186 G-protein coupled receptor protein signaling pathway; PDB: 3QI2_B 3QE0_A 2IK8_A 2OM2_A 2GTP_B 2XNS_B 3ONW_B 1KJY_A 2EBC_A 1Y3A_B ....

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

Probab=88.46  E-value=1.1  Score=36.24  Aligned_cols=61  Identities=11%  Similarity=0.237  Sum_probs=41.8

Q ss_pred             eeEeecCCcccccHhHHhhhccccceEEEEEeccCCCCcchHHHHHHHHHcCCCeEE--EEEeCC
Q psy9646         149 HYSHTDCPGHADYIKNMITGTSQMDGAILVVAATDGAMPQTREHLLLAKQIGVTNIV--VFINKF  211 (211)
Q Consensus       149 ~~~~iDtPG~~~~~~~~~~~~~~~d~~~~vvd~~~~~~~~~~~~~~~~~~~~~~~~i--~~inK~  211 (211)
                      -++++|||+-  +...+..++..+|..++|......--.+.-..++++...+.+...  +++|++
T Consensus       114 D~iliD~~aG--l~~~~~~~~~~sd~~viVt~pe~~si~~A~~~i~~~~~~~~~~~~~~vV~N~v  176 (262)
T COG0455         114 DYILIDTGAG--LSRDTLSFILSSDELVIVTTPEPTSITDAYKTIKILSKLGLDLLGRRVVLNRV  176 (262)
T ss_pred             CEEEEeCCCC--ccHHHHHHHHhcCcEEEEeCCCcchHHHHHHHHHHHHHcCCccccceEEEEec
Confidence            6899999875  445566777777999988875322223345567888888877433  788975

>PRK13796 GTPase YqeH; Provisional

Probab=87.91  E-value=1.3  Score=37.62  Aligned_cols=46  Identities=15%  Similarity=0.022  Sum_probs=30.6

Q ss_pred             hHHhhhccccc-eEEEEEeccCCCCcchHHHHHHHHHcCCCeEEEEEeCC
Q psy9646         163 KNMITGTSQMD-GAILVVAATDGAMPQTREHLLLAKQIGVTNIVVFINKF  211 (211)
Q Consensus       163 ~~~~~~~~~~d-~~~~vvd~~~~~~~~~~~~~~~~~~~~~~~~i~~inK~  211 (211)
                      ..+...+..+| .+++|+|+.+........+.+..  .+.| +++++||+
T Consensus        60 ~~~l~~i~~~~~lIv~VVD~~D~~~s~~~~L~~~~--~~kp-viLViNK~  106 (365)
T PRK13796         60 LKLLNGIGDSDALVVNVVDIFDFNGSWIPGLHRFV--GNNP-VLLVGNKA  106 (365)
T ss_pred             HHHHHhhcccCcEEEEEEECccCCCchhHHHHHHh--CCCC-EEEEEEch
Confidence            34677777777 88999999876544433333322  2456 77899996

>PRK11670 antiporter inner membrane protein; Provisional

Probab=87.79  E-value=1.4  Score=37.50  Aligned_cols=65  Identities=17%  Similarity=0.267  Sum_probs=40.8

Q ss_pred             CCceeEeecCCcccccHhHHhhhccccceEEEEEeccCCCCcchHHHHHHHHHcCCCeEEEEEeC
Q psy9646         146 ENRHYSHTDCPGHADYIKNMITGTSQMDGAILVVAATDGAMPQTREHLLLAKQIGVTNIVVFINK  210 (211)
Q Consensus       146 ~~~~~~~iDtPG~~~~~~~~~~~~~~~d~~~~vvd~~~~~~~~~~~~~~~~~~~~~~~~i~~inK  210 (211)
                      +++-++++|||-...-......++..+|.+++++....--.....+.++.+.+.+++.+-++.|+
T Consensus       214 ~~yDyvIID~PPg~gd~~l~~~~l~aad~viiV~tp~~~s~~da~~~i~~~~~~~~~ilGiV~Nm  278 (369)
T PRK11670        214 PDLDYLVLDMPPGTGDIQLTLAQNIPVTGAVVVTTPQDIALIDAKKGIVMFEKVEVPVLGIVENM  278 (369)
T ss_pred             ccCCEEEEeCCCCCchHHHHHhhhccCCeEEEEecCchhHHHHHHHHHHHHhccCCCeEEEEEcC
Confidence            45679999997543333234455667899988886533222334455566667788854467886

>TIGR01005 eps_transp_fam exopolysaccharide transport protein family

Probab=87.07  E-value=1.6  Score=40.71  Aligned_cols=64  Identities=13%  Similarity=-0.032  Sum_probs=44.6

Q ss_pred             CceeEeecCCcccccHhHHhhhccccceEEEEEeccCCCCcchHHHHHHHHHcCCCeEEEEEeCC
Q psy9646         147 NRHYSHTDCPGHADYIKNMITGTSQMDGAILVVAATDGAMPQTREHLLLAKQIGVTNIVVFINKF  211 (211)
Q Consensus       147 ~~~~~~iDtPG~~~~~~~~~~~~~~~d~~~~vvd~~~~~~~~~~~~~~~~~~~~~~~~i~~inK~  211 (211)
                      .+.+++||||......... .-...+|.+++++....-......+.++.++..+.+..-+++|++
T Consensus       655 ~yD~IiID~pp~~~~~d~~-~l~~~~D~vl~v~~~~~~~~~~~~~~~~~l~~~~~~~~GvvlN~~  718 (754)
T TIGR01005       655 YSDCVVVDVGTADPVRDMR-AAARLAIIMLLVTAYDRVVVECGRADAQGISRLNGEVTGVFLNML  718 (754)
T ss_pred             hCCEEEEcCCCcchhHHHH-HhhhhCCeEEEEEEeCceeHHHHHHHHHHHHhcCCceEEEEecCC
Confidence            4678999999975543322 223468999999886544445667777888888877555788874

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.

>KOG0083|consensus

Probab=86.20  E-value=0.87  Score=32.81  Aligned_cols=63  Identities=14%  Similarity=0.151  Sum_probs=42.8

Q ss_pred             ceeEeecCCcccccHhHHhhhccccceEEEEEeccCCC-CcchHHHHHHHHHcC---CCeEEEEEeCC
Q psy9646         148 RHYSHTDCPGHADYIKNMITGTSQMDGAILVVAATDGA-MPQTREHLLLAKQIG---VTNIVVFINKF  211 (211)
Q Consensus       148 ~~~~~iDtPG~~~~~~~~~~~~~~~d~~~~vvd~~~~~-~~~~~~~~~~~~~~~---~~~~i~~inK~  211 (211)
                      -++-+-||.|++.|-+-..+=.+++|+.+++-|..... +..-+.++...++.+   +. +.++-||+
T Consensus        47 vklqiwdtagqerfrsvt~ayyrda~allllydiankasfdn~~~wlsei~ey~k~~v~-l~llgnk~  113 (192)
T KOG0083|consen   47 VKLQIWDTAGQERFRSVTHAYYRDADALLLLYDIANKASFDNCQAWLSEIHEYAKEAVA-LMLLGNKC  113 (192)
T ss_pred             EEEEEeeccchHHHhhhhHhhhcccceeeeeeecccchhHHHHHHHHHHHHHHHHhhHh-Hhhhcccc
Confidence            45667899999999988888889999999999975433 344444544444433   22 33455664

>TIGR03371 cellulose_yhjQ cellulose synthase operon protein YhjQ

Probab=85.87  E-value=1.2  Score=35.12  Aligned_cols=32  Identities=19%  Similarity=0.136  Sum_probs=25.5

Q ss_pred             eeEeecCCcccccHhHHhhhccccceEEEEEecc
Q psy9646         149 HYSHTDCPGHADYIKNMITGTSQMDGAILVVAAT  182 (211)
Q Consensus       149 ~~~~iDtPG~~~~~~~~~~~~~~~d~~~~vvd~~  182 (211)
                      .++++|||+.  +......++..+|.+++++.+.
T Consensus       116 D~viiD~pp~--~~~~~~~~l~~ad~vii~~~~~  147 (246)
T TIGR03371       116 DWVLIDVPRG--PSPITRQALAAADLVLVVVNAD  147 (246)
T ss_pred             CEEEEECCCC--chHHHHHHHHhCCeEEEEeCCC
Confidence            6899999994  3345667778999999999874

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.

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

Probab=85.86  E-value=2.7  Score=27.55  Aligned_cols=59  Identities=25%  Similarity=0.374  Sum_probs=33.1

Q ss_pred             eEeecC-CcccccHhHHhhhccccceEEEEEeccCCCCcchHHHHHHHHHcCCCeEEEEEe
Q psy9646         150 YSHTDC-PGHADYIKNMITGTSQMDGAILVVAATDGAMPQTREHLLLAKQIGVTNIVVFIN  209 (211)
Q Consensus       150 ~~~iDt-PG~~~~~~~~~~~~~~~d~~~~vvd~~~~~~~~~~~~~~~~~~~~~~~~i~~in  209 (211)
                      +.++|+ ||-.|---++...+. .|.+++|--..+--....++.+..+++.++|.+=++-|
T Consensus         3 ~LiiD~PPGTgD~~l~~~~~~~-~~g~ivVTTPq~la~~dv~r~~~~~~~~~vpilGvVEN   62 (81)
T PF10609_consen    3 YLIIDLPPGTGDEHLTLMQYLP-IDGAIVVTTPQELALADVRRAIDMFRKLNVPILGVVEN   62 (81)
T ss_dssp             EEEEE--SCSSSHHHHHHHHH---SEEEEEE-CCC--HHHHHHHHHHHHCTT-EEEEEEEC
T ss_pred             EEEEeCCCCCCcHHHHHHHhCC-CCeEEEEeCCHHHHHHHHHHHHHHHHhcCCCcEEEEEC
Confidence            567888 576655445555555 67777766543333345577888999999994334444

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.

>COG0536 Obg Predicted GTPase [General function prediction only]

Probab=85.29  E-value=4.7  Score=33.83  Aligned_cols=66  Identities=11%  Similarity=0.073  Sum_probs=39.1

Q ss_pred             eCCceeEeecCCcccc-------cHhHHhhhccccceEEEEEeccCCCC----cchHHHHHHHHH-----cCCCeEEEEE
Q psy9646         145 TENRHYSHTDCPGHAD-------YIKNMITGTSQMDGAILVVAATDGAM----PQTREHLLLAKQ-----IGVTNIVVFI  208 (211)
Q Consensus       145 ~~~~~~~~iDtPG~~~-------~~~~~~~~~~~~d~~~~vvd~~~~~~----~~~~~~~~~~~~-----~~~~~~i~~i  208 (211)
                      .....+++-|.||.-+       +-...+.=++.+.+.+.|||....-.    ..-+.+...++.     .+.| .++|+
T Consensus       204 ~~~~sfv~ADIPGLIEGAs~G~GLG~~FLrHIERt~vL~hviD~s~~~~~dp~~~~~~i~~EL~~Y~~~L~~K~-~ivv~  282 (369)
T COG0536         204 DGGESFVVADIPGLIEGASEGVGLGLRFLRHIERTRVLLHVIDLSPIDGRDPIEDYQTIRNELEKYSPKLAEKP-RIVVL  282 (369)
T ss_pred             cCCCcEEEecCcccccccccCCCccHHHHHHHHhhheeEEEEecCcccCCCHHHHHHHHHHHHHHhhHHhccCc-eEEEE
Confidence            4566799999999331       22223344456689999999864321    122223333333     3456 56899


Q ss_pred             eCC
Q psy9646         209 NKF  211 (211)
Q Consensus       209 nK~  211 (211)
                      |||
T Consensus       283 NKi  285 (369)
T COG0536         283 NKI  285 (369)
T ss_pred             ecc
Confidence            997

>PF00735 Septin: Septin; InterPro: IPR000038 Septins constitute a eukaryotic family of guanine nucleotide-binding proteins, most of which polymerise to form filaments []

Probab=85.24  E-value=3.9  Score=33.40  Aligned_cols=39  Identities=18%  Similarity=0.309  Sum_probs=26.6

Q ss_pred             ccceEEEEEecc-CCCCcchHHHHHHHHHcCCCeEEEEEeCC
Q psy9646         171 QMDGAILVVAAT-DGAMPQTREHLLLAKQIGVTNIVVFINKF  211 (211)
Q Consensus       171 ~~d~~~~vvd~~-~~~~~~~~~~~~~~~~~~~~~~i~~inK~  211 (211)
                      .+|++|+.+++. .++.+.+.+.++.+.. .++ +|-+|.|.
T Consensus       113 RVH~cLYfI~pt~~~L~~~Di~~mk~Ls~-~vN-vIPvIaKa  152 (281)
T PF00735_consen  113 RVHACLYFIPPTGHGLKPLDIEFMKRLSK-RVN-VIPVIAKA  152 (281)
T ss_dssp             -EEEEEEEE-TTSSSS-HHHHHHHHHHTT-TSE-EEEEESTG
T ss_pred             CcceEEEEEcCCCccchHHHHHHHHHhcc-ccc-EEeEEecc
Confidence            458999999975 6788888777777654 355 77788773

Members of the family were first identified by genetic screening for Saccharomyces cerevisiae (Baker's yeast) mutants defective in cytokinesis []. Temperature-sensitive mutations in four genes, CDC3, CDC10, CDC11 and CDC12, were found to cause cell-cycle arrest and defects in bud growth and cytokinesis. The protein products of these genes localise at the division plane between mother and daughter cells, indicating a role in mother-daughter separation during cytokinesis []. Members of the family were therefore termed septins to reflect their role in septation and cell division. The identification of septin homologues in higher eukaryotes, which localise to the cleavage furrow in dividing cells, supports an orthologous function in cytokinesis. Septins have since been identified in most eukaryotes, except plants []. Septins are approximately 40-50 kDa in molecular mass, and typically comprise a conserved central core domain (more than 35% sequence identity between mammalian and yeast homologues) flanked by more divergent N- and C-termini. Most septins possess a P-loop motif in their N-terminal domain (which is characteristic of GTP-binding proteins), and a predicted C-terminal coiled-coil domain []. A number of septin interaction partners have been identified in yeast, many of which are components of the budding site selection machinery, kinase cascades or of the ubiquitination pathway. It has been proposed that septins may act as a scaffold that provides an interaction matrix for other proteins [, ]. In mammals, septins have been shown to regulate vesicle dynamics []. Mammalian septins have also been implicated in a variety of other cellular processes, including apoptosis, carcinogenesis and neurodegeneration []. This entry represents a variety of septins and homologous sequences involved in the cell division process.; GO: 0005525 GTP binding, 0007049 cell cycle; PDB: 2QAG_B 3FTQ_D 2QA5_A 2QNR_B 3TW4_A 3T5D_C.

>KOG0086|consensus

Probab=84.74  E-value=4.4  Score=30.02  Aligned_cols=63  Identities=21%  Similarity=0.169  Sum_probs=41.6

Q ss_pred             ceeEeecCCcccccHhHHhhhccccceEEEEEeccCCCC-cchHHHHHHHHHcCCCeE--EEEEeC
Q psy9646         148 RHYSHTDCPGHADYIKNMITGTSQMDGAILVVAATDGAM-PQTREHLLLAKQIGVTNI--VVFINK  210 (211)
Q Consensus       148 ~~~~~iDtPG~~~~~~~~~~~~~~~d~~~~vvd~~~~~~-~~~~~~~~~~~~~~~~~~--i~~inK  210 (211)
                      -++-+-||.|+++|-.-+.+=.+.|-++++|-|....-. ..-..++.-++.+.-|.|  |++-||
T Consensus        58 vKLQIWDTAGQErFRSVtRsYYRGAAGAlLVYD~TsrdsfnaLtnWL~DaR~lAs~nIvviL~GnK  123 (214)
T KOG0086|consen   58 VKLQIWDTAGQERFRSVTRSYYRGAAGALLVYDITSRDSFNALTNWLTDARTLASPNIVVILCGNK  123 (214)
T ss_pred             EEEEEeecccHHHHHHHHHHHhccccceEEEEeccchhhHHHHHHHHHHHHhhCCCcEEEEEeCCh
Confidence            345678999999998888888888999999999854322 222234444555554444  334455

>PRK09841 cryptic autophosphorylating protein tyrosine kinase Etk; Provisional

Probab=84.43  E-value=3  Score=38.79  Aligned_cols=64  Identities=14%  Similarity=0.119  Sum_probs=44.0

Q ss_pred             CceeEeecCCcccccHhHHhhhccccceEEEEEeccCCCCcchHHHHHHHHHcCCCeEEEEEeCC
Q psy9646         147 NRHYSHTDCPGHADYIKNMITGTSQMDGAILVVAATDGAMPQTREHLLLAKQIGVTNIVVFINKF  211 (211)
Q Consensus       147 ~~~~~~iDtPG~~~~~~~~~~~~~~~d~~~~vvd~~~~~~~~~~~~~~~~~~~~~~~~i~~inK~  211 (211)
                      .+-+++||||-.-........+ ..+|.+++|+....--.....+.++.+...+.+.+=+|+|++
T Consensus       640 ~yD~IIIDtPP~~~~~Da~~la-~~ad~~llVvr~~~t~~~~~~~~~~~l~~~~~~~~G~VlN~~  703 (726)
T PRK09841        640 HYDLVIVDTPPMLAVSDAAVVG-RSVGTSLLVARFGLNTAKEVSLSMQRLEQAGVNIKGAILNGV  703 (726)
T ss_pred             cCCEEEEeCCCccccchHHHHH-HhCCeEEEEEeCCCCCHHHHHHHHHHHHhCCCceEEEEEeCc
Confidence            4668999999765554443333 678999999876444445556677777788887555688974

>TIGR00959 ffh signal recognition particle protein

Probab=84.40  E-value=2.5  Score=36.78  Aligned_cols=62  Identities=21%  Similarity=0.314  Sum_probs=34.6

Q ss_pred             CCceeEeecCCcccc----cHhHH--hhhccccceEEEEEeccCCCCcchHHHHHHHH-HcCCCeEEEEEeCC
Q psy9646         146 ENRHYSHTDCPGHAD----YIKNM--ITGTSQMDGAILVVAATDGAMPQTREHLLLAK-QIGVTNIVVFINKF  211 (211)
Q Consensus       146 ~~~~~~~iDtPG~~~----~~~~~--~~~~~~~d~~~~vvd~~~~~~~~~~~~~~~~~-~~~~~~~i~~inK~  211 (211)
                      .++.++++||||...    .+.++  +......|-++||+|+..+  .....+++... ..++..  +++||+
T Consensus       181 ~~~DvVIIDTaGr~~~d~~l~~eL~~i~~~~~p~e~lLVvda~tg--q~~~~~a~~f~~~v~i~g--iIlTKl  249 (428)
T TIGR00959       181 NGFDVVIVDTAGRLQIDEELMEELAAIKEILNPDEILLVVDAMTG--QDAVNTAKTFNERLGLTG--VVLTKL  249 (428)
T ss_pred             cCCCEEEEeCCCccccCHHHHHHHHHHHHhhCCceEEEEEeccch--HHHHHHHHHHHhhCCCCE--EEEeCc
Confidence            445689999999542    23222  1112346888999998643  22233333332 345553  457884

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.

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

Probab=84.25  E-value=1.8  Score=34.66  Aligned_cols=37  Identities=11%  Similarity=0.074  Sum_probs=23.6

Q ss_pred             CCceeEeecCCcccccHhH-HhhhccccceEEEEEecc
Q psy9646         146 ENRHYSHTDCPGHADYIKN-MITGTSQMDGAILVVAAT  182 (211)
Q Consensus       146 ~~~~~~~iDtPG~~~~~~~-~~~~~~~~d~~~~vvd~~  182 (211)
                      +++.+++|||||....... ...++..||.+++++.+.
T Consensus       115 ~~yD~viID~~g~~~~~~~~~~~~~~aaD~vlip~~p~  152 (270)
T cd02040         115 DDLDFVIYDVLGDVVCGGFAMPIREGKAQEIYIVTSGE  152 (270)
T ss_pred             cCCCEEEEecccCcccCCcccccccccccEEEEEecCc
Confidence            4578999999986422111 112233689999988864

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.

>PRK10867 signal recognition particle protein; Provisional

Probab=84.00  E-value=2.4  Score=36.94  Aligned_cols=38  Identities=18%  Similarity=0.270  Sum_probs=23.9

Q ss_pred             CCceeEeecCCccc----ccHhHHhh--hccccceEEEEEeccC
Q psy9646         146 ENRHYSHTDCPGHA----DYIKNMIT--GTSQMDGAILVVAATD  183 (211)
Q Consensus       146 ~~~~~~~iDtPG~~----~~~~~~~~--~~~~~d~~~~vvd~~~  183 (211)
                      .++.++++||||..    ..+.++..  .....|-+++|+|+..
T Consensus       182 ~~~DvVIIDTaGrl~~d~~lm~eL~~i~~~v~p~evllVlda~~  225 (433)
T PRK10867        182 NGYDVVIVDTAGRLHIDEELMDELKAIKAAVNPDEILLVVDAMT  225 (433)
T ss_pred             cCCCEEEEeCCCCcccCHHHHHHHHHHHHhhCCCeEEEEEeccc
Confidence            34668999999954    23333211  1224677899999854

>PRK00090 bioD dithiobiotin synthetase; Reviewed

Probab=83.55  E-value=1.4  Score=34.35  Aligned_cols=64  Identities=17%  Similarity=0.089  Sum_probs=35.6

Q ss_pred             CCceeEeecCCcccccHhHHhhhccccce-------EEEEEeccCCCCcchHHHHHHHHHcCCCeEEEEEeCC
Q psy9646         146 ENRHYSHTDCPGHADYIKNMITGTSQMDG-------AILVVAATDGAMPQTREHLLLAKQIGVTNIVVFINKF  211 (211)
Q Consensus       146 ~~~~~~~iDtPG~~~~~~~~~~~~~~~d~-------~~~vvd~~~~~~~~~~~~~~~~~~~~~~~~i~~inK~  211 (211)
                      .++-++++|+||.-.  .-+..++..+|.       +++|.+...+...++...++.++..+.+..-+++|++
T Consensus       102 ~~~D~viIEg~gg~~--~~~~~~~~~adl~~~l~~pvilV~~~~~~~i~~~~~~i~~l~~~~~~i~gvIlN~~  172 (222)
T PRK00090        102 QQYDLVLVEGAGGLL--VPLTEDLTLADLAKQLQLPVILVVGVKLGCINHTLLTLEAIRARGLPLAGWVANGI  172 (222)
T ss_pred             hhCCEEEEECCCcee--ccCCCCCcHHHHHHHhCCCEEEEECCCCcHHHHHHHHHHHHHHCCCCeEEEEEccC
Confidence            346788999998421  011122333343       5667766444334444555666677877444577874

>TIGR00347 bioD dethiobiotin synthase

Probab=82.96  E-value=3.8  Score=30.18  Aligned_cols=62  Identities=23%  Similarity=0.193  Sum_probs=38.2

Q ss_pred             CCceeEeecCCcccc-------cHhHHhhhccccceEEEEEeccCCCCcchHHHHHHHHHcCCCeEEEEEe
Q psy9646         146 ENRHYSHTDCPGHAD-------YIKNMITGTSQMDGAILVVAATDGAMPQTREHLLLAKQIGVTNIVVFIN  209 (211)
Q Consensus       146 ~~~~~~~iDtPG~~~-------~~~~~~~~~~~~d~~~~vvd~~~~~~~~~~~~~~~~~~~~~~~~i~~in  209 (211)
                      .++-++++|+||...       ........  -.+-+++|++...+.........+.+++.+++..-+++|
T Consensus        98 ~~~D~viid~~g~~~~~~~~~~~~~dl~~~--~~~~vilV~~~~~~~~~~~~~~~~~l~~~~~~i~gvv~N  166 (166)
T TIGR00347        98 QKYDFVLVEGAGGLCVPITEEYTTADLIKL--LQLPVILVVRVKLGTINHTLLTVEHARQTGLTLAGVILN  166 (166)
T ss_pred             hcCCEEEEEcCCccccCCCCCCcHHHHHHH--hCCCEEEEECCCCcHHHHHHHHHHHHHHCCCCeEEEEeC
Confidence            345688999998521       12222222  234578888876665555666677788888884444565

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.

>PRK12727 flagellar biosynthesis regulator FlhF; Provisional

Probab=82.92  E-value=2.9  Score=37.32  Aligned_cols=62  Identities=13%  Similarity=0.078  Sum_probs=34.4

Q ss_pred             CCceeEeecCCcccccH----hHH--hhhccccceEEEEEeccCCCCcchHHHHHHHHHcCCCeEEEEEeCC
Q psy9646         146 ENRHYSHTDCPGHADYI----KNM--ITGTSQMDGAILVVAATDGAMPQTREHLLLAKQIGVTNIVVFINKF  211 (211)
Q Consensus       146 ~~~~~~~iDtPG~~~~~----~~~--~~~~~~~d~~~~vvd~~~~~~~~~~~~~~~~~~~~~~~~i~~inK~  211 (211)
                      .++.++||||||.....    .++  +.+.. ....++|+++..+.... .+.++.....+.  .-+++||+
T Consensus       427 ~~~DLVLIDTaG~s~~D~~l~eeL~~L~aa~-~~a~lLVLpAtss~~Dl-~eii~~f~~~~~--~gvILTKl  494 (559)
T PRK12727        427 RDYKLVLIDTAGMGQRDRALAAQLNWLRAAR-QVTSLLVLPANAHFSDL-DEVVRRFAHAKP--QGVVLTKL  494 (559)
T ss_pred             ccCCEEEecCCCcchhhHHHHHHHHHHHHhh-cCCcEEEEECCCChhHH-HHHHHHHHhhCC--eEEEEecC
Confidence            35689999999964321    111  12222 23567888886543332 234444444443  33678995

>KOG2485|consensus

Probab=82.64  E-value=2.4  Score=35.04  Aligned_cols=61  Identities=15%  Similarity=0.133  Sum_probs=44.8

Q ss_pred             ceeEeecCCccc-ccHhHHhhhccccceEEEEEeccCCCCcchHHHHHHHHHcCCCeEEEEEeCC
Q psy9646         148 RHYSHTDCPGHA-DYIKNMITGTSQMDGAILVVAATDGAMPQTREHLLLAKQIGVTNIVVFINKF  211 (211)
Q Consensus       148 ~~~~~iDtPG~~-~~~~~~~~~~~~~d~~~~vvd~~~~~~~~~~~~~~~~~~~~~~~~i~~inK~  211 (211)
                      ++-..-+-|||- .-++++..-+..+|+++-|=||+-...+.-...-+.+.  ..|+ |+|+||+
T Consensus        22 ~~~~~~wfpgHmakalr~i~~~l~~~D~iiEvrDaRiPLssrn~~~~~~~~--~k~r-iiVlNK~   83 (335)
T KOG2485|consen   22 YNMPRRWFPGHMAKALRAIQNRLPLVDCIIEVRDARIPLSSRNELFQDFLP--PKPR-IIVLNKM   83 (335)
T ss_pred             cCCccccCchHHHHHHHHHHhhcccccEEEEeeccccCCccccHHHHHhcC--CCce-EEEEecc
Confidence            344556789985 34677888889999999999999888776655544443  4454 5789996

>cd00550 ArsA_ATPase Oxyanion-translocating ATPase (ArsA)

Probab=82.08  E-value=3.7  Score=32.88  Aligned_cols=65  Identities=14%  Similarity=0.080  Sum_probs=43.4

Q ss_pred             CceeEeecCCc--ccc-cHh--H----Hhhhccc--cceEEEEEeccCCCCcchHHHHHHHHHcCCCeEEEEEeCC
Q psy9646         147 NRHYSHTDCPG--HAD-YIK--N----MITGTSQ--MDGAILVVAATDGAMPQTREHLLLAKQIGVTNIVVFINKF  211 (211)
Q Consensus       147 ~~~~~~iDtPG--~~~-~~~--~----~~~~~~~--~d~~~~vvd~~~~~~~~~~~~~~~~~~~~~~~~i~~inK~  211 (211)
                      ++-++++|||-  |.- ++.  .    +...+.+  .+.+++|+....-.....++.++.+...|++..-+++||+
T Consensus       124 ~yD~VVvDtpPtg~tlrlL~lp~~l~~~~~~l~d~~~~~~vlV~~p~~~~~~e~~r~~~~L~~~g~~v~gvV~N~v  199 (254)
T cd00550         124 EYDVVVFDTAPTGHTLRLLSLPTVLSWAREILSDPERTSFRLVCIPEKMSLYETERAIQELAKYGIDVDAVIVNQL  199 (254)
T ss_pred             CCCEEEECCCCcHHHHHHHHhHHHHHHHHHHhcCCcceEEEEEeCCChhHHHHHHHHHHHHHHCCCCCCEEEEecC
Confidence            56789999985  321 111  1    1223333  4577888887655556778888999999998656789985

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.

>KOG0088|consensus

Probab=81.93  E-value=1.7  Score=32.35  Aligned_cols=65  Identities=20%  Similarity=0.208  Sum_probs=39.0

Q ss_pred             CCceeEeecCCcccccHhHHhhhccccceEEEEEeccCCCCcch-HHHHHHHH-HcC--CCeEEEEEeCC
Q psy9646         146 ENRHYSHTDCPGHADYIKNMITGTSQMDGAILVVAATDGAMPQT-REHLLLAK-QIG--VTNIVVFINKF  211 (211)
Q Consensus       146 ~~~~~~~iDtPG~~~~~~~~~~~~~~~d~~~~vvd~~~~~~~~~-~~~~~~~~-~~~--~~~~i~~inK~  211 (211)
                      ...++.+-||.|+++|-.-=--=..++|++++|-|..+.-.-|- +.+...++ -+|  +. +++|-||+
T Consensus        60 ~ra~L~IWDTAGQErfHALGPIYYRgSnGalLVyDITDrdSFqKVKnWV~Elr~mlGnei~-l~IVGNKi  128 (218)
T KOG0088|consen   60 CRADLHIWDTAGQERFHALGPIYYRGSNGALLVYDITDRDSFQKVKNWVLELRTMLGNEIE-LLIVGNKI  128 (218)
T ss_pred             ceeeeeeeeccchHhhhccCceEEeCCCceEEEEeccchHHHHHHHHHHHHHHHHhCCeeE-EEEecCcc
Confidence            33467789999998874322223468899999999865432222 22222232 234  33 56678886

>KOG0074|consensus

Probab=81.88  E-value=2.5  Score=30.91  Aligned_cols=63  Identities=24%  Similarity=0.259  Sum_probs=38.5

Q ss_pred             CceeEeecCCcccccHhHHhhhccccceEEEEEeccCCCC--cchHHHHHHHH---HcCCCeEEEEEeC
Q psy9646         147 NRHYSHTDCPGHADYIKNMITGTSQMDGAILVVAATDGAM--PQTREHLLLAK---QIGVTNIVVFINK  210 (211)
Q Consensus       147 ~~~~~~iDtPG~~~~~~~~~~~~~~~d~~~~vvd~~~~~~--~~~~~~~~~~~---~~~~~~~i~~inK  210 (211)
                      ..++++-|..|+...-.--..=.+..|..++|+|+.+.-.  ...+++.+++.   ...+| +.++.||
T Consensus        61 ~f~LnvwDiGGqr~IRpyWsNYyenvd~lIyVIDS~D~krfeE~~~el~ELleeeKl~~vp-vlIfank  128 (185)
T KOG0074|consen   61 TFHLNVWDIGGQRGIRPYWSNYYENVDGLIYVIDSTDEKRFEEISEELVELLEEEKLAEVP-VLIFANK  128 (185)
T ss_pred             cEEEEEEecCCccccchhhhhhhhccceEEEEEeCCchHhHHHHHHHHHHHhhhhhhhccc-eeehhhh
Confidence            3788999999976432222222357899999999865432  23344455553   34577 4456665

>PRK11519 tyrosine kinase; Provisional

Probab=80.79  E-value=5.4  Score=37.12  Aligned_cols=64  Identities=14%  Similarity=0.118  Sum_probs=44.9

Q ss_pred             CceeEeecCCcccccHhHHhhhccccceEEEEEeccCCCCcchHHHHHHHHHcCCCeEEEEEeCC
Q psy9646         147 NRHYSHTDCPGHADYIKNMITGTSQMDGAILVVAATDGAMPQTREHLLLAKQIGVTNIVVFINKF  211 (211)
Q Consensus       147 ~~~~~~iDtPG~~~~~~~~~~~~~~~d~~~~vvd~~~~~~~~~~~~~~~~~~~~~~~~i~~inK~  211 (211)
                      .+-++++|||-.-...... .-...+|++++|+....-....-...++.+...+.+.+=+|+|++
T Consensus       635 ~yD~ViiDtpP~~~v~Da~-~l~~~~d~~l~Vvr~~~t~~~~~~~~~~~l~~~~~~~~G~VlN~v  698 (719)
T PRK11519        635 NYDLVLIDTPPILAVTDAA-IVGRHVGTTLMVARYAVNTLKEVETSLSRFEQNGIPVKGVILNSI  698 (719)
T ss_pred             cCCEEEEeCCCcccchHHH-HHHHHCCeEEEEEeCCCCCHHHHHHHHHHHHhCCCCeEEEEEeCC
Confidence            4679999999765443333 334678999999987544445555667777888888554688975

>TIGR03018 pepcterm_TyrKin exopolysaccharide/PEPCTERM locus tyrosine autokinase

Probab=80.68  E-value=4.5  Score=31.17  Aligned_cols=58  Identities=16%  Similarity=0.117  Sum_probs=37.4

Q ss_pred             eeEeecCCcccccHhHHhhhccccceEEEEEeccCCCCcchHHHHHHHHHcCCCeEEEEEe
Q psy9646         149 HYSHTDCPGHADYIKNMITGTSQMDGAILVVAATDGAMPQTREHLLLAKQIGVTNIVVFIN  209 (211)
Q Consensus       149 ~~~~iDtPG~~~~~~~~~~~~~~~d~~~~vvd~~~~~~~~~~~~~~~~~~~~~~~~i~~in  209 (211)
                      .++++|||...... .+..-+..+|.+++++.+..--.....+.++.++  +.+.+=+++|
T Consensus       150 D~IiiD~pp~~~~~-~~~~l~~~aD~viiV~~~~~~~~~~~~~~~~~l~--~~~~~G~v~N  207 (207)
T TIGR03018       150 RIIIIDTPPLLVFS-EARALARLVGQIVLVVEEGRTTQEAVKEALSALE--SCKVLGVVLN  207 (207)
T ss_pred             CEEEEECCCCcchh-HHHHHHHhCCEEEEEEECCCCCHHHHHHHHHHhc--CCCeEEEEeC
Confidence            58999999755421 2222235689999999987666566677777776  4452323555

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.

>PRK12726 flagellar biosynthesis regulator FlhF; Provisional

Probab=80.65  E-value=3  Score=35.72  Aligned_cols=61  Identities=15%  Similarity=0.096  Sum_probs=32.5

Q ss_pred             CceeEeecCCcccc----cHhHHhhhc--cccceEEEEEeccCCCCcch-HHHHHHHHHcCCCeEEEEEeCC
Q psy9646         147 NRHYSHTDCPGHAD----YIKNMITGT--SQMDGAILVVAATDGAMPQT-REHLLLAKQIGVTNIVVFINKF  211 (211)
Q Consensus       147 ~~~~~~iDtPG~~~----~~~~~~~~~--~~~d~~~~vvd~~~~~~~~~-~~~~~~~~~~~~~~~i~~inK~  211 (211)
                      ++.+++|||||...    .+.++..-.  ...|..++|+++  +...++ .+++......++..  ++++|+
T Consensus       285 ~~D~VLIDTAGr~~~d~~~l~EL~~l~~~~~p~~~~LVLsa--g~~~~d~~~i~~~f~~l~i~g--lI~TKL  352 (407)
T PRK12726        285 CVDHILIDTVGRNYLAEESVSEISAYTDVVHPDLTCFTFSS--GMKSADVMTILPKLAEIPIDG--FIITKM  352 (407)
T ss_pred             CCCEEEEECCCCCccCHHHHHHHHHHhhccCCceEEEECCC--cccHHHHHHHHHhcCcCCCCE--EEEEcc
Confidence            46789999999743    333333222  234676777776  222222 22333333455553  457774

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	211
1d2e_A	397	Crystal Structure Of Mitochondrial Ef-Tu In Complex		7e-42
2wrn_Z	406	The Crystal Structure Of The 70s Ribosome Bound To		6e-41
1aip_A	405	Ef-Tu Ef-Ts Complex From Thermus Thermophilus Lengt		6e-41
2y0y_Z	405	The Crystal Structure Of Ef-Tu And G24a-Trna-Trp Bo		6e-41
2c78_A	405	Ef-Tu Complexed With A Gtp Analog And The Antibioti		6e-41
1eft_A	405	The Crystal Structure Of Elongation Factor Ef-Tu Fr		6e-41
4abr_Z	405	Complex Of Smpb, A Tmrna Fragment And Ef-Tu-Gdp-Kir		6e-41
1ttt_A	405	Phe-Trna, Elongation Factor Ef-Tu:gdpnp Ternary Com		6e-41
1exm_A	405	Crystal Structure Of Thermus Thermophilus Elongatio		6e-41
2y0u_Z	405	The Crystal Structure Of Ef-Tu And A9c-Trna-Trp Bou		7e-41
2c77_A	405	Ef-Tu Complexed With A Gtp Analog And The Antibioti		7e-41
1xb2_A	409	Crystal Structure Of Bos Taurus Mitochondrial Elong		2e-40
3mmp_A	678	Structure Of The Qb Replicase, An Rna-Dependent Rna		2e-39
3agp_A	1289	Structure Of Viral Polymerase Form I Length = 1289		2e-39
1efc_A	393	Intact Elongation Factor From E.Coli Length = 393		2e-39
1dg1_G	394	Whole, Unmodified, Ef-Tu(Elongation Factor Tu). Len		2e-39
1d8t_A	393	Crystal Structure Of Elongation Factor, Tu (Ef-Tu-M		2e-39
1ob2_A	393	E. Coli Elongation Factor Ef-Tu Complexed With The		2e-39
3u6b_A	394	Ef-Tu (Escherichia Coli) In Complex With Nvp-Ldi028		2e-39
1efu_A	385	Elongation Factor Complex Ef-TuEF-Ts From Escherich		3e-39
1mj1_A	405	Fitting The Ternary Complex Of Ef-TuTRNAGTP AND RIB		4e-39
1efm_A	379	Structure Of The Gdp Domain Of Ef-Tu And Location O		2e-33
2hdn_B	335	Trypsin-Modified Elongation Factor Tu In Complex Wi		2e-32
2hcj_B	335	"trypsin-Modified Elongation Factor Tu In Complex W		3e-31
2hcj_B	335	"trypsin-Modified Elongation Factor Tu In Complex W		4e-31
3agj_A	437	Crystal Structure Of Archaeal Pelota And Gtp-bound		9e-19
3vmf_A	440	Archaeal Protein Length = 440		1e-18
1jny_A	435	Crystal Structure Of Sulfolobus Solfataricus Elonga		1e-18
1f60_A	458	Crystal Structure Of The Yeast Elongation Factor Co		5e-16
3j2k_7	439	Cryo-Em Structure Of The Mammalian Erf1-Erf3-Associ		1e-15
1r5b_A	467	Crystal Structure Analysis Of Sup35 Length = 467		1e-15
3mca_A	592	Structure Of The Dom34-Hbs1 Complex And Implication		1e-14
3p26_A	483	Crystal Structure Of S. Cerevisiae Hbs1 Protein (Ap		2e-14
3izq_1	611	Structure Of The Dom34-Hbs1-Gdpnp Complex Bound To		3e-14
3p27_A	483	Crystal Structure Of S. Cerevisiae Hbs1 Protein (Gd		9e-14
1zun_B	434	Crystal Structure Of A Gtp-Regulated Atp Sulfurylas		2e-13
4ac9_A	482	Crystal Structure Of Translation Elongation Factor		2e-11
3j25_A	638	Structural Basis For Tetm-Mediated Tetracycline Res		2e-10
1kjz_A	410	Structure Of The Large Gamma Subunit Of Initiation		2e-10
1kk3_A	410	Structure Of The Wild-Type Large Gamma Subunit Of I		2e-10
2d74_A	419	Crystal Structure Of Translation Initiation Factor		2e-10
2pmd_A	415	The Structures Of Aif2gamma Subunit From The Archae		1e-09
2aho_A	414	Structure Of The Archaeal Initiation Factor Eif2 Al		1e-09
3pen_A	403	Structure Of Archaeal Initiation Factor Aif2gamma S		1e-09
3sjz_A	409	The Structure Of Aif2gamma Subunit Delta 41-45 From		1e-09
1s0u_A	408	Eif2gamma Apo Length = 408		1e-09
1kk0_A	410	Structure Of The Large Gamma Subunit Of Initiation		4e-08
2lkc_A	178	Free B.St If2-G2 Length = 178		1e-06
3vqt_A	548	Crystal Structure Analysis Of The Translation Facto		1e-06
1zo1_I	501	If2, If1, And Trna Fitted To Cryo-Em Data Of E. Col		5e-06
2p8w_S	35	Fitted Structure Of Eef2 In The 80s:eef2:gdpnp Cryo		8e-06
3tr5_A	528	Structure Of A Peptide Chain Release Factor 3 (Prfc		1e-05
2bm0_A	691	Ribosomal Elongation Factor G (Ef-G) Fusidic Acid R		2e-05
2h5e_A	529	Crystal Structure Of E.Coli Polypeptide Release Fac		2e-05
3uoq_W	534	Crystal Structure Of Release Factor Rf3 Trapped In		3e-05
2bv3_A	691	Crystal Structure Of A Mutant Elongation Factor G T		3e-05
2j7k_A	691	Crystal Structure Of The T84a Mutant Ef-G:gdpcp Com		3e-05
4fn5_A	709	Elongation Factor G 1 (Pseudomonas Aeruginosa) In C		3e-05
2bm1_A	691	Ribosomal Elongation Factor G (Ef-G) Fusidic Acid R		3e-05
1ktv_A	691	Crystal Structure Of Elongation Factor G Dimer With		3e-05
1efg_A	691	The Crystal Structure Of Elongation Factor G Comple		3e-05
1fnm_A	691	Structure Of Thermus Thermophilus Ef-G H573a Length		3e-05
3izp_E	688	Conformation Of Ef-G During Translocation Length =		3e-05
3izy_P	537	Mammalian Mitochondrial Translation Initiation Fact		2e-04
3zz0_A	693	Crystal Structure Of Ribosomal Elongation Factor (E		3e-04
2xex_A	693	Crystal Structure Of Staphylococcus Aureus Elongati		3e-04
2rdo_7	704	50s Subunit With Ef-G(Gdpnp) And Rrf Bound Length =		6e-04
3j0e_H	702	Models For The T. Thermophilus Ribosome Recycling F		6e-04

>pdb|1D2E|A Chain A, Crystal Structure Of Mitochondrial Ef-Tu In Complex With Gdp Length = 397

Iteration: 1
 Score =  166 bits (421), Expect = 7e-42,   Method: Compositional matrix adjust.
 Identities = 75/103 (72%), Positives = 90/103 (87%)
Query: 108 VLADKKLAKVKQYADIDNAPEEKARGITINVAHVEYATENRHYSHTDCPGHADYIKNMIT 167
           +LA+   AK K+Y +IDNAPEE+ARGITIN AHVEY+T  RHY+HTDCPGHADY+KNMIT
Sbjct: 26  ILAEGGGAKFKKYEEIDNAPEERARGITINAAHVEYSTAARHYAHTDCPGHADYVKNMIT 85
Query: 168 GTSQMDGAILVVAATDGAMPQTREHLLLAKQIGVTNIVVFINK 210
           GT+ +DG ILVVAA DG MPQTREHLLLA+QIGV ++VV++NK
Sbjct: 86  GTAPLDGCILVVAANDGPMPQTREHLLLARQIGVEHVVVYVNK 128

>pdb|2WRN|Z Chain Z, The Crystal Structure Of The 70s Ribosome Bound To Ef-Tu And Trna (Part 1 Of 4). Length = 406

Iteration: 1
 Score =  163 bits (413), Expect = 6e-41,   Method: Compositional matrix adjust.
 Identities = 75/101 (74%), Positives = 84/101 (83%)
Query: 110 ADKKLAKVKQYADIDNAPEEKARGITINVAHVEYATENRHYSHTDCPGHADYIKNMITGT 169
           A+    +VK Y DID APEE+ARGITIN AHVEY T  RHYSH DCPGHADYIKNMITG 
Sbjct: 38  AENPNVEVKDYGDIDKAPEERARGITINTAHVEYETAKRHYSHVDCPGHADYIKNMITGA 97
Query: 170 SQMDGAILVVAATDGAMPQTREHLLLAKQIGVTNIVVFINK 210
           +QMDGAILVV+A DG MPQTREH+LLA+Q+GV  IVVF+NK
Sbjct: 98  AQMDGAILVVSAADGPMPQTREHILLARQVGVPYIVVFMNK 138

>pdb|1AIP|A Chain A, Ef-Tu Ef-Ts Complex From Thermus Thermophilus Length = 405

Iteration: 1
 Score =  163 bits (413), Expect = 6e-41,   Method: Compositional matrix adjust.
 Identities = 75/101 (74%), Positives = 84/101 (83%)
Query: 110 ADKKLAKVKQYADIDNAPEEKARGITINVAHVEYATENRHYSHTDCPGHADYIKNMITGT 169
           A+    +VK Y DID APEE+ARGITIN AHVEY T  RHYSH DCPGHADYIKNMITG 
Sbjct: 37  AENPNVEVKDYGDIDKAPEERARGITINTAHVEYETAKRHYSHVDCPGHADYIKNMITGA 96
Query: 170 SQMDGAILVVAATDGAMPQTREHLLLAKQIGVTNIVVFINK 210
           +QMDGAILVV+A DG MPQTREH+LLA+Q+GV  IVVF+NK
Sbjct: 97  AQMDGAILVVSAADGPMPQTREHILLARQVGVPYIVVFMNK 137

>pdb|2Y0Y|Z Chain Z, The Crystal Structure Of Ef-Tu And G24a-Trna-Trp Bound To A Near-Cognate Codon On The 70s Ribosome Length = 405

Iteration: 1
 Score =  163 bits (413), Expect = 6e-41,   Method: Compositional matrix adjust.
 Identities = 75/101 (74%), Positives = 84/101 (83%)
Query: 110 ADKKLAKVKQYADIDNAPEEKARGITINVAHVEYATENRHYSHTDCPGHADYIKNMITGT 169
           A+    +VK Y DID APEE+ARGITIN AHVEY T  RHYSH DCPGHADYIKNMITG 
Sbjct: 37  AENPNVEVKDYGDIDKAPEERARGITINTAHVEYETAKRHYSHVDCPGHADYIKNMITGA 96
Query: 170 SQMDGAILVVAATDGAMPQTREHLLLAKQIGVTNIVVFINK 210
           +QMDGAILVV+A DG MPQTREH+LLA+Q+GV  IVVF+NK
Sbjct: 97  AQMDGAILVVSAADGPMPQTREHILLARQVGVPYIVVFMNK 137

>pdb|2C78|A Chain A, Ef-Tu Complexed With A Gtp Analog And The Antibiotic Pulvomycin Length = 405

Iteration: 1
 Score =  163 bits (413), Expect = 6e-41,   Method: Compositional matrix adjust.
 Identities = 75/101 (74%), Positives = 84/101 (83%)
Query: 110 ADKKLAKVKQYADIDNAPEEKARGITINVAHVEYATENRHYSHTDCPGHADYIKNMITGT 169
           A+    +VK Y DID APEE+ARGITIN AHVEY T  RHYSH DCPGHADYIKNMITG 
Sbjct: 37  AENPNVEVKDYGDIDKAPEERARGITINTAHVEYETAKRHYSHVDCPGHADYIKNMITGA 96
Query: 170 SQMDGAILVVAATDGAMPQTREHLLLAKQIGVTNIVVFINK 210
           +QMDGAILVV+A DG MPQTREH+LLA+Q+GV  IVVF+NK
Sbjct: 97  AQMDGAILVVSAADGPMPQTREHILLARQVGVPYIVVFMNK 137

>pdb|1EFT|A Chain A, The Crystal Structure Of Elongation Factor Ef-Tu From Thermus Aquaticus In The Gtp Conformation Length = 405

Iteration: 1
 Score =  163 bits (413), Expect = 6e-41,   Method: Compositional matrix adjust.
 Identities = 75/101 (74%), Positives = 84/101 (83%)
Query: 110 ADKKLAKVKQYADIDNAPEEKARGITINVAHVEYATENRHYSHTDCPGHADYIKNMITGT 169
           A+    +VK Y DID APEE+ARGITIN AHVEY T  RHYSH DCPGHADYIKNMITG 
Sbjct: 37  AENPNVEVKDYGDIDKAPEERARGITINTAHVEYETAKRHYSHVDCPGHADYIKNMITGA 96
Query: 170 SQMDGAILVVAATDGAMPQTREHLLLAKQIGVTNIVVFINK 210
           +QMDGAILVV+A DG MPQTREH+LLA+Q+GV  IVVF+NK
Sbjct: 97  AQMDGAILVVSAADGPMPQTREHILLARQVGVPYIVVFMNK 137

>pdb|4ABR|Z Chain Z, Complex Of Smpb, A Tmrna Fragment And Ef-Tu-Gdp-Kirromycin With The 70s Ribosome Length = 405

Iteration: 1
 Score =  163 bits (413), Expect = 6e-41,   Method: Compositional matrix adjust.
 Identities = 75/101 (74%), Positives = 84/101 (83%)
Query: 110 ADKKLAKVKQYADIDNAPEEKARGITINVAHVEYATENRHYSHTDCPGHADYIKNMITGT 169
           A+    +VK Y DID APEE+ARGITIN AHVEY T  RHYSH DCPGHADYIKNMITG 
Sbjct: 37  AENPNVEVKDYGDIDKAPEERARGITINTAHVEYETAKRHYSHVDCPGHADYIKNMITGA 96
Query: 170 SQMDGAILVVAATDGAMPQTREHLLLAKQIGVTNIVVFINK 210
           +QMDGAILVV+A DG MPQTREH+LLA+Q+GV  IVVF+NK
Sbjct: 97  AQMDGAILVVSAADGPMPQTREHILLARQVGVPYIVVFMNK 137

>pdb|1TTT|A Chain A, Phe-Trna, Elongation Factor Ef-Tu:gdpnp Ternary Complex Length = 405

Iteration: 1
 Score =  163 bits (413), Expect = 6e-41,   Method: Compositional matrix adjust.
 Identities = 75/101 (74%), Positives = 84/101 (83%)
Query: 110 ADKKLAKVKQYADIDNAPEEKARGITINVAHVEYATENRHYSHTDCPGHADYIKNMITGT 169
           A+    +VK Y DID APEE+ARGITIN AHVEY T  RHYSH DCPGHADYIKNMITG 
Sbjct: 37  AENPNVEVKDYGDIDKAPEERARGITINTAHVEYETAKRHYSHVDCPGHADYIKNMITGA 96
Query: 170 SQMDGAILVVAATDGAMPQTREHLLLAKQIGVTNIVVFINK 210
           +QMDGAILVV+A DG MPQTREH+LLA+Q+GV  IVVF+NK
Sbjct: 97  AQMDGAILVVSAADGPMPQTREHILLARQVGVPYIVVFMNK 137

>pdb|1EXM|A Chain A, Crystal Structure Of Thermus Thermophilus Elongation Factor Tu (Ef-Tu) In Complex With The Gtp Analogue Gppnhp. Length = 405

Iteration: 1
 Score =  163 bits (413), Expect = 6e-41,   Method: Compositional matrix adjust.
 Identities = 75/101 (74%), Positives = 84/101 (83%)
Query: 110 ADKKLAKVKQYADIDNAPEEKARGITINVAHVEYATENRHYSHTDCPGHADYIKNMITGT 169
           A+    +VK Y DID APEE+ARGITIN AHVEY T  RHYSH DCPGHADYIKNMITG 
Sbjct: 37  AENPNVEVKDYGDIDKAPEERARGITINTAHVEYETAKRHYSHVDCPGHADYIKNMITGA 96
Query: 170 SQMDGAILVVAATDGAMPQTREHLLLAKQIGVTNIVVFINK 210
           +QMDGAILVV+A DG MPQTREH+LLA+Q+GV  IVVF+NK
Sbjct: 97  AQMDGAILVVSAADGPMPQTREHILLARQVGVPYIVVFMNK 137

>pdb|2Y0U|Z Chain Z, The Crystal Structure Of Ef-Tu And A9c-Trna-Trp Bound To A Near-Cognate Codon On The 70s Ribosome Length = 405

Iteration: 1
 Score =  163 bits (412), Expect = 7e-41,   Method: Compositional matrix adjust.
 Identities = 75/101 (74%), Positives = 84/101 (83%)
Query: 110 ADKKLAKVKQYADIDNAPEEKARGITINVAHVEYATENRHYSHTDCPGHADYIKNMITGT 169
           A+    +VK Y DID APEE+ARGITIN AHVEY T  RHYSH DCPGHADYIKNMITG 
Sbjct: 37  AENPNVEVKDYGDIDKAPEERARGITINTAHVEYETAKRHYSHVDCPGHADYIKNMITGA 96
Query: 170 SQMDGAILVVAATDGAMPQTREHLLLAKQIGVTNIVVFINK 210
           +QMDGAILVV+A DG MPQTREH+LLA+Q+GV  IVVF+NK
Sbjct: 97  AQMDGAILVVSAADGPMPQTREHILLARQVGVPYIVVFMNK 137

>pdb|2C77|A Chain A, Ef-Tu Complexed With A Gtp Analog And The Antibiotic Ge2270 A Length = 405

Iteration: 1
 Score =  163 bits (412), Expect = 7e-41,   Method: Compositional matrix adjust.
 Identities = 75/101 (74%), Positives = 84/101 (83%)
Query: 110 ADKKLAKVKQYADIDNAPEEKARGITINVAHVEYATENRHYSHTDCPGHADYIKNMITGT 169
           A+    +VK Y DID APEE+ARGITIN AHVEY T  RHYSH DCPGHADYIKNMITG 
Sbjct: 37  AENPNVEVKDYGDIDKAPEERARGITINTAHVEYETAKRHYSHVDCPGHADYIKNMITGA 96
Query: 170 SQMDGAILVVAATDGAMPQTREHLLLAKQIGVTNIVVFINK 210
           +QMDGAILVV+A DG MPQTREH+LLA+Q+GV  IVVF+NK
Sbjct: 97  AQMDGAILVVSAADGPMPQTREHILLARQVGVPYIVVFMNK 137

>pdb|1XB2|A Chain A, Crystal Structure Of Bos Taurus Mitochondrial Elongation Factor TuTS COMPLEX Length = 409

Iteration: 1
 Score =  161 bits (408), Expect = 2e-40,   Method: Compositional matrix adjust.
 Identities = 73/103 (70%), Positives = 88/103 (85%)
Query: 108 VLADKKLAKVKQYADIDNAPEEKARGITINVAHVEYATENRHYSHTDCPGHADYIKNMIT 167
           +LA+   AK K+Y +IDNAPEE+ARGITIN AHVEY+T  RHY+HTDCPGHADY+KN IT
Sbjct: 37  ILAEGGGAKFKKYEEIDNAPEERARGITINAAHVEYSTAARHYAHTDCPGHADYVKNXIT 96
Query: 168 GTSQMDGAILVVAATDGAMPQTREHLLLAKQIGVTNIVVFINK 210
           GT+ +DG ILVVAA DG  PQTREHLLLA+QIGV ++VV++NK
Sbjct: 97  GTAPLDGCILVVAANDGPXPQTREHLLLARQIGVEHVVVYVNK 139

>pdb|3MMP|A Chain A, Structure Of The Qb Replicase, An Rna-Dependent Rna Polymerase Consisting Of Viral And Host Proteins Length = 678

Iteration: 1
 Score =  158 bits (400), Expect = 2e-39,   Method: Compositional matrix adjust.
 Identities = 72/103 (69%), Positives = 83/103 (80%)
Query: 108 VLADKKLAKVKQYADIDNAPEEKARGITINVAHVEYATENRHYSHTDCPGHADYIKNMIT 167
           VLA       + +  IDNAPEEKARGITIN +HVEY T  RHY+H DCPGHADY+KNMIT
Sbjct: 319 VLAKTYGGAARAFDQIDNAPEEKARGITINTSHVEYDTPTRHYAHVDCPGHADYVKNMIT 378
Query: 168 GTSQMDGAILVVAATDGAMPQTREHLLLAKQIGVTNIVVFINK 210
           G +QMDGAILVVAATDG MPQTREH+LL +Q+GV  I+VF+NK
Sbjct: 379 GAAQMDGAILVVAATDGPMPQTREHILLGRQVGVPYIIVFLNK 421

>pdb|3AGP|A Chain A, Structure Of Viral Polymerase Form I Length = 1289

Iteration: 1
 Score =  158 bits (400), Expect = 2e-39,   Method: Compositional matrix adjust.
 Identities = 72/103 (69%), Positives = 83/103 (80%)
Query: 108 VLADKKLAKVKQYADIDNAPEEKARGITINVAHVEYATENRHYSHTDCPGHADYIKNMIT 167
           VLA       + +  IDNAPEEKARGITIN +HVEY T  RHY+H DCPGHADY+KNMIT
Sbjct: 319 VLAKTYGGAARAFDQIDNAPEEKARGITINTSHVEYDTPTRHYAHVDCPGHADYVKNMIT 378
Query: 168 GTSQMDGAILVVAATDGAMPQTREHLLLAKQIGVTNIVVFINK 210
           G +QMDGAILVVAATDG MPQTREH+LL +Q+GV  I+VF+NK
Sbjct: 379 GAAQMDGAILVVAATDGPMPQTREHILLGRQVGVPYIIVFLNK 421

>pdb|1EFC|A Chain A, Intact Elongation Factor From E.Coli Length = 393

Iteration: 1
 Score =  158 bits (399), Expect = 2e-39,   Method: Compositional matrix adjust.
 Identities = 72/103 (69%), Positives = 83/103 (80%)
Query: 108 VLADKKLAKVKQYADIDNAPEEKARGITINVAHVEYATENRHYSHTDCPGHADYIKNMIT 167
           VLA       + +  IDNAPEEKARGITIN +HVEY T  RHY+H DCPGHADY+KNMIT
Sbjct: 34  VLAKTYGGAARAFDQIDNAPEEKARGITINTSHVEYDTPTRHYAHVDCPGHADYVKNMIT 93
Query: 168 GTSQMDGAILVVAATDGAMPQTREHLLLAKQIGVTNIVVFINK 210
           G +QMDGAILVVAATDG MPQTREH+LL +Q+GV  I+VF+NK
Sbjct: 94  GAAQMDGAILVVAATDGPMPQTREHILLGRQVGVPYIIVFLNK 136

>pdb|1DG1|G Chain G, Whole, Unmodified, Ef-Tu(Elongation Factor Tu). Length = 394

Iteration: 1
 Score =  158 bits (399), Expect = 2e-39,   Method: Compositional matrix adjust.
 Identities = 72/103 (69%), Positives = 83/103 (80%)
Query: 108 VLADKKLAKVKQYADIDNAPEEKARGITINVAHVEYATENRHYSHTDCPGHADYIKNMIT 167
           VLA       + +  IDNAPEEKARGITIN +HVEY T  RHY+H DCPGHADY+KNMIT
Sbjct: 35  VLAKTYGGAARAFDQIDNAPEEKARGITINTSHVEYDTPTRHYAHVDCPGHADYVKNMIT 94
Query: 168 GTSQMDGAILVVAATDGAMPQTREHLLLAKQIGVTNIVVFINK 210
           G +QMDGAILVVAATDG MPQTREH+LL +Q+GV  I+VF+NK
Sbjct: 95  GAAQMDGAILVVAATDGPMPQTREHILLGRQVGVPYIIVFLNK 137

>pdb|1D8T|A Chain A, Crystal Structure Of Elongation Factor, Tu (Ef-Tu-Mggdp) Complexed With Ge2270a, A Thiazolyl Peptide Antibiotic Length = 393

Iteration: 1
 Score =  158 bits (399), Expect = 2e-39,   Method: Compositional matrix adjust.
 Identities = 72/103 (69%), Positives = 83/103 (80%)
Query: 108 VLADKKLAKVKQYADIDNAPEEKARGITINVAHVEYATENRHYSHTDCPGHADYIKNMIT 167
           VLA       + +  IDNAPEEKARGITIN +HVEY T  RHY+H DCPGHADY+KNMIT
Sbjct: 34  VLAKTYGGAARAFDQIDNAPEEKARGITINTSHVEYDTPTRHYAHVDCPGHADYVKNMIT 93
Query: 168 GTSQMDGAILVVAATDGAMPQTREHLLLAKQIGVTNIVVFINK 210
           G +QMDGAILVVAATDG MPQTREH+LL +Q+GV  I+VF+NK
Sbjct: 94  GAAQMDGAILVVAATDGPMPQTREHILLGRQVGVPYIIVFLNK 136

>pdb|1OB2|A Chain A, E. Coli Elongation Factor Ef-Tu Complexed With The Antibiotic Kirromycin, A Gtp Analog, And Phe-Trna Length = 393

Iteration: 1
 Score =  158 bits (399), Expect = 2e-39,   Method: Compositional matrix adjust.
 Identities = 72/103 (69%), Positives = 83/103 (80%)
Query: 108 VLADKKLAKVKQYADIDNAPEEKARGITINVAHVEYATENRHYSHTDCPGHADYIKNMIT 167
           VLA       + +  IDNAPEEKARGITIN +HVEY T  RHY+H DCPGHADY+KNMIT
Sbjct: 34  VLAKTYGGAARAFDQIDNAPEEKARGITINTSHVEYDTPTRHYAHVDCPGHADYVKNMIT 93
Query: 168 GTSQMDGAILVVAATDGAMPQTREHLLLAKQIGVTNIVVFINK 210
           G +QMDGAILVVAATDG MPQTREH+LL +Q+GV  I+VF+NK
Sbjct: 94  GAAQMDGAILVVAATDGPMPQTREHILLGRQVGVPYIIVFLNK 136

>pdb|3U6B|A Chain A, Ef-Tu (Escherichia Coli) In Complex With Nvp-Ldi028 Length = 394

Iteration: 1
 Score =  158 bits (399), Expect = 2e-39,   Method: Compositional matrix adjust.
 Identities = 72/103 (69%), Positives = 83/103 (80%)
Query: 108 VLADKKLAKVKQYADIDNAPEEKARGITINVAHVEYATENRHYSHTDCPGHADYIKNMIT 167
           VLA       + +  IDNAPEEKARGITIN +HVEY T  RHY+H DCPGHADY+KNMIT
Sbjct: 35  VLAKTYGGAARAFDQIDNAPEEKARGITINTSHVEYDTPTRHYAHVDCPGHADYVKNMIT 94
Query: 168 GTSQMDGAILVVAATDGAMPQTREHLLLAKQIGVTNIVVFINK 210
           G +QMDGAILVVAATDG MPQTREH+LL +Q+GV  I+VF+NK
Sbjct: 95  GAAQMDGAILVVAATDGPMPQTREHILLGRQVGVPYIIVFLNK 137

>pdb|1EFU|A Chain A, Elongation Factor Complex Ef-TuEF-Ts From Escherichia Coli Length = 385

Iteration: 1
 Score =  158 bits (399), Expect = 3e-39,   Method: Compositional matrix adjust.
 Identities = 72/103 (69%), Positives = 83/103 (80%)
Query: 108 VLADKKLAKVKQYADIDNAPEEKARGITINVAHVEYATENRHYSHTDCPGHADYIKNMIT 167
           VLA       + +  IDNAPEEKARGITIN +HVEY T  RHY+H DCPGHADY+KNMIT
Sbjct: 26  VLAKTYGGAARAFDQIDNAPEEKARGITINTSHVEYDTPTRHYAHVDCPGHADYVKNMIT 85
Query: 168 GTSQMDGAILVVAATDGAMPQTREHLLLAKQIGVTNIVVFINK 210
           G +QMDGAILVVAATDG MPQTREH+LL +Q+GV  I+VF+NK
Sbjct: 86  GAAQMDGAILVVAATDGPMPQTREHILLGRQVGVPYIIVFLNK 128

>pdb|1MJ1|A Chain A, Fitting The Ternary Complex Of Ef-TuTRNAGTP AND RIBOSOMAL PROTEINS Into A 13 A Cryo-Em Map Of The Coli 70s Ribosome Length = 405

Iteration: 1
 Score =  157 bits (397), Expect = 4e-39,   Method: Compositional matrix adjust.
 Identities = 72/101 (71%), Positives = 82/101 (81%)
Query: 110 ADKKLAKVKQYADIDNAPEEKARGITINVAHVEYATENRHYSHTDCPGHADYIKNMITGT 169
           A+ +  +VK Y DID A EE+ARGITIN AHVEY T  RHYSH DC GHADYIKNMITG 
Sbjct: 37  AENRNVEVKDYGDIDKAREERARGITINTAHVEYETAKRHYSHVDCRGHADYIKNMITGA 96
Query: 170 SQMDGAILVVAATDGAMPQTREHLLLAKQIGVTNIVVFINK 210
           +QMDGAILVV+A DG M QTREH+LLA+Q+GV  IVVF+NK
Sbjct: 97  AQMDGAILVVSAADGRMRQTREHILLARQVGVRYIVVFMNK 137

>pdb|1EFM|A Chain A, Structure Of The Gdp Domain Of Ef-Tu And Location Of The Amino Acids Homologous To Ras Oncogene Proteins Length = 379

Iteration: 1
 Score =  139 bits (349), Expect = 2e-33,   Method: Compositional matrix adjust.
 Identities = 61/80 (76%), Positives = 70/80 (87%)
Query: 131 ARGITINVAHVEYATENRHYSHTDCPGHADYIKNMITGTSQMDGAILVVAATDGAMPQTR 190
           ARGITIN +HVEY T  RHY+H DCPGHADY+KNMITG +QMDGAILVVAATDG MPQTR
Sbjct: 43  ARGITINTSHVEYDTPTRHYAHVDCPGHADYVKNMITGAAQMDGAILVVAATDGPMPQTR 102
Query: 191 EHLLLAKQIGVTNIVVFINK 210
           EH+LL +Q+GV  I+VF+NK
Sbjct: 103 EHILLGRQVGVPYIIVFLNK 122

>pdb|2HDN|B Chain B, Trypsin-Modified Elongation Factor Tu In Complex With Tetracycline At 2.8 Angstrom Resolution Length = 335

Iteration: 1
 Score =  135 bits (339), Expect = 2e-32,   Method: Compositional matrix adjust.
 Identities = 59/78 (75%), Positives = 68/78 (87%)
Query: 133 GITINVAHVEYATENRHYSHTDCPGHADYIKNMITGTSQMDGAILVVAATDGAMPQTREH 192
           GITIN +HVEY T  RHY+H DCPGHADY+KNMITG +QMDGAILVVAATDG MPQTREH
Sbjct: 1   GITINTSHVEYDTPTRHYAHVDCPGHADYVKNMITGAAQMDGAILVVAATDGPMPQTREH 60
Query: 193 LLLAKQIGVTNIVVFINK 210
           +LL +Q+GV  I+VF+NK
Sbjct: 61  ILLGRQVGVPYIIVFLNK 78

>pdb|2HCJ|B Chain B, "trypsin-Modified Elongation Factor Tu In Complex With Tetracycline" Length = 335

Iteration: 1
 Score =  131 bits (329), Expect = 3e-31,   Method: Compositional matrix adjust.
 Identities = 59/107 (55%), Positives = 81/107 (75%)
Query: 1   MELLNQIDTYIPQPVRDLDKPFYLPVEHTYSIPGRGTVVTGRLERGIVKKGMECEFTGYG 60
           +EL   +D+YIP+P R +DKPF LP+E  +SI GRGTVVTGR+ERGI+K G E E  G  
Sbjct: 131 LELAGFLDSYIPEPERAIDKPFLLPIEDVFSISGRGTVVTGRVERGIIKVGEEVEIVGIK 190
Query: 61  RQFKTTVTGIEMFHKILDEAQAGDQLGALVKGMKRDEVNRGLIMAKP 107
              K+T TG+EMF K+LDE +AG+ +G L++G+KR+E+ RG ++AKP
Sbjct: 191 ETQKSTCTGVEMFRKLLDEGRAGENVGVLLRGIKREEIERGQVLAKP 237

>pdb|2HCJ|B Chain B, "trypsin-Modified Elongation Factor Tu In Complex With Tetracycline" Length = 335

Iteration: 1
 Score =  130 bits (328), Expect = 4e-31,   Method: Compositional matrix adjust.
 Identities = 58/78 (74%), Positives = 67/78 (85%)
Query: 133 GITINVAHVEYATENRHYSHTDCPGHADYIKNMITGTSQMDGAILVVAATDGAMPQTREH 192
           GITIN +HVEY T  RHY+H D PGHADY+KNMITG +QMDGAILVVAATDG MPQTREH
Sbjct: 1   GITINTSHVEYDTPTRHYAHVDXPGHADYVKNMITGAAQMDGAILVVAATDGPMPQTREH 60
Query: 193 LLLAKQIGVTNIVVFINK 210
           +LL +Q+GV  I+VF+NK
Sbjct: 61  ILLGRQVGVPYIIVFLNK 78

>pdb|3AGJ|A Chain A, Crystal Structure Of Archaeal Pelota And Gtp-bound Ef1 Alpha Complex Length = 437

Iteration: 1
 Score = 89.7 bits (221), Expect = 9e-19,   Method: Compositional matrix adjust.
 Identities = 44/95 (46%), Positives = 62/95 (65%), Gaps = 7/95 (7%)
Query: 123 IDNAPEEKARGITINVAHVEYATENRHYSHTDCPGHADYIKNMITGTSQMDGAILVVAAT 182
           +D   EE+ RGITI++  +++ T+   ++  D PGH D++KNMITG SQ D AILVV+A 
Sbjct: 59  LDKMKEERERGITIDLTFMKFETKKYVFTIIDAPGHRDFVKNMITGASQADAAILVVSAR 118
Query: 183 DGAMP-------QTREHLLLAKQIGVTNIVVFINK 210
            G          QTREHLLLA+ +G+  I+V +NK
Sbjct: 119 KGEFEAGMSTEGQTREHLLLARTMGIEQIIVAVNK 153

>pdb|3VMF|A Chain A, Archaeal Protein Length = 440

Iteration: 1
 Score = 89.7 bits (221), Expect = 1e-18,   Method: Compositional matrix adjust.
 Identities = 44/95 (46%), Positives = 62/95 (65%), Gaps = 7/95 (7%)
Query: 123 IDNAPEEKARGITINVAHVEYATENRHYSHTDCPGHADYIKNMITGTSQMDGAILVVAAT 182
           +D   EE+ RGITI++  +++ T+   ++  D PGH D++KNMITG SQ D AILVV+A 
Sbjct: 62  LDKMKEERERGITIDLTFMKFETKKYVFTIIDAPGHRDFVKNMITGASQADAAILVVSAR 121
Query: 183 DGAMP-------QTREHLLLAKQIGVTNIVVFINK 210
            G          QTREHLLLA+ +G+  I+V +NK
Sbjct: 122 KGEFEAGMSTEGQTREHLLLARTMGIEQIIVAVNK 156

>pdb|1JNY|A Chain A, Crystal Structure Of Sulfolobus Solfataricus Elongation Factor 1 Alpha In Complex With Gdp Length = 435

Iteration: 1
 Score = 89.7 bits (221), Expect = 1e-18,   Method: Compositional matrix adjust.
 Identities = 53/127 (41%), Positives = 77/127 (60%), Gaps = 13/127 (10%)
Query: 98  VNRGLIMAKPVL----ADKKLAK-VKQYADI-DNAPEEKARGITINVAHVEYATENRHYS 151
           ++RG I  K V     A KKL K  +++A + D   EE+ RG+TIN+  + + T+   ++
Sbjct: 28  MDRGFIDEKTVKEAEEAAKKLGKESEKFAFLLDRLKEERERGVTINLTFMRFETKKYFFT 87
Query: 152 HTDCPGHADYIKNMITGTSQMDGAILVVAATDGAMP-------QTREHLLLAKQIGVTNI 204
             D PGH D++KNMITG SQ D AILVV+A  G          QTREH++LAK +G+  +
Sbjct: 88  IIDAPGHRDFVKNMITGASQADAAILVVSAKKGEYEAGMSVEGQTREHIILAKTMGLDQL 147
Query: 205 VVFINKF 211
           +V +NK 
Sbjct: 148 IVAVNKM 154

>pdb|1F60|A Chain A, Crystal Structure Of The Yeast Elongation Factor Complex Eef1a:eef1ba Length = 458

Iteration: 1
 Score = 80.9 bits (198), Expect = 5e-16,   Method: Compositional matrix adjust.
 Identities = 43/96 (44%), Positives = 57/96 (59%), Gaps = 7/96 (7%)
Query: 123 IDNAPEEKARGITINVAHVEYATENRHYSHTDCPGHADYIKNMITGTSQMDGAILVVAAT 182
           +D    E+ RGITI++A  ++ T     +  D PGH D+IKNMITGTSQ D AIL++A  
Sbjct: 60  LDKLKAERERGITIDIALWKFETPKYQVTVIDAPGHRDFIKNMITGTSQADCAILIIAGG 119
Query: 183 DGAMP-------QTREHLLLAKQIGVTNIVVFINKF 211
            G          QTREH LLA  +GV  ++V +NK 
Sbjct: 120 VGEFEAGISKDGQTREHALLAFTLGVRQLIVAVNKM 155

>pdb|3J2K|7 Chain 7, Cryo-Em Structure Of The Mammalian Erf1-Erf3-Associated Termination Complex Length = 439

Iteration: 1
 Score = 79.7 bits (195), Expect = 1e-15,   Method: Compositional matrix adjust.
 Identities = 39/95 (41%), Positives = 56/95 (58%), Gaps = 7/95 (7%)
Query: 123 IDNAPEEKARGITINVAHVEYATENRHYSHTDCPGHADYIKNMITGTSQMDGAILVVAAT 182
           +D   EE+ +G T+ V    + TE +H++  D PGH  ++ NMI G SQ D A+LV++A 
Sbjct: 70  LDTNQEERDKGKTVEVGRAYFETEKKHFTILDAPGHKSFVPNMIGGASQADLAVLVISAR 129
Query: 183 DGAMP-------QTREHLLLAKQIGVTNIVVFINK 210
            G          QTREH +LAK  GV +++V INK
Sbjct: 130 KGEFETGFEKGGQTREHAMLAKTAGVKHLIVLINK 164

>pdb|1R5B|A Chain A, Crystal Structure Analysis Of Sup35 Length = 467

Iteration: 1
 Score = 79.3 bits (194), Expect = 1e-15,   Method: Compositional matrix adjust.
 Identities = 39/96 (40%), Positives = 56/96 (58%), Gaps = 7/96 (7%)
Query: 123 IDNAPEEKARGITINVAHVEYATENRHYSHTDCPGHADYIKNMITGTSQMDGAILVVAAT 182
           +D+  EE+ +G T+ V    + TE+R +S  D PGH  Y+ NMI G SQ D  +LV++A 
Sbjct: 96  LDSTSEEREKGKTVEVGRAYFETEHRRFSLLDAPGHKGYVTNMINGASQADIGVLVISAR 155
Query: 183 DGAMP-------QTREHLLLAKQIGVTNIVVFINKF 211
            G          QTREH +LA+  G+ ++VV INK 
Sbjct: 156 RGEFEAGFERGGQTREHAVLARTQGINHLVVVINKM 191

>pdb|3MCA|A Chain A, Structure Of The Dom34-Hbs1 Complex And Implications For Its Role In No-Go Decay Length = 592

Iteration: 1
 Score = 76.3 bits (186), Expect = 1e-14,   Method: Compositional matrix adjust.
 Identities = 37/96 (38%), Positives = 55/96 (57%), Gaps = 7/96 (7%)
Query: 123 IDNAPEEKARGITINVAHVEYATENRHYSHTDCPGHADYIKNMITGTSQMDGAILVVAAT 182
           +D   EE+ARG+T++VA   + ++ + Y   D PGH D+I  MI G S  D A+LVV ++
Sbjct: 230 LDTTEEERARGVTMDVASTTFESDKKIYEIGDAPGHRDFISGMIAGASSADFAVLVVDSS 289
Query: 183 DGAMP-------QTREHLLLAKQIGVTNIVVFINKF 211
                       QTREH  L + +G++ IVV +NK 
Sbjct: 290 QNNFERGFLENGQTREHAYLLRALGISEIVVSVNKL 325

>pdb|3P26|A Chain A, Crystal Structure Of S. Cerevisiae Hbs1 Protein (Apo-Form), A Translational Gtpase Involved In Rna Quality Control Pathways And Interacting With Dom34PELOTA Length = 483

Iteration: 1
 Score = 75.5 bits (184), Expect = 2e-14,   Method: Compositional matrix adjust.
 Identities = 34/95 (35%), Positives = 56/95 (58%), Gaps = 7/95 (7%)
Query: 123 IDNAPEEKARGITINVAHVEYATENRHYSHTDCPGHADYIKNMITGTSQMDGAILVVAAT 182
           +D   EE+ RG+T+++    ++T   +++  D PGH D++ N I G SQ D AIL V  +
Sbjct: 86  MDQTNEERERGVTVSICTSHFSTHRANFTIVDAPGHRDFVPNAIMGISQADMAILCVDCS 145
Query: 183 DGAMP-------QTREHLLLAKQIGVTNIVVFINK 210
             A         QT+EH+LLA  +G+ N+++ +NK
Sbjct: 146 TNAFESGFDLDGQTKEHMLLASSLGIHNLIIAMNK 180

>pdb|3IZQ|1 Chain 1, Structure Of The Dom34-Hbs1-Gdpnp Complex Bound To A Translating Ribosome Length = 611

Iteration: 1
 Score = 75.1 bits (183), Expect = 3e-14,   Method: Compositional matrix adjust.
 Identities = 34/95 (35%), Positives = 56/95 (58%), Gaps = 7/95 (7%)
Query: 123 IDNAPEEKARGITINVAHVEYATENRHYSHTDCPGHADYIKNMITGTSQMDGAILVVAAT 182
           +D   EE+ RG+T+++    ++T   +++  D PGH D++ N I G SQ D AIL V  +
Sbjct: 220 MDQTNEERERGVTVSICTSHFSTHRANFTIVDAPGHRDFVPNAIMGISQADMAILCVDCS 279
Query: 183 DGAMP-------QTREHLLLAKQIGVTNIVVFINK 210
             A         QT+EH+LLA  +G+ N+++ +NK
Sbjct: 280 TNAFESGFDLDGQTKEHMLLASSLGIHNLIIAMNK 314

>pdb|3P27|A Chain A, Crystal Structure Of S. Cerevisiae Hbs1 Protein (Gdp-Bound Form), A Translational Gtpase Involved In Rna Quality Control Pathways And Interacting With Dom34PELOTA Length = 483

Iteration: 1
 Score = 73.2 bits (178), Expect = 9e-14,   Method: Compositional matrix adjust.
 Identities = 34/94 (36%), Positives = 53/94 (56%), Gaps = 7/94 (7%)
Query: 124 DNAPEEKARGITINVAHVEYATENRHYSHTDCPGHADYIKNMITGTSQMDGAILVVAATD 183
           D   EE+ RG+T+++    ++T   +++  D PGH D++ N I G SQ D AIL V  + 
Sbjct: 87  DQTNEERERGVTVSICTSHFSTHRANFTIVDAPGHRDFVPNAIXGISQADXAILCVDCST 146
Query: 184 GAMP-------QTREHLLLAKQIGVTNIVVFINK 210
            A         QT+EH LLA  +G+ N+++  NK
Sbjct: 147 NAFESGFDLDGQTKEHXLLASSLGIHNLIIAXNK 180

>pdb|1ZUN|B Chain B, Crystal Structure Of A Gtp-Regulated Atp Sulfurylase Heterodimer From Pseudomonas Syringae Length = 434

Iteration: 1
 Score = 72.0 bits (175), Expect = 2e-13,   Method: Compositional matrix adjust.
 Identities = 37/88 (42%), Positives = 52/88 (59%)
Query: 123 IDNAPEEKARGITINVAHVEYATENRHYSHTDCPGHADYIKNMITGTSQMDGAILVVAAT 182
           +D    E+ +GITI+VA+  ++T  R +   D PGH  Y +N  TG S  D AI++V A 
Sbjct: 79  VDGLQAEREQGITIDVAYRYFSTAKRKFIIADTPGHEQYTRNXATGASTCDLAIILVDAR 138
Query: 183 DGAMPQTREHLLLAKQIGVTNIVVFINK 210
            G   QTR H  +A  +G+ +IVV INK
Sbjct: 139 YGVQTQTRRHSYIASLLGIKHIVVAINK 166

>pdb|4AC9|A Chain A, Crystal Structure Of Translation Elongation Factor Selb From Methanococcus Maripaludis In Complex With Gdp Length = 482

Iteration: 1
 Score = 65.9 bits (159), Expect = 2e-11,   Method: Compositional matrix adjust.
 Identities = 33/96 (34%), Positives = 52/96 (54%)
Query: 112 KKLAKVKQYADIDNAPEEKARGITINVAHVEYATENRHYSHTDCPGHADYIKNMITGTSQ 171
           K L ++   +  D  PE + RGITI++    +  EN   +  D PGHAD I+ +++    
Sbjct: 37  KVLTEIASTSAHDKLPESQKRGITIDIGFSAFKLENYRITLVDAPGHADLIRAVVSAADI 96
Query: 172 MDGAILVVAATDGAMPQTREHLLLAKQIGVTNIVVF 207
           +D A++VV A +G   QT EH+L+     +  IVV 
Sbjct: 97  IDLALIVVDAKEGPKTQTGEHMLILDHFNIPIIVVI 132

>pdb|3J25|A Chain A, Structural Basis For Tetm-Mediated Tetracycline Resistance Length = 638

Iteration: 1
 Score = 62.0 bits (149), Expect = 2e-10,   Method: Composition-based stats.
 Identities = 33/87 (37%), Positives = 47/87 (54%), Gaps = 1/87 (1%)
Query: 124 DNAPEEKARGITINVAHVEYATENRHYSHTDCPGHADYIKNMITGTSQMDGAILVVAATD 183
           DN   E+ RGITI      +  EN   +  D PGH D++  +    S +DGAIL+++A D
Sbjct: 43  DNTLLERQRGITIQTGITSFQWENTKVNIIDTPGHMDFLAEVYRSLSVLDGAILLISAKD 102
Query: 184 GAMPQTREHLLLAKQIGVTNIVVFINK 210
           G   QTR      +++G+  I  FINK
Sbjct: 103 GVQAQTRILFHALRKMGIPTI-FFINK 128

>pdb|1KJZ|A Chain A, Structure Of The Large Gamma Subunit Of Initiation Factor Eif2 From Pyrococcus Abyssi-G235d Mutant Length = 410

Iteration: 1
 Score = 62.0 bits (149), Expect = 2e-10,   Method: Compositional matrix adjust.
 Identities = 41/112 (36%), Positives = 52/112 (46%), Gaps = 24/112 (21%)
Query: 124 DNAPEEKARGITINVAHVE-----------YATEN------------RHYSHTDCPGHAD 160
           D   EE  RGITI +   +           Y+T              R  S  D PGH  
Sbjct: 36  DTHSEELRRGITIKIGFADAEIRRCPNCGRYSTSPVCPYCGHETEFVRRVSFIDAPGHEA 95
Query: 161 YIKNMITGTSQMDGAILVVAATDGA-MPQTREHLLLAKQIGVTNIVVFINKF 211
            +  M+ G S MDGAILV+AA +    PQTREHL+  + IG  NI++  NK 
Sbjct: 96  LMTTMLAGASLMDGAILVIAANEPCPRPQTREHLMALQIIGQKNIIIAQNKI 147

>pdb|1KK3|A Chain A, Structure Of The Wild-Type Large Gamma Subunit Of Initiation Factor Eif2 From Pyrococcus Abyssi Complexed With Gdp-Mg2+ Length = 410

Iteration: 1
 Score = 62.0 bits (149), Expect = 2e-10,   Method: Compositional matrix adjust.
 Identities = 41/112 (36%), Positives = 52/112 (46%), Gaps = 24/112 (21%)
Query: 124 DNAPEEKARGITINVAHVE-----------YATEN------------RHYSHTDCPGHAD 160
           D   EE  RGITI +   +           Y+T              R  S  D PGH  
Sbjct: 36  DTHSEELRRGITIKIGFADAEIRRCPNCGRYSTSPVCPYCGHETEFVRRVSFIDAPGHEA 95
Query: 161 YIKNMITGTSQMDGAILVVAATDGA-MPQTREHLLLAKQIGVTNIVVFINKF 211
            +  M+ G S MDGAILV+AA +    PQTREHL+  + IG  NI++  NK 
Sbjct: 96  LMTTMLAGASLMDGAILVIAANEPCPRPQTREHLMALQIIGQKNIIIAQNKI 147

>pdb|2D74|A Chain A, Crystal Structure Of Translation Initiation Factor Aif2betagamma Heterodimer Length = 419

Iteration: 1
 Score = 62.0 bits (149), Expect = 2e-10,   Method: Compositional matrix adjust.
 Identities = 41/112 (36%), Positives = 52/112 (46%), Gaps = 24/112 (21%)
Query: 124 DNAPEEKARGITINVAHVE-----------YATEN------------RHYSHTDCPGHAD 160
           D   EE  RGITI +   +           Y+T              R  S  D PGH  
Sbjct: 37  DTHSEELRRGITIKIGFADAEIRRCSNCGRYSTSPICPYCGHETEFIRRVSFIDSPGHEA 96
Query: 161 YIKNMITGTSQMDGAILVVAATDGA-MPQTREHLLLAKQIGVTNIVVFINKF 211
            +  M+ G S MDGAILV+AA +    PQTREHL+  + IG  NI++  NK 
Sbjct: 97  LMTTMLAGASLMDGAILVIAANEPCPRPQTREHLMALQIIGQKNIIIAQNKI 148

>pdb|2PMD|A Chain A, The Structures Of Aif2gamma Subunit From The Archaeon Sulfolobus Solfataricus In The Gdp-Bound Form. Length = 415

Iteration: 1
 Score = 60.1 bits (144), Expect = 1e-09,   Method: Compositional matrix adjust.
 Identities = 40/112 (35%), Positives = 52/112 (46%), Gaps = 29/112 (25%)
Query: 128 EEKARGITINVAHVE--------------YATEN--------------RHYSHTDCPGHA 159
           EE  RG+TI + + E              Y TE               R  S  D PGH 
Sbjct: 39  EELKRGMTIKLGYAETNIGVCESCKKPEAYVTEPSCKSCGSDDEPKFLRRISFIDAPGHE 98
Query: 160 DYIKNMITGTSQMDGAILVVAATDG-AMPQTREHLLLAKQIGVTNIVVFINK 210
             +  M++G + MDGAILVVAA +    PQTREH +    IGV N+++  NK
Sbjct: 99  VLMATMLSGAALMDGAILVVAANEPFPQPQTREHFVALGIIGVKNLIIVQNK 150

>pdb|2AHO|A Chain A, Structure Of The Archaeal Initiation Factor Eif2 Alpha- Gamma Heterodimer From Sulfolobus Solfataricus Complexed With Gdpnp Length = 414

Iteration: 1
 Score = 59.7 bits (143), Expect = 1e-09,   Method: Compositional matrix adjust.
 Identities = 40/112 (35%), Positives = 52/112 (46%), Gaps = 29/112 (25%)
Query: 128 EEKARGITINVAHVE--------------YATEN--------------RHYSHTDCPGHA 159
           EE  RG+TI + + E              Y TE               R  S  D PGH 
Sbjct: 38  EELKRGMTIKLGYAETNIGVCESCKKPEAYVTEPSCKSCGSDDEPKFLRRISFIDAPGHE 97
Query: 160 DYIKNMITGTSQMDGAILVVAATDG-AMPQTREHLLLAKQIGVTNIVVFINK 210
             +  M++G + MDGAILVVAA +    PQTREH +    IGV N+++  NK
Sbjct: 98  VLMATMLSGAALMDGAILVVAANEPFPQPQTREHFVALGIIGVKNLIIVQNK 149

>pdb|3PEN|A Chain A, Structure Of Archaeal Initiation Factor Aif2gamma Subunit Delta 37-47 From Sulfolobus Solfataricus In The Gdp-Bound Form. Length = 403

Iteration: 1
 Score = 59.7 bits (143), Expect = 1e-09,   Method: Compositional matrix adjust.
 Identities = 30/64 (46%), Positives = 39/64 (60%), Gaps = 1/64 (1%)
Query: 148 RHYSHTDCPGHADYIKNMITGTSQMDGAILVVAATDG-AMPQTREHLLLAKQIGVTNIVV 206
           R  S  D PGH   +  M++G + MDGAILVVAA +    PQTREH +    IGV N+++
Sbjct: 75  RRISFIDAPGHEVLMATMLSGAALMDGAILVVAANEPFPQPQTREHFVALGIIGVKNLII 134
Query: 207 FINK 210
             NK
Sbjct: 135 VQNK 138

>pdb|3SJZ|A Chain A, The Structure Of Aif2gamma Subunit Delta 41-45 From Archaeon Sulfolobus Solfataricus Complexed With Gdp And Gdpnp Length = 409

Iteration: 1
 Score = 59.7 bits (143), Expect = 1e-09,   Method: Compositional matrix adjust.
 Identities = 30/64 (46%), Positives = 39/64 (60%), Gaps = 1/64 (1%)
Query: 148 RHYSHTDCPGHADYIKNMITGTSQMDGAILVVAATDG-AMPQTREHLLLAKQIGVTNIVV 206
           R  S  D PGH   +  M++G + MDGAILVVAA +    PQTREH +    IGV N+++
Sbjct: 81  RRISFIDAPGHEVLMATMLSGAALMDGAILVVAANEPFPQPQTREHFVALGIIGVKNLII 140
Query: 207 FINK 210
             NK
Sbjct: 141 VQNK 144

>pdb|1S0U|A Chain A, Eif2gamma Apo Length = 408

Iteration: 1
 Score = 59.3 bits (142), Expect = 1e-09,   Method: Compositional matrix adjust.
 Identities = 28/65 (43%), Positives = 40/65 (61%), Gaps = 1/65 (1%)
Query: 148 RHYSHTDCPGHADYIKNMITGTSQMDGAILVVAATDGA-MPQTREHLLLAKQIGVTNIVV 206
           R  S  D PGH   +  M++G S MDGAILV+AA +    PQT+EHL+  + +G+  I++
Sbjct: 81  RRVSFVDSPGHETLMATMLSGASLMDGAILVIAANEPCPQPQTKEHLMALEILGIDKIII 140
Query: 207 FINKF 211
             NK 
Sbjct: 141 VQNKI 145

>pdb|1KK0|A Chain A, Structure Of The Large Gamma Subunit Of Initiation Factor Eif2 From Pyrococcus Abyssi Length = 410

Iteration: 1
 Score = 54.7 bits (130), Expect = 4e-08,   Method: Compositional matrix adjust.
 Identities = 39/112 (34%), Positives = 48/112 (42%), Gaps = 24/112 (21%)
Query: 124 DNAPEEKARGITINVAHVE-----------YATEN------------RHYSHTDCPGHAD 160
           D   EE  RGITI +   +           Y+T              R  S  D PGH  
Sbjct: 36  DTHSEELRRGITIKIGFADAEIRRCPNCGRYSTSPVCPYCGHETEFVRRVSFIDAPGHEA 95
Query: 161 YIKNMITGTSQMDGAILVVAATDGA-MPQTREHLLLAKQIGVTNIVVFINKF 211
                + G S  DGAILV+AA +    PQTREHL   + IG  NI++  NK 
Sbjct: 96  LXTTXLAGASLXDGAILVIAANEPCPRPQTREHLXALQIIGQKNIIIAQNKI 147

>pdb|2LKC|A Chain A, Free B.St If2-G2 Length = 178

Iteration: 1
 Score = 50.1 bits (118), Expect = 1e-06,   Method: Compositional matrix adjust.
 Identities = 32/84 (38%), Positives = 43/84 (51%), Gaps = 1/84 (1%)
Query: 128 EEKARGITINVAHVEYATENRHYSHTDCPGHADYIKNMITGTSQMDGAILVVAATDGAMP 187
           E++A GIT ++   +    ++  +  D PGH  +      G    D  ILVVAA DG MP
Sbjct: 35  EQEAGGITQHIGAYQVTVNDKKITFLDTPGHEAFTTMRARGAQVTDIVILVVAADDGVMP 94
Query: 188 QTREHLLLAKQIGVTNIVVFINKF 211
           QT E +  AK   V  I+V INK 
Sbjct: 95  QTVEAINHAKAANVP-IIVAINKM 117

>pdb|3VQT|A Chain A, Crystal Structure Analysis Of The Translation Factor Rf3 Length = 548

Iteration: 1
 Score = 50.1 bits (118), Expect = 1e-06,   Method: Compositional matrix adjust.
 Identities = 27/98 (27%), Positives = 53/98 (54%), Gaps = 1/98 (1%)
Query: 113 KLAKVKQYADIDNAPEEKARGITINVAHVEYATENRHYSHTDCPGHADYIKNMITGTSQM 172
           K  K  ++A  D    E+ RGI++  + +++   +R  +  D PGH D+ ++     + +
Sbjct: 65  KARKAARHATSDWMAMERERGISVTTSVMQFPYRDRVVNLLDTPGHQDFSEDTYRVLTAV 124
Query: 173 DGAILVVAATDGAMPQTREHLLLAKQIGVTNIVVFINK 210
           D A++V+ A  G   QTR+ L+   ++  T ++ F+NK
Sbjct: 125 DSALVVIDAAKGVEAQTRK-LMDVCRMRATPVMTFVNK 161

>pdb|1ZO1|I Chain I, If2, If1, And Trna Fitted To Cryo-Em Data Of E. Coli 70s Initiation Complex Length = 501

Iteration: 1
 Score = 47.8 bits (112), Expect = 5e-06,   Method: Compositional matrix adjust.
 Identities = 26/64 (40%), Positives = 33/64 (51%)
Query: 130 KARGITINVAHVEYATENRHYSHTDCPGHADYIKNMITGTSQMDGAILVVAATDGAMPQT 189
           +A GIT ++      TEN   +  D PGHA +      G    D  +LVVAA DG MPQT
Sbjct: 33  EAGGITQHIGAYHVETENGMITFLDTPGHAAFTSMRARGAQATDIVVLVVAADDGVMPQT 92
Query: 190 REHL 193
            E +
Sbjct: 93  IEAI 96

>pdb|2P8W|S Chain S, Fitted Structure Of Eef2 In The 80s:eef2:gdpnp Cryo-Em Reconstruction Length = 35

Iteration: 1
 Score = 47.0 bits (110), Expect = 8e-06,   Method: Compositional matrix adjust.
 Identities = 22/33 (66%), Positives = 25/33 (75%)
Query: 110 ADKKLAKVKQYADIDNAPEEKARGITINVAHVE 142
           A+    +VK Y DID APEE+ARGITIN AHVE
Sbjct: 3   AENPNVEVKDYGDIDKAPEERARGITINTAHVE 35

>pdb|3TR5|A Chain A, Structure Of A Peptide Chain Release Factor 3 (Prfc) From Coxiella Burnetii Length = 528

Iteration: 1
 Score = 46.2 bits (108), Expect = 1e-05,   Method: Compositional matrix adjust.
 Identities = 29/98 (29%), Positives = 50/98 (51%), Gaps = 1/98 (1%)
Query: 113 KLAKVKQYADIDNAPEEKARGITINVAHVEYATENRHYSHTDCPGHADYIKNMITGTSQM 172
           K  K  ++A  D    EK RGI++  +  ++  ++   +  D PGHAD+ ++     + +
Sbjct: 47  KSRKAARHATSDWXELEKQRGISVTTSVXQFPYKDYLINLLDTPGHADFTEDTYRTLTAV 106
Query: 173 DGAILVVAATDGAMPQTREHLLLAKQIGVTNIVVFINK 210
           D A+ V+ A  G  P+T + L    ++  T I  FINK
Sbjct: 107 DSALXVIDAAKGVEPRTIK-LXEVCRLRHTPIXTFINK 143

>pdb|2BM0|A Chain A, Ribosomal Elongation Factor G (Ef-G) Fusidic Acid Resistant Mutant T84a Length = 691

Iteration: 1
 Score = 45.8 bits (107), Expect = 2e-05,   Method: Compositional matrix adjust.
 Identities = 31/100 (31%), Positives = 49/100 (49%), Gaps = 2/100 (2%)
Query: 113 KLAKVKQ-YADIDNAPEEKARGITINVAHVEYATENRHYSHTDCPGHADYIKNMITGTSQ 171
           K+A+V +  A +D   +E+ RGITI  A      ++   +  D PGH D+   +      
Sbjct: 41  KIAEVHEGAATMDFMEQERERGITITAAVTTCFWKDHRINIIDAPGHVDFTIEVERSMRV 100
Query: 172 MDGAILVVAATDGAMPQTREHLLLAKQIGVTNIVVFINKF 211
           +DGAI+V  ++ G  PQ+      A++  V  I  F NK 
Sbjct: 101 LDGAIVVFDSSQGVEPQSETVWRQAEKYKVPRI-AFANKM 139

>pdb|2H5E|A Chain A, Crystal Structure Of E.Coli Polypeptide Release Factor Rf3 Length = 529

Iteration: 1
 Score = 45.4 bits (106), Expect = 2e-05,   Method: Compositional matrix adjust.
 Identities = 26/93 (27%), Positives = 49/93 (52%), Gaps = 1/93 (1%)
Query: 119 QYADIDNAPEEKARGITINVAHVEYATENRHYSHTDCPGHADYIKNMITGTSQMDGAILV 178
           Q+A  D    EK RGI+I  + +++   +   +  D PGH D+ ++     + +D  ++V
Sbjct: 53  QHAKSDWMEMEKQRGISITTSVMQFPYHDCLVNLLDTPGHEDFSEDTYRTLTAVDCCLMV 112
Query: 179 VAATDGAMPQTREHLLLAKQIGVTNIVVFINKF 211
           + A  G   +TR+ L+   ++  T I+ F+NK 
Sbjct: 113 IDAAKGVEDRTRK-LMEVTRLRDTPILTFMNKL 144

>pdb|3UOQ|W Chain W, Crystal Structure Of Release Factor Rf3 Trapped In The Gtp State On A Rotated Conformation Of The Ribosome (Without Viomycin) Length = 534

Iteration: 1
 Score = 45.1 bits (105), Expect = 3e-05,   Method: Compositional matrix adjust.
 Identities = 26/93 (27%), Positives = 49/93 (52%), Gaps = 1/93 (1%)
Query: 119 QYADIDNAPEEKARGITINVAHVEYATENRHYSHTDCPGHADYIKNMITGTSQMDGAILV 178
           Q+A  D    EK RGI+I  + +++   +   +  D PGH D+ ++     + +D  ++V
Sbjct: 53  QHAKSDWMEMEKQRGISITTSVMQFPYHDCLVNLLDTPGHEDFSEDTYRTLTAVDCCLMV 112
Query: 179 VAATDGAMPQTREHLLLAKQIGVTNIVVFINKF 211
           + A  G   +TR+ L+   ++  T I+ F+NK 
Sbjct: 113 IDAAKGVEDRTRK-LMEVTRLRDTPILTFMNKL 144

>pdb|2BV3|A Chain A, Crystal Structure Of A Mutant Elongation Factor G Trapped With A Gtp Analogue Length = 691

Iteration: 1
 Score = 45.1 bits (105), Expect = 3e-05,   Method: Compositional matrix adjust.
 Identities = 28/91 (30%), Positives = 43/91 (47%), Gaps = 1/91 (1%)
Query: 121 ADIDNAPEEKARGITINVAHVEYATENRHYSHTDCPGHADYIKNMITGTSQMDGAILVVA 180
           A +D   +E+ RGITI  A      ++   +  D PGH D+   +      +DGAI+V  
Sbjct: 50  ATMDFMEQERERGITITAAVTTCFWKDHRINIIDAPGHVDFTIEVERSMRVLDGAIVVFD 109
Query: 181 ATDGAMPQTREHLLLAKQIGVTNIVVFINKF 211
           ++ G  PQ+      A++  V  I  F NK 
Sbjct: 110 SSQGVEPQSETVWRQAEKYKVPRI-AFANKM 139

>pdb|2J7K|A Chain A, Crystal Structure Of The T84a Mutant Ef-G:gdpcp Complex Length = 691

Iteration: 1
 Score = 45.1 bits (105), Expect = 3e-05,   Method: Compositional matrix adjust.
 Identities = 28/91 (30%), Positives = 43/91 (47%), Gaps = 1/91 (1%)
Query: 121 ADIDNAPEEKARGITINVAHVEYATENRHYSHTDCPGHADYIKNMITGTSQMDGAILVVA 180
           A +D   +E+ RGITI  A      ++   +  D PGH D+   +      +DGAI+V  
Sbjct: 50  ATMDFMEQERERGITITAAVTTCFWKDHRINIIDAPGHVDFTIEVERSMRVLDGAIVVFD 109
Query: 181 ATDGAMPQTREHLLLAKQIGVTNIVVFINKF 211
           ++ G  PQ+      A++  V  I  F NK 
Sbjct: 110 SSQGVEPQSETVWRQAEKYKVPRI-AFANKM 139

>pdb|4FN5|A Chain A, Elongation Factor G 1 (Pseudomonas Aeruginosa) In Complex With Argyrin B Length = 709

Iteration: 1
 Score = 45.1 bits (105), Expect = 3e-05,   Method: Compositional matrix adjust.
 Identities = 31/98 (31%), Positives = 44/98 (44%), Gaps = 8/98 (8%)
Query: 121 ADIDNAPEEKARGITINVAHVEYAT-------ENRHYSHTDCPGHADYIKNMITGTSQMD 173
           A  D   +E+ RGITI  A V           +N   +  D PGH D+   +      +D
Sbjct: 51  ATTDWMVQEQERGITITSAAVTTFWKGSRGQYDNYRVNVIDTPGHVDFTIEVERSLRVLD 110
Query: 174 GAILVVAATDGAMPQTREHLLLAKQIGVTNIVVFINKF 211
           GA++V   T G  PQ+      A + GV  I V++NK 
Sbjct: 111 GAVVVFCGTSGVEPQSETVWRQANKYGVPRI-VYVNKM 147

>pdb|2BM1|A Chain A, Ribosomal Elongation Factor G (Ef-G) Fusidic Acid Resistant Mutant G16v Length = 691

Iteration: 1
 Score = 45.1 bits (105), Expect = 3e-05,   Method: Compositional matrix adjust.
 Identities = 28/91 (30%), Positives = 43/91 (47%), Gaps = 1/91 (1%)
Query: 121 ADIDNAPEEKARGITINVAHVEYATENRHYSHTDCPGHADYIKNMITGTSQMDGAILVVA 180
           A +D   +E+ RGITI  A      ++   +  D PGH D+   +      +DGAI+V  
Sbjct: 50  ATMDFMEQERERGITITAAVTTCFWKDHRINIIDTPGHVDFTIEVERSMRVLDGAIVVFD 109
Query: 181 ATDGAMPQTREHLLLAKQIGVTNIVVFINKF 211
           ++ G  PQ+      A++  V  I  F NK 
Sbjct: 110 SSQGVEPQSETVWRQAEKYKVPRI-AFANKM 139

>pdb|1KTV|A Chain A, Crystal Structure Of Elongation Factor G Dimer Without Nucleotide Length = 691

Iteration: 1
 Score = 45.1 bits (105), Expect = 3e-05,   Method: Compositional matrix adjust.
 Identities = 28/91 (30%), Positives = 43/91 (47%), Gaps = 1/91 (1%)
Query: 121 ADIDNAPEEKARGITINVAHVEYATENRHYSHTDCPGHADYIKNMITGTSQMDGAILVVA 180
           A +D   +E+ RGITI  A      ++   +  D PGH D+   +      +DGAI+V  
Sbjct: 50  ATMDFMEQERERGITITAAVTTCFWKDHRINIIDTPGHVDFTIEVERSMRVLDGAIVVFD 109
Query: 181 ATDGAMPQTREHLLLAKQIGVTNIVVFINKF 211
           ++ G  PQ+      A++  V  I  F NK 
Sbjct: 110 SSQGVEPQSETVWRQAEKYKVPRI-AFANKM 139

>pdb|1EFG|A Chain A, The Crystal Structure Of Elongation Factor G Complexed With Gdp, At 2.7 Angstroms Resolution Length = 691

Iteration: 1
 Score = 45.1 bits (105), Expect = 3e-05,   Method: Compositional matrix adjust.
 Identities = 28/91 (30%), Positives = 43/91 (47%), Gaps = 1/91 (1%)
Query: 121 ADIDNAPEEKARGITINVAHVEYATENRHYSHTDCPGHADYIKNMITGTSQMDGAILVVA 180
           A +D   +E+ RGITI  A      ++   +  D PGH D+   +      +DGAI+V  
Sbjct: 50  ATMDFMEQERERGITITAAVTTCFWKDHRINIIDTPGHVDFTIEVERSMRVLDGAIVVFD 109
Query: 181 ATDGAMPQTREHLLLAKQIGVTNIVVFINKF 211
           ++ G  PQ+      A++  V  I  F NK 
Sbjct: 110 SSQGVEPQSETVWRQAEKYKVPRI-AFANKM 139

>pdb|1FNM|A Chain A, Structure Of Thermus Thermophilus Ef-G H573a Length = 691

Iteration: 1
 Score = 44.7 bits (104), Expect = 3e-05,   Method: Compositional matrix adjust.
 Identities = 28/91 (30%), Positives = 43/91 (47%), Gaps = 1/91 (1%)
Query: 121 ADIDNAPEEKARGITINVAHVEYATENRHYSHTDCPGHADYIKNMITGTSQMDGAILVVA 180
           A +D   +E+ RGITI  A      ++   +  D PGH D+   +      +DGAI+V  
Sbjct: 50  ATMDFMEQERERGITITAAVTTCFWKDHRINIIDTPGHVDFTIEVERSMRVLDGAIVVFD 109
Query: 181 ATDGAMPQTREHLLLAKQIGVTNIVVFINKF 211
           ++ G  PQ+      A++  V  I  F NK 
Sbjct: 110 SSQGVEPQSETVWRQAEKYKVPRI-AFANKM 139

>pdb|3IZP|E Chain E, Conformation Of Ef-G During Translocation Length = 688

Iteration: 1
 Score = 44.7 bits (104), Expect = 3e-05,   Method: Compositional matrix adjust.
 Identities = 28/91 (30%), Positives = 43/91 (47%), Gaps = 1/91 (1%)
Query: 121 ADIDNAPEEKARGITINVAHVEYATENRHYSHTDCPGHADYIKNMITGTSQMDGAILVVA 180
           A +D   +E+ RGITI  A      ++   +  D PGH D+   +      +DGAI+V  
Sbjct: 50  ATMDFMEQERERGITITAAVTTCFWKDHRINIIDTPGHVDFTIEVERSMRVLDGAIVVFD 109
Query: 181 ATDGAMPQTREHLLLAKQIGVTNIVVFINKF 211
           ++ G  PQ+      A++  V  I  F NK 
Sbjct: 110 SSQGVEPQSETVWRQAEKYKVPRI-AFANKM 139

>pdb|3IZY|P Chain P, Mammalian Mitochondrial Translation Initiation Factor 2 Length = 537

Iteration: 1
 Score = 42.4 bits (98), Expect = 2e-04,   Method: Compositional matrix adjust.
 Identities = 28/57 (49%), Positives = 31/57 (54%), Gaps = 1/57 (1%)
Query: 154 DCPGHADYIKNMITGTSQMDGAILVVAATDGAMPQTREHLLLAKQIGVTNIVVFINK 210
           D PGHA +      GT   D  ILVVAA DG M QT E +  AK   V  IV+ INK
Sbjct: 58  DTPGHAAFSAMRARGTQVTDIVILVVAADDGVMKQTVESIQHAKDAHVP-IVLAINK 113

>pdb|3ZZ0|A Chain A, Crystal Structure Of Ribosomal Elongation Factor (Ef)-G From Staphylococcus Aureus With A Fusidic Acid Hyper-Sensitivity Mutation M16i Length = 693

Iteration: 1
 Score = 41.6 bits (96), Expect = 3e-04,   Method: Compositional matrix adjust.
 Identities = 32/91 (35%), Positives = 43/91 (47%), Gaps = 1/91 (1%)
Query: 121 ADIDNAPEEKARGITINVAHVEYATENRHYSHTDCPGHADYIKNMITGTSQMDGAILVVA 180
           + +D   +E+ RGITI  A    A E    +  D PGH D+   +      +DGA+ V+ 
Sbjct: 48  SQMDWMEQEQDRGITITSAATTAAWEGHRVNIIDTPGHVDFTVEVERSLRVLDGAVTVLD 107
Query: 181 ATDGAMPQTREHLLLAKQIGVTNIVVFINKF 211
           A  G  PQT      A   GV  I VF+NK 
Sbjct: 108 AQSGVEPQTETVWRQATTYGVPRI-VFVNKM 137

>pdb|2XEX|A Chain A, Crystal Structure Of Staphylococcus Aureus Elongation Factor G Length = 693

Iteration: 1
 Score = 41.6 bits (96), Expect = 3e-04,   Method: Compositional matrix adjust.
 Identities = 32/91 (35%), Positives = 43/91 (47%), Gaps = 1/91 (1%)
Query: 121 ADIDNAPEEKARGITINVAHVEYATENRHYSHTDCPGHADYIKNMITGTSQMDGAILVVA 180
           + +D   +E+ RGITI  A    A E    +  D PGH D+   +      +DGA+ V+ 
Sbjct: 48  SQMDWMEQEQDRGITITSAATTAAWEGHRVNIIDTPGHVDFTVEVERSLRVLDGAVTVLD 107
Query: 181 ATDGAMPQTREHLLLAKQIGVTNIVVFINKF 211
           A  G  PQT      A   GV  I VF+NK 
Sbjct: 108 AQSGVEPQTETVWRQATTYGVPRI-VFVNKM 137

>pdb|2RDO|7 Chain 7, 50s Subunit With Ef-G(Gdpnp) And Rrf Bound Length = 704

Iteration: 1
 Score = 40.8 bits (94), Expect = 6e-04,   Method: Compositional matrix adjust.
 Identities = 29/98 (29%), Positives = 43/98 (43%), Gaps = 8/98 (8%)
Query: 121 ADIDNAPEEKARGITINVAHVE--YATENRHYSH-----TDCPGHADYIKNMITGTSQMD 173
           A +D   +E+ RGITI  A     ++   + Y        D PGH D+   +      +D
Sbjct: 48  ATMDWMEQEQERGITITSAATTAFWSGMAKQYEPHRINIIDTPGHVDFTIEVERSMRVLD 107
Query: 174 GAILVVAATDGAMPQTREHLLLAKQIGVTNIVVFINKF 211
           GA++V  A  G  PQ+      A +  V  I  F+NK 
Sbjct: 108 GAVMVYCAVGGVQPQSETVWRQANKYKVPRI-AFVNKM 144

>pdb|3J0E|H Chain H, Models For The T. Thermophilus Ribosome Recycling Factor And The E. Coli Elongation Factor G Bound To The E. Coli Post-Termination Complex Length = 702

Iteration: 1
 Score = 40.8 bits (94), Expect = 6e-04,   Method: Compositional matrix adjust.
 Identities = 29/98 (29%), Positives = 43/98 (43%), Gaps = 8/98 (8%)
Query: 121 ADIDNAPEEKARGITINVAHVE--YATENRHYSH-----TDCPGHADYIKNMITGTSQMD 173
           A +D   +E+ RGITI  A     ++   + Y        D PGH D+   +      +D
Sbjct: 47  ATMDWMEQEQERGITITSAATTAFWSGMAKQYEPHRINIIDTPGHVDFTIEVERSMRVLD 106
Query: 174 GAILVVAATDGAMPQTREHLLLAKQIGVTNIVVFINKF 211
           GA++V  A  G  PQ+      A +  V  I  F+NK 
Sbjct: 107 GAVMVYCAVGGVQPQSETVWRQANKYKVPRI-AFVNKM 143

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	211
1d2e_A	397	Elongation factor TU (EF-TU); G-protein, beta-barr	7e-76
1d2e_A	397	Elongation factor TU (EF-TU); G-protein, beta-barr	2e-57
2c78_A	405	Elongation factor TU-A; hydrolase, GTPase, transla	3e-73
2c78_A	405	Elongation factor TU-A; hydrolase, GTPase, transla	2e-54
3avx_A	1289	Elongation factor TS, elongation factor TU, linke	9e-73
3avx_A	1289	Elongation factor TS, elongation factor TU, linke	3e-55
1wb1_A	482	Translation elongation factor SELB; selenocysteine	1e-58
1wb1_A	482	Translation elongation factor SELB; selenocysteine	1e-43
3sjy_A	403	Translation initiation factor 2 subunit gamma; zin	5e-55
3sjy_A	403	Translation initiation factor 2 subunit gamma; zin	1e-30
2elf_A	370	Protein translation elongation factor 1A; tRNA, py	2e-54
2elf_A	370	Protein translation elongation factor 1A; tRNA, py	1e-45
1kk1_A	410	EIF2gamma; initiation of translation; HET: GNP; 1.	6e-50
1kk1_A	410	EIF2gamma; initiation of translation; HET: GNP; 1.	2e-31
1s0u_A	408	EIF-2-gamma, translation initiation factor 2 gamma	7e-49
1s0u_A	408	EIF-2-gamma, translation initiation factor 2 gamma	9e-32
3p26_A	483	Elongation factor 1 alpha-like protein; GTP/GDP bi	2e-34
3p26_A	483	Elongation factor 1 alpha-like protein; GTP/GDP bi	9e-17
3izq_1	611	HBS1P, elongation factor 1 alpha-like protein; NO-	5e-34
3izq_1	611	HBS1P, elongation factor 1 alpha-like protein; NO-	1e-16
3mca_A	592	HBS1, elongation factor 1 alpha-like protein; prot	6e-34
3mca_A	592	HBS1, elongation factor 1 alpha-like protein; prot	4e-19
1r5b_A	467	Eukaryotic peptide chain release factor GTP-bindi	4e-33
1r5b_A	467	Eukaryotic peptide chain release factor GTP-bindi	1e-17
1jny_A	435	EF-1-alpha, elongation factor 1-alpha, EF-TU, TUF-	1e-31
1jny_A	435	EF-1-alpha, elongation factor 1-alpha, EF-TU, TUF-	4e-23
1f60_A	458	Elongation factor EEF1A; protein-protein complex,	4e-28
1f60_A	458	Elongation factor EEF1A; protein-protein complex,	2e-22
1zun_B	434	Sulfate adenylate transferase, subunit 1/adenylyls	4e-26
1zun_B	434	Sulfate adenylate transferase, subunit 1/adenylyls	6e-04
1xe1_A	116	Hypothetical protein PF0907; structural genomics,	5e-25
3e1y_E	204	Eukaryotic peptide chain release factor GTP-bindi	5e-17
2lkc_A	178	Translation initiation factor IF-2; NMR {Geobacill	8e-11
1n0u_A	842	EF-2, elongation factor 2; G-protein, CIS-proline,	2e-09
1zo1_I	501	IF2, translation initiation factor 2; E. coli, rib	1e-08
3izy_P	537	Translation initiation factor IF-2, mitochondrial;	1e-08
1g7s_A	594	Translation initiation factor IF2/EIF5B; translati	2e-08
1qzv_F	154	Plant photosystem I: subunit PSAF; photosynthesis,	8e-07
2dy1_A	665	Elongation factor G; translocation, GTP complex, s	2e-05
3tr5_A	528	RF-3, peptide chain release factor 3; protein synt	3e-04
2h5e_A	529	Peptide chain release factor RF-3; beta barrel, tr	6e-04

>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* Length = 397

 Score =  232 bits (594), Expect = 7e-76
 Identities = 75/103 (72%), Positives = 90/103 (87%)

Query: 108 VLADKKLAKVKQYADIDNAPEEKARGITINVAHVEYATENRHYSHTDCPGHADYIKNMIT 167
           +LA+   AK K+Y +IDNAPEE+ARGITIN AHVEY+T  RHY+HTDCPGHADY+KNMIT
Sbjct: 26  ILAEGGGAKFKKYEEIDNAPEERARGITINAAHVEYSTAARHYAHTDCPGHADYVKNMIT 85

Query: 168 GTSQMDGAILVVAATDGAMPQTREHLLLAKQIGVTNIVVFINK 210
           GT+ +DG ILVVAA DG MPQTREHLLLA+QIGV ++VV++NK
Sbjct: 86  GTAPLDGCILVVAANDGPMPQTREHLLLARQIGVEHVVVYVNK 128

>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* Length = 397

 Score =  185 bits (472), Expect = 2e-57
 Identities = 74/107 (69%), Positives = 89/107 (83%)

Query: 1   MELLNQIDTYIPQPVRDLDKPFYLPVEHTYSIPGRGTVVTGRLERGIVKKGMECEFTGYG 60
            +LL+ +DTYIP P RDL+KPF LPVE  YSIPGRGTVVTG LERGI+KKG ECEF G+ 
Sbjct: 183 QKLLDAVDTYIPVPTRDLEKPFLLPVESVYSIPGRGTVVTGTLERGILKKGDECEFLGHS 242

Query: 61  RQFKTTVTGIEMFHKILDEAQAGDQLGALVKGMKRDEVNRGLIMAKP 107
           +  +T VTGIEMFHK LD A+AGD LGALV+G+KR+++ RGL+MAKP
Sbjct: 243 KNIRTVVTGIEMFHKSLDRAEAGDNLGALVRGLKREDLRRGLVMAKP 289

>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* ... Length = 405

 Score =  226 bits (578), Expect = 3e-73
 Identities = 76/104 (73%), Positives = 85/104 (81%), Gaps = 1/104 (0%)

Query: 108 VLADKKL-AKVKQYADIDNAPEEKARGITINVAHVEYATENRHYSHTDCPGHADYIKNMI 166
           V A +    +VK Y DID APEE+ARGITIN AHVEY T  RHYSH DCPGHADYIKNMI
Sbjct: 34  VAAAENPNVEVKDYGDIDKAPEERARGITINTAHVEYETAKRHYSHVDCPGHADYIKNMI 93

Query: 167 TGTSQMDGAILVVAATDGAMPQTREHLLLAKQIGVTNIVVFINK 210
           TG +QMDGAILVV+A DG MPQTREH+LLA+Q+GV  IVVF+NK
Sbjct: 94  TGAAQMDGAILVVSAADGPMPQTREHILLARQVGVPYIVVFMNK 137

>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* ... Length = 405

 Score =  177 bits (452), Expect = 2e-54
 Identities = 61/108 (56%), Positives = 76/108 (70%), Gaps = 1/108 (0%)

Query: 1   MELLNQIDTYIPQPVRDLDKPFYLPVEHTYSIPGRGTVVTGRLERGIVKKGMECEFTGYG 60
            ELL+ ID YIP PVRD+DKPF +PVE  ++I GRGTV TGR+ERG VK G E E  G  
Sbjct: 200 WELLDAIDEYIPTPVRDVDKPFLMPVEDVFTITGRGTVATGRIERGKVKVGDEVEIVGLA 259

Query: 61  RQ-FKTTVTGIEMFHKILDEAQAGDQLGALVKGMKRDEVNRGLIMAKP 107
            +  KT VTG+EM  K L E  AGD +G L++G+ R+EV RG ++AKP
Sbjct: 260 PETRKTVVTGVEMHRKTLQEGIAGDNVGVLLRGVSREEVERGQVLAKP 307

>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 Length = 1289

 Score =  237 bits (607), Expect = 9e-73
 Identities = 72/103 (69%), Positives = 83/103 (80%)

Query: 108 VLADKKLAKVKQYADIDNAPEEKARGITINVAHVEYATENRHYSHTDCPGHADYIKNMIT 167
           VLA       + +  IDNAPEEKARGITIN +HVEY T  RHY+H DCPGHADY+KNMIT
Sbjct: 319 VLAKTYGGAARAFDQIDNAPEEKARGITINTSHVEYDTPTRHYAHVDCPGHADYVKNMIT 378

Query: 168 GTSQMDGAILVVAATDGAMPQTREHLLLAKQIGVTNIVVFINK 210
           G +QMDGAILVVAATDG MPQTREH+LL +Q+GV  I+VF+NK
Sbjct: 379 GAAQMDGAILVVAATDGPMPQTREHILLGRQVGVPYIIVFLNK 421

>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 Length = 1289

 Score =  188 bits (478), Expect = 3e-55
 Identities = 59/107 (55%), Positives = 81/107 (75%)

Query: 1   MELLNQIDTYIPQPVRDLDKPFYLPVEHTYSIPGRGTVVTGRLERGIVKKGMECEFTGYG 60
           +EL   +D+YIP+P R +DKPF LP+E  +SI GRGTVVTGR+ERGI+K G E E  G  
Sbjct: 474 LELAGFLDSYIPEPERAIDKPFLLPIEDVFSISGRGTVVTGRVERGIIKVGEEVEIVGIK 533

Query: 61  RQFKTTVTGIEMFHKILDEAQAGDQLGALVKGMKRDEVNRGLIMAKP 107
              K+T TG+EMF K+LDE +AG+ +G L++G+KR+E+ RG ++AKP
Sbjct: 534 ETQKSTCTGVEMFRKLLDEGRAGENVGVLLRGIKREEIERGQVLAKP 580

>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* Length = 482

 Score =  190 bits (485), Expect = 1e-58
 Identities = 35/99 (35%), Positives = 54/99 (54%), Gaps = 1/99 (1%)

Query: 112 KKLAKVKQYADIDNAPEEKARGITINVAHVEYATENRHYSHTDCPGHADYIKNMITGTSQ 171
           K L ++   +  D  PE + RGITI++    +  EN   +  D PGHAD I+ +++    
Sbjct: 37  KVLTEIASTSAHDKLPESQKRGITIDIGFSAFKLENYRITLVDAPGHADLIRAVVSAADI 96

Query: 172 MDGAILVVAATDGAMPQTREHLLLAKQIGVTNIVVFINK 210
           +D A++VV A +G   QT EH+L+     +  IVV I K
Sbjct: 97  IDLALIVVDAKEGPKTQTGEHMLILDHFNIPIIVV-ITK 134

>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* Length = 482

 Score =  151 bits (382), Expect = 1e-43
 Identities = 37/108 (34%), Positives = 61/108 (56%), Gaps = 4/108 (3%)

Query: 2   ELLNQIDTYI--PQPVRDLDKPFYLPVEHTYSIPGRGTVVTGRLERGIVKKGMECEFTGY 59
           EL N I T +   + +R+ +  F +P++H + I G GTVVTG + +GIVK G E +    
Sbjct: 178 ELKNLIITTLNNAEIIRNTESYFKMPLDHAFPIKGAGTVVTGTINKGIVKVGDELKV--L 235

Query: 60  GRQFKTTVTGIEMFHKILDEAQAGDQLGALVKGMKRDEVNRGLIMAKP 107
                T V  I+ F + + EA+AGD++G  ++G+   ++ RG I+   
Sbjct: 236 PINMSTKVRSIQYFKESVMEAKAGDRVGMAIQGVDAKQIYRGXILTSK 283

>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* Length = 403

 Score =  179 bits (456), Expect = 5e-55
 Identities = 35/108 (32%), Positives = 50/108 (46%), Gaps = 5/108 (4%)

Query: 108 VLADKKLAKVK---QYADIDNAPEEKARGITINVAHVEYATEN-RHYSHTDCPGHADYIK 163
           +   KKL   +      +    PE      +      +   +  R  S  D PGH   + 
Sbjct: 31  IWTSKKLGYAETNIGVCESCKKPEAYVTEPSCKSCGSDDEPKFLRRISFIDAPGHEVLMA 90

Query: 164 NMITGTSQMDGAILVVAATDGA-MPQTREHLLLAKQIGVTNIVVFINK 210
            M++G + MDGAILVVAA +    PQTREH +    IGV N+++  NK
Sbjct: 91  TMLSGAALMDGAILVVAANEPFPQPQTREHFVALGIIGVKNLIIVQNK 138

>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* Length = 403

 Score =  114 bits (288), Expect = 1e-30
 Identities = 23/128 (17%), Positives = 45/128 (35%), Gaps = 21/128 (16%)

Query: 1   MELLNQIDTYIPQPVRDLDKPFYLPVEHTYSIPG--------RGTVVTGRLERGIVKKGM 52
             L+  I+ YI  P RDL +   + V  ++ +          +G V+ G + +G+ K   
Sbjct: 180 DSLIEGIEEYIKTPYRDLSQKPVMLVIRSFDVNKPGTQFNELKGGVIGGSIIQGLFKVDQ 239

Query: 53  ECE----------FTGYGRQFKTTVTGIEMFHKILDEAQAGDQLG---ALVKGMKRDEVN 99
           E +                   T ++ I    +   EA+ G  +     L   + + +  
Sbjct: 240 EIKVLPGLRVEKQGKVSYEPIFTKISSIRFGDEEFKEAKPGGLVAIGTYLDPSLTKADNL 299

Query: 100 RGLIMAKP 107
            G I+   
Sbjct: 300 LGSIITLA 307

>2elf_A Protein translation elongation factor 1A; tRNA, pyrrolysine, structural genomics, NPPSFA; HET: CIT; 1.70A {Methanosarcina mazei} Length = 370

 Score =  177 bits (450), Expect = 2e-54
 Identities = 15/87 (17%), Positives = 35/87 (40%), Gaps = 1/87 (1%)

Query: 124 DNAPEEKARGITINVAHVEYATENRHYSHTDCPGHADYIKNMITGTSQMDGAILVVAATD 183
             A     +G + ++       E R+    D   +   +K++IT  +  D A+L +    
Sbjct: 36  SLAANLGKKGTSSDITMYNNDKEGRNMVFVDAHSYPKTLKSLITALNISDIAVLCIPP-Q 94

Query: 184 GAMPQTREHLLLAKQIGVTNIVVFINK 210
           G    T E ++    +G  + ++ + +
Sbjct: 95  GLDAHTGECIIALDLLGFKHGIIALTR 121

>2elf_A Protein translation elongation factor 1A; tRNA, pyrrolysine, structural genomics, NPPSFA; HET: CIT; 1.70A {Methanosarcina mazei} Length = 370

 Score =  153 bits (390), Expect = 1e-45
 Identities = 24/108 (22%), Positives = 53/108 (49%), Gaps = 3/108 (2%)

Query: 1   MELLNQIDTYIPQPVRDLDK-PFYLPVEHTYSIPGRGTVVTGRLERGIVKKGMECEFTGY 59
              +N++   I     +L+  P  + ++H +++ G+G VV G +++GI K   + +    
Sbjct: 171 KARINEVAEKIEAENAELNSLPARIFIDHAFNVTGKGCVVLGVVKQGISKDKDKTKIFPL 230

Query: 60  GRQFKTTVTGIEMFHKILDEAQAGDQLGALVKGMKRDEVNRGLIMAKP 107
            R     +  I+     +D A AG ++G  +K ++  ++ RG I++  
Sbjct: 231 DR--DIEIRSIQSHDVDIDSAPAGTRVGMRLKNVQAKDIERGFIISDK 276

>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* Length = 410

 Score =  166 bits (422), Expect = 6e-50
 Identities = 39/112 (34%), Positives = 49/112 (43%), Gaps = 24/112 (21%)

Query: 123 IDNAPEEKARGITINVAHVEYATEN-----------------------RHYSHTDCPGHA 159
            D   EE  RGITI +   +                            R  S  D PGH 
Sbjct: 35  TDTHSEELRRGITIKIGFADAEIRRCPNCGRYSTSPVCPYCGHETEFVRRVSFIDAPGHE 94

Query: 160 DYIKNMITGTSQMDGAILVVAATDGA-MPQTREHLLLAKQIGVTNIVVFINK 210
             +  M+ G S MDGAILV+AA +    PQTREHL+  + IG  NI++  NK
Sbjct: 95  ALMTTMLAGASLMDGAILVIAANEPCPRPQTREHLMALQIIGQKNIIIAQNK 146

>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* Length = 410

 Score =  117 bits (295), Expect = 2e-31
 Identities = 29/129 (22%), Positives = 54/129 (41%), Gaps = 23/129 (17%)

Query: 1   MELLNQIDTYIPQPVRDLDKPFYLPVEHTYSIPGRGT--------VVTGRLERGIVKKGM 52
             L+  I+ +IP P RD +KP  + V  ++ +   GT        V+ G + +G +K G 
Sbjct: 188 DVLVKAIEDFIPTPKRDPNKPPKMLVLRSFDVNKPGTPPEKLVGGVLDGSIVQGKLKVGD 247

Query: 53  ECEFTGYGRQ-----------FKTTVTGIEMFHKILDEAQAGDQLGA---LVKGMKRDEV 98
           E E    G               T +  ++   + ++EA  G  +G    L   + + ++
Sbjct: 248 EIEIRP-GVPYEEHGRIKYEPITTEIVSLQAGGQFVEEAYPGGLVGVGTKLDPYLTKGDL 306

Query: 99  NRGLIMAKP 107
             G ++ KP
Sbjct: 307 MAGNVVGKP 315

>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 Length = 408

 Score =  163 bits (414), Expect = 7e-49
 Identities = 35/111 (31%), Positives = 51/111 (45%), Gaps = 24/111 (21%)

Query: 124 DNAPEEKARGITINVAHVEYATEN-----------------------RHYSHTDCPGHAD 160
           D   EE  RGI+I + + +                            R  S  D PGH  
Sbjct: 34  DRHSEELRRGISIRLGYADCEIRKCPQCGTYTTKPRCPNCLAETEFLRRVSFVDSPGHET 93

Query: 161 YIKNMITGTSQMDGAILVVAATDGA-MPQTREHLLLAKQIGVTNIVVFINK 210
            +  M++G S MDGAILV+AA +    PQT+EHL+  + +G+  I++  NK
Sbjct: 94  LMATMLSGASLMDGAILVIAANEPCPQPQTKEHLMALEILGIDKIIIVQNK 144

>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 Length = 408

 Score =  118 bits (297), Expect = 9e-32
 Identities = 29/128 (22%), Positives = 49/128 (38%), Gaps = 21/128 (16%)

Query: 1   MELLNQIDTYIPQPVRDLDKPFYLPVEHTYSIPGRGT--------VVTGRLERGIVKKGM 52
             LL  I  +IP P RD D    + V  ++ I   GT        V+ G + +G+ K G 
Sbjct: 186 DVLLKAIQDFIPTPKRDPDATPRMYVARSFDINKPGTEIKDLKGGVLGGAIIQGVFKVGD 245

Query: 53  ECE----------FTGYGRQFKTTVTGIEMFHKILDEAQAGDQLG---ALVKGMKRDEVN 99
           E E             + +   T +  +   + IL +A  G  +G    L   + + +  
Sbjct: 246 EIEIRPGIKVTEGNKTFWKPLTTKIVSLAAGNTILRKAHPGGLIGVGTTLDPYLTKSDAL 305

Query: 100 RGLIMAKP 107
            G ++  P
Sbjct: 306 TGSVVGLP 313

>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* Length = 483

 Score =  126 bits (318), Expect = 2e-34
 Identities = 34/94 (36%), Positives = 55/94 (58%), Gaps = 7/94 (7%)

Query: 124 DNAPEEKARGITINVAHVEYATENRHYSHTDCPGHADYIKNMITGTSQMDGAILVVAATD 183
           D   EE+ RG+T+++    ++T   +++  D PGH D++ N I G SQ D AIL V  + 
Sbjct: 87  DQTNEERERGVTVSICTSHFSTHRANFTIVDAPGHRDFVPNAIMGISQADMAILCVDCST 146

Query: 184 GAM-------PQTREHLLLAKQIGVTNIVVFINK 210
            A         QT+EH+LLA  +G+ N+++ +NK
Sbjct: 147 NAFESGFDLDGQTKEHMLLASSLGIHNLIIAMNK 180

>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* Length = 483

 Score = 76.9 bits (190), Expect = 9e-17
 Identities = 21/120 (17%), Positives = 38/120 (31%), Gaps = 15/120 (12%)

Query: 1   MELLNQID--TYIPQPVRDLDKPFYLPVEHTYS---IPGRGTVVTGRLERGIVKKGMECE 55
           M  L              + D PF   V              +V+G+LE G ++ G    
Sbjct: 244 MSTLENAAFKISKENEGINKDDPFLFSVLEIIPSKKTSNDLALVSGKLESGSIQPGESLT 303

Query: 56  FTGYGRQFKTTVTGIEMF--------HKILDEAQAGDQLGALVKGMKRDEVNRGLIMAKP 107
                +     V  I++         H+  D A  GD +   ++    +++  G + A  
Sbjct: 304 IYPSEQS--CIVDKIQVGSQQGQSTNHEETDVAIKGDFVTLKLRKAYPEDIQNGDLAASV 361

>3izq_1 HBS1P, elongation factor 1 alpha-like protein; NO-GO mRNA decay, ribosomal protein,hydrolase; 9.50A {Saccharomyces cerevisiae} Length = 611

 Score =  126 bits (318), Expect = 5e-34
 Identities = 34/94 (36%), Positives = 55/94 (58%), Gaps = 7/94 (7%)

Query: 124 DNAPEEKARGITINVAHVEYATENRHYSHTDCPGHADYIKNMITGTSQMDGAILVVAATD 183
           D   EE+ RG+T+++    ++T   +++  D PGH D++ N I G SQ D AIL V  + 
Sbjct: 221 DQTNEERERGVTVSICTSHFSTHRANFTIVDAPGHRDFVPNAIMGISQADMAILCVDCST 280

Query: 184 GAM-------PQTREHLLLAKQIGVTNIVVFINK 210
            A         QT+EH+LLA  +G+ N+++ +NK
Sbjct: 281 NAFESGFDLDGQTKEHMLLASSLGIHNLIIAMNK 314

>3izq_1 HBS1P, elongation factor 1 alpha-like protein; NO-GO mRNA decay, ribosomal protein,hydrolase; 9.50A {Saccharomyces cerevisiae} Length = 611

 Score = 76.7 bits (189), Expect = 1e-16
 Identities = 21/120 (17%), Positives = 38/120 (31%), Gaps = 15/120 (12%)

Query: 1   MELLNQID--TYIPQPVRDLDKPFYLPVEHTYS---IPGRGTVVTGRLERGIVKKGMECE 55
           M  L              + D PF   V              +V+G+LE G ++ G    
Sbjct: 378 MSTLENAAFKISKENEGINKDDPFLFSVLEIIPSKKTSNDLALVSGKLESGSIQPGESLT 437

Query: 56  FTGYGRQFKTTVTGIEMF--------HKILDEAQAGDQLGALVKGMKRDEVNRGLIMAKP 107
                +     V  I++         H+  D A  GD +   ++    +++  G + A  
Sbjct: 438 IYPSEQS--CIVDKIQVGSQQGQSTNHEETDVAIKGDFVTLKLRKAYPEDIQNGDLAASV 495

>3mca_A HBS1, elongation factor 1 alpha-like protein; protein protein complex, translation regulation; 2.74A {Schizosaccharomyces pombe} Length = 592

 Score =  126 bits (318), Expect = 6e-34
 Identities = 37/94 (39%), Positives = 54/94 (57%), Gaps = 7/94 (7%)

Query: 124 DNAPEEKARGITINVAHVEYATENRHYSHTDCPGHADYIKNMITGTSQMDGAILVVAATD 183
           D   EE+ARG+T++VA   + ++ + Y   D PGH D+I  MI G S  D A+LVV ++ 
Sbjct: 231 DTTEEERARGVTMDVASTTFESDKKIYEIGDAPGHRDFISGMIAGASSADFAVLVVDSSQ 290

Query: 184 GAM-------PQTREHLLLAKQIGVTNIVVFINK 210
                      QTREH  L + +G++ IVV +NK
Sbjct: 291 NNFERGFLENGQTREHAYLLRALGISEIVVSVNK 324

>3mca_A HBS1, elongation factor 1 alpha-like protein; protein protein complex, translation regulation; 2.74A {Schizosaccharomyces pombe} Length = 592

 Score = 83.6 bits (207), Expect = 4e-19
 Identities = 23/106 (21%), Positives = 41/106 (38%), Gaps = 5/106 (4%)

Query: 3   LLNQIDTYIPQPVRDLDKPFYLPVEHTYSIPGRGTVVTGRLERGIVKKGMECEFTGYGRQ 62
           LL+ +D  +  P +   KP  L ++  Y  P   TV  GR+E G V+             
Sbjct: 387 LLSALDQ-LVPPEKPYRKPLRLSIDDVYRSPRSVTVT-GRVEAGNVQVNQVLYDVSSQED 444

Query: 63  FKTTVTGIEMFH-KILDEAQAGDQLGALVKGMKRDEVNRGLIMAKP 107
               V  +          A AGD +   +  ++ +++  G I++  
Sbjct: 445 --AYVKNVIRNSDPSSTWAVAGDTVTLQLADIEVNQLRPGDILSNY 488

>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 Length = 467

 Score =  122 bits (308), Expect = 4e-33
 Identities = 39/94 (41%), Positives = 55/94 (58%), Gaps = 7/94 (7%)

Query: 124 DNAPEEKARGITINVAHVEYATENRHYSHTDCPGHADYIKNMITGTSQMDGAILVVAATD 183
           D+  EE+ +G T+ V    + TE+R +S  D PGH  Y+ NMI G SQ D  +LV++A  
Sbjct: 97  DSTSEEREKGKTVEVGRAYFETEHRRFSLLDAPGHKGYVTNMINGASQADIGVLVISARR 156

Query: 184 GAM-------PQTREHLLLAKQIGVTNIVVFINK 210
           G          QTREH +LA+  G+ ++VV INK
Sbjct: 157 GEFEAGFERGGQTREHAVLARTQGINHLVVVINK 190

>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 Length = 467

 Score = 79.3 bits (196), Expect = 1e-17
 Identities = 26/103 (25%), Positives = 47/103 (45%), Gaps = 7/103 (6%)

Query: 3   LLNQIDTYIPQPVRDLDKPFYLPVEHTYSIPGRGTVVTGRLERGIVKKGMECEFTGYGRQ 62
           LL  +D+ +    R ++ PF +P+   Y     GT++ G++E G +KK          + 
Sbjct: 256 LLEYLDS-MTHLERKVNAPFIMPIASKYK--DLGTILEGKIEAGSIKKNSNVLVMPINQT 312

Query: 63  FKTTVTGI-EMFHKILDEAQAGDQLGALVKGMKRDEVNRGLIM 104
               VT I +   + +  +  GDQ+   V+G   D V  G ++
Sbjct: 313 --LEVTAIYDEADEEISSSICGDQVRLRVRGDDSD-VQTGYVL 352

>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* Length = 435

 Score =  118 bits (297), Expect = 1e-31
 Identities = 42/95 (44%), Positives = 61/95 (64%), Gaps = 7/95 (7%)

Query: 123 IDNAPEEKARGITINVAHVEYATENRHYSHTDCPGHADYIKNMITGTSQMDGAILVVAAT 182
           +D   EE+ RG+TIN+  + + T+   ++  D PGH D++KNMITG SQ D AILVV+A 
Sbjct: 59  LDRLKEERERGVTINLTFMRFETKKYFFTIIDAPGHRDFVKNMITGASQADAAILVVSAK 118

Query: 183 DG-------AMPQTREHLLLAKQIGVTNIVVFINK 210
            G          QTREH++LAK +G+  ++V +NK
Sbjct: 119 KGEYEAGMSVEGQTREHIILAKTMGLDQLIVAVNK 153

>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* Length = 435

 Score = 95.1 bits (237), Expect = 4e-23
 Identities = 35/102 (34%), Positives = 59/102 (57%), Gaps = 3/102 (2%)

Query: 3   LLNQIDTYIPQPVRDLDKPFYLPVEHTYSIPGRGTVVTGRLERGIVKKGMECEFTGYGRQ 62
           L   +D  +  P + +DKP  +P++  YSI G GTV  GR+E G++K G +  F   G+ 
Sbjct: 215 LEEYLDQ-LELPPKPVDKPLRIPIQDVYSISGVGTVPVGRVESGVLKVGDKIVFMPAGKV 273

Query: 63  FKTTVTGIEMFHKILDEAQAGDQLGALVKGMKRDEVNRGLIM 104
               V  IE  H  +D+A+ GD +G  V+G+++ ++ RG ++
Sbjct: 274 --GEVRSIETHHTKMDKAEPGDNIGFNVRGVEKKDIKRGDVV 313

>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 Length = 458

 Score =  108 bits (272), Expect = 4e-28
 Identities = 43/95 (45%), Positives = 57/95 (60%), Gaps = 7/95 (7%)

Query: 123 IDNAPEEKARGITINVAHVEYATENRHYSHTDCPGHADYIKNMITGTSQMDGAILVVAAT 182
           +D    E+ RGITI++A  ++ T     +  D PGH D+IKNMITGTSQ D AIL++A  
Sbjct: 60  LDKLKAERERGITIDIALWKFETPKYQVTVIDAPGHRDFIKNMITGTSQADCAILIIAGG 119

Query: 183 DGAM-------PQTREHLLLAKQIGVTNIVVFINK 210
            G          QTREH LLA  +GV  ++V +NK
Sbjct: 120 VGEFEAGISKDGQTREHALLAFTLGVRQLIVAVNK 154

>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 Length = 458

 Score = 93.2 bits (232), Expect = 2e-22
 Identities = 42/102 (41%), Positives = 55/102 (53%), Gaps = 3/102 (2%)

Query: 3   LLNQIDTYIPQPVRDLDKPFYLPVEHTYSIPGRGTVVTGRLERGIVKKGMECEFTGYGRQ 62
           LL  ID  I QP R  DKP  LP++  Y I G GTV  GR+E G++K GM   F   G  
Sbjct: 226 LLEAIDA-IEQPSRPTDKPLRLPLQDVYKIGGIGTVPVGRVETGVIKPGMVVTFAPAGVT 284

Query: 63  FKTTVTGIEMFHKILDEAQAGDQLGALVKGMKRDEVNRGLIM 104
             T V  +EM H+ L++   GD +G  VK +   E+ RG + 
Sbjct: 285 --TEVKSVEMHHEQLEQGVPGDNVGFNVKNVSVKEIRRGNVC 324

>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 Length = 434

 Score =  103 bits (258), Expect = 4e-26
 Identities = 38/88 (43%), Positives = 53/88 (60%)

Query: 123 IDNAPEEKARGITINVAHVEYATENRHYSHTDCPGHADYIKNMITGTSQMDGAILVVAAT 182
           +D    E+ +GITI+VA+  ++T  R +   D PGH  Y +NM TG S  D AI++V A 
Sbjct: 79  VDGLQAEREQGITIDVAYRYFSTAKRKFIIADTPGHEQYTRNMATGASTCDLAIILVDAR 138

Query: 183 DGAMPQTREHLLLAKQIGVTNIVVFINK 210
            G   QTR H  +A  +G+ +IVV INK
Sbjct: 139 YGVQTQTRRHSYIASLLGIKHIVVAINK 166

>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 Length = 434

 Score = 39.2 bits (92), Expect = 6e-04
 Identities = 22/90 (24%), Positives = 30/90 (33%), Gaps = 18/90 (20%)

Query: 1   MELLNQIDTYIPQPVRDLDKPFYLPV------EHTYSIPGRGTVVTGRLERGIVKKGMEC 54
           ME+L  ++                PV         +    RG    G L  GIV KG E 
Sbjct: 227 MEILETVEI----ASDRNYTDLRFPVQYVNRPNLNF----RG--FAGTLASGIVHKGDEI 276

Query: 55  EFTGYGRQFKTTVTGIEMFHKILDEAQAGD 84
                G+   + V  I  F   L++A  G 
Sbjct: 277 VVLPSGK--SSRVKSIVTFEGELEQAGPGQ 304

>1xe1_A Hypothetical protein PF0907; structural genomics, unknown function, protein structure INI secsg, conserved hypothetical protein; HET: MSE; 2.00A {Pyrococcus furiosus} SCOP: b.43.3.1 Length = 116

 Score = 93.6 bits (233), Expect = 5e-25
 Identities = 21/94 (22%), Positives = 44/94 (46%), Gaps = 7/94 (7%)

Query: 13  QPVRDLDKPFY-LPVEHTYSIPGRGTVVTGRLERGIVKKGMECEFTGYGRQFKTTVTGIE 71
           +      KP   + VE   +I G+  ++ G +E G++  G + +           +  IE
Sbjct: 25  KIEILSKKPAGKVVVEEVVNIMGKDVII-GTVESGMIGVGFKVKGPSG----IGGIVRIE 79

Query: 72  MFHKILDEAQAGDQLGALVKGMKRDEVNRGLIMA 105
              + ++ A AGD++G  ++G K  +V +G ++ 
Sbjct: 80  RNREKVEFAIAGDRIGISIEG-KIGKVKKGDVLE 112

>3e1y_E Eukaryotic peptide chain release factor GTP-bindi ERF3A; translation termination, peptide release, PTC, P biosynthesis, GTP-binding; HET: ATP; 3.80A {Homo sapiens} Length = 204

 Score = 74.9 bits (185), Expect = 5e-17
 Identities = 24/83 (28%), Positives = 34/83 (40%), Gaps = 4/83 (4%)

Query: 19  DKPFYLPVEHTYSIPGRGTVVTGRLERGIVKKGMECEFTGYGRQFKTTVTGIEMFHKILD 78
             P  LP+   Y     GTVV G+LE G + KG +             V GI       D
Sbjct: 4   GSPIRLPIVDKYK--DMGTVVLGKLESGSICKGQQLVMMPNKHN--VEVLGILSDDVETD 59

Query: 79  EAQAGDQLGALVKGMKRDEVNRG 101
               G+ L   +KG++ +E+  G
Sbjct: 60  TVAPGENLKIRLKGIEEEEILPG 82

>2lkc_A Translation initiation factor IF-2; NMR {Geobacillus stearothermophilus} PDB: 2lkd_A* Length = 178

 Score = 57.7 bits (140), Expect = 8e-11
 Identities = 33/82 (40%), Positives = 39/82 (47%), Gaps = 5/82 (6%)

Query: 131 ARGIT--INVAHVEYATENRHYSHTDCPGHADYIKNMITGTSQMDGAILVVAATDGAMPQ 188
           A GIT  I    V     ++  +  D PGH  +      G    D  ILVVAA DG MPQ
Sbjct: 38  AGGITQHIGAYQVT--VNDKKITFLDTPGHEAFTTMRARGAQVTDIVILVVAADDGVMPQ 95

Query: 189 TREHLLLAKQIGVTNIVVFINK 210
           T E +  AK   V  I+V INK
Sbjct: 96  TVEAINHAKAANVP-IIVAINK 116

>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* Length = 842

 Score = 55.4 bits (133), Expect = 2e-09
 Identities = 29/103 (28%), Positives = 39/103 (37%), Gaps = 17/103 (16%)

Query: 124 DNAPEEKARGITI------------NVAHVEYATENRHYSHT----DCPGHADYIKNMIT 167
           D   +E+ RGITI            +    E   +    S      D PGH D+   +  
Sbjct: 58  DTRKDEQERGITIKSTAISLYSEMSDEDVKEIKQKTDGNSFLINLIDSPGHVDFSSEVTA 117

Query: 168 GTSQMDGAILVVAATDGAMPQTREHLLLAKQIGVTNIVVFINK 210
                DGA++VV   +G   QT   L  A    +   VV INK
Sbjct: 118 ALRVTDGALVVVDTIEGVCVQTETVLRQALGERIK-PVVVINK 159

>1zo1_I IF2, translation initiation factor 2; E. coli, ribosome, initiation of protein synthesis, cryo-eletron microscopy, translation/RNA complex; 13.80A {Escherichia coli} Length = 501

 Score = 53.3 bits (129), Expect = 1e-08
 Identities = 37/82 (45%), Positives = 43/82 (52%), Gaps = 5/82 (6%)

Query: 131 ARGIT--INVAHVEYATENRHYSHTDCPGHADYIKNMITGTSQMDGAILVVAATDGAMPQ 188
           A GIT  I   HVE  TEN   +  D PGHA +      G    D  +LVVAA DG MPQ
Sbjct: 34  AGGITQHIGAYHVE--TENGMITFLDTPGHAAFTSMRARGAQATDIVVLVVAADDGVMPQ 91

Query: 189 TREHLLLAKQIGVTNIVVFINK 210
           T E +  AK   V  +VV +NK
Sbjct: 92  TIEAIQHAKAAQVP-VVVAVNK 112

>3izy_P Translation initiation factor IF-2, mitochondrial; E coli, RNA, ribosomal; 10.80A {Bos taurus} Length = 537

 Score = 53.0 bits (128), Expect = 1e-08
 Identities = 28/65 (43%), Positives = 31/65 (47%), Gaps = 17/65 (26%)

Query: 154 DCPGHADYIKNMITGTSQM--------DGAILVVAATDGAMPQTREHLLLAKQIGVTNIV 205
           D PGHA +        S M        D  ILVVAA DG M QT E +  AK   V  IV
Sbjct: 58  DTPGHAAF--------SAMRARGTQVTDIVILVVAADDGVMKQTVESIQHAKDAHVP-IV 108

Query: 206 VFINK 210
           + INK
Sbjct: 109 LAINK 113

>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* Length = 594

 Score = 52.7 bits (127), Expect = 2e-08
 Identities = 20/58 (34%), Positives = 28/58 (48%), Gaps = 3/58 (5%)

Query: 154 DCPGHADYIKNMIT-GTSQMDGAILVVAATDGAMPQTREHLLLAKQIGVTNIVVFINK 210
           D PGH  +   +   G +  D AIL+V   +G  PQT+E L + +       VV  NK
Sbjct: 76  DTPGHEAF-TTLRKRGGALADLAILIVDINEGFKPQTQEALNILRMYRTP-FVVAANK 131

>1qzv_F Plant photosystem I: subunit PSAF; photosynthesis,plant photosynthetic reaction center, peripheral antenna; HET: CL1 PQN; 4.44A {Pisum sativum} SCOP: i.5.1.1 Length = 154

 Score = 46.1 bits (108), Expect = 8e-07
 Identities = 14/32 (43%), Positives = 18/32 (56%), Gaps = 8/32 (25%)

Query: 112 KKL-AKVKQYADIDNAPEEKARGITINVAHVE 142
           KKL A +K YAD D+AP      + I  A +E
Sbjct: 23  KKLQASLKLYAD-DSAP-----ALAIK-ATME 47

>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* Length = 665

 Score = 44.1 bits (105), Expect = 2e-05
 Identities = 19/88 (21%), Positives = 34/88 (38%), Gaps = 9/88 (10%)

Query: 127 PEEKARGITINVAHVEYATENRHYSHT----DCPGHADYIKNMITGTSQMDGAILVVAAT 182
           PE K    T+               H     D PG+ D++  +       D A++ V+A 
Sbjct: 53  PEAKLHRTTVRTG----VAPLLFRGHRVFLLDAPGYGDFVGEIRGALEAADAALVAVSAE 108

Query: 183 DGAMPQTREHLLLAKQIGVTNIVVFINK 210
            G    T     +A+++G+  + V + K
Sbjct: 109 AGVQVGTERAWTVAERLGLPRM-VVVTK 135

>3tr5_A RF-3, peptide chain release factor 3; protein synthesis, translation; HET: GDP; 2.11A {Coxiella burnetii} Length = 528

 Score = 40.1 bits (94), Expect = 3e-04
 Identities = 24/82 (29%), Positives = 47/82 (57%), Gaps = 1/82 (1%)

Query: 129 EKARGITINVAHVEYATENRHYSHTDCPGHADYIKNMITGTSQMDGAILVVAATDGAMPQ 188
           EK RGI++  + +++  ++   +  D PGHAD+ ++     + +D A++V+ A  G  P+
Sbjct: 63  EKQRGISVTTSVMQFPYKDYLINLLDTPGHADFTEDTYRTLTAVDSALMVIDAAKGVEPR 122

Query: 189 TREHLLLAKQIGVTNIVVFINK 210
           T + + + +    T I+ FINK
Sbjct: 123 TIKLMEVCRLRH-TPIMTFINK 143

>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* Length = 529

 Score = 38.9 bits (91), Expect = 6e-04
 Identities = 22/82 (26%), Positives = 44/82 (53%), Gaps = 1/82 (1%)

Query: 129 EKARGITINVAHVEYATENRHYSHTDCPGHADYIKNMITGTSQMDGAILVVAATDGAMPQ 188
           EK RGI+I  + +++   +   +  D PGH D+ ++     + +D  ++V+ A  G   +
Sbjct: 63  EKQRGISITTSVMQFPYHDCLVNLLDTPGHEDFSEDTYRTLTAVDCCLMVIDAAKGVEDR 122

Query: 189 TREHLLLAKQIGVTNIVVFINK 210
           TR+ + + +    T I+ F+NK
Sbjct: 123 TRKLMEVTRLRD-TPILTFMNK 143

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	211
3e1y_E	204	Eukaryotic peptide chain release factor GTP-bindi	99.89
3j2k_7	439	ERF3, eukaryotic polypeptide chain release factor	99.87
1d2e_A	397	Elongation factor TU (EF-TU); G-protein, beta-barr	99.84
1f60_A	458	Elongation factor EEF1A; protein-protein complex,	99.84
1jny_A	435	EF-1-alpha, elongation factor 1-alpha, EF-TU, TUF-	99.84
2c78_A	405	Elongation factor TU-A; hydrolase, GTPase, transla	99.84
3p26_A	483	Elongation factor 1 alpha-like protein; GTP/GDP bi	99.83
3mca_A	592	HBS1, elongation factor 1 alpha-like protein; prot	99.83
3izq_1	611	HBS1P, elongation factor 1 alpha-like protein; NO-	99.81
3vqt_A	548	RF-3, peptide chain release factor 3; translation,	99.8
1r5b_A	467	Eukaryotic peptide chain release factor GTP-bindi	99.79
3sjy_A	403	Translation initiation factor 2 subunit gamma; zin	99.79
1s0u_A	408	EIF-2-gamma, translation initiation factor 2 gamma	99.78
3j25_A	638	Tetracycline resistance protein TETM; antibiotic r	99.77
3avx_A	1289	Elongation factor TS, elongation factor TU, linke	99.76
1kk1_A	410	EIF2gamma; initiation of translation; HET: GNP; 1.	99.75
4fn5_A	709	EF-G 1, elongation factor G 1; translation, transl	99.75
1zun_B	434	Sulfate adenylate transferase, subunit 1/adenylyls	99.74
2elf_A	370	Protein translation elongation factor 1A; tRNA, py	99.73
3j2k_7	439	ERF3, eukaryotic polypeptide chain release factor	99.71
1wb1_A	482	Translation elongation factor SELB; selenocysteine	99.7
1r5b_A	467	Eukaryotic peptide chain release factor GTP-bindi	99.61
1d2e_A	397	Elongation factor TU (EF-TU); G-protein, beta-barr	99.59
1zun_B	434	Sulfate adenylate transferase, subunit 1/adenylyls	99.58
1jny_A	435	EF-1-alpha, elongation factor 1-alpha, EF-TU, TUF-	99.58
3p26_A	483	Elongation factor 1 alpha-like protein; GTP/GDP bi	99.58
1f60_A	458	Elongation factor EEF1A; protein-protein complex,	99.57
3mca_A	592	HBS1, elongation factor 1 alpha-like protein; prot	99.55
2c78_A	405	Elongation factor TU-A; hydrolase, GTPase, transla	99.55
2elf_A	370	Protein translation elongation factor 1A; tRNA, py	99.54
1kk1_A	410	EIF2gamma; initiation of translation; HET: GNP; 1.	99.54
1wb1_A	482	Translation elongation factor SELB; selenocysteine	99.51
1s0u_A	408	EIF-2-gamma, translation initiation factor 2 gamma	99.5
3izq_1	611	HBS1P, elongation factor 1 alpha-like protein; NO-	99.49
3avx_A	1289	Elongation factor TS, elongation factor TU, linke	99.48
3cb4_D	599	GTP-binding protein LEPA; GTPase, OB-fold, membran	99.46
2ywe_A	600	GTP-binding protein LEPA; G domain, beta-barrel, f	99.46
3tr5_A	528	RF-3, peptide chain release factor 3; protein synt	99.46
1zo1_I	501	IF2, translation initiation factor 2; E. coli, rib	99.45
2rdo_7	704	EF-G, elongation factor G; elongation factor G, EF	99.42
2h5e_A	529	Peptide chain release factor RF-3; beta barrel, tr	99.41
1xe1_A	116	Hypothetical protein PF0907; structural genomics,	99.4
3izy_P	537	Translation initiation factor IF-2, mitochondrial;	99.33
1dar_A	691	EF-G, elongation factor G; ribosomal translocase,	99.33
2xex_A	693	Elongation factor G; GTPase, translation, biosynth	99.31
1n0u_A	842	EF-2, elongation factor 2; G-protein, CIS-proline,	99.3
2dy1_A	665	Elongation factor G; translocation, GTP complex, s	99.23
1g7s_A	594	Translation initiation factor IF2/EIF5B; translati	99.23
3sjy_A	403	Translation initiation factor 2 subunit gamma; zin	99.22
2ywe_A	600	GTP-binding protein LEPA; G domain, beta-barrel, f	99.19
1wf3_A	301	GTP-binding protein; GTPase, riken structural geno	99.12
3cb4_D	599	GTP-binding protein LEPA; GTPase, OB-fold, membran	99.08
3iev_A	308	GTP-binding protein ERA; ERA, GTPase, KH domain, a	99.08
2lkc_A	178	Translation initiation factor IF-2; NMR {Geobacill	98.99
1ega_A	301	Protein (GTP-binding protein ERA); GTPase, RNA-bin	98.98
2rdo_7	704	EF-G, elongation factor G; elongation factor G, EF	98.97
2h5e_A	529	Peptide chain release factor RF-3; beta barrel, tr	98.95
1mky_A	439	Probable GTP-binding protein ENGA; GTPase, DER, KH	98.92
4dhe_A	223	Probable GTP-binding protein ENGB; melioidosis, RA	98.91
2dyk_A	161	GTP-binding protein; GTPase, ribosome-binding prot	98.89
1dar_A	691	EF-G, elongation factor G; ribosomal translocase,	98.89
2hjg_A	436	GTP-binding protein ENGA; GTPase ENGA KH-domain, h	98.88
3izy_P	537	Translation initiation factor IF-2, mitochondrial;	98.87
3qq5_A	423	Small GTP-binding protein; hydrogenase, H-cluster,	98.87
2dy1_A	665	Elongation factor G; translocation, GTP complex, s	98.86
2hjg_A	436	GTP-binding protein ENGA; GTPase ENGA KH-domain, h	98.86
2xex_A	693	Elongation factor G; GTPase, translation, biosynth	98.82
4dcu_A	456	GTP-binding protein ENGA; GTPase, GDP, protein bin	98.81
2xtp_A	260	GTPase IMAP family member 2; immune system, G prot	98.78
3i8s_A	274	Ferrous iron transport protein B; GTPase, GPCR, ir	98.74
4dcu_A	456	GTP-binding protein ENGA; GTPase, GDP, protein bin	98.73
3tr5_A	528	RF-3, peptide chain release factor 3; protein synt	98.72
3iby_A	256	Ferrous iron transport protein B; G protein, G dom	98.71
3lxw_A	247	GTPase IMAP family member 1; immunity, structural	98.66
3clv_A	208	RAB5 protein, putative; malaria, GTPase, structura	98.62
2gj8_A	172	MNME, tRNA modification GTPase TRME; G-domain dime	98.62
2efe_B	181	Small GTP-binding protein-like; GEF, GTPase, VPS9,	98.61
3k53_A	271	Ferrous iron transport protein B; GTPase fold, hel	98.6
3vqt_A	548	RF-3, peptide chain release factor 3; translation,	98.6
4bas_A	199	ADP-ribosylation factor, putative (small GTPase, p	98.6
3tw8_B	181	RAS-related protein RAB-35; longin domain, RAB GTP	98.59
3a1s_A	258	Iron(II) transport protein B; FEOB, iron transport	98.59
1g7s_A	594	Translation initiation factor IF2/EIF5B; translati	98.59
3bc1_A	195	RAS-related protein RAB-27A; RAB27, GTPase, RAB, s	98.58
3tkl_A	196	RAS-related protein RAB-1A; vesicle trafficking, p	98.58
2bme_A	186	RAB4A, RAS-related protein RAB4A; GTP-binding prot	98.55
2fu5_C	183	RAS-related protein RAB-8A; MSS4:RAB8 protein comp	98.54
3cph_A	213	RAS-related protein SEC4; RAB GTPase, prenylation,	98.54
3gee_A	476	MNME, tRNA modification GTPase MNME; G protein, cy	98.54
2hxs_A	178	RAB-26, RAS-related protein RAB-28; GTPase, signal	98.53
2h57_A	190	ADP-ribosylation factor-like protein 6; GTP, GTPas	98.52
1upt_A	171	ARL1, ADP-ribosylation factor-like protein 1; hydr	98.52
3pqc_A	195	Probable GTP-binding protein ENGB; rossmann fold,	98.51
1svi_A	195	GTP-binding protein YSXC; ENGB, GTPase, GDP, hydro	98.51
1ek0_A	170	Protein (GTP-binding protein YPT51); vesicular tra	98.5
4fn5_A	709	EF-G 1, elongation factor G 1; translation, transl	98.5
1ksh_A	186	ARF-like protein 2; small GTPase, small GTP-bindin	98.5
1xzp_A	482	Probable tRNA modification GTPase TRME; GTP-bindin	98.49
1r8s_A	164	ADP-ribosylation factor 1; protein transport/excha	98.49
1wms_A	177	RAB-9, RAB9, RAS-related protein RAB-9A; GTPase, p	98.49
2y8e_A	179	RAB-protein 6, GH09086P, RAB6; hydrolase, nucleoti	98.49
2il1_A	192	RAB12; G-protein, GDP, GTPase, predicted, structur	98.49
1jwy_B	315	Dynamin A GTPase domain; dynamin, GTPase, GDP, myo	98.47
2yc2_C	208	IFT27, small RAB-related GTPase; transport protein	98.47
1g16_A	170	RAS-related protein SEC4; G protein RAB, signaling	98.47
1zo1_I	501	IF2, translation initiation factor 2; E. coli, rib	98.47
2hup_A	201	RAS-related protein RAB-43; G-protein, GDP, struct	98.46
1z06_A	189	RAS-related protein RAB-33B; RAB GTPase, RAB33B GT	98.46
3t1o_A	198	Gliding protein MGLA; G domain containing protein,	98.45
2gf9_A	189	RAS-related protein RAB-3D; G-protein, structural	98.45
1z2a_A	168	RAS-related protein RAB-23; RAB GTPase, vesicular	98.45
1r2q_A	170	RAS-related protein RAB-5A; GTPase, GNP, atomic re	98.44
2g6b_A	180	RAS-related protein RAB-26; G-protein, GTP analogu	98.44
2h17_A	181	ADP-ribosylation factor-like protein 5A; GDP, GTPa	98.44
1zbd_A	203	Rabphilin-3A; G protein, effector, RABCDR, synapti	98.44
2fg5_A	192	RAB-22B, RAS-related protein RAB-31; G-protein, GT	98.43
1zd9_A	188	ADP-ribosylation factor-like 10B; transport protei	98.43
2qu8_A	228	Putative nucleolar GTP-binding protein 1; GTPase,	98.43
2bcg_Y	206	Protein YP2, GTP-binding protein YPT1; RABGTPase,	98.43
1z0f_A	179	RAB14, member RAS oncogene family; RAB GTPase, ves	98.43
2p5s_A	199	RAS and EF-hand domain containing; G-protein, RAB,	98.42
3o47_A	329	ADP-ribosylation factor GTPase-activating protein	98.42
3llu_A	196	RAS-related GTP-binding protein C; structural geno	98.41
2qpt_A	550	EH domain-containing protein-2; protein-nucleotide	98.41
1zj6_A	187	ADP-ribosylation factor-like protein 5; ARL, GTP-b	98.41
2ew1_A	201	RAS-related protein RAB-30; G-protein, GTP analogu	98.41
2wji_A	165	Ferrous iron transport protein B homolog; membrane	98.4
2a5j_A	191	RAS-related protein RAB-2B; GTPase, signal transdu	98.4
3l0i_B	199	RAS-related protein RAB-1A; GEF-GDF-RAB complex, G	98.4
1vg8_A	207	RAS-related protein RAB-7; GTP-binding protein, pr	98.39
2x77_A	189	ADP-ribosylation factor; GTP-binding protein, smal	98.39
1ky3_A	182	GTP-binding protein YPT7P; vesicular traffic, GTP	98.39
1z0j_A	170	RAB-22, RAS-related protein RAB-22A; RAB GTPase, R	98.39
2wjg_A	188	FEOB, ferrous iron transport protein B homolog; me	98.39
3cpj_B	223	GTP-binding protein YPT31/YPT8; RAB GTPase, prenyl	98.38
1m2o_B	190	GTP-binding protein SAR1, GTP binding protein; zin	98.37
4djt_A	218	GTP-binding nuclear protein GSP1; structural genom	98.36
3geh_A	462	MNME, tRNA modification GTPase MNME; G protein, U3	98.36
1z08_A	170	RAS-related protein RAB-21; RAB GTPase, vesicular	98.35
3dz8_A	191	RAS-related protein RAB-3B; GDP, GTPase, structura	98.35
2o52_A	200	RAS-related protein RAB-4B; G-protein, GDP, struct	98.35
3t5g_A	181	GTP-binding protein RHEB; immunoglobulin-like beta	98.33
3kkq_A	183	RAS-related protein M-RAS; GTP-binding, GTPase, si	98.33
4gzl_A	204	RAS-related C3 botulinum toxin substrate 1; rossma	98.33
3def_A	262	T7I23.11 protein; chloroplast, TOC33, GTPase, hydr	98.32
2f7s_A	217	C25KG, RAS-related protein RAB-27B; G-protein, str	98.32
2oil_A	193	CATX-8, RAS-related protein RAB-25; G-protein, GDP	98.31
3r7w_A	307	Gtpase1, GTP-binding protein GTR1; RAG gtpases, GT	98.31
3lxx_A	239	GTPase IMAP family member 4; structural genomics c	98.31
3gj0_A	221	GTP-binding nuclear protein RAN; G protein, GDP, a	98.31
1h65_A	270	Chloroplast outer envelope protein OEP34; GTPase,	98.3
2b6h_A	192	ADP-ribosylation factor 5; membrane trafficking, G	98.3
1x3s_A	195	RAS-related protein RAB-18; GTPase, GNP, structura	98.3
1kao_A	167	RAP2A; GTP-binding protein, small G protein, GDP,	98.3
1moz_A	183	ARL1, ADP-ribosylation factor-like protein 1; GTP-	98.29
3b1v_A	272	Ferrous iron uptake transporter protein B; G prote	98.29
1mh1_A	186	RAC1; GTP-binding, GTPase, small G-protein, RHO fa	98.29
2fh5_B	214	SR-beta, signal recognition particle receptor beta	98.29
1mky_A	439	Probable GTP-binding protein ENGA; GTPase, DER, KH	98.28
2erx_A	172	GTP-binding protein DI-RAS2; GTP hydrolysis, trans	98.28
2gco_A	201	H9, RHO-related GTP-binding protein RHOC; GTPase,s	98.27
2atx_A	194	Small GTP binding protein TC10; GTPase, P-loop, al	98.26
3reg_A	194	RHO-like small GTPase; cytoskeleton, nucleotide-bi	98.26
1n0u_A	842	EF-2, elongation factor 2; G-protein, CIS-proline,	98.25
1f6b_A	198	SAR1; gtpases, N-terminal helix, Mg-containing com	98.23
1fzq_A	181	ADP-ribosylation factor-like protein 3; protein-GD	98.22
1c1y_A	167	RAS-related protein RAP-1A; GTP-binding proteins,	98.21
2fn4_A	181	P23, RAS-related protein R-RAS; GDP/GTP binding, G	98.21
2fv8_A	207	H6, RHO-related GTP-binding protein RHOB; GDP/GTP	98.21
1u8z_A	168	RAS-related protein RAL-A; GNP, GTP, GMPPNP, GPPNH	98.19
3t5d_A	274	Septin-7; GTP-binding protein, cytoskeleton, signa	98.19
3lvq_E	497	ARF-GAP with SH3 domain, ANK repeat and PH domain	98.19
2ce2_X	166	GTPase HRAS; signaling protein, guanine nucleotide	98.17
3oes_A	201	GTPase rhebl1; small GTPase, structural genomics,	98.16
2a9k_A	187	RAS-related protein RAL-A; bacterial ADP-ribosyltr	98.15
2nzj_A	175	GTP-binding protein REM 1; GDP/GTP binding, GTP hy	98.13
3q3j_B	214	RHO-related GTP-binding protein RHO6; RAS-binding	98.12
3bwd_D	182	RAC-like GTP-binding protein ARAC6; G domain, cyto	98.11
2j0v_A	212	RAC-like GTP-binding protein ARAC7; nucleotide-bin	98.11
1m7b_A	184	RND3/RHOE small GTP-binding protein; small GTPase,	98.1
3q72_A	166	GTP-binding protein RAD; G-domain, CAV2 beta, sign	98.1
2bov_A	206	RAla, RAS-related protein RAL-A; C3BOT, exoenzyme,	98.1
2q3h_A	201	RAS homolog gene family, member U; GTPase, structu	98.09
4dsu_A	189	GTPase KRAS, isoform 2B; small G-protein, signalin	98.09
1nrj_B	218	SR-beta, signal recognition particle receptor beta	98.08
2aka_B	299	Dynamin-1; fusion protein, GTPase domain, myosin,	98.08
1d1n_A	99	Initiation factor 2; beta-barrel, gene regulation;	98.07
3j25_A	638	Tetracycline resistance protein TETM; antibiotic r	98.06
3zvr_A	772	Dynamin-1; hydrolase, DRP1, DRP, endocytosis, mito	98.06
2j1l_A	214	RHO-related GTP-binding protein RHOD; GTPase, memb	98.05
3con_A	190	GTPase NRAS; structural genomics consortium, SGC,	98.05
1gwn_A	205	RHO-related GTP-binding protein RHOE; GTPase, inac	98.05
2atv_A	196	RERG, RAS-like estrogen-regulated growth inhibitor	98.02
3q85_A	169	GTP-binding protein REM 2; G-domain, CAV2 beta, si	98.02
1lnz_A	342	SPO0B-associated GTP-binding protein; GTPase, OBG,	98.01
2gf0_A	199	GTP-binding protein DI-RAS1; GDP/GTP binding, GTP	98.0
3th5_A	204	RAS-related C3 botulinum toxin substrate 1; rossma	97.24
2wkq_A	332	NPH1-1, RAS-related C3 botulinum toxin substrate 1	97.97
2crv_A	120	IF-2MT, translation initiation factor IF-2; riboso	97.97
2cxx_A	190	Probable GTP-binding protein ENGB; structural geno	97.96
2j69_A	695	Bacterial dynamin-like protein; FZO, FZL, GTPase,	97.96
1pui_A	210	ENGB, probable GTP-binding protein ENGB; structura	97.86
3ihw_A	184	Centg3; RAS, centaurin, GTPase, structural genomic	97.86
3t34_A	360	Dynamin-related protein 1A, linker, dynamin-relat	97.83
2qtf_A	364	Protein HFLX, GTP-binding protein; beta-alpha-barr	97.79
3c5c_A	187	RAS-like protein 12; GDP, GTPase, structural genom	97.78
1wxq_A	397	GTP-binding protein; structural genomics, riken st	97.77
2ged_A	193	SR-beta, signal recognition particle receptor beta	97.73
2iwr_A	178	Centaurin gamma 1; ANK repeat, zinc-finger, GTP-bi	97.71
2x2e_A	353	Dynamin-1; nitration, hydrolase, membrane fission,	97.7
2e87_A	357	Hypothetical protein PH1320; GTP-binding, GTPase,	97.7
3cbq_A	195	GTP-binding protein REM 2; FLJ38964A, structural g	97.66
4a9a_A	376	Ribosome-interacting GTPase 1; DRG-DFRP complex, r	97.65
1yrb_A	262	ATP(GTP)binding protein; GTPase, P-loop, rossman f	97.62
3dpu_A	535	RAB family protein; roccor, G-domain, COR, GTP-bin	97.6
1cip_A	353	Protein (guanine nucleotide-binding protein alpha-	97.51
2zej_A	184	Dardarin, leucine-rich repeat kinase 2; parkinson'	97.49
2qag_A	361	Septin-2, protein NEDD5; cell cycle, cell division	97.44
4dkx_A	216	RAS-related protein RAB-6A; GTP binding fold, memb	97.41
1zcb_A	362	G alpha I/13; GTP-binding, lipoprotein, membrane,	97.39
2p67_A	341	LAO/AO transport system kinase; ARGK, structural G	97.35
1udx_A	416	The GTP-binding protein OBG; TGS domain, riken str	97.28
2f9l_A	199	RAB11B, member RAS oncogene family; RAB11B GTPase,	97.24
1puj_A	282	YLQF, conserved hypothetical protein YLQF; structu	97.23
4fid_A	340	G protein alpha subunit; RAS-like domain, all-heli	97.13
2j37_W	504	Signal recognition particle 54 kDa protein (SRP54)	97.05
3r7w_B	331	Gtpase2, GTP-binding protein GTR2; RAG gtpases, GT	97.05
1azs_C	402	GS-alpha; complex (lyase/hydrolase), hydrolase, si	97.03
3p32_A	355	Probable GTPase RV1496/MT1543; structural genomics	96.87
3ohm_A	327	Guanine nucleotide-binding protein G(Q) subunit A;	96.75
1oix_A	191	RAS-related protein RAB-11A; small G protein, intr	96.62
2xtz_A	354	Guanine nucleotide-binding protein alpha-1 subuni;	96.52
2g3y_A	211	GTP-binding protein GEM; small GTPase, GDP, inacti	96.48
1j8m_F	297	SRP54, signal recognition 54 kDa protein; signalin	96.37
1u0l_A	301	Probable GTPase ENGC; permutation, OB-fold, zinc-f	96.32
2v3c_C	432	SRP54, signal recognition 54 kDa protein; nucleoti	96.19
2www_A	349	Methylmalonic aciduria type A protein, mitochondri	96.1
4dzz_A	206	Plasmid partitioning protein PARF; deviant walker	95.98
2ph1_A	262	Nucleotide-binding protein; alpha-beta protein, st	95.83
2cjw_A	192	GTP-binding protein GEM; nucleotide-binding, small	95.76
3kjh_A	254	CO dehydrogenase/acetyl-COA synthase complex, acce	95.73
3c5h_A	255	Glucocorticoid receptor DNA-binding factor 1; RAS,	95.7
1g3q_A	237	MIND ATPase, cell division inhibitor; alpha-beta-a	95.46
2wsm_A	221	Hydrogenase expression/formation protein (HYPB); m	95.44
2ohf_A	396	Protein OLA1, GTP-binding protein 9; ATPase, GTPas	95.36
1jal_A	363	YCHF protein; nucleotide-binding fold, structural	95.3
2yv5_A	302	YJEQ protein; hydrolase, GTPase, permutation, stru	95.25
2xxa_A	433	Signal recognition particle protein; protein trans	95.21
1hyq_A	263	MIND, cell division inhibitor (MIND-1); MINC, FTSZ	95.01
3ec1_A	369	YQEH GTPase; atnos1, atnoa1, trap, PVHL, hydrolase	95.0
3dm5_A	443	SRP54, signal recognition 54 kDa protein; protein-	94.93
3cio_A	299	ETK, tyrosine-protein kinase ETK; WZC, escherichia	94.54
3kl4_A	433	SRP54, signal recognition 54 kDa protein; signal r	94.51
3la6_A	286	Tyrosine-protein kinase WZC; P-loop protein, nucle	94.48
3h2y_A	368	GTPase family protein; GTP-binding protein YQEH, p	94.36
3cwq_A	209	Para family chromosome partitioning protein; alpha	94.23
3ea0_A	245	ATPase, para family; alpha-beta-alpha sandwich, st	94.2
3k9g_A	267	PF-32 protein; ssgcid, SBRI, decode biostructures,	94.01
2qag_C	418	Septin-7; cell cycle, cell division, GTP-binding,	94.01
2qag_B	427	Septin-6, protein NEDD5; cell cycle, cell division	93.66
3bfv_A	271	CAPA1, CAPB2, membrane protein CAPA1, protein tyro	93.61
2qm8_A	337	GTPase/ATPase; G protein, G3E, metallochaperone, c	93.28
1t9h_A	307	YLOQ, probable GTPase ENGC; N-terminal beta-barrel	92.99
3q9l_A	260	Septum site-determining protein MIND; ATPase, bact	92.59
2oze_A	298	ORF delta'; para, walker type atpases, DNA segrega	92.5
1ni3_A	392	YCHF GTPase, YCHF GTP-binding protein; structural	92.42
2dby_A	368	GTP-binding protein; GDP, structural genomics, NPP	91.97
1wcv_1	257	SOJ, segregation protein; ATPase, bacterial, chrom	91.84
4he6_A	89	Peptidase family U32; ultra-tight crystal packing,	91.64
3end_A	307	Light-independent protochlorophyllide reductase ir	91.41
2ffh_A	425	Protein (FFH); SRP54, signal recognition particle,	90.91
1zu4_A	320	FTSY; GTPase, signal recognition particle, SRP, re	90.18
3ec1_A	369	YQEH GTPase; atnos1, atnoa1, trap, PVHL, hydrolase	89.69
1ls1_A	295	Signal recognition particle protein; FFH, SRP54, S	87.03
1f5n_A	592	Interferon-induced guanylate-binding protein 1; GB	86.67
1byi_A	224	Dethiobiotin synthase; biotin synthesis, cyclo-lig	86.47
3l82_B	227	F-box only protein 4; TRFH domain, helix, GTPase d	86.39
2afh_E	289	Nitrogenase iron protein 1; nitrogen fixation, iro	86.22
1cp2_A	269	CP2, nitrogenase iron protein; oxidoreductase; 1.9	86.08
3h2y_A	368	GTPase family protein; GTP-binding protein YQEH, p	85.63
1vma_A	306	Cell division protein FTSY; TM0570, structural gen	85.12
2xj4_A	286	MIPZ; replication, cell division, ATPase, WACA; 1.	84.67
2woj_A	354	ATPase GET3; tail-anchored, membrane protein, targ	83.42
3sop_A	270	Neuronal-specific septin-3; hydrolase; HET: GDP; 2	82.45
3ez9_A	403	Para; DNA binding, winged-HTH, partition, biosynth	82.32
2qnr_A	301	Septin-2, protein NEDD5; structural genomics conso	81.49

>3e1y_E Eukaryotic peptide chain release factor GTP-bindi ERF3A; translation termination, peptide release, PTC, P biosynthesis, GTP-binding; HET: ATP; 3.80A {Homo sapiens}

Probab=99.89  E-value=9.1e-24  Score=162.97  Aligned_cols=124  Identities=23%  Similarity=0.284  Sum_probs=105.2

Q ss_pred             CCCCCeeEEEeeEEeecCCcEEEEEEEEEEEEecCCEEEEeecCceeeEEEEEEEecceecceecccCceehhccCCCcc
Q psy9646          17 DLDKPFYLPVEHTYSIPGRGTVVTGRLERGIVKKGMECEFTGYGRQFKTTVTGIEMFHKILDEAQAGDQLGALVKGMKRD   96 (211)
Q Consensus        17 ~~~~p~~~~v~~~~~~~~~G~v~~G~v~~G~i~~g~~v~i~p~~~~~~~~v~~i~~~~~~~~~a~~G~~v~~~l~~~~~~   96 (211)
                      +.++||||||+++|+  +.|++++|+|++|.+++||+|.++|++.  +++|++|+++++++++|.|||+|+++|++++..
T Consensus         2 ~~~~p~rl~v~~v~~--g~G~v~~G~v~~G~i~~Gd~v~i~P~~~--~~~V~~I~~~~~~~~~A~aGd~V~l~L~gi~~~   77 (204)
T 3e1y_E            2 PLGSPIRLPIVDKYK--DMGTVVLGKLESGSICKGQQLVMMPNKH--NVEVLGILSDDVETDTVAPGENLKIRLKGIEEE   77 (204)
T ss_dssp             -----CBEEEEEEEE--SSSEEEEEECCBSCEESSCCEEETTTTE--EEEEEEECSSSSCBSEECTTSEEEEEEEESSSS
T ss_pred             CCCCCEEEEEEEEEc--CCCEEEEEEEecCEEECCCEEEECCCCC--EEEEEEEEECCEEeEEECCCCEEEEEEcCCCHH
Confidence            357899999999998  7999999999999999999999999974  899999999999999999999999999999999


Q ss_pred             cccccccccccchhhhhhhhcccccccccchhhcccceEEeEeEEEee
Q psy9646          97 EVNRGLIMAKPVLADKKLAKVKQYADIDNAPEEKARGITINVAHVEYA  144 (211)
Q Consensus        97 ~v~~G~ii~~~~~~~~~~~~f~~~i~~~~~~~e~~rg~tv~~~~~~~~  144 (211)
                      +++||++++++..++.....|.+.+....++.....|+...+++++..
T Consensus        78 di~rG~vl~~~~~~~~~~~~f~a~v~~l~~~~~i~~g~~~~l~~~t~~  125 (204)
T 3e1y_E           78 EILPGFILCDPNNLCHSGRTFDAQIVIIEHKSIICPGYNAVLHIHTCI  125 (204)
T ss_dssp             CCCTTCEEBCSSSCCCCCSEEEEEEECCSCCSCCCTTEEEEEESSSCE
T ss_pred             HCccceEEECCCCCCchhEEEEEEEEEeCCCCccCCCceEEEEEeCCE
Confidence            999999999988777778889998876666656667777766554443

>3j2k_7 ERF3, eukaryotic polypeptide chain release factor 3; rabbit 80S ribosome, ribosome-translation complex; 17.00A {Oryctolagus cuniculus}

Probab=99.87  E-value=7.4e-22  Score=168.77  Aligned_cols=138  Identities=23%  Similarity=0.301  Sum_probs=122.2

Q ss_pred             hHHHHHhhhCCCCCCCCCCCeeEEEeeEEeecCCcEEEEEEEEEEEEecCCEEEEeecCceeeEEEEEEEecceecceec
Q psy9646           2 ELLNQIDTYIPQPVRDLDKPFYLPVEHTYSIPGRGTVVTGRLERGIVKKGMECEFTGYGRQFKTTVTGIEMFHKILDEAQ   81 (211)
Q Consensus         2 ~ll~~l~~~i~~p~~~~~~p~~~~v~~~~~~~~~G~v~~G~v~~G~i~~g~~v~i~p~~~~~~~~v~~i~~~~~~~~~a~   81 (211)
                      +|++.|++ +++|.+..++||+|+|+++|+  +.|++++|+|++|.+++||.|.++|++.  +++|++|+++++++++|.
T Consensus       226 ~L~~~l~~-i~~~~~~~~~p~r~~v~~~~~--~~G~v~~G~v~~G~l~~Gd~v~~~p~~~--~~~V~~i~~~~~~~~~a~  300 (439)
T 3j2k_7          226 PFIPYLDN-LPNFNRSVDGPIRLPIVDKYK--DMGTVVLGKLESGSIFKGQQLVMMPNKH--NVEVLGILSDDTETDFVA  300 (439)
T ss_pred             HHHHHHHh-CCCCccCCCCCeEEEEEEEEc--CCCeEEEEEEEeeEEecCCEEEEccCCc--eEEEEEEEECCeEcCEec
Confidence            47888888 788888899999999999986  7899999999999999999999999974  899999999999999999


Q ss_pred             ccCceehhccCCCcccccccccccccchhhhhhhhcccccccccchhhcccceEEeEeEEEee
Q psy9646          82 AGDQLGALVKGMKRDEVNRGLIMAKPVLADKKLAKVKQYADIDNAPEEKARGITINVAHVEYA  144 (211)
Q Consensus        82 ~G~~v~~~l~~~~~~~v~~G~ii~~~~~~~~~~~~f~~~i~~~~~~~e~~rg~tv~~~~~~~~  144 (211)
                      |||+|+++|++++..+++||++++++..++.....|.+.+....++.....|++..+++++..
T Consensus       301 aG~~v~~~l~gi~~~~i~rG~vl~~~~~~~~~~~~f~a~v~~l~~~~~i~~g~~~~~~~~t~~  363 (439)
T 3j2k_7          301 PGENLKIRLKGIEEEEILPGFILCDPSNLCHSGRTFDVQIVIIEHKSIICPGYNAVLHIHTCI  363 (439)
T ss_pred             CCCcceEEEeccchhhcCCcEEecCCCCCCceeeEEEEEEEEeCCCCcCCCCCEEEEEEeceE
Confidence            999999999999999999999999988777777889998877777766677777766655543

>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=99.84  E-value=4.7e-21  Score=161.90  Aligned_cols=139  Identities=55%  Similarity=0.876  Sum_probs=117.1

Q ss_pred             hHHHHHhhhCCCCCCCCCCCeeEEEeeEEeecCCcEEEEEEEEEEEEecCCEEEEeecCceeeEEEEEEEecceecceec
Q psy9646           2 ELLNQIDTYIPQPVRDLDKPFYLPVEHTYSIPGRGTVVTGRLERGIVKKGMECEFTGYGRQFKTTVTGIEMFHKILDEAQ   81 (211)
Q Consensus         2 ~ll~~l~~~i~~p~~~~~~p~~~~v~~~~~~~~~G~v~~G~v~~G~i~~g~~v~i~p~~~~~~~~v~~i~~~~~~~~~a~   81 (211)
                      +|+++|.+.+|+|.++.++||+|+|+++|++++.|++++|+|.+|.+++||+|.+.|.+...+++|++|+++++++++|.
T Consensus       184 ~Ll~~l~~~~p~p~~~~~~p~~~~v~~v~~~~~~G~v~~g~v~~G~l~~gd~v~~~~~~~~~~~~V~~i~~~~~~~~~a~  263 (397)
T 1d2e_A          184 KLLDAVDTYIPVPTRDLEKPFLLPVESVYSIPGRGTVVTGTLERGILKKGDECEFLGHSKNIRTVVTGIEMFHKSLDRAE  263 (397)
T ss_dssp             HHHHHHHHHSCCCCCCTTSCCEEECCEEEEETTTEEEEEEECCBSEEETTCEEEEEETTEEEEEEEEEEEETTEEESEEE
T ss_pred             HHHHHHHHhCCCCCCCCCCcEEEEEEEEEEeCCceEEEEEEEeeceEeCCCEEEEeCCCCCeEEEEEEEEECCcccCEec
Confidence            58899999899899999999999999999999999999999999999999999999975345899999999999999999


Q ss_pred             ccCceehhccCCCcccccccccccccchhhhhhhhcccccccccch-----hhcccceEEeEeEE
Q psy9646          82 AGDQLGALVKGMKRDEVNRGLIMAKPVLADKKLAKVKQYADIDNAP-----EEKARGITINVAHV  141 (211)
Q Consensus        82 ~G~~v~~~l~~~~~~~v~~G~ii~~~~~~~~~~~~f~~~i~~~~~~-----~e~~rg~tv~~~~~  141 (211)
                      |||+|+++|++++..++++|++++.+.. +.....|.+.+....++     .....|+...++.+
T Consensus       264 aG~~v~~~l~~i~~~~i~~G~~l~~~~~-~~~~~~f~a~v~~l~~~~~~~~~~~~~g~~~~~~~~  327 (397)
T 1d2e_A          264 AGDNLGALVRGLKREDLRRGLVMAKPGS-IQPHQKVEAQVYILTKEEGGRHKPFVSHFMPVMFSL  327 (397)
T ss_dssp             TTCEEEEEESSCCGGGCCTTCEEESTTS-CCCEEEEEEEEEECCGGGTSCSSCBCTTCCCEEEET
T ss_pred             CCCceEEEecccchhccCceeEEeCCCC-CCcccEEEEEEEEeccccccCccccCCCCEEEEEEe
Confidence            9999999999999999999999998663 45567788776544432     23445555444433

>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=99.84  E-value=2.8e-21  Score=166.02  Aligned_cols=140  Identities=34%  Similarity=0.506  Sum_probs=123.8

Q ss_pred             hHHHHHhhhCCCCCCCCCCCeeEEEeeEEeecCCcEEEEEEEEEEEEecCCEEEEeecCceeeEEEEEEEecceecceec
Q psy9646           2 ELLNQIDTYIPQPVRDLDKPFYLPVEHTYSIPGRGTVVTGRLERGIVKKGMECEFTGYGRQFKTTVTGIEMFHKILDEAQ   81 (211)
Q Consensus         2 ~ll~~l~~~i~~p~~~~~~p~~~~v~~~~~~~~~G~v~~G~v~~G~i~~g~~v~i~p~~~~~~~~v~~i~~~~~~~~~a~   81 (211)
                      +|+++|+. +++|.+..+.||+|+|+++|++++.|++++|+|++|.+++||+|.++|.+  ..++|++|+++++++++|.
T Consensus       225 ~Ll~~l~~-~~~p~~~~~~p~r~~i~~v~~~~g~G~v~~G~v~~G~l~~gd~v~~~p~~--~~~~V~~i~~~~~~~~~a~  301 (458)
T 1f60_A          225 TLLEAIDA-IEQPSRPTDKPLRLPLQDVYKIGGIGTVPVGRVETGVIKPGMVVTFAPAG--VTTEVKSVEMHHEQLEQGV  301 (458)
T ss_dssp             SHHHHHHT-SCCCCCCTTSCCEEEEEEEEEETTTEEEEEEECCBSCBCTTCEEEEETTT--EEEEEEEEEETTEECSCBC
T ss_pred             HHHHHhhc-cCCCcccCCCCcEEEEEEEEEeCCCcEEEEEEEeCCeEcCCCEEEECCCC--ceEEEeEEEECCeEEEEEc
Confidence            58999998 78888899999999999999999999999999999999999999999996  4899999999999999999


Q ss_pred             ccCceehhccCCCcccccccccccccch-hhhhhhhcccccccccchhhcccceEEeEeEEEee
Q psy9646          82 AGDQLGALVKGMKRDEVNRGLIMAKPVL-ADKKLAKVKQYADIDNAPEEKARGITINVAHVEYA  144 (211)
Q Consensus        82 ~G~~v~~~l~~~~~~~v~~G~ii~~~~~-~~~~~~~f~~~i~~~~~~~e~~rg~tv~~~~~~~~  144 (211)
                      |||+|++.|++++..++++|++++.+.. ++.....|.+.+....++.....|++..+++++..
T Consensus       302 aG~~v~i~l~gi~~~~i~rG~vl~~~~~~~~~~~~~f~a~v~~l~~~~~i~~g~~~~~~~~t~~  365 (458)
T 1f60_A          302 PGDNVGFNVKNVSVKEIRRGNVCGDAKNDPPKGCASFNATVIVLNHPGQISAGYSPVLDCHTAH  365 (458)
T ss_dssp             TTCEEEEEESSCCTTTSCTTCEEEETTSSCCCCCSEEEEEEEECSCSCCBCTTCCCEEEETTEE
T ss_pred             CCCEEEEEEcCCcccccCceeEEecCCCCCCceeeEEEEEEEEeCCCCCCCCCCEEEEEeccce
Confidence            9999999999998999999999998764 67778889988876666667777777666655444

>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=99.84  E-value=4.6e-21  Score=163.78  Aligned_cols=141  Identities=28%  Similarity=0.470  Sum_probs=122.6

Q ss_pred             hHHHHHhhhCCCCCCCCCCCeeEEEeeEEeecCCcEEEEEEEEEEEEecCCEEEEeecCceeeEEEEEEEecceecceec
Q psy9646           2 ELLNQIDTYIPQPVRDLDKPFYLPVEHTYSIPGRGTVVTGRLERGIVKKGMECEFTGYGRQFKTTVTGIEMFHKILDEAQ   81 (211)
Q Consensus         2 ~ll~~l~~~i~~p~~~~~~p~~~~v~~~~~~~~~G~v~~G~v~~G~i~~g~~v~i~p~~~~~~~~v~~i~~~~~~~~~a~   81 (211)
                      +|+++|+. +++|.+..++||+|||+++|++++.|++++|+|.+|.+++||.|.+.|++.  .++|++|+++++++++|.
T Consensus       214 ~Ll~~l~~-~~~p~~~~~~~~~~~v~~v~~~~~~G~v~~g~v~~G~l~~gd~v~~~p~~~--~~~V~~i~~~~~~~~~a~  290 (435)
T 1jny_A          214 TLEEYLDQ-LELPPKPVDKPLRIPIQDVYSISGVGTVPVGRVESGVLKVGDKIVFMPAGK--VGEVRSIETHHTKMDKAE  290 (435)
T ss_dssp             CHHHHHTT-CCCCCCGGGSCCBEEEEEEEEETTTEEEEEEECCBSCEETTCEEEEETTTE--EEEEEEEEETTEEESEEC
T ss_pred             hHHHHHhc-cCCCCCCCCCCeEEEEEEEEEeCCCcEEEEEEEecCeEEcCCEEEECCcee--EEEEEEEEECCcEEeEEc
Confidence            68999988 677888788999999999999999999999999999999999999999874  899999999999999999


Q ss_pred             ccCceehhccCCCcccccccccccccchhhhhhhhcccccccccchhhcccceEEeEeEEEeee
Q psy9646          82 AGDQLGALVKGMKRDEVNRGLIMAKPVLADKKLAKVKQYADIDNAPEEKARGITINVAHVEYAT  145 (211)
Q Consensus        82 ~G~~v~~~l~~~~~~~v~~G~ii~~~~~~~~~~~~f~~~i~~~~~~~e~~rg~tv~~~~~~~~~  145 (211)
                      |||+|+++|++++..++++|++++.+..++.....|.+.+....++.....|+...+++++...
T Consensus       291 aG~~v~~~l~g~~~~~i~~Gd~l~~~~~~~~~~~~f~a~v~~l~~~~~l~~g~~~~~~~~t~~~  354 (435)
T 1jny_A          291 PGDNIGFNVRGVEKKDIKRGDVVGHPNNPPTVADEFTARIIVVWHPTALANGYTPVLHVHTASV  354 (435)
T ss_dssp             TTCEEEEEEESSCGGGCCTTCEEECTTSCCCEESEEEEEEEECCCSSCBCTTCCCEEEETTEEE
T ss_pred             CCCEEEEEEecCCHHHcCCccEecCCCCCceEeEEEEEEEEEECCCCcCCCCCEEEEEeCCcEE
Confidence            9999999999999999999999998876677778888887666555666777776666555443

>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=99.84  E-value=8.1e-21  Score=160.86  Aligned_cols=140  Identities=45%  Similarity=0.694  Sum_probs=117.5

Q ss_pred             hHHHHHhhhCCCCCCCCCCCeeEEEeeEEeecCCcEEEEEEEEEEEEecCCEEEEeecCc-eeeEEEEEEEecceeccee
Q psy9646           2 ELLNQIDTYIPQPVRDLDKPFYLPVEHTYSIPGRGTVVTGRLERGIVKKGMECEFTGYGR-QFKTTVTGIEMFHKILDEA   80 (211)
Q Consensus         2 ~ll~~l~~~i~~p~~~~~~p~~~~v~~~~~~~~~G~v~~G~v~~G~i~~g~~v~i~p~~~-~~~~~v~~i~~~~~~~~~a   80 (211)
                      +|+++|++++|+|.+..++||+|+|+++|++++.|++++|+|.+|.+++||+|.+.|.+. ..+++|++|+++++++++|
T Consensus       201 ~Ll~~l~~~lp~p~~~~~~p~~~~v~~v~~~~~~G~v~~g~v~~G~l~~gd~v~~~~~~~~~~~~~V~~i~~~~~~~~~a  280 (405)
T 2c78_A          201 ELLDAIDEYIPTPVRDVDKPFLMPVEDVFTITGRGTVATGRIERGKVKVGDEVEIVGLAPETRKTVVTGVEMHRKTLQEG  280 (405)
T ss_dssp             HHHHHHHHHSCCCCCCCSSCCEEECCEEEEETTTEEEEEEECCBSEEETTCEEEEESSSSSCEEEEEEEEEETTEEESEE
T ss_pred             HHHHHHHhhcCCCCCCCCCCcEEEEEEEEEcCCCceEEEEEEecccccCCCEEEEeCCCCCeeeEEEEEEEECCcccCEE
Confidence            588999998988888999999999999999999999999999999999999999999862 2478999999999999999


Q ss_pred             cccCceehhccCCCcccccccccccccchhhhhhhhcccccccccch-----hhcccceEEeEeEEE
Q psy9646          81 QAGDQLGALVKGMKRDEVNRGLIMAKPVLADKKLAKVKQYADIDNAP-----EEKARGITINVAHVE  142 (211)
Q Consensus        81 ~~G~~v~~~l~~~~~~~v~~G~ii~~~~~~~~~~~~f~~~i~~~~~~-----~e~~rg~tv~~~~~~  142 (211)
                      .|||+|+++|++++..++++|++++.+.. +.....|.+.+....++     .....|+...++.++
T Consensus       281 ~aG~~v~~~l~g~~~~~i~~G~~l~~~~~-~~~~~~f~a~v~~l~~~~~~~~~~~~~g~~~~~~~~t  346 (405)
T 2c78_A          281 IAGDNVGVLLRGVSREEVERGQVLAKPGS-ITPHTKFEASVYVLKKEEGGRHTGFFSGYRPQFYFRT  346 (405)
T ss_dssp             ETTCEEEEEESSCCTTTCCTTCEEESTTS-SEEEEEEEEEEEECCGGGTSCSSCBCTTCCCEEEETT
T ss_pred             cCCCEEEEEECCCcHhhcCceEEEEcCCC-CceeEEEEEEEEEecccCCCccccccCCceEEEEEcc
Confidence            99999999999999999999999998763 45567788777544432     234555555554443

>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=99.83  E-value=7.9e-21  Score=164.29  Aligned_cols=142  Identities=15%  Similarity=0.124  Sum_probs=118.6

Q ss_pred             HHHHHhhh---CCC--CCCCCCCCeeEEEeeEEeec---CCcEEEEEEEEEEEEecCCEEEEeecCceeeEEEEEEEecc
Q psy9646           3 LLNQIDTY---IPQ--PVRDLDKPFYLPVEHTYSIP---GRGTVVTGRLERGIVKKGMECEFTGYGRQFKTTVTGIEMFH   74 (211)
Q Consensus         3 ll~~l~~~---i~~--p~~~~~~p~~~~v~~~~~~~---~~G~v~~G~v~~G~i~~g~~v~i~p~~~~~~~~v~~i~~~~   74 (211)
                      |++.|+..   +|.  |.+..+.||+|+|+++|+++   +.|++++|+|++|.+++||.|.++|++.  +++|++|++++
T Consensus       243 L~~~L~~i~~~~~~~~p~~~~~~p~r~~v~~v~~~~~~~g~g~v~~G~v~~G~l~~gd~v~~~p~~~--~~~V~~i~~~~  320 (483)
T 3p26_A          243 LMSTLENAAFKISKENEGINKDDPFLFSVLEIIPSKKTSNDLALVSGKLESGSIQPGESLTIYPSEQ--SCIVDKIQVGS  320 (483)
T ss_dssp             HHHHHHHHHHHHHHHHTTCCSSSCCEEEEEEEEC---CCSCCEEEEEEEEESEECTTCEEEEETTTE--EEEEEEEEETT
T ss_pred             HHHHHHHHHhhcccccccccCCCceEEEEEEEEccCCcCCCceEEEEEEecceEccCCEEEEeCCCC--eEEEEEEEEcC
Confidence            55555553   333  66788999999999999988   5899999999999999999999999975  89999999995


Q ss_pred             --------eecceecccCceehhccCCCcccccccccccccch-hhhhhhhcccccccccchhhcccceEEeEeEEEeee
Q psy9646          75 --------KILDEAQAGDQLGALVKGMKRDEVNRGLIMAKPVL-ADKKLAKVKQYADIDNAPEEKARGITINVAHVEYAT  145 (211)
Q Consensus        75 --------~~~~~a~~G~~v~~~l~~~~~~~v~~G~ii~~~~~-~~~~~~~f~~~i~~~~~~~e~~rg~tv~~~~~~~~~  145 (211)
                              +++++|.|||+|+++|++.+..+++||++++.+.. ++.....|.+.+....++.....|++..+.+++...
T Consensus       321 ~~~~~~~~~~~~~a~aG~~v~~~l~~~~~~di~rG~vl~~~~~~~~~~~~~f~a~v~~l~~~~~l~~g~~~~l~~~t~~~  400 (483)
T 3p26_A          321 QQGQSTNHEETDVAIKGDFVTLKLRKAYPEDIQNGDLAASVDYSSIHSAQCFVLELTTFDMNRPLLPGTPFILFIGVKEQ  400 (483)
T ss_dssp             TC-----CCEESCEETTCEEEEEEESCCGGGCCTTCEEECTTCCCCEECSEEEEEEEECSCSSCBCTTCEEEEEETTEEE
T ss_pred             ccccccccccccEECCCCEEEEEEEecccccCCceEEEEcCCCCCCceeeEEEEEEEEECCCCCCCCCCEEEEEeCceEE
Confidence                    89999999999999999999999999999998876 777888899888765566677788888776665544


Q ss_pred             C
Q psy9646         146 E  146 (211)
Q Consensus       146 ~  146 (211)
                      .
T Consensus       401 ~  401 (483)
T 3p26_A          401 P  401 (483)
T ss_dssp             E
T ss_pred             E
Confidence            3

>3mca_A HBS1, elongation factor 1 alpha-like protein; protein protein complex, translation regulation; 2.74A {Schizosaccharomyces pombe}

Probab=99.83  E-value=1.6e-20  Score=165.67  Aligned_cols=140  Identities=19%  Similarity=0.198  Sum_probs=123.0

Q ss_pred             hHHHHHhhhCCCCCCCCCCCeeEEEeeEEeecCCcEEEEEEEEEEEEecCCEEEEeecCceeeEEEEEEEecceecc-ee
Q psy9646           2 ELLNQIDTYIPQPVRDLDKPFYLPVEHTYSIPGRGTVVTGRLERGIVKKGMECEFTGYGRQFKTTVTGIEMFHKILD-EA   80 (211)
Q Consensus         2 ~ll~~l~~~i~~p~~~~~~p~~~~v~~~~~~~~~G~v~~G~v~~G~i~~g~~v~i~p~~~~~~~~v~~i~~~~~~~~-~a   80 (211)
                      +|+++|++.. +|.+..++||+|+|+++|++ +.|++++|+|.+|.+++||.|.++|++.  .++|++|++++++++ +|
T Consensus       386 ~Lle~l~~~~-pp~~~~~~p~r~~v~~v~~~-~~g~v~~G~v~~G~l~~Gd~v~i~p~~~--~~~V~~i~~~~~~~~~~a  461 (592)
T 3mca_A          386 TLLSALDQLV-PPEKPYRKPLRLSIDDVYRS-PRSVTVTGRVEAGNVQVNQVLYDVSSQE--DAYVKNVIRNSDPSSTWA  461 (592)
T ss_dssp             CHHHHHHTSC-CCSCTTTSCCEEEEEEEEEE-TTEEEEEEEEEESEEETTCEEEETTTTE--EEEEEEEECSSSCSCCEE
T ss_pred             HHHHHHHhhc-cccccccccchheeeEEEec-CCeEEEEEEEeeeeEccCCEEEEccCCc--eEEEEEEEEcCccCccee
Confidence            6899999954 47788899999999999999 9999999999999999999999999975  899999999999999 99


Q ss_pred             cccCceehhccCCCcccccccccccccchhhhhhhhcccccccccchhhcccceEEeEeEEEeee
Q psy9646          81 QAGDQLGALVKGMKRDEVNRGLIMAKPVLADKKLAKVKQYADIDNAPEEKARGITINVAHVEYAT  145 (211)
Q Consensus        81 ~~G~~v~~~l~~~~~~~v~~G~ii~~~~~~~~~~~~f~~~i~~~~~~~e~~rg~tv~~~~~~~~~  145 (211)
                      .|||+|+++|++++..++++|++++.+..++.....|.+.+....++.....|+...+++++...
T Consensus       462 ~aG~~v~~~l~~i~~~~i~rG~vl~~~~~~~~~~~~f~a~v~~~~~~~pi~~g~~~~l~~~t~~~  526 (592)
T 3mca_A          462 VAGDTVTLQLADIEVNQLRPGDILSNYENPVRRVRSFVAEIQTFDIHGPILSGSTLVLHLGRTVT  526 (592)
T ss_dssp             ETTCEEEEEESSSCGGGCCTTCEEECSSSCCEEESEEEEEEEECSCSSCEETTEEEEEECSSCEE
T ss_pred             cCCCEEEEEEccccccccceEEEeccCCCCccccCeEEEEEEEECCCccCCCCCEEEEEEcCcEE
Confidence            99999999999999999999999999877777778888877666666667777777776655443

>3izq_1 HBS1P, elongation factor 1 alpha-like protein; NO-GO mRNA decay, ribosomal protein,hydrolase; 9.50A {Saccharomyces cerevisiae}

Probab=99.81  E-value=2e-20  Score=165.61  Aligned_cols=143  Identities=14%  Similarity=0.114  Sum_probs=121.9

Q ss_pred             hHHHHHhhhC---CC--CCCCCCCCeeEEEeeEEeec---CCcEEEEEEEEEEEEecCCEEEEeecCceeeEEEEEEEec
Q psy9646           2 ELLNQIDTYI---PQ--PVRDLDKPFYLPVEHTYSIP---GRGTVVTGRLERGIVKKGMECEFTGYGRQFKTTVTGIEMF   73 (211)
Q Consensus         2 ~ll~~l~~~i---~~--p~~~~~~p~~~~v~~~~~~~---~~G~v~~G~v~~G~i~~g~~v~i~p~~~~~~~~v~~i~~~   73 (211)
                      +|++.|+...   |.  |.+..+.||||+|+++|+++   +.|++++|+|++|.+++||.|.++|++.  +++|++|+++
T Consensus       376 ~L~~~L~~l~~~~p~~~p~~~~~~p~r~~V~~v~~~~~~~g~g~v~~G~V~~G~lk~Gd~v~~~p~~~--~~~VksI~~~  453 (611)
T 3izq_1          376 NLMSTLENAAFKISKENEGINKDDPFLFSVLEIIPSKKTSNDLALVSGKLESGSIQPGESLTIYPSEQ--SCIVDKIQVG  453 (611)
T ss_dssp             CHHHHHTTSCCCCCCSSSCCSCCSCCEEECCEEECCSSSCSSSSEEEEEEEESEECTTCEEEETTTTE--EEEEEEEECS
T ss_pred             cHHHHHHHHhhcccccCcccccccchhhheeeeeccCccCCCeeEEEEEEEeceeccCCEEEEecCCc--eEEEEEEEEc
Confidence            4677777732   22  45678899999999999988   5899999999999999999999999975  8999999999


Q ss_pred             c--------eecceecccCceehhccCCCcccccccccccccch-hhhhhhhcccccccccchhhcccceEEeEeEEEee
Q psy9646          74 H--------KILDEAQAGDQLGALVKGMKRDEVNRGLIMAKPVL-ADKKLAKVKQYADIDNAPEEKARGITINVAHVEYA  144 (211)
Q Consensus        74 ~--------~~~~~a~~G~~v~~~l~~~~~~~v~~G~ii~~~~~-~~~~~~~f~~~i~~~~~~~e~~rg~tv~~~~~~~~  144 (211)
                      +        +++++|.|||+|+++|++.+..+++||++++.+.. ++..+..|.+.+....++.....|++..+++++..
T Consensus       454 ~~~~~~~~~~~v~~A~aGd~v~l~l~~~~~~di~rGdvl~~~~~~~~~~~~~f~a~v~~l~~~~~l~~g~~~~l~~~t~~  533 (611)
T 3izq_1          454 SQQGQSTNHEETDVAIKGDFVTLKLRKAYPEDIQNGDLAASVDYSSIHSAQCFVLELTTFDMNRPLLPGTPFILFIGVKE  533 (611)
T ss_dssp             SCCSCSSSCCCCCCEETTCEEEEEESSCCTTSCCTTCEEBCSTTCSCCCBSCEEEEEEECSCSSCBCTTEEEEEESSSCE
T ss_pred             ccccccccccccceecCCCcceEEeeeccHhhCcceEEccCCCCCCCceeeEEEEEEEEECCCCCCCCCCEEEEEECCeE
Confidence            4        79999999999999999999999999999999877 77888889998876666777788888887766655


Q ss_pred             eC
Q psy9646         145 TE  146 (211)
Q Consensus       145 ~~  146 (211)
                      ..
T Consensus       534 ~~  535 (611)
T 3izq_1          534 QP  535 (611)
T ss_dssp             EE
T ss_pred             ee
Confidence            43

>3vqt_A RF-3, peptide chain release factor 3; translation, GTPase; HET: GDP; 1.80A {Desulfovibrio vulgaris} PDB: 3vr1_A*

Probab=99.80  E-value=6.2e-20  Score=160.54  Aligned_cols=90  Identities=26%  Similarity=0.470  Sum_probs=73.4

Q ss_pred             cccccchhhcccceEEeEeEEEeeeCCceeEeecCCcccccHhHHhhhccccceEEEEEeccCCCCcchHHHHHHHHHcC
Q psy9646         121 ADIDNAPEEKARGITINVAHVEYATENRHYSHTDCPGHADYIKNMITGTSQMDGAILVVAATDGAMPQTREHLLLAKQIG  200 (211)
Q Consensus       121 i~~~~~~~e~~rg~tv~~~~~~~~~~~~~~~~iDtPG~~~~~~~~~~~~~~~d~~~~vvd~~~~~~~~~~~~~~~~~~~~  200 (211)
                      ..+|..+.|+.||+|+.++..++.++++++++||||||.||..++.++++.+|+||+||||.+|+++||+.+|++|.+.+
T Consensus        73 ~~~D~~~~EreRGITI~s~~~~~~~~~~~iNlIDTPGHvDF~~Ev~raL~~~DgAvlVvda~~GV~~qT~~v~~~a~~~~  152 (548)
T 3vqt_A           73 ATSDWMAMERERGISVTTSVMQFPYRDRVVNLLDTPGHQDFSEDTYRVLTAVDSALVVIDAAKGVEAQTRKLMDVCRMRA  152 (548)
T ss_dssp             ---------------CTTTEEEEEETTEEEEEECCCCGGGCSHHHHHHHHSCSEEEEEEETTTBSCHHHHHHHHHHHHTT
T ss_pred             cccCChHHHHHCCCcEeeceEEEEECCEEEEEEeCCCcHHHHHHHHHHHHhcCceEEEeecCCCcccccHHHHHHHHHhC
Confidence            35899999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             CCeEEEEEeCC
Q psy9646         201 VTNIVVFINKF  211 (211)
Q Consensus       201 ~~~~i~~inK~  211 (211)
                      +| .|++||||
T Consensus       153 lp-~i~fINK~  162 (548)
T 3vqt_A          153 TP-VMTFVNKM  162 (548)
T ss_dssp             CC-EEEEEECT
T ss_pred             Cc-eEEEEecc
Confidence            99 66899997

>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=99.79  E-value=2.7e-20  Score=160.25  Aligned_cols=135  Identities=21%  Similarity=0.340  Sum_probs=116.7

Q ss_pred             hHHHHHhhhCCCCCCCCCCCeeEEEeeEEeecCCcEEEEEEEEEEEEecCCEEEEeecCceeeEEEEEEEec-ceeccee
Q psy9646           2 ELLNQIDTYIPQPVRDLDKPFYLPVEHTYSIPGRGTVVTGRLERGIVKKGMECEFTGYGRQFKTTVTGIEMF-HKILDEA   80 (211)
Q Consensus         2 ~ll~~l~~~i~~p~~~~~~p~~~~v~~~~~~~~~G~v~~G~v~~G~i~~g~~v~i~p~~~~~~~~v~~i~~~-~~~~~~a   80 (211)
                      +|++.|++ +++|.++.++||+|||+++|+  +.|++++|+|++|.+++||.|.++|++.  .++|++|+++ ++++++|
T Consensus       255 ~L~~~l~~-i~~~~~~~~~p~~~~v~~~~~--~~G~v~~G~v~~G~l~~gd~v~~~p~~~--~~~V~~i~~~~~~~~~~a  329 (467)
T 1r5b_A          255 SLLEYLDS-MTHLERKVNAPFIMPIASKYK--DLGTILEGKIEAGSIKKNSNVLVMPINQ--TLEVTAIYDEADEEISSS  329 (467)
T ss_dssp             CHHHHHHH-CCCCHHHHTSCCEEECCEEEE--SSSEEEEEECCBSEEETTEEEEEETTTE--EEEEEEEECTTCCEESEE
T ss_pred             hHHHHHHh-CCCCcCCCCCCcEEEEEEEEe--CCCeEEEEEEeeeEEeeCCEEEEccCCe--eEEEEEEeccCCcEeeEE
Confidence            47888888 888888889999999999987  5789999999999999999999999974  8899999998 8999999


Q ss_pred             cccCceehhccCCCcccccccccccccchhhhhhhhcccccccccchhhcccceEEeEeEEE
Q psy9646          81 QAGDQLGALVKGMKRDEVNRGLIMAKPVLADKKLAKVKQYADIDNAPEEKARGITINVAHVE  142 (211)
Q Consensus        81 ~~G~~v~~~l~~~~~~~v~~G~ii~~~~~~~~~~~~f~~~i~~~~~~~e~~rg~tv~~~~~~  142 (211)
                      .|||+|+++|++ +..++++|++++.+..++.....|.+.+....++.....|+...+++++
T Consensus       330 ~aG~~v~i~l~g-~~~~i~rG~vl~~~~~~~~~~~~f~a~v~~l~~~~~~~~g~~~~~~~~t  390 (467)
T 1r5b_A          330 ICGDQVRLRVRG-DDSDVQTGYVLTSTKNPVHATTRFIAQIAILELPSILTTGYSCVMHIHT  390 (467)
T ss_dssp             ETTCEEEEEEES-CCTTCCTTCEEECSSSCCCEEEEEEEEEEECSSCCCBSSCCCBEEESSS
T ss_pred             cCCCEEEEEEec-cHhhCCceEEEeCCCCCCccceEEEEEEEEeCCCCccCCCCEEEEEEeC
Confidence            999999999998 8899999999999877777888899888766666556667655554444

>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=99.79  E-value=4e-19  Score=150.35  Aligned_cols=143  Identities=17%  Similarity=0.213  Sum_probs=117.8

Q ss_pred             hHHHHHhhhCCCCCCCCCCCeeEEEeeEEeecC--------CcEEEEEEEEEEEEecCCEEEEeecCce----------e
Q psy9646           2 ELLNQIDTYIPQPVRDLDKPFYLPVEHTYSIPG--------RGTVVTGRLERGIVKKGMECEFTGYGRQ----------F   63 (211)
Q Consensus         2 ~ll~~l~~~i~~p~~~~~~p~~~~v~~~~~~~~--------~G~v~~G~v~~G~i~~g~~v~i~p~~~~----------~   63 (211)
                      +|+++|.+.++.|.++.++||+|+|+++|++++        +|++++|+|.+|.+++||+|.+.|++..          .
T Consensus       181 ~L~~~l~~~l~~~~~~~~~~~~~~v~~~~~v~~~~~~~~~~~G~v~~g~v~~G~~~~gd~v~~~p~~~~~~~~~~~~~~~  260 (403)
T 3sjy_A          181 SLIEGIEEYIKTPYRDLSQKPVMLVIRSFDVNKPGTQFNELKGGVIGGSIIQGLFKVDQEIKVLPGLRVEKQGKVSYEPI  260 (403)
T ss_dssp             HHHHHHHHHSCCCCCCTTSCCEEEEEEEECCCCTTCCSSSCCCCEEEEEEEESCEETTCEEEEEEEEEEEETTEEEEEEE
T ss_pred             HHHHHHHHhCCCCCCCCCCCcEEEEEEEEeecCCCcccccCcCcEEEEEEEeCEEecCCEEEEeCCcccccccccccccc
Confidence            588999988888888899999999999998766        8999999999999999999999997631          2


Q ss_pred             eEEEEEEEecceecceecccCceehhcc---CCCcccccccccccccchhhhhhhhcccccccccc---------hhhcc
Q psy9646          64 KTTVTGIEMFHKILDEAQAGDQLGALVK---GMKRDEVNRGLIMAKPVLADKKLAKVKQYADIDNA---------PEEKA  131 (211)
Q Consensus        64 ~~~v~~i~~~~~~~~~a~~G~~v~~~l~---~~~~~~v~~G~ii~~~~~~~~~~~~f~~~i~~~~~---------~~e~~  131 (211)
                      .++|++|+++++++++|.|||+|+++++   +++..++.+|++++.+...+.....|.+.+....+         +....
T Consensus       261 ~~~v~~i~~~~~~~~~a~~G~~v~~~l~~~~~~~~~d~~~G~vl~~~~~~~~~~~~~~a~~~~l~~~~~~~~~~~~~~l~  340 (403)
T 3sjy_A          261 FTKISSIRFGDEEFKEAKPGGLVAIGTYLDPSLTKADNLLGSIITLADAEVPVLWNIRIKYNLLERVVGAKEMLKVDPIR  340 (403)
T ss_dssp             EEEEEEEEETTEEESEECSSSCEEEEESSCHHHHGGGTTTTCEEEETTCCCCEEEEEEEEEEECSBCTTCSSCCBCCCCC
T ss_pred             cEEEEEEEECCEEcCEEeCCCEEEEEeccccccchhhhccccEEeCCCCCCcceeEEEEEEEEEeccccccccccCCCCC
Confidence            5799999999999999999999999886   55678999999999988777767778877764432         34455


Q ss_pred             cceEEeEeEEEee
Q psy9646         132 RGITINVAHVEYA  144 (211)
Q Consensus       132 rg~tv~~~~~~~~  144 (211)
                      .|+.+.+++.+.+
T Consensus       341 ~~~~~~~~~gt~~  353 (403)
T 3sjy_A          341 AKETLMLSVGSST  353 (403)
T ss_dssp             TTCEEEEEETTEE
T ss_pred             CCCEEEEEECccE
Confidence            5666666555444

>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=99.78  E-value=6.2e-19  Score=149.45  Aligned_cols=143  Identities=22%  Similarity=0.297  Sum_probs=118.0

Q ss_pred             hHHHHHhhhCCCCCCCCCCCeeEEEeeEEeecC--------CcEEEEEEEEEEEEecCCEEEEeecCc----------ee
Q psy9646           2 ELLNQIDTYIPQPVRDLDKPFYLPVEHTYSIPG--------RGTVVTGRLERGIVKKGMECEFTGYGR----------QF   63 (211)
Q Consensus         2 ~ll~~l~~~i~~p~~~~~~p~~~~v~~~~~~~~--------~G~v~~G~v~~G~i~~g~~v~i~p~~~----------~~   63 (211)
                      +|+++|.+.++.|.++.++||+|+|+++|++++        +|++++|+|.+|.+++||.|.+.|++.          ..
T Consensus       187 ~L~~~l~~~i~~~~~~~~~~~~~~v~~~f~v~~~g~~~~~~~G~v~~g~v~~G~l~~gd~v~~~p~~~~~~~~~~~~~~~  266 (408)
T 1s0u_A          187 VLLKAIQDFIPTPKRDPDATPRMYVARSFDINKPGTEIKDLKGGVLGGAIIQGVFKVGDEIEIRPGIKVTEGNKTFWKPL  266 (408)
T ss_dssp             HHHHHHHHHSCCCCCCTTSCCEEEEEEEECCCCSSCCGGGCCCCEEEEEEEESCEETTCEEEEEEEEEECCTTCCEEEEE
T ss_pred             HHHHHHHHhCCCCcccCCCCeEEEEEEEEeecCCCcccccCceeEEEEEEEECeEecCCEEEEcCCcccccccccccccc
Confidence            588999988888888999999999999998764        788999999999999999999999642          13


Q ss_pred             eEEEEEEEecceecceecccCceehhcc---CCCcccccccccccccchhhhhhhhcccccccccch---------hhcc
Q psy9646          64 KTTVTGIEMFHKILDEAQAGDQLGALVK---GMKRDEVNRGLIMAKPVLADKKLAKVKQYADIDNAP---------EEKA  131 (211)
Q Consensus        64 ~~~v~~i~~~~~~~~~a~~G~~v~~~l~---~~~~~~v~~G~ii~~~~~~~~~~~~f~~~i~~~~~~---------~e~~  131 (211)
                      .++|++|+++++++++|.|||+|+++++   +++..++++|++++.+..++.....|.+.+....++         ....
T Consensus       267 ~~~v~~i~~~~~~~~~a~~G~~v~~~~~~~~~~~~~~~~~G~vl~~~~~~~~~~~~~~a~~~~l~~~~g~~~~~~~~~l~  346 (408)
T 1s0u_A          267 TTKIVSLAAGNTILRKAHPGGLIGVGTTLDPYLTKSDALTGSVVGLPGTLPPIREKITIRANLLDRVVGTKEELKIEPLR  346 (408)
T ss_dssp             EEECCEEEETTEEESEECSSSCEEEECSSCGGGTGGGTTTTCEEESTTCSCCEEEEEEEEEEECCCCSSCSSTTCCCCCC
T ss_pred             eeEEEEEEECCEEcCEEeCCCeEEEEeccCcccchhhccceeEEECCCCCCceeEEEEEEEEEEeccccccccccccCCC
Confidence            6899999999999999999999999887   567789999999998877666667787776554442         4566


Q ss_pred             cceEEeEeEEEee
Q psy9646         132 RGITINVAHVEYA  144 (211)
Q Consensus       132 rg~tv~~~~~~~~  144 (211)
                      .|+...++.++..
T Consensus       347 ~g~~~~~~~~t~~  359 (408)
T 1s0u_A          347 TGEVLMLNIGTAT  359 (408)
T ss_dssp             TTCEEEEEETTEE
T ss_pred             CCCEEEEEEcCCE
Confidence            6777666655443

>3j25_A Tetracycline resistance protein TETM; antibiotic resistance, translation; HET: GCP; 7.20A {Enterococcus faecalis}

Probab=99.77  E-value=5.9e-20  Score=163.49  Aligned_cols=89  Identities=36%  Similarity=0.594  Sum_probs=86.1

Q ss_pred             ccccchhhcccceEEeEeEEEeeeCCceeEeecCCcccccHhHHhhhccccceEEEEEeccCCCCcchHHHHHHHHHcCC
Q psy9646         122 DIDNAPEEKARGITINVAHVEYATENRHYSHTDCPGHADYIKNMITGTSQMDGAILVVAATDGAMPQTREHLLLAKQIGV  201 (211)
Q Consensus       122 ~~~~~~~e~~rg~tv~~~~~~~~~~~~~~~~iDtPG~~~~~~~~~~~~~~~d~~~~vvd~~~~~~~~~~~~~~~~~~~~~  201 (211)
                      .+|.++.|+.||+|+.++..++.++++++++||||||.||..++.++++.+|++|+||||.+|+++||+.+|++|.+.++
T Consensus        41 ~~D~~~~EreRGITI~s~~~~~~~~~~~iNlIDTPGH~DF~~Ev~raL~~~DgavlVVDa~~GV~~qT~~v~~~a~~~~l  120 (638)
T 3j25_A           41 RTDNTLLERQRGITIQTGITSFQWENTKVNIIDTPGHMDFLAEVYRSLSVLDGAILLISAKDGVQAQTRILFHALRKMGI  120 (638)
T ss_dssp             STTCSTTHHHHSSCSSCCCCCCBCSSCBCCCEECCCSSSTHHHHHHHHTTCSEEECCEESSCTTCSHHHHHHHHHHHHTC
T ss_pred             ccCCcHHHHhCCCcEEeeeEEEEECCEEEEEEECCCcHHHHHHHHHHHHHhCEEEEEEeCCCCCcHHHHHHHHHHHHcCC
Confidence            48999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             CeEEEEEeCC
Q psy9646         202 TNIVVFINKF  211 (211)
Q Consensus       202 ~~~i~~inK~  211 (211)
                      | .|++||||
T Consensus       121 p-~i~~INKm  129 (638)
T 3j25_A          121 P-TIFFINKI  129 (638)
T ss_dssp             S-CEECCEEC
T ss_pred             C-eEEEEecc
Confidence            9 56899997

>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=99.76  E-value=9e-19  Score=161.73  Aligned_cols=122  Identities=51%  Similarity=0.859  Sum_probs=108.6

Q ss_pred             hHHHHHhhhCCCCCCCCCCCeeEEEeeEEeecCCcEEEEEEEEEEEEecCCEEEEeecCceeeEEEEEEEecceecceec
Q psy9646           2 ELLNQIDTYIPQPVRDLDKPFYLPVEHTYSIPGRGTVVTGRLERGIVKKGMECEFTGYGRQFKTTVTGIEMFHKILDEAQ   81 (211)
Q Consensus         2 ~ll~~l~~~i~~p~~~~~~p~~~~v~~~~~~~~~G~v~~G~v~~G~i~~g~~v~i~p~~~~~~~~v~~i~~~~~~~~~a~   81 (211)
                      +|+++|++.+|.|.++.++||+|||+++|++++.|++++|+|.+|.+++||+|.+.|.+...+++|++|+++++++++|.
T Consensus       475 eLleaL~~~Ip~P~r~~d~Pfr~pId~Vf~i~G~GtVvtGrV~sGtLkvGD~V~I~ps~~~~~~kVksI~~~~~~v~eA~  554 (1289)
T 3avx_A          475 ELAGFLDSYIPEPERAIDKPFLLPIEDVFSISGRGTVVTGRVERGIIKVGEEVEIVGIKETQKSTCTGVEMFRKLLDEGR  554 (1289)
T ss_dssp             HHHHHHHHTSCCCCCGGGSCCEEECCEEEEETTTEEEEEEECCBSEEETTCEEEEESSSSCEEEEEEEEECSSCEESEEE
T ss_pred             hhHhHHhhhcCCCccccccceeeeccccccccCCcEEEEEEEeccEEecCCEEEEecCCCceeEEEEEEeecCceeeEEe
Confidence            58899999888888888999999999999999999999999999999999999999986335789999999999999999


Q ss_pred             ccCceehhccCCCcccccccccccccchhhhhhhhcccccccc
Q psy9646          82 AGDQLGALVKGMKRDEVNRGLIMAKPVLADKKLAKVKQYADID  124 (211)
Q Consensus        82 ~G~~v~~~l~~~~~~~v~~G~ii~~~~~~~~~~~~f~~~i~~~  124 (211)
                      |||+|+++|++++..++++|++++.+.. +.....|.+.+...
T Consensus       555 AGd~Vgl~L~GI~~~dI~RGdVL~~~~~-~~~~~~F~A~V~~L  596 (1289)
T 3avx_A          555 AGENVGVLLRGIKREEIERGQVLAKPGT-IKPHTKFESEVYIL  596 (1289)
T ss_dssp             TTCEEEEEESSCCGGGCCTTCEEESTTS-CCEEEEEEEEEEEC
T ss_pred             cCCcceeEeeecchhcCCcccEEecCCC-CccceeEEEEEEEE
Confidence            9999999999999999999999998664 34456677766443

>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=99.75  E-value=6.1e-18  Score=143.40  Aligned_cols=143  Identities=20%  Similarity=0.274  Sum_probs=116.7

Q ss_pred             hHHHHHhhhCCCCCCCCCCCeeEEEeeEEeecC--------CcEEEEEEEEEEEEecCCEEEEeecCc----------ee
Q psy9646           2 ELLNQIDTYIPQPVRDLDKPFYLPVEHTYSIPG--------RGTVVTGRLERGIVKKGMECEFTGYGR----------QF   63 (211)
Q Consensus         2 ~ll~~l~~~i~~p~~~~~~p~~~~v~~~~~~~~--------~G~v~~G~v~~G~i~~g~~v~i~p~~~----------~~   63 (211)
                      +|+++|.+.++.|.++.+.||+|+|+++|++++        +|++++|+|.+|.+++||+|.++|+++          ..
T Consensus       189 ~L~~~l~~~~~~p~~~~~~~~~~~v~~~f~v~~~g~~~~~~~G~v~~g~v~~G~l~~gd~v~~~p~~~~~~~g~~~~~~~  268 (410)
T 1kk1_A          189 VLVKAIEDFIPTPKRDPNKPPKMLVLRSFDVNKPGTPPEKLVGGVLDGSIVQGKLKVGDEIEIRPGVPYEEHGRIKYEPI  268 (410)
T ss_dssp             HHHHHHHHHSCCCCCCTTSCCEEEEEEEECCSCCC----CCCCCEEEEEEEESCEETTCEEEEEEEEEEEETTEEEEEEE
T ss_pred             HHHHHHHHhCCCCccccCCCcEEEEEEEEeccCCCccccCCceEEEEEEEEeCeEeeCCEEEECCCCccccccccccccc
Confidence            588999988888888889999999999998753        788999999999999999999999742          12


Q ss_pred             eEEEEEEEecceecceecccCceehhcc---CCCcccccccccccccchhhhhhhhcccccccccch---------hhcc
Q psy9646          64 KTTVTGIEMFHKILDEAQAGDQLGALVK---GMKRDEVNRGLIMAKPVLADKKLAKVKQYADIDNAP---------EEKA  131 (211)
Q Consensus        64 ~~~v~~i~~~~~~~~~a~~G~~v~~~l~---~~~~~~v~~G~ii~~~~~~~~~~~~f~~~i~~~~~~---------~e~~  131 (211)
                      .++|++|+++++++++|.|||++++.++   +....++.+|++++.+..++.....|.+.+....++         ....
T Consensus       269 ~~~v~~i~~~~~~v~~a~aG~~v~~~~~~~~~~~~~d~~~G~vl~~~~~~~~~~~~~~a~~~~l~~~~g~~~~~~~~~l~  348 (410)
T 1kk1_A          269 TTEIVSLQAGGQFVEEAYPGGLVGVGTKLDPYLTKGDLMAGNVVGKPGKLPPVWDSLRLEVHLLERVVGTEQELKVEPIK  348 (410)
T ss_dssp             EEEEEEEEETTEEESEECSSSCEEEEESSCGGGTGGGTTTTCEEECTTCSCCEEEEEEEEEEECCCCC--CCCCSCCCCC
T ss_pred             eeEEEEEEECCeEecEEcCCCEEEEEEecCcccchhhccceeEEecCCCCCceeEEEEEEEEEEecccccccccccccCC
Confidence            6899999999999999999999999886   455688999999998877766677788776554442         4556


Q ss_pred             cceEEeEeEEEee
Q psy9646         132 RGITINVAHVEYA  144 (211)
Q Consensus       132 rg~tv~~~~~~~~  144 (211)
                      .|+...+++++..
T Consensus       349 ~g~~~~~~~~t~~  361 (410)
T 1kk1_A          349 RKEVLLLNVGTAR  361 (410)
T ss_dssp             TTCEEEEEETTEE
T ss_pred             CCCEEEEEEcCCE
Confidence            6666666655443

>4fn5_A EF-G 1, elongation factor G 1; translation, translation-antibiotic compl; HET: 0UO; 2.90A {Pseudomonas aeruginosa}

Probab=99.75  E-value=2e-18  Score=155.46  Aligned_cols=89  Identities=33%  Similarity=0.477  Sum_probs=69.2

Q ss_pred             ccccchhhcccceEEeEeEEEeeeC-------CceeEeecCCcccccHhHHhhhccccceEEEEEeccCCCCcchHHHHH
Q psy9646         122 DIDNAPEEKARGITINVAHVEYATE-------NRHYSHTDCPGHADYIKNMITGTSQMDGAILVVAATDGAMPQTREHLL  194 (211)
Q Consensus       122 ~~~~~~~e~~rg~tv~~~~~~~~~~-------~~~~~~iDtPG~~~~~~~~~~~~~~~d~~~~vvd~~~~~~~~~~~~~~  194 (211)
                      .+|.++.|+.||+|+.++..++.++       ++.+++||||||.||..++.++++.+|+||+||||.+|++.||+.+|+
T Consensus        52 ~~D~~~~E~eRGITI~s~~~s~~~~~~~~~~~~~~iNlIDTPGHvDF~~Ev~~aLr~~DgavlvVDaveGV~~qT~~v~~  131 (709)
T 4fn5_A           52 TTDWMVQEQERGITITSAAVTTFWKGSRGQYDNYRVNVIDTPGHVDFTIEVERSLRVLDGAVVVFCGTSGVEPQSETVWR  131 (709)
T ss_dssp             ----------------CCEEEEEECCTTSCSCCEEEEEECCCSCTTCHHHHHHHHHHCSEEEEEEETTTCSCHHHHHHHH
T ss_pred             cCCChHHHHHcCCeEEeeeEEEEeccCcCCCCCEEEEEEeCCCCcccHHHHHHHHHHhCeEEEEEECCCCCchhHHHHHH
Confidence            5899999999999999999888775       578999999999999999999999999999999999999999999999


Q ss_pred             HHHHcCCCeEEEEEeCC
Q psy9646         195 LAKQIGVTNIVVFINKF  211 (211)
Q Consensus       195 ~~~~~~~~~~i~~inK~  211 (211)
                      +|.+.++| .|++||||
T Consensus       132 ~a~~~~lp-~i~~iNKi  147 (709)
T 4fn5_A          132 QANKYGVP-RIVYVNKM  147 (709)
T ss_dssp             HHHHHTCC-EEEEEECS
T ss_pred             HHHHcCCC-eEEEEccc
Confidence            99999999 66899997

>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=99.74  E-value=2.2e-18  Score=147.18  Aligned_cols=135  Identities=17%  Similarity=0.184  Sum_probs=112.8

Q ss_pred             HHHHHhhhCCCCCCCCCCCeeEEEeeEEeecCCcEEEEEEEEEEEEecCCEEEEeecCceeeEEEEEEEecceecceecc
Q psy9646           3 LLNQIDTYIPQPVRDLDKPFYLPVEHTYSIPGRGTVVTGRLERGIVKKGMECEFTGYGRQFKTTVTGIEMFHKILDEAQA   82 (211)
Q Consensus         3 ll~~l~~~i~~p~~~~~~p~~~~v~~~~~~~~~G~v~~G~v~~G~i~~g~~v~i~p~~~~~~~~v~~i~~~~~~~~~a~~   82 (211)
                      |++.|+. +++|.+..+.||+|||+++++.++.|+.+.|+|.+|.+++||+|.++|++.  .++|++|++++.++++|.|
T Consensus       226 L~~~l~~-i~~~~~~~~~~~~~~v~~v~~~~~~~~g~~G~v~~G~l~~gd~v~~~p~~~--~~~V~~i~~~~~~~~~a~a  302 (434)
T 1zun_B          226 LMEILET-VEIASDRNYTDLRFPVQYVNRPNLNFRGFAGTLASGIVHKGDEIVVLPSGK--SSRVKSIVTFEGELEQAGP  302 (434)
T ss_dssp             TTHHHHH-SCCTTCCCSSSCEEECCEEECSSSSCCEEEEECCBSCEETTCEEEETTTCC--EEEEEEEEETTEEESEECT
T ss_pred             HHHHHhc-CCCcccCCCCCcEEEEEEEeccCCCceEEEEEEecceEeCCCEEEEecCCe--EEEEEEEEEcCcceeEecC
Confidence            7787777 788888889999999999999888888899999999999999999999874  8899999999999999999


Q ss_pred             cCceehhccCCCcccccccccccccchhhhhhhhcccccccccchhhcccceEEeEeEEEe
Q psy9646          83 GDQLGALVKGMKRDEVNRGLIMAKPVLADKKLAKVKQYADIDNAPEEKARGITINVAHVEY  143 (211)
Q Consensus        83 G~~v~~~l~~~~~~~v~~G~ii~~~~~~~~~~~~f~~~i~~~~~~~e~~rg~tv~~~~~~~  143 (211)
                      ||+|+++++  +..++++|++++.+..++.....|.+.+.... +.....|+...+++++.
T Consensus       303 G~~v~~~l~--~~~~i~~G~~l~~~~~~~~~~~~f~a~~~~l~-~~~l~~g~~~~~~~~t~  360 (434)
T 1zun_B          303 GQAVTLTME--DEIDISRGDLLVHADNVPQVSDAFDAMLVWMA-EEPMLPGKKYDIKRATS  360 (434)
T ss_dssp             TCEEEEEES--SCCCCCTTCEEEETTSCCCEEEEEEEEEEECC-SSCBCTTCCEEEECSSC
T ss_pred             CCEEEEEeC--CccccCCccEEECCCCCCCcccEEEEEEEEec-cccCCCCCEEEEEEcCC
Confidence            999999998  35689999999988777677778888775442 33455566555554443

>2elf_A Protein translation elongation factor 1A; tRNA, pyrrolysine, structural genomics, NPPSFA; HET: CIT; 1.70A {Methanosarcina mazei}

Probab=99.73  E-value=1.4e-18  Score=145.44  Aligned_cols=140  Identities=17%  Similarity=0.287  Sum_probs=111.1

Q ss_pred             hHHHHHhhhCCCC---CCC-CCCCeeEEEeeEEeecCCcEEEEEEEEEEEEecCCEEEEeecCceeeEEEEEEEecceec
Q psy9646           2 ELLNQIDTYIPQP---VRD-LDKPFYLPVEHTYSIPGRGTVVTGRLERGIVKKGMECEFTGYGRQFKTTVTGIEMFHKIL   77 (211)
Q Consensus         2 ~ll~~l~~~i~~p---~~~-~~~p~~~~v~~~~~~~~~G~v~~G~v~~G~i~~g~~v~i~p~~~~~~~~v~~i~~~~~~~   77 (211)
                      +|+++|.+.++.|   ... ...|++++|+++|++++.|++++|+|++|.+++||+|.+.|.+.  .++|++|+++++++
T Consensus       169 ~L~~~l~~~~~~~~~~~~~~~~~p~r~~v~~vf~~~~~G~v~~g~v~~G~l~~gd~v~~~p~~~--~~~V~~i~~~~~~v  246 (370)
T 2elf_A          169 ELKARINEVAEKIEAENAELNSLPARIFIDHAFNVTGKGCVVLGVVKQGISKDKDKTKIFPLDR--DIEIRSIQSHDVDI  246 (370)
T ss_dssp             HHHHHHHHHHHHHHHHHHHGGGSCCEEEEEEEECCC---CEEEEEEEESEEETTCEEEEETTTE--EEEEEEEEETTEEE
T ss_pred             HHHHHHHhhccccccCCcccccccccccceeEEEcCCCceEEEEEEECCEEeeCCEEEECCCCc--EEEEeEEEECCCCc
Confidence            3566666654432   112 34567888999999999999999999999999999999999974  89999999999999


Q ss_pred             ceecccCceehhccCCCcccccccccccccchhhhhhhhcccccccccchhhcccceEEeEeEEEeeeC
Q psy9646          78 DEAQAGDQLGALVKGMKRDEVNRGLIMAKPVLADKKLAKVKQYADIDNAPEEKARGITINVAHVEYATE  146 (211)
Q Consensus        78 ~~a~~G~~v~~~l~~~~~~~v~~G~ii~~~~~~~~~~~~f~~~i~~~~~~~e~~rg~tv~~~~~~~~~~  146 (211)
                      ++|.|||+|++.|++++..++++|++++.  .+ .....|.+.+....++.....|+...+.+++....
T Consensus       247 ~~a~aGd~v~i~l~gv~~~~i~~Gdvl~~--~~-~~~~~f~a~v~~l~~~~~i~~g~~~~~~~~t~~~~  312 (370)
T 2elf_A          247 DSAPAGTRVGMRLKNVQAKDIERGFIISD--KE-IVTTDYTLECTVSKFTKKIEPASVLHLFVGLQSEP  312 (370)
T ss_dssp             SEEETTCEEEEEEESCCGGGCCTTCEEES--CC-EEEEEEEEEEEECTTSCCBCTTCEEEEEETTEEEE
T ss_pred             cEEcCCCcceEEEeccCHHHcCCceEEEC--CC-ceeEEEEEEEEEECCCCCCCCCCEEEEEEcCCEEE
Confidence            99999999999999999999999999998  34 66777888776655566677788877766555443

>3j2k_7 ERF3, eukaryotic polypeptide chain release factor 3; rabbit 80S ribosome, ribosome-translation complex; 17.00A {Oryctolagus cuniculus}

Probab=99.71  E-value=2.3e-17  Score=140.93  Aligned_cols=100  Identities=40%  Similarity=0.646  Sum_probs=92.8

Q ss_pred             hhhhhcccccccccchhhcccceEEeEeEEEeeeCCceeEeecCCcccccHhHHhhhccccceEEEEEeccCCCC-----
Q psy9646         112 KKLAKVKQYADIDNAPEEKARGITINVAHVEYATENRHYSHTDCPGHADYIKNMITGTSQMDGAILVVAATDGAM-----  186 (211)
Q Consensus       112 ~~~~~f~~~i~~~~~~~e~~rg~tv~~~~~~~~~~~~~~~~iDtPG~~~~~~~~~~~~~~~d~~~~vvd~~~~~~-----  186 (211)
                      .++.+|...+.++..+.|+.+|+|++..+..+++++.+++|+|||||++|.+++..+++.+|++++|+|+.+|++     
T Consensus        59 ~g~~~~~~a~~~d~~~~er~~GiTid~~~~~~~~~~~~~~iiDTPGh~~f~~~~~~~~~~aD~~ilVVDa~~g~~e~~~~  138 (439)
T 3j2k_7           59 KNRETWYLSWALDTNQEERDKGKTVEVGRAYFETEKKHFTILDAPGHKSFVPNMIGGASQADLAVLVISARKGEFETGFE  138 (439)
T ss_pred             ccccchhhhhhhccchhHhhcCceEEEeEEEEecCCeEEEEEECCChHHHHHHHHhhHhhCCEEEEEEECCCCccccccC
Confidence            345567777789999999999999999999999999999999999999999999999999999999999999987     


Q ss_pred             --cchHHHHHHHHHcCCCeEEEEEeCC
Q psy9646         187 --PQTREHLLLAKQIGVTNIVVFINKF  211 (211)
Q Consensus       187 --~~~~~~~~~~~~~~~~~~i~~inK~  211 (211)
                        +|+++|+.++...++|++|+++||+
T Consensus       139 ~~~qt~e~l~~~~~~~v~~iIvviNK~  165 (439)
T 3j2k_7          139 KGGQTREHAMLAKTAGVKHLIVLINKM  165 (439)
T ss_pred             CCchHHHHHHHHHHcCCCeEEEEeecC
Confidence              7999999999999999888999997

>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=99.70  E-value=7.1e-19  Score=151.89  Aligned_cols=141  Identities=28%  Similarity=0.445  Sum_probs=116.8

Q ss_pred             hHHHHHhhhCCCC--CCCCCCCeeEEEeeEEeecCCcEEEEEEEEEEEEecCCEEEEeecCceeeEEEEEEEecceecce
Q psy9646           2 ELLNQIDTYIPQP--VRDLDKPFYLPVEHTYSIPGRGTVVTGRLERGIVKKGMECEFTGYGRQFKTTVTGIEMFHKILDE   79 (211)
Q Consensus         2 ~ll~~l~~~i~~p--~~~~~~p~~~~v~~~~~~~~~G~v~~G~v~~G~i~~g~~v~i~p~~~~~~~~v~~i~~~~~~~~~   79 (211)
                      +|+++|.+.++.|  .++.++||+|||+++|++++.|++++|+|.+|.+++||.+.+.|.+.  .++|++|+++++++++
T Consensus       178 ~L~~~L~~~i~~~~~~~~~~~~~~~~v~~v~~~~g~G~v~~g~v~~G~l~~gd~v~~~p~~~--~~~V~~i~~~~~~v~~  255 (482)
T 1wb1_A          178 ELKNLIITTLNNAEIIRNTESYFKMPLDHAFPIKGAGTVVTGTINKGIVKVGDELKVLPINM--STKVRSIQYFKESVME  255 (482)
T ss_dssp             HHHHHHHHHHHHSCCCCCSSSCCBCBCSCEECCSSCCCEECCCCCBSCCCSSEEECCTTTCC--CEEECCBCGGGSCBCC
T ss_pred             HHHHHHHHhhcCccccccccccccccceeEEEecCCceEEEEEEEEeEEeeCCEEEECCCCc--EEEEeEEEECCeEeeE
Confidence            4778888866555  77888899999999999999999999999999999999999999874  7899999999999999


Q ss_pred             ecccCceehhccCCCcccccccccc-cccchhhhhhhhcccccccc-cchhhcccceEEeEeEEEeee
Q psy9646          80 AQAGDQLGALVKGMKRDEVNRGLIM-AKPVLADKKLAKVKQYADID-NAPEEKARGITINVAHVEYAT  145 (211)
Q Consensus        80 a~~G~~v~~~l~~~~~~~v~~G~ii-~~~~~~~~~~~~f~~~i~~~-~~~~e~~rg~tv~~~~~~~~~  145 (211)
                      |.+||+|++.+++++..++++|+++ +.+ .++.....|.+.+... ..+.....++...+++++.+.
T Consensus       256 a~~G~~v~~~l~~~~~~~i~~Gdvl~~~~-~~~~~~~~~~a~v~~l~~~~~~l~~g~~~~l~~~t~~~  322 (482)
T 1wb1_A          256 AKAGDRVGMAIQGVDAKQIYRGXILTSKD-TKLQTVDKIVAKIKISDIFKYNLTPKMKVHLNVGMLIV  322 (482)
T ss_dssp             CCSSCCCCEECSSCCSSCCCSSCBCCCTT-CCCCCEEEEEECCCCCSSCCSCCCSSCEEEEEETTEEE
T ss_pred             ecCCCEEEEEecCCCHhhccccceEecCC-CCCceeeEEEEEEEEeccCCcccCCCCEEEEEEcccEE
Confidence            9999999999999988999999999 544 3445567788777544 344566667777666555443

>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=99.61  E-value=6.2e-16  Score=133.06  Aligned_cols=92  Identities=42%  Similarity=0.710  Sum_probs=57.0

Q ss_pred             ccccccchhhcccceEEeEeEEEeeeCCceeEeecCCcccccHhHHhhhccccceEEEEEeccCCCC-------cchHHH
Q psy9646         120 YADIDNAPEEKARGITINVAHVEYATENRHYSHTDCPGHADYIKNMITGTSQMDGAILVVAATDGAM-------PQTREH  192 (211)
Q Consensus       120 ~i~~~~~~~e~~rg~tv~~~~~~~~~~~~~~~~iDtPG~~~~~~~~~~~~~~~d~~~~vvd~~~~~~-------~~~~~~  192 (211)
                      .+.+|..+.|+.+|+|++..+..+++++.++.|+|||||++|.+++..+++.+|++++|+|+.+|++       +|++++
T Consensus        93 ~~~~D~~~~er~~giTi~~~~~~~~~~~~~~~iiDtPGh~~f~~~~~~~~~~aD~~ilVvDa~~g~~e~sf~~~~qt~e~  172 (467)
T 1r5b_A           93 SWALDSTSEEREKGKTVEVGRAYFETEHRRFSLLDAPGHKGYVTNMINGASQADIGVLVISARRGEFEAGFERGGQTREH  172 (467)
T ss_dssp             --------------------CCEEECSSEEEEECCCCC-----------TTSCSEEEEEEECSTTHHHHTTSTTCCHHHH
T ss_pred             hhhcccchhhhhcCceEEeeeEEEecCCeEEEEEECCCcHHHHHHHHhhcccCCEEEEEEeCCcCccccccCCCCcHHHH
Confidence            3457788889999999999999999999999999999999999999999999999999999999873       799999


Q ss_pred             HHHHHHcCCCeEEEEEeCC
Q psy9646         193 LLLAKQIGVTNIVVFINKF  211 (211)
Q Consensus       193 ~~~~~~~~~~~~i~~inK~  211 (211)
                      +.++...++|++|+++||+
T Consensus       173 l~~~~~~~vp~iivviNK~  191 (467)
T 1r5b_A          173 AVLARTQGINHLVVVINKM  191 (467)
T ss_dssp             HHHHHHTTCSSEEEEEECT
T ss_pred             HHHHHHcCCCEEEEEEECc
Confidence            9999999998788999997

>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=99.59  E-value=3.4e-15  Score=126.03  Aligned_cols=90  Identities=77%  Similarity=1.241  Sum_probs=83.9

Q ss_pred             ccccchhhcccceEEeEeEEEeeeCCceeEeecCCcccccHhHHhhhccccceEEEEEeccCCCCcchHHHHHHHHHcCC
Q psy9646         122 DIDNAPEEKARGITINVAHVEYATENRHYSHTDCPGHADYIKNMITGTSQMDGAILVVAATDGAMPQTREHLLLAKQIGV  201 (211)
Q Consensus       122 ~~~~~~~e~~rg~tv~~~~~~~~~~~~~~~~iDtPG~~~~~~~~~~~~~~~d~~~~vvd~~~~~~~~~~~~~~~~~~~~~  201 (211)
                      .++..+.|..+|+|++..+..++..+.++.|+|||||++|..++..+++.+|++++|+|+.++.+.|+++++.++...++
T Consensus        40 ~~d~~~~e~~~giTi~~~~~~~~~~~~~~~iiDtpG~~~f~~~~~~~~~~aD~~ilVvda~~g~~~qt~e~l~~~~~~~v  119 (397)
T 1d2e_A           40 EIDNAPEERARGITINAAHVEYSTAARHYAHTDCPGHADYVKNMITGTAPLDGCILVVAANDGPMPQTREHLLLARQIGV  119 (397)
T ss_dssp             HHHSCCEEEETTEEEECEEEEEECSSCEEEEEECSSHHHHHHHHHHTSSCCSEEEEEEETTTCSCHHHHHHHHHHHHTTC
T ss_pred             hhhcCHHHHhcCcEEEeeeEEeccCCeEEEEEECCChHHHHHHHHhhHhhCCEEEEEEECCCCCCHHHHHHHHHHHHcCC
Confidence            36777888999999999998899888999999999999999999999999999999999999999999999999999999


Q ss_pred             CeEEEEEeCC
Q psy9646         202 TNIVVFINKF  211 (211)
Q Consensus       202 ~~~i~~inK~  211 (211)
                      |.+|+++||+
T Consensus       120 p~iivviNK~  129 (397)
T 1d2e_A          120 EHVVVYVNKA  129 (397)
T ss_dssp             CCEEEEEECG
T ss_pred             CeEEEEEECc
Confidence            9777899996

>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=99.58  E-value=2.9e-15  Score=127.83  Aligned_cols=95  Identities=41%  Similarity=0.597  Sum_probs=81.9

Q ss_pred             cccccccccchhhcccceEEeEeEEEeeeCCceeEeecCCcccccHhHHhhhccccceEEEEEeccCCCCcchHHHHHHH
Q psy9646         117 VKQYADIDNAPEEKARGITINVAHVEYATENRHYSHTDCPGHADYIKNMITGTSQMDGAILVVAATDGAMPQTREHLLLA  196 (211)
Q Consensus       117 f~~~i~~~~~~~e~~rg~tv~~~~~~~~~~~~~~~~iDtPG~~~~~~~~~~~~~~~d~~~~vvd~~~~~~~~~~~~~~~~  196 (211)
                      +...+.+|..+.|+.||+|++..+..+.+.+.++.|+|||||++|..++..+++.+|++++|+|+.++++.|+++++..+
T Consensus        73 ~~~~~~~d~~~~E~~rGiTi~~~~~~~~~~~~~~~iiDtpGh~~f~~~~~~~~~~aD~~ilVvDa~~g~~~qt~~~l~~~  152 (434)
T 1zun_B           73 VDLALLVDGLQAEREQGITIDVAYRYFSTAKRKFIIADTPGHEQYTRNMATGASTCDLAIILVDARYGVQTQTRRHSYIA  152 (434)
T ss_dssp             --CHHHHHHHHC-----CCCCCEEEEEECSSEEEEEEECCCSGGGHHHHHHHHTTCSEEEEEEETTTCSCHHHHHHHHHH
T ss_pred             hhhhhhhccChhHHHCCcEEEeeeeEeecCCceEEEEECCChHHHHHHHHHHHhhCCEEEEEEECCCCCcHHHHHHHHHH
Confidence            33334578899999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHcCCCeEEEEEeCC
Q psy9646         197 KQIGVTNIVVFINKF  211 (211)
Q Consensus       197 ~~~~~~~~i~~inK~  211 (211)
                      ...++|++|+++||+
T Consensus       153 ~~~~~~~iIvviNK~  167 (434)
T 1zun_B          153 SLLGIKHIVVAINKM  167 (434)
T ss_dssp             HHTTCCEEEEEEECT
T ss_pred             HHcCCCeEEEEEEcC
Confidence            999998788999996

>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=99.58  E-value=1.9e-15  Score=129.01  Aligned_cols=96  Identities=45%  Similarity=0.723  Sum_probs=77.0

Q ss_pred             hcccccccccchhhcccceEEeEeEEEeeeCCceeEeecCCcccccHhHHhhhccccceEEEEEeccCC-------CCcc
Q psy9646         116 KVKQYADIDNAPEEKARGITINVAHVEYATENRHYSHTDCPGHADYIKNMITGTSQMDGAILVVAATDG-------AMPQ  188 (211)
Q Consensus       116 ~f~~~i~~~~~~~e~~rg~tv~~~~~~~~~~~~~~~~iDtPG~~~~~~~~~~~~~~~d~~~~vvd~~~~-------~~~~  188 (211)
                      ++...+.+|..+.|+.+|+|++..+..+++.+.++.|+|||||++|..++..+++.+|++++|+|+.++       +.+|
T Consensus        52 ~~~~~~~~D~~~~E~~~giTi~~~~~~~~~~~~~~~iiDtpG~~~f~~~~~~~~~~aD~~ilVvDa~~gsfe~~~~~~~q  131 (435)
T 1jny_A           52 SEKFAFLLDRLKEERERGVTINLTFMRFETKKYFFTIIDAPGHRDFVKNMITGASQADAAILVVSAKKGEYEAGMSVEGQ  131 (435)
T ss_dssp             HHHHHHHHHHHHHC-----------CEEECSSCEEEECCCSSSTTHHHHHHHTSSCCSEEEEEEECSTTHHHHHHSTTCH
T ss_pred             chhhhhhhccChHHHhcCceeEeeEEEEecCCeEEEEEECCCcHHHHHHHHhhhhhcCEEEEEEECCCCccccccccchH
Confidence            344445578899999999999999999999999999999999999999999999999999999999999       8889


Q ss_pred             hHHHHHHHHHcCCCeEEEEEeCC
Q psy9646         189 TREHLLLAKQIGVTNIVVFINKF  211 (211)
Q Consensus       189 ~~~~~~~~~~~~~~~~i~~inK~  211 (211)
                      +++++..+...++|++|+++||+
T Consensus       132 t~~~~~~~~~~~~~~iivviNK~  154 (435)
T 1jny_A          132 TREHIILAKTMGLDQLIVAVNKM  154 (435)
T ss_dssp             HHHHHHHHHHTTCTTCEEEEECG
T ss_pred             HHHHHHHHHHcCCCeEEEEEEcc
Confidence            99999999999987788999996

>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=99.58  E-value=3.8e-15  Score=128.68  Aligned_cols=99  Identities=34%  Similarity=0.588  Sum_probs=75.2

Q ss_pred             hhhhcccccccccchhhcccceEEeEeEEEeeeCCceeEeecCCcccccHhHHhhhccccceEEEEEeccCC-------C
Q psy9646         113 KLAKVKQYADIDNAPEEKARGITINVAHVEYATENRHYSHTDCPGHADYIKNMITGTSQMDGAILVVAATDG-------A  185 (211)
Q Consensus       113 ~~~~f~~~i~~~~~~~e~~rg~tv~~~~~~~~~~~~~~~~iDtPG~~~~~~~~~~~~~~~d~~~~vvd~~~~-------~  185 (211)
                      ++.+|...+.++..+.|..+|+|++..+..+++++.++.|+|||||++|.+++..+++.+|++++|+|+.++       +
T Consensus        76 g~~~~~~~~~~d~~~~e~~~GiTi~~~~~~~~~~~~~~~iiDTPG~~~f~~~~~~~~~~aD~~llVvDa~~g~~~~~~~~  155 (483)
T 3p26_A           76 GKSSFKFAWIMDQTNEERERGVTVSICTSHFSTHRANFTIVDAPGHRDFVPNAIMGISQADMAILCVDCSTNAFESGFDL  155 (483)
T ss_dssp             -------------------CCSSCCCCEEEEECSSCEEEEECCCCCGGGHHHHHHHHTTCSEEEEEEECCC------CCC
T ss_pred             CCCcchhhhhhccchhHhhcCcceEeeeEEEecCCceEEEEECCCcHHHHHHHHHhhhhCCEEEEEEECCCCccccccch
Confidence            445566667789999999999999999999999999999999999999999999999999999999999988       5


Q ss_pred             CcchHHHHHHHHHcCCCeEEEEEeCC
Q psy9646         186 MPQTREHLLLAKQIGVTNIVVFINKF  211 (211)
Q Consensus       186 ~~~~~~~~~~~~~~~~~~~i~~inK~  211 (211)
                      ..|+++++..+...+++++|+++||+
T Consensus       156 ~~qt~e~~~~~~~~~~~~iIvviNK~  181 (483)
T 3p26_A          156 DGQTKEHMLLASSLGIHNLIIAMNKM  181 (483)
T ss_dssp             CHHHHHHHHHHHHTTCCCEEEEEECG
T ss_pred             hhhHHHHHHHHHHcCCCcEEEEEECc
Confidence            68999999999999988799999996

>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=99.57  E-value=8e-16  Score=132.08  Aligned_cols=97  Identities=45%  Similarity=0.655  Sum_probs=86.9

Q ss_pred             hhcccccccccchhhcccceEEeEeEEEeeeCCceeEeecCCcccccHhHHhhhccccceEEEEEeccCCCCc-------
Q psy9646         115 AKVKQYADIDNAPEEKARGITINVAHVEYATENRHYSHTDCPGHADYIKNMITGTSQMDGAILVVAATDGAMP-------  187 (211)
Q Consensus       115 ~~f~~~i~~~~~~~e~~rg~tv~~~~~~~~~~~~~~~~iDtPG~~~~~~~~~~~~~~~d~~~~vvd~~~~~~~-------  187 (211)
                      .+|...+.++..+.|+.+|+|++..+..+++++.++.|+|||||++|.+++..+++.+|++++|+|+.+++++       
T Consensus        52 ~~~~~a~~~d~~~~er~~GiTi~~~~~~~~~~~~~~~iiDtPGh~~f~~~~~~~~~~aD~~ilVvda~~g~~~~sf~~~~  131 (458)
T 1f60_A           52 GSFKYAWVLDKLKAERERGITIDIALWKFETPKYQVTVIDAPGHRDFIKNMITGTSQADCAILIIAGGVGEFEAGISKDG  131 (458)
T ss_dssp             SCCCHHHHHHHHHHHHHTTCCCSCSCEEEECSSEEEEEEECCCCTTHHHHHHHSSSCCSEEEEEEECSHHHHHHHTCTTS
T ss_pred             cchhhhhhhccchhHHhcCcEEEEEEEEEecCCceEEEEECCCcHHHHHHHHhhhhhCCEEEEEEeCCcCccccccCcch
Confidence            3444445578888999999999999999999999999999999999999999999999999999999988755       


Q ss_pred             chHHHHHHHHHcCCCeEEEEEeCC
Q psy9646         188 QTREHLLLAKQIGVTNIVVFINKF  211 (211)
Q Consensus       188 ~~~~~~~~~~~~~~~~~i~~inK~  211 (211)
                      |+++++.++...++|++|+++||+
T Consensus       132 qt~~~~~~~~~~~v~~iivviNK~  155 (458)
T 1f60_A          132 QTREHALLAFTLGVRQLIVAVNKM  155 (458)
T ss_dssp             HHHHHHHHHHHTTCCEEEEEEECG
T ss_pred             hHHHHHHHHHHcCCCeEEEEEEcc
Confidence            899999999999998788999996

>3mca_A HBS1, elongation factor 1 alpha-like protein; protein protein complex, translation regulation; 2.74A {Schizosaccharomyces pombe}

Probab=99.55  E-value=4.2e-16  Score=137.57  Aligned_cols=98  Identities=38%  Similarity=0.615  Sum_probs=49.9

Q ss_pred             hhhcccccccccchhhcccceEEeEeEEEeeeCCceeEeecCCcccccHhHHhhhccccceEEEEEeccCCC-------C
Q psy9646         114 LAKVKQYADIDNAPEEKARGITINVAHVEYATENRHYSHTDCPGHADYIKNMITGTSQMDGAILVVAATDGA-------M  186 (211)
Q Consensus       114 ~~~f~~~i~~~~~~~e~~rg~tv~~~~~~~~~~~~~~~~iDtPG~~~~~~~~~~~~~~~d~~~~vvd~~~~~-------~  186 (211)
                      +.+|...+.++..+.|..+|+|++..+..+.+++.+++|+|||||++|..++..+++.+|++|+|+|+.+|.       .
T Consensus       221 ~~~~~~~~~~D~~~~E~~~GiTid~~~~~~~~~~~~i~iiDTPGh~~f~~~~~~~~~~aD~alLVVDa~~g~~e~gi~~~  300 (592)
T 3mca_A          221 KGSFSYAWLLDTTEEERARGVTMDVASTTFESDKKIYEIGDAPGHRDFISGMIAGASSADFAVLVVDSSQNNFERGFLEN  300 (592)
T ss_dssp             --------------------------------------CCEEESSSEEEEECCC-------CCSEEEEEECCSSTTSCSC
T ss_pred             CcchhhhhhhccchhhhcCCeeEEeeEEEEEeCCeEEEEEECCChHHHHHHHHHHHhhCCEEEEEEECCCCccccccccc
Confidence            344555567889999999999999999999999999999999999999999999999999999999999864       8


Q ss_pred             cchHHHHHHHHHcCCCeEEEEEeCC
Q psy9646         187 PQTREHLLLAKQIGVTNIVVFINKF  211 (211)
Q Consensus       187 ~~~~~~~~~~~~~~~~~~i~~inK~  211 (211)
                      +|+++|+.++...++|++|+|+||+
T Consensus       301 ~qt~e~l~~~~~lgip~iIvviNKi  325 (592)
T 3mca_A          301 GQTREHAYLLRALGISEIVVSVNKL  325 (592)
T ss_dssp             SSHHHHHHHHHHSSCCCEEEEEECG
T ss_pred             hHHHHHHHHHHHcCCCeEEEEEecc
Confidence            9999999999999998888999996

>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=99.55  E-value=8.3e-15  Score=123.93  Aligned_cols=90  Identities=79%  Similarity=1.247  Sum_probs=84.2

Q ss_pred             ccccchhhcccceEEeEeEEEeeeCCceeEeecCCcccccHhHHhhhccccceEEEEEeccCCCCcchHHHHHHHHHcCC
Q psy9646         122 DIDNAPEEKARGITINVAHVEYATENRHYSHTDCPGHADYIKNMITGTSQMDGAILVVAATDGAMPQTREHLLLAKQIGV  201 (211)
Q Consensus       122 ~~~~~~~e~~rg~tv~~~~~~~~~~~~~~~~iDtPG~~~~~~~~~~~~~~~d~~~~vvd~~~~~~~~~~~~~~~~~~~~~  201 (211)
                      .++..+.|..+|+|++..+..+...+.++.|+|||||++|.+++..+++.+|++++|+|+.++.+.|+++++..+...++
T Consensus        49 ~~d~~~~e~~~GiTi~~~~~~~~~~~~~~~iiDtpG~~~f~~~~~~~~~~aD~~ilVvda~~g~~~qt~~~l~~~~~~~i  128 (405)
T 2c78_A           49 DIDKAPEERARGITINTAHVEYETAKRHYSHVDCPGHADYIKNMITGAAQMDGAILVVSAADGPMPQTREHILLARQVGV  128 (405)
T ss_dssp             HHSCSHHHHHHTCCCSCEEEEEECSSCEEEEEECCCSGGGHHHHHHHHTTCSSEEEEEETTTCCCHHHHHHHHHHHHTTC
T ss_pred             hccCCHHHHHcCCCEEeeeeEeccCCeEEEEEECCChHHHHHHHHHHHHHCCEEEEEEECCCCCcHHHHHHHHHHHHcCC
Confidence            36788889999999999988899889999999999999999999999999999999999999999999999999999999


Q ss_pred             CeEEEEEeCC
Q psy9646         202 TNIVVFINKF  211 (211)
Q Consensus       202 ~~~i~~inK~  211 (211)
                      |++|+++||+
T Consensus       129 p~iivviNK~  138 (405)
T 2c78_A          129 PYIVVFMNKV  138 (405)
T ss_dssp             CCEEEEEECG
T ss_pred             CEEEEEEECc
Confidence            9778899996

>2elf_A Protein translation elongation factor 1A; tRNA, pyrrolysine, structural genomics, NPPSFA; HET: CIT; 1.70A {Methanosarcina mazei}

Probab=99.54  E-value=7.3e-15  Score=122.80  Aligned_cols=96  Identities=15%  Similarity=0.197  Sum_probs=84.3

Q ss_pred             cchhhhhhhhcccccccccchhhcccceEEeEeEEEeeeCCceeEeecCCcccccHhHHhhhccccceEEEEEeccCCCC
Q psy9646         107 PVLADKKLAKVKQYADIDNAPEEKARGITINVAHVEYATENRHYSHTDCPGHADYIKNMITGTSQMDGAILVVAATDGAM  186 (211)
Q Consensus       107 ~~~~~~~~~~f~~~i~~~~~~~e~~rg~tv~~~~~~~~~~~~~~~~iDtPG~~~~~~~~~~~~~~~d~~~~vvd~~~~~~  186 (211)
                      -+....+++++...+.        .+++|++..+..+++++.++.|+|||||++|.+++..+++.+|++++|+| .+++.
T Consensus        27 iG~~d~GKSTL~~~L~--------~~giTi~~~~~~~~~~~~~i~iiDtPGh~~f~~~~~~~~~~aD~ailVvd-~~g~~   97 (370)
T 2elf_A           27 IGTEKSGRTSLAANLG--------KKGTSSDITMYNNDKEGRNMVFVDAHSYPKTLKSLITALNISDIAVLCIP-PQGLD   97 (370)
T ss_dssp             EESTTSSHHHHHHTTS--------EEEEESSSEEEEECSSSSEEEEEECTTTTTCHHHHHHHHHTCSEEEEEEC-TTCCC
T ss_pred             ECCCCCCHHHHHHHHH--------hCCEEEEeeEEEEecCCeEEEEEECCChHHHHHHHHHHHHHCCEEEEEEc-CCCCc
Confidence            3445566666655443        78899999999999999999999999999999999999999999999999 99999


Q ss_pred             cchHHHHHHHHHcCCCeEEEEEe-CC
Q psy9646         187 PQTREHLLLAKQIGVTNIVVFIN-KF  211 (211)
Q Consensus       187 ~~~~~~~~~~~~~~~~~~i~~in-K~  211 (211)
                      +|+++++..+...++|.+|+++| |+
T Consensus        98 ~qt~e~~~~~~~~~i~~~ivvvNNK~  123 (370)
T 2elf_A           98 AHTGECIIALDLLGFKHGIIALTRSD  123 (370)
T ss_dssp             HHHHHHHHHHHHTTCCEEEEEECCGG
T ss_pred             HHHHHHHHHHHHcCCCeEEEEEEecc
Confidence            99999999999999996578999 96

>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=99.54  E-value=6.8e-15  Score=124.65  Aligned_cols=102  Identities=39%  Similarity=0.592  Sum_probs=81.7

Q ss_pred             hhhhhhhcccccc---cccchhhcccceEEeEeEEEeeeC-----------------------CceeEeecCCcccccHh
Q psy9646         110 ADKKLAKVKQYAD---IDNAPEEKARGITINVAHVEYATE-----------------------NRHYSHTDCPGHADYIK  163 (211)
Q Consensus       110 ~~~~~~~f~~~i~---~~~~~~e~~rg~tv~~~~~~~~~~-----------------------~~~~~~iDtPG~~~~~~  163 (211)
                      ...+++++...+.   .+..+.|..+|+|+++.+..+...                       ..++.|+|||||++|.+
T Consensus        19 ~~~GKSTLi~~L~g~~~~~~~~e~~~giTi~~~~~~~~~~~~~~~~~y~~~~~~~~~g~~~~~~~~i~iiDtPGh~~f~~   98 (410)
T 1kk1_A           19 VDHGKTTLTKALTGVWTDTHSEELRRGITIKIGFADAEIRRCPNCGRYSTSPVCPYCGHETEFVRRVSFIDAPGHEALMT   98 (410)
T ss_dssp             TTSSHHHHHHHHHTCCCC--CGGGGSCSSSCCEEEEEEEEECTTTCCEESSSBCTTTCCBCEEEEEEEEEECSSHHHHHH
T ss_pred             CCCCHHHHHHHHhCCccccChhhhcCCcEEEEeeeeeecccccccccccccccccccCcccccccEEEEEECCChHHHHH
Confidence            3344555444332   566788888999998876654431                       16799999999999999


Q ss_pred             HHhhhccccceEEEEEeccCCC-CcchHHHHHHHHHcCCCeEEEEEeCC
Q psy9646         164 NMITGTSQMDGAILVVAATDGA-MPQTREHLLLAKQIGVTNIVVFINKF  211 (211)
Q Consensus       164 ~~~~~~~~~d~~~~vvd~~~~~-~~~~~~~~~~~~~~~~~~~i~~inK~  211 (211)
                      ++..++..+|++++|+|+.++. .+|+++++..+..++++++|+++||+
T Consensus        99 ~~~~~~~~~D~~ilVvda~~g~~~~qt~e~l~~~~~~~~~~iivviNK~  147 (410)
T 1kk1_A           99 TMLAGASLMDGAILVIAANEPCPRPQTREHLMALQIIGQKNIIIAQNKI  147 (410)
T ss_dssp             HHHHCGGGCSEEEEEEETTSCSSCHHHHHHHHHHHHHTCCCEEEEEECG
T ss_pred             HHHhhhhhCCEEEEEEECCCCCCChhHHHHHHHHHHcCCCcEEEEEECc
Confidence            9999999999999999999997 89999999999988987798999996

>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=99.51  E-value=1.3e-14  Score=125.20  Aligned_cols=88  Identities=35%  Similarity=0.605  Sum_probs=68.9

Q ss_pred             cccchhhcccceEEeEeEEEeeeCCceeEeecCCcccccHhHHhhhccccceEEEEEeccCCCCcchHHHHHHHHHcCCC
Q psy9646         123 IDNAPEEKARGITINVAHVEYATENRHYSHTDCPGHADYIKNMITGTSQMDGAILVVAATDGAMPQTREHLLLAKQIGVT  202 (211)
Q Consensus       123 ~~~~~~e~~rg~tv~~~~~~~~~~~~~~~~iDtPG~~~~~~~~~~~~~~~d~~~~vvd~~~~~~~~~~~~~~~~~~~~~~  202 (211)
                      ++..+.|..+|+|++..+..+++++.++.|+|||||++|.+++..+++.+|++++|+|+.+|+++|+.+++..+...++|
T Consensus        48 ~d~~~~e~~~GiTi~~~~~~~~~~~~~i~iiDtPGh~~~~~~~~~~~~~aD~~ilVvda~~g~~~qt~e~l~~~~~~~ip  127 (482)
T 1wb1_A           48 HDKLPESQKRGITIDIGFSAFKLENYRITLVDAPGHADLIRAVVSAADIIDLALIVVDAKEGPKTQTGEHMLILDHFNIP  127 (482)
T ss_dssp             ----------------CCCEEEETTEEEEECCCSSHHHHHHHHHHHTTSCCEEEEEEETTTCSCHHHHHHHHHHHHTTCC
T ss_pred             cccccccccCccEEecceEEEEECCEEEEEEECCChHHHHHHHHHHHhhCCEEEEEEecCCCccHHHHHHHHHHHHcCCC
Confidence            56678899999999999989999999999999999999999999999999999999999999999999999999999999


Q ss_pred             eEEEEEeCC
Q psy9646         203 NIVVFINKF  211 (211)
Q Consensus       203 ~~i~~inK~  211 (211)
                      . |+++||+
T Consensus       128 ~-IvviNK~  135 (482)
T 1wb1_A          128 I-IVVITKS  135 (482)
T ss_dssp             B-CEEEECT
T ss_pred             E-EEEEECC
Confidence            5 7899996

>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=99.50  E-value=2.5e-14  Score=121.07  Aligned_cols=101  Identities=36%  Similarity=0.588  Sum_probs=76.1

Q ss_pred             hhhhhhcccccc---cccchhhcccceEEeEeEEEeee---------------C--------CceeEeecCCcccccHhH
Q psy9646         111 DKKLAKVKQYAD---IDNAPEEKARGITINVAHVEYAT---------------E--------NRHYSHTDCPGHADYIKN  164 (211)
Q Consensus       111 ~~~~~~f~~~i~---~~~~~~e~~rg~tv~~~~~~~~~---------------~--------~~~~~~iDtPG~~~~~~~  164 (211)
                      ..+++++...+.   .+..+.|..+|+|+++.+.....               +        ...+.|+|||||++|.++
T Consensus        18 d~GKSTLi~~L~g~~~~~~~~e~~~giTi~~~~~~~~~~~~~~~~~y~~~~~~~~~g~~~~~~~~i~iiDtPGh~~f~~~   97 (408)
T 1s0u_A           18 DHGKTSLTKALTGVWTDRHSEELRRGISIRLGYADCEIRKCPQCGTYTTKPRCPNCLAETEFLRRVSFVDSPGHETLMAT   97 (408)
T ss_dssp             TSSHHHHHHHHHSCCCCC-------CCCCCCEEEEEEEEECTTTCCEESSSBCTTSCCBCEEEEEEEEEECSSHHHHHHH
T ss_pred             CCCHHHHHHHHhCCccccCcccccCCcEEEecccccccccccccccccccccccccCcccccccEEEEEECCCHHHHHHH
Confidence            344444443332   56677888899998877654432               1        167999999999999999


Q ss_pred             HhhhccccceEEEEEeccCCC-CcchHHHHHHHHHcCCCeEEEEEeCC
Q psy9646         165 MITGTSQMDGAILVVAATDGA-MPQTREHLLLAKQIGVTNIVVFINKF  211 (211)
Q Consensus       165 ~~~~~~~~d~~~~vvd~~~~~-~~~~~~~~~~~~~~~~~~~i~~inK~  211 (211)
                      +..+++.+|++++|+|+.++. .+|+.+++..+..++++++|+++||+
T Consensus        98 ~~~~~~~~D~~ilVvda~~g~~~~qt~e~l~~~~~l~~~~iivv~NK~  145 (408)
T 1s0u_A           98 MLSGASLMDGAILVIAANEPCPQPQTKEHLMALEILGIDKIIIVQNKI  145 (408)
T ss_dssp             HHTTCSCCSEEEEEEETTSCSSCHHHHHHHHHHHHTTCCCEEEEEECT
T ss_pred             HHHhHhhCCEEEEEEECCCCCCCchhHHHHHHHHHcCCCeEEEEEEcc
Confidence            999999999999999999997 89999999999888987788999996

>3izq_1 HBS1P, elongation factor 1 alpha-like protein; NO-GO mRNA decay, ribosomal protein,hydrolase; 9.50A {Saccharomyces cerevisiae}

Probab=99.49  E-value=1.1e-14  Score=128.80  Aligned_cols=97  Identities=35%  Similarity=0.611  Sum_probs=88.1

Q ss_pred             hhcccccccccchhhcccceEEeEeEEEeeeCCceeEeecCCcccccHhHHhhhccccceEEEEEeccCC-------CCc
Q psy9646         115 AKVKQYADIDNAPEEKARGITINVAHVEYATENRHYSHTDCPGHADYIKNMITGTSQMDGAILVVAATDG-------AMP  187 (211)
Q Consensus       115 ~~f~~~i~~~~~~~e~~rg~tv~~~~~~~~~~~~~~~~iDtPG~~~~~~~~~~~~~~~d~~~~vvd~~~~-------~~~  187 (211)
                      .+|...+.++..+.|..+|+|++..+..+.+.+.++.|+|||||++|.+++..+++.+|++|+|+|+..|       +.+
T Consensus       212 ~~~~~a~~~d~~~~e~~~GiTid~~~~~~~~~~~~~~iiDTPG~e~f~~~~~~~~~~aD~~llVVDa~~g~~e~~~~~~~  291 (611)
T 3izq_1          212 SSFKFAWIMDQTNEERERGVTVSICTSHFSTHRANFTIVDAPGHRDFVPNAIMGISQADMAILCVDCSTNAFESGFDLDG  291 (611)
T ss_dssp             SCCSSSHHHHHHHHHHHTTTCCSCSCCEEECSSCEEEEEECCSSSCHHHHHTTTSSCCSEEEEEEECSHHHHHTTCCTTS
T ss_pred             cccceeeeeccchhhhhCCeeEeeeeEEEecCCceEEEEECCCCcccHHHHHHHHhhcCceEEEEECCCCcccccchhhh
Confidence            4455556678888899999999999999999999999999999999999999999999999999999876       568


Q ss_pred             chHHHHHHHHHcCCCeEEEEEeCC
Q psy9646         188 QTREHLLLAKQIGVTNIVVFINKF  211 (211)
Q Consensus       188 ~~~~~~~~~~~~~~~~~i~~inK~  211 (211)
                      |+++++..+...++|++|+|+||+
T Consensus       292 qt~e~l~~~~~lgi~~iIVVvNKi  315 (611)
T 3izq_1          292 QTKEHMLLASSLGIHNLIIAMNKM  315 (611)
T ss_dssp             HHHHHHHHHHTTTCCEEEEEEECT
T ss_pred             HHHHHHHHHHHcCCCeEEEEEecc
Confidence            999999999999998899999997

>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=99.48  E-value=6.2e-14  Score=129.86  Aligned_cols=89  Identities=78%  Similarity=1.241  Sum_probs=71.6

Q ss_pred             cccchhhcccceEEeEeEEEeeeCCceeEeecCCcccccHhHHhhhccccceEEEEEeccCCCCcchHHHHHHHHHcCCC
Q psy9646         123 IDNAPEEKARGITINVAHVEYATENRHYSHTDCPGHADYIKNMITGTSQMDGAILVVAATDGAMPQTREHLLLAKQIGVT  202 (211)
Q Consensus       123 ~~~~~~e~~rg~tv~~~~~~~~~~~~~~~~iDtPG~~~~~~~~~~~~~~~d~~~~vvd~~~~~~~~~~~~~~~~~~~~~~  202 (211)
                      ++..+.|..+|+|+++.+..++..+.++.|+|||||++|..++..+++.+|++++|+|+.++.+.|+++++..+...++|
T Consensus       334 lD~~~~ErerGITIdva~v~f~~~~~kI~IIDTPGHedF~~~mi~gas~AD~aILVVDAtdGv~~QTrEhL~ll~~lgIP  413 (1289)
T 3avx_A          334 IDNAPEEKARGITINTSHVEYDTPTRHYAHVDCPGHADYVKNMITGAAQMDGAILVVAATDGPMPQTREHILLGRQVGVP  413 (1289)
T ss_dssp             --------------CCSCEEEECSSCEEEEEECCCHHHHHHHHHHTSCCCSEEEEEEETTTCSCTTHHHHHHHHHHHTCS
T ss_pred             cccccccccCceeEEEEEEEEcCCCEEEEEEECCChHHHHHHHHHHHhhCCEEEEEEcCCccCcHHHHHHHHHHHHcCCC
Confidence            56677889999999998888998899999999999999999999999999999999999999999999999999999999


Q ss_pred             eEEEEEeCC
Q psy9646         203 NIVVFINKF  211 (211)
Q Consensus       203 ~~i~~inK~  211 (211)
                      ++|+++||+
T Consensus       414 ~IIVVINKi  422 (1289)
T 3avx_A          414 YIIVFLNKC  422 (1289)
T ss_dssp             CEEEEEECC
T ss_pred             eEEEEEeec
Confidence            878899997

>3cb4_D GTP-binding protein LEPA; GTPase, OB-fold, membrane, nucleotide-binding, translation; 2.80A {Escherichia coli} PDB: 3deg_C*

Probab=99.46  E-value=1e-13  Score=122.14  Aligned_cols=90  Identities=29%  Similarity=0.439  Sum_probs=66.1

Q ss_pred             cccccchhhcccceEEeEeEEEeeeC-----CceeEeecCCcccccHhHHhhhccccceEEEEEeccCCCCcchHHHHHH
Q psy9646         121 ADIDNAPEEKARGITINVAHVEYATE-----NRHYSHTDCPGHADYIKNMITGTSQMDGAILVVAATDGAMPQTREHLLL  195 (211)
Q Consensus       121 i~~~~~~~e~~rg~tv~~~~~~~~~~-----~~~~~~iDtPG~~~~~~~~~~~~~~~d~~~~vvd~~~~~~~~~~~~~~~  195 (211)
                      ..++..+.|+.||+|+......+.+.     ++.++|+|||||.+|..++..+++.+|++++|+|+.+|+..|+.+++..
T Consensus        39 ~~~D~~~~ErerGiTi~~~~~~~~~~~~~g~~~~l~liDTPGh~dF~~ev~~~l~~aD~aILVVDa~~gv~~qt~~~~~~  118 (599)
T 3cb4_D           39 QVLDSMDLERERGITIKAQSVTLDYKASDGETYQLNFIDTPGHVDFSYEVSRSLAACEGALLVVDAGQGVEAQTLANCYT  118 (599)
T ss_dssp             ------------------CEEEEEEECTTSCEEEEEEEECCCCGGGHHHHHHHHHHCSEEEEEEETTTCCCTHHHHHHHH
T ss_pred             cccccchhhhcccceeeeeEEEEEEecCCCCeEEEEEEECCCchHHHHHHHHHHHHCCEEEEEEECCCCCCHHHHHHHHH
Confidence            34688899999999999887777654     3789999999999999999999999999999999999999999999999


Q ss_pred             HHHcCCCeEEEEEeCC
Q psy9646         196 AKQIGVTNIVVFINKF  211 (211)
Q Consensus       196 ~~~~~~~~~i~~inK~  211 (211)
                      +...++| +|+++||+
T Consensus       119 ~~~~~ip-iIvViNKi  133 (599)
T 3cb4_D          119 AMEMDLE-VVPVLNKI  133 (599)
T ss_dssp             HHHTTCE-EEEEEECT
T ss_pred             HHHCCCC-EEEeeecc
Confidence            9999998 78999996

>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=99.46  E-value=8.3e-14  Score=122.64  Aligned_cols=89  Identities=27%  Similarity=0.419  Sum_probs=67.8

Q ss_pred             ccccchhhcccceEEeEeEEEeeeC-----CceeEeecCCcccccHhHHhhhccccceEEEEEeccCCCCcchHHHHHHH
Q psy9646         122 DIDNAPEEKARGITINVAHVEYATE-----NRHYSHTDCPGHADYIKNMITGTSQMDGAILVVAATDGAMPQTREHLLLA  196 (211)
Q Consensus       122 ~~~~~~~e~~rg~tv~~~~~~~~~~-----~~~~~~iDtPG~~~~~~~~~~~~~~~d~~~~vvd~~~~~~~~~~~~~~~~  196 (211)
                      .+|..+.|+.||+|+......+.+.     .+.++|+|||||.+|..++..+++.+|++++|+|+.+|+..|+.+++..+
T Consensus        42 ~~D~~~~ErerGITI~~~~~~~~~~~~dg~~~~inliDTPGh~dF~~ev~r~l~~aD~aILVVDa~~gv~~qt~~~~~~a  121 (600)
T 2ywe_A           42 LLDTLDVERERGITVKMQAVRMFYKAKDGNTYKLHLIDTPGHVDFSYEVSRALAACEGALLLIDASQGIEAQTVANFWKA  121 (600)
T ss_dssp             --------------CCCCSEEEEEECTTSCEEEEEEECCCCSGGGHHHHHHHHHTCSEEEEEEETTTBCCHHHHHHHHHH
T ss_pred             ccccchhhhcccceeeeeEEEEEEEcCCCCeEEEEEEECCCcHhHHHHHHHHHHhCCEEEEEEECCCCccHHHHHHHHHH
Confidence            4688889999999998776666543     36899999999999999999999999999999999999999999999999


Q ss_pred             HHcCCCeEEEEEeCC
Q psy9646         197 KQIGVTNIVVFINKF  211 (211)
Q Consensus       197 ~~~~~~~~i~~inK~  211 (211)
                      ...++| +|+++||+
T Consensus       122 ~~~~ip-iIvviNKi  135 (600)
T 2ywe_A          122 VEQDLV-IIPVINKI  135 (600)
T ss_dssp             HHTTCE-EEEEEECT
T ss_pred             HHCCCC-EEEEEecc
Confidence            999999 88999997

>3tr5_A RF-3, peptide chain release factor 3; protein synthesis, translation; HET: GDP; 2.11A {Coxiella burnetii}

Probab=99.46  E-value=5.2e-14  Score=122.59  Aligned_cols=89  Identities=27%  Similarity=0.466  Sum_probs=83.3

Q ss_pred             ccccchhhcccceEEeEeEEEeeeCCceeEeecCCcccccHhHHhhhccccceEEEEEeccCCCCcchHHHHHHHHHcCC
Q psy9646         122 DIDNAPEEKARGITINVAHVEYATENRHYSHTDCPGHADYIKNMITGTSQMDGAILVVAATDGAMPQTREHLLLAKQIGV  201 (211)
Q Consensus       122 ~~~~~~~e~~rg~tv~~~~~~~~~~~~~~~~iDtPG~~~~~~~~~~~~~~~d~~~~vvd~~~~~~~~~~~~~~~~~~~~~  201 (211)
                      ..+..+.|..+|+|+......+.+.+.+++++|||||.+|...+..++..+|++++|+|+..++..++..++..+...++
T Consensus        56 ~~d~~~~e~~~GiTi~~~~~~~~~~~~~i~liDTPG~~df~~~~~~~l~~aD~allVvDa~~g~~~~t~~~~~~~~~~~i  135 (528)
T 3tr5_A           56 TSDWMELEKQRGISVTTSVMQFPYKDYLINLLDTPGHADFTEDTYRTLTAVDSALMVIDAAKGVEPRTIKLMEVCRLRHT  135 (528)
T ss_dssp             HHHHHHHHHHHCCSSSSSEEEEEETTEEEEEECCCCSTTCCHHHHHGGGGCSEEEEEEETTTCSCHHHHHHHHHHHTTTC
T ss_pred             ecccchhhhcCCeeEEEeEEEEEeCCEEEEEEECCCchhHHHHHHHHHHhCCEEEEEEeCCCCCCHHHHHHHHHHHHcCC
Confidence            45677788889999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             CeEEEEEeCC
Q psy9646         202 TNIVVFINKF  211 (211)
Q Consensus       202 ~~~i~~inK~  211 (211)
                      | +|+++||+
T Consensus       136 P-iivviNK~  144 (528)
T 3tr5_A          136 P-IMTFINKM  144 (528)
T ss_dssp             C-EEEEEECT
T ss_pred             C-EEEEEeCC
Confidence            8 78999996

>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=99.45  E-value=1.5e-14  Score=124.90  Aligned_cols=102  Identities=34%  Similarity=0.448  Sum_probs=82.7

Q ss_pred             hhhhhhhhcccccccccchhhcccceEEeEeEEEeeeCCceeEeecCCcccccHhHHhhhccccceEEEEEeccCCCCcc
Q psy9646         109 LADKKLAKVKQYADIDNAPEEKARGITINVAHVEYATENRHYSHTDCPGHADYIKNMITGTSQMDGAILVVAATDGAMPQ  188 (211)
Q Consensus       109 ~~~~~~~~f~~~i~~~~~~~e~~rg~tv~~~~~~~~~~~~~~~~iDtPG~~~~~~~~~~~~~~~d~~~~vvd~~~~~~~~  188 (211)
                      +...|++++...+..........+++|.++....+++++.+++|+|||||++|...+..++..+|++++|+|+.+|+++|
T Consensus        12 hvd~GKTTLl~~L~~~~v~~~e~~GIT~~i~~~~v~~~~~~i~~iDTPGhe~f~~~~~~~~~~aD~aILVVda~~g~~~q   91 (501)
T 1zo1_I           12 HVDHGKTSLLEYIRSTKVASGEAGGITQHIGAYHVETENGMITFLDTPGHAAFTSMRARGAQATDIVVLVVAADDGVMPQ   91 (501)
T ss_dssp             STTSSSHHHHHHHHHHHHSBTTBCCCCCCSSCCCCCTTSSCCCEECCCTTTCCTTSBCSSSBSCSSEEEEEETTTBSCTT
T ss_pred             CCCCCHHHHHHHHHcCCCccccCCCeeEeEEEEEEEECCEEEEEEECCCcHHHHHHHHHHHhhCCEEEEEeecccCccHH
Confidence            34445555444332222222334678888877778888889999999999999999999999999999999999999999


Q ss_pred             hHHHHHHHHHcCCCeEEEEEeCC
Q psy9646         189 TREHLLLAKQIGVTNIVVFINKF  211 (211)
Q Consensus       189 ~~~~~~~~~~~~~~~~i~~inK~  211 (211)
                      +.+++.+++..++| +|+++||+
T Consensus        92 T~e~l~~~~~~~vP-iIVviNKi  113 (501)
T 1zo1_I           92 TIEAIQHAKAAQVP-VVVAVNKI  113 (501)
T ss_dssp             THHHHHHHHHTTCC-EEEEEECS
T ss_pred             HHHHHHHHHhcCce-EEEEEEec
Confidence            99999999999999 88999996

>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=99.42  E-value=4.2e-13  Score=120.62  Aligned_cols=89  Identities=29%  Similarity=0.441  Sum_probs=82.0

Q ss_pred             ccccchhhcccceEEeEeEEEeeeCC-------ceeEeecCCcccccHhHHhhhccccceEEEEEeccCCCCcchHHHHH
Q psy9646         122 DIDNAPEEKARGITINVAHVEYATEN-------RHYSHTDCPGHADYIKNMITGTSQMDGAILVVAATDGAMPQTREHLL  194 (211)
Q Consensus       122 ~~~~~~~e~~rg~tv~~~~~~~~~~~-------~~~~~iDtPG~~~~~~~~~~~~~~~d~~~~vvd~~~~~~~~~~~~~~  194 (211)
                      .+|..+.|..|++|+......+.+.+       +.++++|||||.+|..++..++..+|++++|+|+.+++..++..+++
T Consensus        49 ~~D~~~~E~~rgiTi~~~~~~~~~~~~~~~~~~~~i~liDTPG~~df~~~~~~~l~~aD~aIlVvDa~~gv~~qt~~~~~  128 (704)
T 2rdo_7           49 TMDWMEQEQERGITITSAATTAFWSGMAKQYEPHRINIIDTPGHVDFTIEVERSMRVLDGAVMVYCAVGGVQPQSETVWR  128 (704)
T ss_pred             eecChhhHHhcCceeeeceEEEEECCccccCCceeEEEEeCCCccchHHHHHHHHHHCCEEEEEEeCCCCCcHHHHHHHH
Confidence            46777888999999999888888777       89999999999999999999999999999999999999999999999


Q ss_pred             HHHHcCCCeEEEEEeCC
Q psy9646         195 LAKQIGVTNIVVFINKF  211 (211)
Q Consensus       195 ~~~~~~~~~~i~~inK~  211 (211)
                      ++...++| +++++||+
T Consensus       129 ~~~~~~ip-~ilviNKi  144 (704)
T 2rdo_7          129 QANKYKVP-RIAFVNKM  144 (704)
T ss_pred             HHHHcCCC-EEEEEeCC
Confidence            99999999 67899996

>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=99.41  E-value=2.6e-13  Score=118.21  Aligned_cols=88  Identities=25%  Similarity=0.440  Sum_probs=71.4

Q ss_pred             cccchhhcccceEEeEeEEEeeeCCceeEeecCCcccccHhHHhhhccccceEEEEEeccCCCCcchHHHHHHHHHcCCC
Q psy9646         123 IDNAPEEKARGITINVAHVEYATENRHYSHTDCPGHADYIKNMITGTSQMDGAILVVAATDGAMPQTREHLLLAKQIGVT  202 (211)
Q Consensus       123 ~~~~~~e~~rg~tv~~~~~~~~~~~~~~~~iDtPG~~~~~~~~~~~~~~~d~~~~vvd~~~~~~~~~~~~~~~~~~~~~~  202 (211)
                      ++..+.|..+|+|+......+.+.+..++++|||||.+|...+..++..+|++++|+|+.+++..+++++++.+...++|
T Consensus        57 ~D~~~~E~~rGiTi~~~~~~~~~~~~~i~liDTPG~~df~~~~~~~l~~aD~~IlVvDa~~g~~~~t~~~~~~~~~~~ip  136 (529)
T 2h5e_A           57 SDWMEMEKQRGISITTSVMQFPYHDCLVNLLDTPGHEDFSEDTYRTLTAVDCCLMVIDAAKGVEDRTRKLMEVTRLRDTP  136 (529)
T ss_dssp             -------------CCTTEEEEEETTEEEEEECCCCSTTCCHHHHHGGGGCSEEEEEEETTTCSCHHHHHHHHHHTTTTCC
T ss_pred             eccchhcccCCcceeeeEEEEEECCeEEEEEECCCChhHHHHHHHHHHHCCEEEEEEeCCccchHHHHHHHHHHHHcCCC
Confidence            56677888999999998889999999999999999999999999999999999999999999999999999999888999


Q ss_pred             eEEEEEeCC
Q psy9646         203 NIVVFINKF  211 (211)
Q Consensus       203 ~~i~~inK~  211 (211)
                       +++++||+
T Consensus       137 -iivviNK~  144 (529)
T 2h5e_A          137 -ILTFMNKL  144 (529)
T ss_dssp             -EEEEEECT
T ss_pred             -EEEEEcCc
Confidence             78999996

>1xe1_A Hypothetical protein PF0907; structural genomics, unknown function, protein structure INI secsg, conserved hypothetical protein; HET: MSE; 2.00A {Pyrococcus furiosus} SCOP: b.43.3.1

Probab=99.40  E-value=3.3e-12  Score=87.69  Aligned_cols=82  Identities=23%  Similarity=0.308  Sum_probs=68.9

Q ss_pred             CCCeeEEEeeEEeecCCcEEEEEEEEEEEEecCCEEEEeecCceeeEEEEEEEecceecceecccCceehhccCCCcccc
Q psy9646          19 DKPFYLPVEHTYSIPGRGTVVTGRLERGIVKKGMECEFTGYGRQFKTTVTGIEMFHKILDEAQAGDQLGALVKGMKRDEV   98 (211)
Q Consensus        19 ~~p~~~~v~~~~~~~~~G~v~~G~v~~G~i~~g~~v~i~p~~~~~~~~v~~i~~~~~~~~~a~~G~~v~~~l~~~~~~~v   98 (211)
                      -.|..+.|-.++..-+ |+++.|+|++|.+++|+.|   |.++ ..+.|+||+++++++++|.+||+|++++++... ++
T Consensus        32 ~~P~k~~ilp~~~~vF-gpvivGrVe~G~LK~G~~V---Pg~~-~vg~VkSIE~~~e~v~eA~~GdnVai~Ikg~~~-~I  105 (116)
T 1xe1_A           32 KPAGKVVVEEVVNIMG-KDVIIGTVESGMIGVGFKV---KGPS-GIGGIVRIERNREKVEFAIAGDRIGISIEGKIG-KV  105 (116)
T ss_dssp             SCSEEEEEEEEEEETT-EEEEEEEEEEEEEETTCEE---ECSS-CEEEEEEEEETTEEESEEETTCEEEEEEESCCC-CC
T ss_pred             cCcEEEEEEecCCeEE-CCeeEEEEeEEEEcCCCCc---CCCc-eEEEEEEEEECCcCcCCcCCCCEEEEEEECCcc-cc
Confidence            3477777766444334 8999999999999999999   8751 378999999999999999999999999999777 89


Q ss_pred             cccccccc
Q psy9646          99 NRGLIMAK  106 (211)
Q Consensus        99 ~~G~ii~~  106 (211)
                      ++|+++..
T Consensus       106 ~~GdVLyv  113 (116)
T 1xe1_A          106 KKGDVLEI  113 (116)
T ss_dssp             CTTCEEEE
T ss_pred             CCCcEEEE
Confidence            99998754

>3izy_P Translation initiation factor IF-2, mitochondrial; E coli, RNA, ribosomal; 10.80A {Bos taurus}

Probab=99.33  E-value=9.9e-14  Score=120.70  Aligned_cols=104  Identities=32%  Similarity=0.327  Sum_probs=84.7

Q ss_pred             cchhhhhhhhcccccccccchhhcccceEEeEeEEEeee-CCceeEeecCCcccccHhHHhhhccccceEEEEEeccCCC
Q psy9646         107 PVLADKKLAKVKQYADIDNAPEEKARGITINVAHVEYAT-ENRHYSHTDCPGHADYIKNMITGTSQMDGAILVVAATDGA  185 (211)
Q Consensus       107 ~~~~~~~~~~f~~~i~~~~~~~e~~rg~tv~~~~~~~~~-~~~~~~~iDtPG~~~~~~~~~~~~~~~d~~~~vvd~~~~~  185 (211)
                      .+.+..|++++...+..........+++|.+..+..+.. .+..+.|+|||||++|...+..++..+|++++|+|+.++.
T Consensus        10 vG~~~vGKTSLl~~L~~~~~~~~~~~giT~~i~~~~v~~~~g~~i~~iDTPGhe~f~~~~~~~~~~aD~vILVVDa~dg~   89 (537)
T 3izy_P           10 MGHVDHGKTTLLDKLRKTQVAAMEAGGITQHIGAFLVSLPSGEKITFLDTPGHAAFSAMRARGTQVTDIVILVVAADDGV   89 (537)
T ss_dssp             EESTTTTHHHHHHHHHHHHHHHSSSCCBCCCTTSCCBCSSCSSCCBCEECSSSCCTTTSBBSSSBSBSSCEEECBSSSCC
T ss_pred             ECCCCCCHHHHHHHHhCCCcccccCCceeEEEeEEEEEeCCCCEEEEEECCChHHHHHHHHHHHccCCEEEEEEECCCCc
Confidence            344556677766555433344445567777776666665 4568999999999999999999999999999999999999


Q ss_pred             CcchHHHHHHHHHcCCCeEEEEEeCC
Q psy9646         186 MPQTREHLLLAKQIGVTNIVVFINKF  211 (211)
Q Consensus       186 ~~~~~~~~~~~~~~~~~~~i~~inK~  211 (211)
                      ++|+.+++.++...++| +|+++||+
T Consensus        90 ~~qt~e~l~~~~~~~vP-iIVViNKi  114 (537)
T 3izy_P           90 MKQTVESIQHAKDAHVP-IVLAINKC  114 (537)
T ss_dssp             CHHHHHHHHHHHTTTCC-EEECCBSG
T ss_pred             cHHHHHHHHHHHHcCCc-EEEEEecc
Confidence            99999999999999999 88999996

>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=99.33  E-value=2.5e-12  Score=115.40  Aligned_cols=89  Identities=29%  Similarity=0.452  Sum_probs=69.5

Q ss_pred             ccccchhhcccceEEeEeEEEeeeCCceeEeecCCcccccHhHHhhhccccceEEEEEeccCCCCcchHHHHHHHHHcCC
Q psy9646         122 DIDNAPEEKARGITINVAHVEYATENRHYSHTDCPGHADYIKNMITGTSQMDGAILVVAATDGAMPQTREHLLLAKQIGV  201 (211)
Q Consensus       122 ~~~~~~~e~~rg~tv~~~~~~~~~~~~~~~~iDtPG~~~~~~~~~~~~~~~d~~~~vvd~~~~~~~~~~~~~~~~~~~~~  201 (211)
                      .++..+.|..+++|+......+.+.+.+++++|||||.+|...+..++..+|++++|+|+.++...++..+++.+...++
T Consensus        51 ~~d~~~~E~~~giTi~~~~~~~~~~~~~i~liDTPG~~df~~~~~~~l~~aD~~ilVvDa~~g~~~~t~~~~~~~~~~~~  130 (691)
T 1dar_A           51 TMDFMEQERERGITITAAVTTCFWKDHRINIIDTPGHVDFTIEVERSMRVLDGAIVVFDSSQGVEPQSETVWRQAEKYKV  130 (691)
T ss_dssp             ----------------CCEEEEEETTEEEEEECCCSSTTCHHHHHHHHHHCSEEEEEEETTTCSCHHHHHHHHHHHHTTC
T ss_pred             eccCchhhhhcccccccceEEEEECCeEEEEEECcCccchHHHHHHHHHHCCEEEEEEECCCCcchhhHHHHHHHHHcCC
Confidence            35677788899999999988999999999999999999999999999999999999999999999999999999999999


Q ss_pred             CeEEEEEeCC
Q psy9646         202 TNIVVFINKF  211 (211)
Q Consensus       202 ~~~i~~inK~  211 (211)
                      | +++++||+
T Consensus       131 p-~ivviNKi  139 (691)
T 1dar_A          131 P-RIAFANKM  139 (691)
T ss_dssp             C-EEEEEECT
T ss_pred             C-EEEEEECC
Confidence            9 77899996

>2xex_A Elongation factor G; GTPase, translation, biosynthetic protein; 1.90A {Staphylococcus aureus}

Probab=99.31  E-value=2.6e-12  Score=115.34  Aligned_cols=89  Identities=35%  Similarity=0.498  Sum_probs=70.3

Q ss_pred             ccccchhhcccceEEeEeEEEeeeCCceeEeecCCcccccHhHHhhhccccceEEEEEeccCCCCcchHHHHHHHHHcCC
Q psy9646         122 DIDNAPEEKARGITINVAHVEYATENRHYSHTDCPGHADYIKNMITGTSQMDGAILVVAATDGAMPQTREHLLLAKQIGV  201 (211)
Q Consensus       122 ~~~~~~~e~~rg~tv~~~~~~~~~~~~~~~~iDtPG~~~~~~~~~~~~~~~d~~~~vvd~~~~~~~~~~~~~~~~~~~~~  201 (211)
                      .++..+.|+.+++|+......+.+.+.+++++|||||.+|..++..++..+|++++|+|+.+++..++..+++.+...++
T Consensus        49 ~~D~~~~e~~~giTi~~~~~~~~~~~~~i~liDTPG~~df~~~~~~~l~~aD~~llVvDa~~g~~~~~~~~~~~~~~~~~  128 (693)
T 2xex_A           49 QMDWMEQEQDRGITITSAATTAAWEGHRVNIIDTPGHVDFTVEVERSLRVLDGAVTVLDAQSGVEPQTETVWRQATTYGV  128 (693)
T ss_dssp             ---------------CCSEEEEEETTEEEEEECCCCCSSCCHHHHHHHHHCSEEEEEEETTTBSCHHHHHHHHHHHHTTC
T ss_pred             ecccchhhhhcCceEeeeeEEEEECCeeEEEEECcCCcchHHHHHHHHHHCCEEEEEECCCCCCcHHHHHHHHHHHHcCC
Confidence            35667788889999999988899999999999999999999999999999999999999999999999999999999999


Q ss_pred             CeEEEEEeCC
Q psy9646         202 TNIVVFINKF  211 (211)
Q Consensus       202 ~~~i~~inK~  211 (211)
                      | +|+++||+
T Consensus       129 p-~ilviNK~  137 (693)
T 2xex_A          129 P-RIVFVNKM  137 (693)
T ss_dssp             C-EEEEEECT
T ss_pred             C-EEEEEECC
Confidence            8 77899996

>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=99.30  E-value=1.9e-12  Score=118.44  Aligned_cols=89  Identities=31%  Similarity=0.412  Sum_probs=70.5

Q ss_pred             ccccchhhcccceEEeEeEEEeeeC----------------CceeEeecCCcccccHhHHhhhccccceEEEEEeccCCC
Q psy9646         122 DIDNAPEEKARGITINVAHVEYATE----------------NRHYSHTDCPGHADYIKNMITGTSQMDGAILVVAATDGA  185 (211)
Q Consensus       122 ~~~~~~~e~~rg~tv~~~~~~~~~~----------------~~~~~~iDtPG~~~~~~~~~~~~~~~d~~~~vvd~~~~~  185 (211)
                      ++|..+.|..|++|+......+.+.                +..++++|||||.+|..++..++..+|++++|+|+.+++
T Consensus        56 ~~D~~~~E~~rgiTI~~~~~~~~~~~~~~~~~~i~~~~~~~~~~i~liDTPG~~df~~~~~~~l~~aD~ailVvDa~~g~  135 (842)
T 1n0u_A           56 FTDTRKDEQERGITIKSTAISLYSEMSDEDVKEIKQKTDGNSFLINLIDSPGHVDFSSEVTAALRVTDGALVVVDTIEGV  135 (842)
T ss_dssp             -----------CCCBCCCEEEEEEECCHHHHHHCSSCCCSSEEEEEEECCCCCCSSCHHHHHHHHTCSEEEEEEETTTBS
T ss_pred             eecCchhhhhcceeEeeceeEEEecccccccccccccccCCCceEEEEECcCchhhHHHHHHHHHhCCEEEEEEeCCCCC
Confidence            4677788899999998877666554                678999999999999999999999999999999999999


Q ss_pred             CcchHHHHHHHHHcCCCeEEEEEeCC
Q psy9646         186 MPQTREHLLLAKQIGVTNIVVFINKF  211 (211)
Q Consensus       186 ~~~~~~~~~~~~~~~~~~~i~~inK~  211 (211)
                      ..|+..++..+...++| +|+++||+
T Consensus       136 ~~qt~~~~~~~~~~~~p-~ilviNK~  160 (842)
T 1n0u_A          136 CVQTETVLRQALGERIK-PVVVINKV  160 (842)
T ss_dssp             CHHHHHHHHHHHHTTCE-EEEEEECH
T ss_pred             CHHHHHHHHHHHHcCCC-eEEEEECC
Confidence            99999999999888998 67899995

>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=99.23  E-value=1.3e-11  Score=110.47  Aligned_cols=88  Identities=22%  Similarity=0.345  Sum_probs=80.9

Q ss_pred             cccchhhcccceEEeEeEEEeeeCCceeEeecCCcccccHhHHhhhccccceEEEEEeccCCCCcchHHHHHHHHHcCCC
Q psy9646         123 IDNAPEEKARGITINVAHVEYATENRHYSHTDCPGHADYIKNMITGTSQMDGAILVVAATDGAMPQTREHLLLAKQIGVT  202 (211)
Q Consensus       123 ~~~~~~e~~rg~tv~~~~~~~~~~~~~~~~iDtPG~~~~~~~~~~~~~~~d~~~~vvd~~~~~~~~~~~~~~~~~~~~~~  202 (211)
                      .+..+.|..+++++......+.+....++++|||||.+|..++..+++.+|++++|+|+.+++..+++++++.+...++|
T Consensus        49 ~d~~~~e~~~giti~~~~~~~~~~~~~~nliDTpG~~~f~~~~~~~l~~ad~~ilVvD~~~g~~~qt~~~~~~~~~~~ip  128 (665)
T 2dy1_A           49 TDYTPEAKLHRTTVRTGVAPLLFRGHRVFLLDAPGYGDFVGEIRGALEAADAALVAVSAEAGVQVGTERAWTVAERLGLP  128 (665)
T ss_dssp             SCCSHHHHHTTSCCSCEEEEEEETTEEEEEEECCCSGGGHHHHHHHHHHCSEEEEEEETTTCSCHHHHHHHHHHHHTTCC
T ss_pred             ccCCHHHHhcCCeEEecceEEeeCCEEEEEEeCCCccchHHHHHHHHhhcCcEEEEEcCCcccchhHHHHHHHHHHccCC
Confidence            56667788889999888888888899999999999999999999999999999999999999999999999999999999


Q ss_pred             eEEEEEeCC
Q psy9646         203 NIVVFINKF  211 (211)
Q Consensus       203 ~~i~~inK~  211 (211)
                       +|+++||+
T Consensus       129 -~ilv~NKi  136 (665)
T 2dy1_A          129 -RMVVVTKL  136 (665)
T ss_dssp             -EEEEEECG
T ss_pred             -EEEEecCC
Confidence             77899996

>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=99.23  E-value=3.6e-12  Score=112.33  Aligned_cols=62  Identities=32%  Similarity=0.409  Sum_probs=59.0

Q ss_pred             eeEeecCCcccccHhHHhhhccccceEEEEEeccCCCCcchHHHHHHHHHcCCCeEEEEEeCC
Q psy9646         149 HYSHTDCPGHADYIKNMITGTSQMDGAILVVAATDGAMPQTREHLLLAKQIGVTNIVVFINKF  211 (211)
Q Consensus       149 ~~~~iDtPG~~~~~~~~~~~~~~~d~~~~vvd~~~~~~~~~~~~~~~~~~~~~~~~i~~inK~  211 (211)
                      +++|+|||||.+|...+..++..+|++++|+|+.+|+++|+.+++.+++..++| +|+++||+
T Consensus        71 ~i~liDTPGhe~F~~~~~r~~~~aD~aILVvDa~~Gv~~qT~e~l~~l~~~~vP-iIVViNKi  132 (594)
T 1g7s_A           71 GLFFIDTPGHEAFTTLRKRGGALADLAILIVDINEGFKPQTQEALNILRMYRTP-FVVAANKI  132 (594)
T ss_dssp             EEEEECCCTTSCCTTSBCSSSBSCSEEEEEEETTTCCCHHHHHHHHHHHHTTCC-EEEEEECG
T ss_pred             CEEEEECCCcHHHHHHHHHHHhhCCEEEEEEECCCCccHhHHHHHHHHHHcCCe-EEEEeccc
Confidence            599999999999999998999999999999999999999999999999999999 88999996

>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=99.22  E-value=1.9e-11  Score=103.26  Aligned_cols=64  Identities=47%  Similarity=0.730  Sum_probs=60.2

Q ss_pred             ceeEeecCCcccccHhHHhhhccccceEEEEEeccCCC-CcchHHHHHHHHHcCCCeEEEEEeCC
Q psy9646         148 RHYSHTDCPGHADYIKNMITGTSQMDGAILVVAATDGA-MPQTREHLLLAKQIGVTNIVVFINKF  211 (211)
Q Consensus       148 ~~~~~iDtPG~~~~~~~~~~~~~~~d~~~~vvd~~~~~-~~~~~~~~~~~~~~~~~~~i~~inK~  211 (211)
                      ..+.|+|||||++|.+++..+++.+|++++|+|+.++. .+|+++++..+...+.+++|+++||+
T Consensus        75 ~~~~iiDtPGh~~~~~~~~~~~~~~D~~ilVvda~~~~~~~qt~~~~~~~~~~~~~~iivviNK~  139 (403)
T 3sjy_A           75 RRISFIDAPGHEVLMATMLSGAALMDGAILVVAANEPFPQPQTREHFVALGIIGVKNLIIVQNKV  139 (403)
T ss_dssp             EEEEEEECCCCGGGHHHHHHHHTTCSEEEEEEETTSCSSCHHHHHHHHHHHHHTCCCEEEEEECG
T ss_pred             ceEEEEECCCcHHHHHHHHHHHhhCCEEEEEEECCCCCCcHHHHHHHHHHHHcCCCCEEEEEECc
Confidence            67999999999999999999999999999999999997 89999999999999986699999996

>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=99.19  E-value=9.4e-11  Score=103.28  Aligned_cols=105  Identities=26%  Similarity=0.300  Sum_probs=89.4

Q ss_pred             hHHHHHhhhCCCCCCCCCCCeeEEEeeEEeecCCcEEEEEEEEEEEEecCCEEEEeecCceeeEEEEEEEecc---eecc
Q psy9646           2 ELLNQIDTYIPQPVRDLDKPFYLPVEHTYSIPGRGTVVTGRLERGIVKKGMECEFTGYGRQFKTTVTGIEMFH---KILD   78 (211)
Q Consensus         2 ~ll~~l~~~i~~p~~~~~~p~~~~v~~~~~~~~~G~v~~G~v~~G~i~~g~~v~i~p~~~~~~~~v~~i~~~~---~~~~   78 (211)
                      +||++|.+.+|.|..+.++||++.|.++++.++.|+++.|+|.+|.+++||.|.++|+++  ..+|+++..++   .+++
T Consensus       173 ~Lle~I~~~lp~p~~~~~~pl~~lV~~~~~d~~~G~v~~~rV~sG~l~~Gd~I~~~~~~~--~~~v~~i~~~~~~~~~v~  250 (600)
T 2ywe_A          173 EILEAIVNRIPPPKGDPQKPLKALIFDSYYDPYRGAVAFVRIFDGEVKPGDKIMLMSTGK--EYEVTEVGAQTPKMTKFD  250 (600)
T ss_dssp             HHHHHHHHHSCCCCCCTTSCCEEEEEEEEEETTTEEEEEEEEEESEECTTCEEEETTTTE--EEECCEEEEESSSEEEES
T ss_pred             HHHHHHHHhcccccccccCCcceeEEEEeecccceEEEEEEEEeCEEecCCEEEeccccc--eEeeecccccCCCceECC
Confidence            588999998998888889999999999999999999999999999999999999999875  67788887654   6889


Q ss_pred             eecccCceehhccCC-Ccccccccccccccch
Q psy9646          79 EAQAGDQLGALVKGM-KRDEVNRGLIMAKPVL  109 (211)
Q Consensus        79 ~a~~G~~v~~~l~~~-~~~~v~~G~ii~~~~~  109 (211)
                      ++.+||.+.+. .++ +..++++|++++....
T Consensus       251 ~~~aGdi~~v~-~gi~~~~~~~~GDtl~~~~~  281 (600)
T 2ywe_A          251 KLSAGDVGYIA-ASIKDVRDIRIGDTITHAKN  281 (600)
T ss_dssp             CEETTCEEEEE-SSCCCTTSSCTTCEEEESSS
T ss_pred             EEecCceeeee-ccccchhhccCCCEEEeCCC
Confidence            99999966553 343 4668999999987554

>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=99.12  E-value=1.4e-10  Score=94.34  Aligned_cols=69  Identities=17%  Similarity=0.233  Sum_probs=59.5

Q ss_pred             EeeeCCceeEeecCCcccc--------cHhHHhhhccccceEEEEEeccCCCCcchHHHHHHHHHc--CCCeEEEEEeCC
Q psy9646         142 EYATENRHYSHTDCPGHAD--------YIKNMITGTSQMDGAILVVAATDGAMPQTREHLLLAKQI--GVTNIVVFINKF  211 (211)
Q Consensus       142 ~~~~~~~~~~~iDtPG~~~--------~~~~~~~~~~~~d~~~~vvd~~~~~~~~~~~~~~~~~~~--~~~~~i~~inK~  211 (211)
                      .+..++.++.|+||||+++        |...+..++..+|++++|+|+..+....+..+++.++..  +.| +|+++||+
T Consensus        49 i~~~~~~~l~l~DTpG~~~~~~~l~~~~~~~~~~~l~~ad~il~VvD~~~~~~~~~~~i~~~l~~~~~~~p-~ilV~NK~  127 (301)
T 1wf3_A           49 ILTEGRRQIVFVDTPGLHKPMDALGEFMDQEVYEALADVNAVVWVVDLRHPPTPEDELVARALKPLVGKVP-ILLVGNKL  127 (301)
T ss_dssp             EEEETTEEEEEEECCCCCCCCSHHHHHHHHHHHHHTSSCSEEEEEEETTSCCCHHHHHHHHHHGGGTTTSC-EEEEEECG
T ss_pred             EEEeCCcEEEEecCccccchhhHHHHHHHHHHHHHHhcCCEEEEEEECCCCCChHHHHHHHHHHhhcCCCC-EEEEEECc
Confidence            3456788999999999887        677888999999999999999998888887787888777  788 78999996

>3cb4_D GTP-binding protein LEPA; GTPase, OB-fold, membrane, nucleotide-binding, translation; 2.80A {Escherichia coli} PDB: 3deg_C*

Probab=99.08  E-value=5.9e-10  Score=98.28  Aligned_cols=105  Identities=17%  Similarity=0.205  Sum_probs=89.0

Q ss_pred             hHHHHHhhhCCCCCCCCCCCeeEEEeeEEeecCCcEEEEEEEEEEEEecCCEEEEeecCceeeEEEEEEEecc---eecc
Q psy9646           2 ELLNQIDTYIPQPVRDLDKPFYLPVEHTYSIPGRGTVVTGRLERGIVKKGMECEFTGYGRQFKTTVTGIEMFH---KILD   78 (211)
Q Consensus         2 ~ll~~l~~~i~~p~~~~~~p~~~~v~~~~~~~~~G~v~~G~v~~G~i~~g~~v~i~p~~~~~~~~v~~i~~~~---~~~~   78 (211)
                      +|+++|.+.+|.|..+.++||++.|.++++.++.|++..|+|.+|+++.||++.+.+++.  ..+|+++...+   .+++
T Consensus       171 ~Ll~~I~~~lp~p~~~~~~p~~alI~d~~~d~~~G~v~~~rV~sG~l~~Gd~v~~~~~~~--~~~v~~i~~~~~~~~~~~  248 (599)
T 3cb4_D          171 DVLERLVRDIPPPEGDPEGPLQALIIDSWFDNYLGVVSLIRIKNGTLRKGDKVKVMSTGQ--TYNADRLGIFTPKQVDRT  248 (599)
T ss_dssp             HHHHHHHHHSCCCCCCTTSCCEEEEEEEEEETTTEEEEEEEEEESCEESSCEEEETTTCC--EEECCEEEEESSSEEECS
T ss_pred             hHHHHHhhcCCCccccccCCceeeeeeccccccccEEEEEEEEeCEEecCCEEEeccccc--eeEEeeeeeccCCceECC
Confidence            588999998998888889999999999999999999999999999999999999999875  66777887653   5789


Q ss_pred             eecccCceehhccCC-Ccccccccccccccch
Q psy9646          79 EAQAGDQLGALVKGM-KRDEVNRGLIMAKPVL  109 (211)
Q Consensus        79 ~a~~G~~v~~~l~~~-~~~~v~~G~ii~~~~~  109 (211)
                      ++.+||.+.+ +.++ +..++++|++++....
T Consensus       249 ~~~aGdi~~~-~~gi~~~~~~~~GDtl~~~~~  279 (599)
T 3cb4_D          249 ELKCGEVGWL-VCAIKDIHGAPVGDTLTLARN  279 (599)
T ss_dssp             EECTTCEEEE-ECCCSSGGGSCTTCEEEESSS
T ss_pred             EEcCCCeeEe-eccccccccCccCCEeeecCC
Confidence            9999996554 3344 4668999999987554

>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=99.08  E-value=1.2e-10  Score=94.96  Aligned_cols=100  Identities=16%  Similarity=0.142  Sum_probs=72.8

Q ss_pred             hhhhhhcccccccccch-hhcccceEEeEeEEEeeeC-CceeEeecCCcccc----------cHhHHhhhccccceEEEE
Q psy9646         111 DKKLAKVKQYADIDNAP-EEKARGITINVAHVEYATE-NRHYSHTDCPGHAD----------YIKNMITGTSQMDGAILV  178 (211)
Q Consensus       111 ~~~~~~f~~~i~~~~~~-~e~~rg~tv~~~~~~~~~~-~~~~~~iDtPG~~~----------~~~~~~~~~~~~d~~~~v  178 (211)
                      ..|++++...+...... .....+.|.......+..+ +.+++|+||||+++          |...+..++..+|++++|
T Consensus        20 nvGKSTLin~l~g~~~~i~s~~~~tT~~~~~~~~~~~~~~~i~lvDTPG~~~~~~~~~l~~~~~~~~~~~l~~aD~il~V   99 (308)
T 3iev_A           20 NVGKSTLLNNLLGTKVSIISPKAGTTRMRVLGVKNIPNEAQIIFLDTPGIYEPKKSDVLGHSMVEIAKQSLEEADVILFM   99 (308)
T ss_dssp             TSSHHHHHHHHHTSCCSCCCSSSCCCCSCEEEEEEETTTEEEEEEECCCCCCCCTTCHHHHHHHHHHHHHHHHCSEEEEE
T ss_pred             CCcHHHHHHHHhCCCccccCCCCCceeeEEEEEEecCCCCeEEEEECcCCCccccchhHHHHHHHHHHHHhhcCCEEEEE
Confidence            34555544433322211 2334455555555666677 89999999999854          447788889999999999


Q ss_pred             EeccCCCCcchHHH-HHHHHHcCCCeEEEEEeCC
Q psy9646         179 VAATDGAMPQTREH-LLLAKQIGVTNIVVFINKF  211 (211)
Q Consensus       179 vd~~~~~~~~~~~~-~~~~~~~~~~~~i~~inK~  211 (211)
                      +|+.++...++..+ ++.++..++| +++|+||+
T Consensus       100 vD~~~~~~~~~~~~~~~~l~~~~~p-vilV~NK~  132 (308)
T 3iev_A          100 IDATEGWRPRDEEIYQNFIKPLNKP-VIVVINKI  132 (308)
T ss_dssp             EETTTBSCHHHHHHHHHHTGGGCCC-EEEEEECG
T ss_pred             EeCCCCCCchhHHHHHHHHHhcCCC-EEEEEECc
Confidence            99999988888887 7888888888 78999996

>2lkc_A Translation initiation factor IF-2; NMR {Geobacillus stearothermophilus} PDB: 2lkd_A*

Probab=98.99  E-value=2.8e-10  Score=84.35  Aligned_cols=77  Identities=38%  Similarity=0.520  Sum_probs=63.0

Q ss_pred             eEEeEeEEEeeeCCceeEeecCCcccccHhHHhhhccccceEEEEEeccCCCCcchHHHHHHHHHcCCCeEEEEEeCC
Q psy9646         134 ITINVAHVEYATENRHYSHTDCPGHADYIKNMITGTSQMDGAILVVAATDGAMPQTREHLLLAKQIGVTNIVVFINKF  211 (211)
Q Consensus       134 ~tv~~~~~~~~~~~~~~~~iDtPG~~~~~~~~~~~~~~~d~~~~vvd~~~~~~~~~~~~~~~~~~~~~~~~i~~inK~  211 (211)
                      .+.+.....+...+..+.++||||+++|.......+..+|++++|+|+..+...++.+.+..+...++| +++++||+
T Consensus        41 ~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~~~~~~~~l~~~~~~~~p-~ilv~nK~  117 (178)
T 2lkc_A           41 ITQHIGAYQVTVNDKKITFLDTPGHEAFTTMRARGAQVTDIVILVVAADDGVMPQTVEAINHAKAANVP-IIVAINKM  117 (178)
T ss_dssp             SSTTCCCCEEEETTEEEEESCCCSSSSSSCSCCSSCCCCCEEEEEEETTCCCCHHHHHHHHHHGGGSCC-EEEEEETT
T ss_pred             eeEeeeEEEEEeCCceEEEEECCCCHHHHHHHHHHHhhCCEEEEEEECCCCCcHHHHHHHHHHHhCCCC-EEEEEECc
Confidence            333444445566778899999999999887777888999999999999988888888888877777888 88999996

>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=98.98  E-value=3.8e-10  Score=91.64  Aligned_cols=70  Identities=17%  Similarity=0.111  Sum_probs=58.6

Q ss_pred             EEEeeeCCceeEeecCCccc---------ccHhHHhhhccccceEEEEEeccCCCCcchHHHHHHHHHcCCCeEEEEEeC
Q psy9646         140 HVEYATENRHYSHTDCPGHA---------DYIKNMITGTSQMDGAILVVAATDGAMPQTREHLLLAKQIGVTNIVVFINK  210 (211)
Q Consensus       140 ~~~~~~~~~~~~~iDtPG~~---------~~~~~~~~~~~~~d~~~~vvd~~~~~~~~~~~~~~~~~~~~~~~~i~~inK  210 (211)
                      ...+..++.+++|+||||++         .|...+..++..+|++++|+|+.. +..+++.+++.+...+.| +|+++||
T Consensus        48 ~gi~~~~~~~i~~iDTpG~~~~~~~~l~~~~~~~~~~~l~~~D~vl~Vvd~~~-~~~~~~~i~~~l~~~~~P-~ilvlNK  125 (301)
T 1ega_A           48 VGIHTEGAYQAIYVDTPGLHMEEKRAINRLMNKAASSSIGDVELVIFVVEGTR-WTPDDEMVLNKLREGKAP-VILAVNK  125 (301)
T ss_dssp             EEEEEETTEEEEEESSSSCCHHHHHHHHHHHTCCTTSCCCCEEEEEEEEETTC-CCHHHHHHHHHHHSSSSC-EEEEEES
T ss_pred             EEEEEECCeeEEEEECcCCCccchhhHHHHHHHHHHHHHhcCCEEEEEEeCCC-CCHHHHHHHHHHHhcCCC-EEEEEEC
Confidence            34456678899999999998         455667888999999999999988 888888888888777888 7789999


Q ss_pred             C
Q psy9646         211 F  211 (211)
Q Consensus       211 ~  211 (211)
                      +
T Consensus       126 ~  126 (301)
T 1ega_A          126 V  126 (301)
T ss_dssp             T
T ss_pred             c
Confidence            6

>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=98.97  E-value=3.1e-09  Score=95.53  Aligned_cols=101  Identities=24%  Similarity=0.339  Sum_probs=84.6

Q ss_pred             hHHHHHhhhCCCCCC--------------------CCCCCeeEEEeeEEeecCCcEEEEEEEEEEEEecCCEEEEeecCc
Q psy9646           2 ELLNQIDTYIPQPVR--------------------DLDKPFYLPVEHTYSIPGRGTVVTGRLERGIVKKGMECEFTGYGR   61 (211)
Q Consensus         2 ~ll~~l~~~i~~p~~--------------------~~~~p~~~~v~~~~~~~~~G~v~~G~v~~G~i~~g~~v~i~p~~~   61 (211)
                      .||++|.+++|.|..                    +.++||.+.|..++..++.|++..|||.+|+++.|++|...+.++
T Consensus       277 ~LLd~i~~~lPsP~~~~~~~~~~~~~~~~~~~~~~~~~~p~~~~VfK~~~d~~~G~~~~~RV~sG~l~~g~~v~~~~~~~  356 (704)
T 2rdo_7          277 AMLDAVIDYLPSPVDVPAINGILDDGKDTPAERHASDDEPFSALAFKIATDPFVGNLTFFRVYSGVVNSGDTVLNSVKAA  356 (704)
T ss_pred             HHHHHHHHHCCChhhcccccccCCcccccccccccCCCCceEEEEEEEEEcCCCceEEEEEEEeeeecCCCEEEeCCCCc
Confidence            589999999987743                    156899999999999999999999999999999999999877764


Q ss_pred             eeeEEEEEEEec----ceecceecccCceehhccCCCcccccccccccccc
Q psy9646          62 QFKTTVTGIEMF----HKILDEAQAGDQLGALVKGMKRDEVNRGLIMAKPV  108 (211)
Q Consensus        62 ~~~~~v~~i~~~----~~~~~~a~~G~~v~~~l~~~~~~~v~~G~ii~~~~  108 (211)
                        +.+|.++...    ..++++|.|||++++.  +  ..+++.|++++...
T Consensus       357 --~~~v~~l~~~~g~~~~~v~~~~aGdIv~i~--g--l~~~~~GdTl~~~~  401 (704)
T 2rdo_7          357 --RERFGRIVQMHANKREEIKEVRAGDIAAAI--G--LKDVTTGDTLCDPD  401 (704)
T ss_pred             --EEEeceEEEEeCCCceEcceeCCCCEEEEe--C--cccCccCCEEeCCC
Confidence              6788888754    3689999999999983  3  44678899998644

>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=98.95  E-value=9.1e-10  Score=95.93  Aligned_cols=101  Identities=20%  Similarity=0.264  Sum_probs=78.7

Q ss_pred             hHHHHHhhhCCCCCCC---------CCCCeeEEEeeEEe---ecCCcEEEEEEEEEEEEecCCEEEEeecCceeeEEEEE
Q psy9646           2 ELLNQIDTYIPQPVRD---------LDKPFYLPVEHTYS---IPGRGTVVTGRLERGIVKKGMECEFTGYGRQFKTTVTG   69 (211)
Q Consensus         2 ~ll~~l~~~i~~p~~~---------~~~p~~~~v~~~~~---~~~~G~v~~G~v~~G~i~~g~~v~i~p~~~~~~~~v~~   69 (211)
                      +||++|.+++|.|...         .+.||...|..+..   .+++|++..|||.+|+++.||+|...+.++  +.+|++
T Consensus       267 ~LLd~i~~~~P~P~~~~~~~~~~~~~~~~~~~~vfKi~~~~d~~~~G~i~~~RV~sG~l~~g~~v~~~~~~~--~~~v~~  344 (529)
T 2h5e_A          267 HMLDGLVEWAPAPMPRQTDTRTVEASEDKFTGFVFKIQANMDPKHRDRVAFMRVVSGKYEKGMKLRQVRTAK--DVVISD  344 (529)
T ss_dssp             HHHHHHHHHSCSSCCEEBSSCEECTTCCSCEEEEEEECSSCCSSSSCCCEEEEEEESCEETTCEEEETTTTE--EEECSC
T ss_pred             HHHHHHHHhCCCCCcccccccccCCCCCCeEEEEEEEeeccCcCCCceEEEEEEecCeEcCCCEEEEeeCCC--EEEece
Confidence            5899999999877532         14677777665543   356899999999999999999999999875  788999


Q ss_pred             EEec----ceecceecccCceehhccCCCcccccccccccccc
Q psy9646          70 IEMF----HKILDEAQAGDQLGALVKGMKRDEVNRGLIMAKPV  108 (211)
Q Consensus        70 i~~~----~~~~~~a~~G~~v~~~l~~~~~~~v~~G~ii~~~~  108 (211)
                      +..+    .+++++|.|||++++.    +..+++.|++++...
T Consensus       345 i~~~~g~~~~~v~~a~aGdiv~i~----~l~~~~~Gdtl~~~~  383 (529)
T 2h5e_A          345 ALTFMAGDRSHVEEAYPGDILGLH----NHGTIQIGDTFTQGE  383 (529)
T ss_dssp             EECCCC-----CCEECTTCEEEEC----CSSCCCTTCEEESSC
T ss_pred             eeEEeCCCceEcceECCCCEEEEe----ccCCCccCCEeecCC
Confidence            9865    4689999999999882    345788899998754

>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=98.92  E-value=2.4e-09  Score=91.26  Aligned_cols=82  Identities=16%  Similarity=0.171  Sum_probs=63.7

Q ss_pred             hcccceEEeEeEEEeeeCCceeEeecCCcccc---------cHhHHhhhccccceEEEEEeccCCCCcchHHHHHHHHHc
Q psy9646         129 EKARGITINVAHVEYATENRHYSHTDCPGHAD---------YIKNMITGTSQMDGAILVVAATDGAMPQTREHLLLAKQI  199 (211)
Q Consensus       129 e~~rg~tv~~~~~~~~~~~~~~~~iDtPG~~~---------~~~~~~~~~~~~d~~~~vvd~~~~~~~~~~~~~~~~~~~  199 (211)
                      +...|.|.+..+..+++.+.++.++||||...         +...+..++..+|++++|+|+..+....+..+.+.+...
T Consensus        30 ~~~~g~T~d~~~~~~~~~~~~~~l~DT~G~~~~~~~~~~~~~~~~~~~~~~~ad~il~V~D~~~~~~~~d~~i~~~l~~~  109 (439)
T 1mky_A           30 EDEEGVTRDPVQDTVEWYGKTFKLVDTCGVFDNPQDIISQKMKEVTLNMIREADLVLFVVDGKRGITKEDESLADFLRKS  109 (439)
T ss_dssp             --------CCSEEEEEETTEEEEEEECTTTTSSGGGCCCHHHHHHHHHHHTTCSEEEEEEETTTCCCHHHHHHHHHHHHH
T ss_pred             cCCCCCccceeeEEEEECCeEEEEEECCCccccccchHHHHHHHHHHHHHHhCCEEEEEEECCCCCCHHHHHHHHHHHHc
Confidence            34557777777888888999999999999764         345567788999999999999999988888888888888


Q ss_pred             CCCeEEEEEeCC
Q psy9646         200 GVTNIVVFINKF  211 (211)
Q Consensus       200 ~~~~~i~~inK~  211 (211)
                      +.| +++|+||+
T Consensus       110 ~~p-~ilv~NK~  120 (439)
T 1mky_A          110 TVD-TILVANKA  120 (439)
T ss_dssp             TCC-EEEEEESC
T ss_pred             CCC-EEEEEeCC
Confidence            888 78999996

>4dhe_A Probable GTP-binding protein ENGB; melioidosis, RAS-like GTPase, cell division, cell cycle, SEP GTP-binding; 2.20A {Burkholderia thailandensis}

Probab=98.91  E-value=3.3e-09  Score=81.64  Aligned_cols=101  Identities=16%  Similarity=0.142  Sum_probs=70.7

Q ss_pred             hhhhhhhccccccccc--chhhcccceEEeEeEEEee-eCCceeEeecCCcccc-------------cHhHHhhhccccc
Q psy9646         110 ADKKLAKVKQYADIDN--APEEKARGITINVAHVEYA-TENRHYSHTDCPGHAD-------------YIKNMITGTSQMD  173 (211)
Q Consensus       110 ~~~~~~~f~~~i~~~~--~~~e~~rg~tv~~~~~~~~-~~~~~~~~iDtPG~~~-------------~~~~~~~~~~~~d  173 (211)
                      ...|++++...+....  .......+.+....+..+. ..+..+.++||||+.+             +....+.....+|
T Consensus        38 ~~~GKSslin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~l~DtpG~~~~~~~~~~~~~~~~~~~~~~~~~~~~d  117 (223)
T 4dhe_A           38 SNAGKSTAINVLCNQKRLAFASKTPGRTQHINYFSVGPAAEPVAHLVDLPGYGYAEVPGAAKAHWEQLLSSYLQTRPQLC  117 (223)
T ss_dssp             CHHHHHHHHHHHTTCSSSSCTTCCCCSCCCEEEEEESCTTSCSEEEEECCCCCSSCCCSTHHHHHHHHHHHHHHHCTTEE
T ss_pred             CCCCHHHHHHHHhCCCcceeecCCCCcccceEEEEecCCCCCcEEEEcCCCCCcccCChhhHHHHHHHHHHHHhcCcCcC
Confidence            4456666555443222  1233344556665555555 5568899999999632             3445566667789


Q ss_pred             eEEEEEeccCCCCcchHHHHHHHHHcCCCeEEEEEeCC
Q psy9646         174 GAILVVAATDGAMPQTREHLLLAKQIGVTNIVVFINKF  211 (211)
Q Consensus       174 ~~~~vvd~~~~~~~~~~~~~~~~~~~~~~~~i~~inK~  211 (211)
                      ++++|+|+.++....+..+++.+...++| +++|+||+
T Consensus       118 ~vi~v~d~~~~~~~~~~~~~~~l~~~~~p-~i~v~nK~  154 (223)
T 4dhe_A          118 GMILMMDARRPLTELDRRMIEWFAPTGKP-IHSLLTKC  154 (223)
T ss_dssp             EEEEEEETTSCCCHHHHHHHHHHGGGCCC-EEEEEECG
T ss_pred             EEEEEEeCCCCCCHHHHHHHHHHHhcCCC-EEEEEecc
Confidence            99999999998888888888888888888 88999995

>2dyk_A GTP-binding protein; GTPase, ribosome-binding protein, structural genomics; HET: GDP; 1.96A {Thermus thermophilus}

Probab=98.89  E-value=7e-09  Score=75.34  Aligned_cols=79  Identities=11%  Similarity=0.133  Sum_probs=60.2

Q ss_pred             cceEEeEeEEEeeeCCceeEeecCCcccc-------cHhHHhhhccccceEEEEEeccCCCCcchHHHHHHHHHcCCCeE
Q psy9646         132 RGITINVAHVEYATENRHYSHTDCPGHAD-------YIKNMITGTSQMDGAILVVAATDGAMPQTREHLLLAKQIGVTNI  204 (211)
Q Consensus       132 rg~tv~~~~~~~~~~~~~~~~iDtPG~~~-------~~~~~~~~~~~~d~~~~vvd~~~~~~~~~~~~~~~~~~~~~~~~  204 (211)
                      .+.+.+.....+...+..+.++||||+..       +.......+..+|++++++|+..+.......+.+.+...+.| +
T Consensus        33 ~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~p-~  111 (161)
T 2dyk_A           33 PGVTRDLKEGVVETDRGRFLLVDTGGLWSGDKWEKKIQEKVDRALEDAEVVLFAVDGRAELTQADYEVAEYLRRKGKP-V  111 (161)
T ss_dssp             -----CCEEEEEEETTEEEEEEECGGGCSSSSCCHHHHHHHHHHTTTCSEEEEEEESSSCCCHHHHHHHHHHHHHTCC-E
T ss_pred             CCceecceEEEEEeCCceEEEEECCCCCCccchHHHHHHHHHHHHHhCCEEEEEEECCCcccHhHHHHHHHHHhcCCC-E
Confidence            34445555556666778999999999887       345566778899999999999988777777788888878888 8


Q ss_pred             EEEEeCC
Q psy9646         205 VVFINKF  211 (211)
Q Consensus       205 i~~inK~  211 (211)
                      ++++||+
T Consensus       112 ilv~nK~  118 (161)
T 2dyk_A          112 ILVATKV  118 (161)
T ss_dssp             EEEEECC
T ss_pred             EEEEECc
Confidence            8999996

>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=98.89  E-value=7.4e-09  Score=92.94  Aligned_cols=101  Identities=25%  Similarity=0.306  Sum_probs=83.4

Q ss_pred             hHHHHHhhhCCCCCC------------------CCCCCeeEEEeeEEeecCCcEEEEEEEEEEEEecCCEEEEeecCcee
Q psy9646           2 ELLNQIDTYIPQPVR------------------DLDKPFYLPVEHTYSIPGRGTVVTGRLERGIVKKGMECEFTGYGRQF   63 (211)
Q Consensus         2 ~ll~~l~~~i~~p~~------------------~~~~p~~~~v~~~~~~~~~G~v~~G~v~~G~i~~g~~v~i~p~~~~~   63 (211)
                      +||++|.+++|.|..                  +.++||.+.|..++..++.|++..|||.+|+++.||+|.....++  
T Consensus       271 ~LLd~i~~~lPsP~~~~~~~~~~~~~~~~~~~~~~~~p~~~~Vfk~~~d~~~G~~~~~RV~sG~l~~g~~v~~~~~~~--  348 (691)
T 1dar_A          271 LLLDAVVDYLPSPLDIPPIKGTTPEGEVVEIHPDPNGPLAALAFKIMADPYVGRLTFIRVYSGTLTSGSYVYNTTKGR--  348 (691)
T ss_dssp             HHHHHHHHHSCCTTTSCCEEEECSSSCEEEECCCTTSCCEEEEEEEEEETTTEEEEEEEEEESEEESSCEEEETTTTE--
T ss_pred             HHHHHHHHhCCChhhcccccccCCCccccccccCCCCCcEEEEEEEEEcCCCCcEEEEEEeeeeEecCCEEEecCCCc--
Confidence            589999999987754                  257899999999999999999999999999999999999876653  


Q ss_pred             eEEEEEEEecc----eecceecccCceehhccCCCcccccccccccccc
Q psy9646          64 KTTVTGIEMFH----KILDEAQAGDQLGALVKGMKRDEVNRGLIMAKPV  108 (211)
Q Consensus        64 ~~~v~~i~~~~----~~~~~a~~G~~v~~~l~~~~~~~v~~G~ii~~~~  108 (211)
                      +.+|..+...+    .++++|.|||++++.  +  ..+...|++++...
T Consensus       349 ~~~v~~l~~~~g~~~~~v~~~~aGdI~~i~--g--l~~~~~Gdtl~~~~  393 (691)
T 1dar_A          349 KERVARLLRMHANHREEVEELKAGDLGAVV--G--LKETITGDTLVGED  393 (691)
T ss_dssp             EEECCEEEEECSSCEEEESEEETTCEEEEE--C--CSSCCTTCEEEETT
T ss_pred             EEEEceEEEEeCCCceEcceecCCCEEEEe--C--cccCccCCEEecCC
Confidence            56777776543    689999999999983  3  34567899988644

>2hjg_A GTP-binding protein ENGA; GTPase ENGA KH-domain, hydrolase; HET: GDP; 2.50A {Bacillus subtilis}

Probab=98.88  E-value=1.4e-09  Score=92.60  Aligned_cols=82  Identities=17%  Similarity=0.191  Sum_probs=59.9

Q ss_pred             hcccceEEeEeEEEeeeCCceeEeecCCccc--------ccHhHHhhhccccceEEEEEeccCCCCcchHHHHHHHHHcC
Q psy9646         129 EKARGITINVAHVEYATENRHYSHTDCPGHA--------DYIKNMITGTSQMDGAILVVAATDGAMPQTREHLLLAKQIG  200 (211)
Q Consensus       129 e~~rg~tv~~~~~~~~~~~~~~~~iDtPG~~--------~~~~~~~~~~~~~d~~~~vvd~~~~~~~~~~~~~~~~~~~~  200 (211)
                      +...|.|.+..+...++.+..+.++||||+.        .|...+..++..+|++++|+|+..+....+.++++.+...+
T Consensus        32 ~~~~g~T~d~~~~~~~~~~~~~~l~DT~G~~~~~~~~~~~~~~~~~~~~~~ad~il~vvD~~~~~~~~d~~~~~~l~~~~  111 (436)
T 2hjg_A           32 EDTPGVTRDRIYSSAEWLNYDFNLIDTGGIDIGDEPFLAQIRQQAEIAMDEADVIIFMVNGREGVTAADEEVAKILYRTK  111 (436)
T ss_dssp             ---------CEEEECTTCSSCCEEEC---------CHHHHHHHHHHHHHHHCSEEEEEEETTTCSCHHHHHHHHHHTTCC
T ss_pred             cCCCCCccceEEEEEEECCceEEEEECCCCCCcchhHHHHHHHHHHHHHHhCCEEEEEEeCCCCCCHHHHHHHHHHHHcC
Confidence            3455777777788888888999999999986        56677788899999999999999999988888888888888


Q ss_pred             CCeEEEEEeCC
Q psy9646         201 VTNIVVFINKF  211 (211)
Q Consensus       201 ~~~~i~~inK~  211 (211)
                      .| +++++||+
T Consensus       112 ~p-vilv~NK~  121 (436)
T 2hjg_A          112 KP-VVLAVNKL  121 (436)
T ss_dssp             SC-EEEEEECC
T ss_pred             CC-EEEEEECc
Confidence            88 88999996

>3izy_P Translation initiation factor IF-2, mitochondrial; E coli, RNA, ribosomal; 10.80A {Bos taurus}

Probab=98.87  E-value=2.3e-09  Score=93.33  Aligned_cols=102  Identities=19%  Similarity=0.140  Sum_probs=81.0

Q ss_pred             hHHHHHhhhC--CCCCCCCCCCeeEEEeeEEeecCCcEEEEEEEEEEEEecCCEEEEeecCceeeEEEEEEEecc-eecc
Q psy9646           2 ELLNQIDTYI--PQPVRDLDKPFYLPVEHTYSIPGRGTVVTGRLERGIVKKGMECEFTGYGRQFKTTVTGIEMFH-KILD   78 (211)
Q Consensus         2 ~ll~~l~~~i--~~p~~~~~~p~~~~v~~~~~~~~~G~v~~G~v~~G~i~~g~~v~i~p~~~~~~~~v~~i~~~~-~~~~   78 (211)
                      +|++.|....  +.+..+.+.|++++|.+++..++.|++.+|+|.+|.+++||.+.  +..  ..++|++++.++ ++++
T Consensus       157 eLle~I~~l~~~~~~~~~~~~~~~~~V~e~~~~~g~G~V~~g~V~~G~l~~Gd~v~--~g~--~~~kVr~i~~~~g~~v~  232 (537)
T 3izy_P          157 ALAEATIALAEMLELKADPTGAVEGTVIESFTDKGRGPVTTAIIQRGTLRKGSILV--AGK--SWAKVRLMFDENGRAVN  232 (537)
T ss_dssp             HHHHHHHHHHTTCCCCCCSSSSEEEEEEEECCCTTCCCCEEEEEEEECCSSEEEEC--CSS--CCEEEEEEEECCCCCSC
T ss_pred             hHHHHHHHhhhcccccCCCCCCcceeEEEEEEeCCCceEEEEEEecCEEEcCCEEE--eCC--ceEEEEEEEcCCCCCCc
Confidence            3666666543  23555678899999999999999999999999999999999873  332  368999999886 7999


Q ss_pred             eecccCceehhccCCCcccccccccccccchh
Q psy9646          79 EAQAGDQLGALVKGMKRDEVNRGLIMAKPVLA  110 (211)
Q Consensus        79 ~a~~G~~v~~~l~~~~~~~v~~G~ii~~~~~~  110 (211)
                      +|.||++|++.  +++ ....+|++++....+
T Consensus       233 ~A~~G~~V~i~--g~~-~~~~~Gd~l~~~~~~  261 (537)
T 3izy_P          233 EAYPSMPVGII--GWR-DLPSAGDEILEVESE  261 (537)
T ss_dssp             CSCCSTTCCCC--SSE-EEEEEESSCCSCCSS
T ss_pred             EEcCCCEEEEE--CCC-CCCCCCCEEEecCCh
Confidence            99999999873  444 335999999876544

>3qq5_A Small GTP-binding protein; hydrogenase, H-cluster, HYDA maturation, GTP-binding domain, maturation enzyme, oxidoreductase; 2.99A {Thermotoga neapolitana}

Probab=98.87  E-value=3.7e-09  Score=89.60  Aligned_cols=98  Identities=18%  Similarity=0.169  Sum_probs=68.5

Q ss_pred             hhhhhhcccccccccc-hhhcccceEEeEeEEEeeeCCc-eeEeecCCccccc-------HhHHhhhccccceEEEEEec
Q psy9646         111 DKKLAKVKQYADIDNA-PEEKARGITINVAHVEYATENR-HYSHTDCPGHADY-------IKNMITGTSQMDGAILVVAA  181 (211)
Q Consensus       111 ~~~~~~f~~~i~~~~~-~~e~~rg~tv~~~~~~~~~~~~-~~~~iDtPG~~~~-------~~~~~~~~~~~d~~~~vvd~  181 (211)
                      ..|++++..++..... ..+..++.|.+..+..++..+. .+.++||||+.+|       .+.+...+..+|++++|+|+
T Consensus        44 ~vGKSTLin~L~~~~~~~~~~~~gtT~d~~~~~~~~~~~~~l~liDTpG~~d~~~l~~~~~~~~~~~l~~aD~vllVvD~  123 (423)
T 3qq5_A           44 NVGKSSFMNALVGQNVSIVSDYAGTTTDPVYKSMELHPIGPVTLVDTPGLDDVGELGRLRVEKARRVFYRADCGILVTDS  123 (423)
T ss_dssp             STTTTTTTTSSCC-------------CCCCEEEEEETTTEEEEEEECSSTTCCCTTCCCCHHHHHHHHTSCSEEEEECSS
T ss_pred             CCCHHHHHHHHHcCCCCccCCCCCeeeeeEEEEEEECCCCeEEEEECcCCCcccchhHHHHHHHHHHHhcCCEEEEEEeC
Confidence            4455665554432222 3445667777777777777665 8999999999876       34467788899999999998


Q ss_pred             cCCCCcchHHHHHHHHHcCCCeEEEEEeCC
Q psy9646         182 TDGAMPQTREHLLLAKQIGVTNIVVFINKF  211 (211)
Q Consensus       182 ~~~~~~~~~~~~~~~~~~~~~~~i~~inK~  211 (211)
                        +...++..+++.++..++| +|+|+||+
T Consensus       124 --~~~~~~~~~l~~l~~~~~p-iIvV~NK~  150 (423)
T 3qq5_A          124 --APTPYEDDVVNLFKEMEIP-FVVVVNKI  150 (423)
T ss_dssp             --SCCHHHHHHHHHHHHTTCC-EEEECCCC
T ss_pred             --CChHHHHHHHHHHHhcCCC-EEEEEeCc
Confidence              7788889999999999998 88999996

>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=98.86  E-value=1.6e-09  Score=96.80  Aligned_cols=100  Identities=26%  Similarity=0.249  Sum_probs=82.9

Q ss_pred             hHHHHHhhhCCCCCCC-CCCCeeEEEeeEEeecCCcEEEEEEEEEEEEecCCEEEEeecCceeeEEEEEEEec----cee
Q psy9646           2 ELLNQIDTYIPQPVRD-LDKPFYLPVEHTYSIPGRGTVVTGRLERGIVKKGMECEFTGYGRQFKTTVTGIEMF----HKI   76 (211)
Q Consensus         2 ~ll~~l~~~i~~p~~~-~~~p~~~~v~~~~~~~~~G~v~~G~v~~G~i~~g~~v~i~p~~~~~~~~v~~i~~~----~~~   76 (211)
                      +||++|.+++|.|... .++||.+.|..++..++.|++..|||.+|+++.||+|...+    ...+|++|...    ..+
T Consensus       263 ~Ll~~i~~~lp~p~~~~~~~p~~~~V~k~~~d~~~G~~~~~rV~sG~l~~g~~v~~~~----~~~~v~~l~~~~g~~~~~  338 (665)
T 2dy1_A          263 PLLELILEALPSPTERFGDGPPLAKVFKVQVDPFMGQVAYLRLYRGRLKPGDSLQSEA----GQVRLPHLYVPMGKDLLE  338 (665)
T ss_dssp             HHHHHHHHHSCCHHHHHCSCSCEEEEEEEEEETTTEEEEEEEEEESEECTTEEEBCTT----SCEEESSEEEEETTEEEE
T ss_pred             HHHHHHHHhCCCccccCCCCCeEEEEEEEEEcCCCCeEEEEEEcccEEecCCEEEcCC----CeEEEeEEEEEeCCCeeE
Confidence            5899999988877543 67899999999999999999999999999999999998766    25677787653    368


Q ss_pred             cceecccCceehhccCCCcccccccccccccch
Q psy9646          77 LDEAQAGDQLGALVKGMKRDEVNRGLIMAKPVL  109 (211)
Q Consensus        77 ~~~a~~G~~v~~~l~~~~~~~v~~G~ii~~~~~  109 (211)
                      +++|.|||++++.    +..++.+|++++....
T Consensus       339 v~~a~aG~iv~i~----gl~~~~~Gdtl~~~~~  367 (665)
T 2dy1_A          339 VEEAEAGFVLGVP----KAEGLHRGMVLWQGEK  367 (665)
T ss_dssp             ESCEETTCEEEES----SCTTCCTTCEEESSSC
T ss_pred             CCEECCCCEEEEe----CCccCccCCEEecCCC
Confidence            9999999999983    3346789999986443

>2hjg_A GTP-binding protein ENGA; GTPase ENGA KH-domain, hydrolase; HET: GDP; 2.50A {Bacillus subtilis}

Probab=98.86  E-value=1.6e-09  Score=92.40  Aligned_cols=101  Identities=13%  Similarity=0.232  Sum_probs=68.8

Q ss_pred             hhhhhhhcccccccccc-hhhcccceEEeEeEEEeeeCCceeEeecCCcccc----------cHh-HHhhhccccceEEE
Q psy9646         110 ADKKLAKVKQYADIDNA-PEEKARGITINVAHVEYATENRHYSHTDCPGHAD----------YIK-NMITGTSQMDGAIL  177 (211)
Q Consensus       110 ~~~~~~~f~~~i~~~~~-~~e~~rg~tv~~~~~~~~~~~~~~~~iDtPG~~~----------~~~-~~~~~~~~~d~~~~  177 (211)
                      +..|++++...+..... ..+...+.|.+.....++..+..+.++||||+.+          |.. ....++..+|++++
T Consensus       184 ~nvGKSSLin~l~~~~~~~~~~~~gtT~d~~~~~~~~~~~~~~l~DT~G~~~~~~~~~~~e~~~~~~~~~~~~~ad~~ll  263 (436)
T 2hjg_A          184 PNVGKSSLVNAMLGEERVIVSNVAGTTRDAVDTSFTYNQQEFVIVDTAGMRKKGKVYETTEKYSVLRALKAIDRSEVVAV  263 (436)
T ss_dssp             TTSSHHHHHHHHHTSTTEEEC---------CCEEEEETTEEEEETTHHHHTCBTTBCCCCSHHHHHHHHHHHHHCSEEEE
T ss_pred             CCCCHHHHHHHHhCCCceeecCCCCceeeeeEEEEEECCeEEEEEECCCcCcCccccchHHHHHHHHHHHHHHhCCEEEE
Confidence            44556665544432221 1334456777777777888888999999999843          321 24467889999999


Q ss_pred             EEeccCCCCcchHHHHHHHHHcCCCeEEEEEeCC
Q psy9646         178 VVAATDGAMPQTREHLLLAKQIGVTNIVVFINKF  211 (211)
Q Consensus       178 vvd~~~~~~~~~~~~~~~~~~~~~~~~i~~inK~  211 (211)
                      |+|+.++...++.+++..+...+.| +|+|+||+
T Consensus       264 v~D~~~~~s~~~~~~~~~~~~~~~~-iiiv~NK~  296 (436)
T 2hjg_A          264 VLDGEEGIIEQDKRIAGYAHEAGKA-VVIVVNKW  296 (436)
T ss_dssp             EEETTTCCCHHHHHHHHHHHHTTCE-EEEEEECG
T ss_pred             EEcCCcCCcHHHHHHHHHHHHcCCc-EEEEEECc
Confidence            9999999999999998888888887 88999995

>2xex_A Elongation factor G; GTPase, translation, biosynthetic protein; 1.90A {Staphylococcus aureus}

Probab=98.82  E-value=1.1e-08  Score=91.88  Aligned_cols=101  Identities=20%  Similarity=0.278  Sum_probs=83.3

Q ss_pred             hHHHHHhhhCCCCCC--------------------CCCCCeeEEEeeEEeecCCcEEEEEEEEEEEEecCCEEEEeecCc
Q psy9646           2 ELLNQIDTYIPQPVR--------------------DLDKPFYLPVEHTYSIPGRGTVVTGRLERGIVKKGMECEFTGYGR   61 (211)
Q Consensus         2 ~ll~~l~~~i~~p~~--------------------~~~~p~~~~v~~~~~~~~~G~v~~G~v~~G~i~~g~~v~i~p~~~   61 (211)
                      .||++|..++|.|..                    +.++||.+.|..++..++.|++..|||.+|+++.|++|.....+ 
T Consensus       269 ~LLd~i~~~lPsP~~~~~~~~~~~~~~~~~~~~~~~~~~p~~a~VfK~~~d~~~g~~~~~RV~sG~l~~g~~v~~~~~~-  347 (693)
T 2xex_A          269 LMLDAVIDYLPSPLDVKPIIGHRASNPEEEVIAKADDSAEFAALAFKVMTDPYVGKLTFFRVYSGTMTSGSYVKNSTKG-  347 (693)
T ss_dssp             HHHHHHHHHSCCGGGSCCEEEEETTEEEEEEEECSCTTSCCEEEEEEEEEETTTEEEEEEEEEESEEETTEEEEETTTT-
T ss_pred             HHHHHHHHHCCCchhcccccccCCCccccceeecCCCCCceEEEEEEeeecCCCceEEEEEEEeeeEecCCEEEecCCC-
Confidence            589999999987743                    25789999999999999999999999999999999999976554 


Q ss_pred             eeeEEEEEEEecc----eecceecccCceehhccCCCcccccccccccccc
Q psy9646          62 QFKTTVTGIEMFH----KILDEAQAGDQLGALVKGMKRDEVNRGLIMAKPV  108 (211)
Q Consensus        62 ~~~~~v~~i~~~~----~~~~~a~~G~~v~~~l~~~~~~~v~~G~ii~~~~  108 (211)
                       .+.+|.++...+    .++++|.|||++++.  +  ..+...|++++...
T Consensus       348 -~~~~v~~l~~~~g~~~~~v~~~~aGdI~~i~--g--l~~~~~GdTl~~~~  393 (693)
T 2xex_A          348 -KRERVGRLLQMHANSRQEIDTVYSGDIAAAV--G--LKDTGTGDTLCGEK  393 (693)
T ss_dssp             -EEEEECCEEEECSSCEEECSEEETTCEEEEE--S--CSSCCTTCEEEETT
T ss_pred             -ceEEeceEEEEeCCCceEccccCcCCEEEEe--C--cccCccCCEEecCC
Confidence             367788886553    689999999999983  3  34567898887643

>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=98.81  E-value=2.9e-09  Score=91.20  Aligned_cols=81  Identities=17%  Similarity=0.191  Sum_probs=65.8

Q ss_pred             cccceEEeEeEEEeeeCCceeEeecCCc--------ccccHhHHhhhccccceEEEEEeccCCCCcchHHHHHHHHHcCC
Q psy9646         130 KARGITINVAHVEYATENRHYSHTDCPG--------HADYIKNMITGTSQMDGAILVVAATDGAMPQTREHLLLAKQIGV  201 (211)
Q Consensus       130 ~~rg~tv~~~~~~~~~~~~~~~~iDtPG--------~~~~~~~~~~~~~~~d~~~~vvd~~~~~~~~~~~~~~~~~~~~~  201 (211)
                      ...|.|.+..+...++.+..+.++||||        ++.+...+..++..+|++++|+|+..+....+.++++.+...+.
T Consensus        53 ~~~g~t~~~~~~~~~~~~~~~~liDT~G~~~~~~~~~~~~~~~~~~~~~~ad~il~VvD~~~~~~~~d~~l~~~l~~~~~  132 (456)
T 4dcu_A           53 DTPGVTRDRIYSSAEWLNYDFNLIDTGGIDIGDEPFLAQIRQQAEIAMDEADVIIFMVNGREGVTAADEEVAKILYRTKK  132 (456)
T ss_dssp             --------CEEEECTTCSSCCEEECCCC------CCHHHHHHHHHHHHHHCSEEEEEEESSSCSCHHHHHHHHHHTTCCS
T ss_pred             CCCCcceeEEEEEEEECCceEEEEECCCCCCcchHHHHHHHHHHHhhHhhCCEEEEEEeCCCCCChHHHHHHHHHHHcCC
Confidence            3457777777788888889999999999        66777888889999999999999999999999999999988888


Q ss_pred             CeEEEEEeCC
Q psy9646         202 TNIVVFINKF  211 (211)
Q Consensus       202 ~~~i~~inK~  211 (211)
                      | +++|+||+
T Consensus       133 p-vilV~NK~  141 (456)
T 4dcu_A          133 P-VVLAVNKL  141 (456)
T ss_dssp             C-EEEEEECC
T ss_pred             C-EEEEEECc
Confidence            8 88999996

>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=98.78  E-value=1.3e-08  Score=80.52  Aligned_cols=76  Identities=16%  Similarity=0.117  Sum_probs=56.1

Q ss_pred             eEEeEeEEEeeeCCceeEeecCCccccc-----------HhHHhhhccccceEEEEEeccCCCCcchHHHHHHHHHc---
Q psy9646         134 ITINVAHVEYATENRHYSHTDCPGHADY-----------IKNMITGTSQMDGAILVVAATDGAMPQTREHLLLAKQI---  199 (211)
Q Consensus       134 ~tv~~~~~~~~~~~~~~~~iDtPG~~~~-----------~~~~~~~~~~~d~~~~vvd~~~~~~~~~~~~~~~~~~~---  199 (211)
                      .|.......+.+.+.++.++||||+.++           .+.+..++..+|++++|+|+.. +..++..+++.+...   
T Consensus        57 ~t~~~~~~~~~~~~~~i~iiDTpG~~~~~~~~~~~~~~i~~~~~~~~~~~d~il~V~d~~~-~~~~~~~~~~~l~~~~~~  135 (260)
T 2xtp_A           57 LTKTCSKSQGSWGNREIVIIDTPDMFSWKDHCEALYKEVQRCYLLSAPGPHVLLLVTQLGR-YTSQDQQAAQRVKEIFGE  135 (260)
T ss_dssp             CCCSCEEEEEEETTEEEEEEECCGGGGSSCCCHHHHHHHHHHHHHHTTCCSEEEEEEETTC-CCHHHHHHHHHHHHHHCG
T ss_pred             eeeeeEEEEEEeCCCEEEEEECcCCCCCCCCHHHHHHHHHHHHHhcCCCCcEEEEEEeCCC-CCHHHHHHHHHHHHHhCc
Confidence            4555555566778899999999998765           3344557889999999999975 666777777777665   


Q ss_pred             --CCCeEEEEEe-CC
Q psy9646         200 --GVTNIVVFIN-KF  211 (211)
Q Consensus       200 --~~~~~i~~in-K~  211 (211)
                        +.| .|+++| |+
T Consensus       136 ~~~~~-~i~vv~nK~  149 (260)
T 2xtp_A          136 DAMGH-TIVLFTHKE  149 (260)
T ss_dssp             GGGGG-EEEEEECGG
T ss_pred             hhhcc-EEEEEEccc
Confidence              567 456666 85

>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=98.74  E-value=1.1e-08  Score=81.95  Aligned_cols=98  Identities=15%  Similarity=0.171  Sum_probs=66.8

Q ss_pred             hhhhhhcccccccccchhhcccceEEeEeEEEeeeCCceeEeecCCcccccHh------------HHhhhccccceEEEE
Q psy9646         111 DKKLAKVKQYADIDNAPEEKARGITINVAHVEYATENRHYSHTDCPGHADYIK------------NMITGTSQMDGAILV  178 (211)
Q Consensus       111 ~~~~~~f~~~i~~~~~~~e~~rg~tv~~~~~~~~~~~~~~~~iDtPG~~~~~~------------~~~~~~~~~d~~~~v  178 (211)
                      ..|++++...+.-.........+.|++.....+...+..+.++||||+.++..            ..+.....+|++++|
T Consensus        13 n~GKSTLin~l~g~~~~v~~~~g~t~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~e~i~~~~~~~~~~d~ii~V   92 (274)
T 3i8s_A           13 NSGKTTLFNQLTGSRQRVGNWAGVTVERKEGQFSTTDHQVTLVDLPGTYSLTTISSQTSLDEQIACHYILSGDADLLINV   92 (274)
T ss_dssp             TSSHHHHHHHHHTTCEEEEECTTSSSEEEEEEEECSSCEEEEEECCCCSCSCC----CCHHHHHHHHHHHHTCCSEEEEE
T ss_pred             CCCHHHHHHHHhCCCcccCCCCCeeEEEEEEEEEeCCCceEEEECcCCCccccccccCCHHHHHHHHHHhhcCCCEEEEE
Confidence            34555544433222222334456777777788888888999999999887641            122233789999999


Q ss_pred             EeccCCCCcchHHHHHHHHHcCCCeEEEEEeCC
Q psy9646         179 VAATDGAMPQTREHLLLAKQIGVTNIVVFINKF  211 (211)
Q Consensus       179 vd~~~~~~~~~~~~~~~~~~~~~~~~i~~inK~  211 (211)
                      +|+..  ......+...+...++| +++|+||+
T Consensus        93 vD~~~--~~~~~~~~~~l~~~~~p-~ivv~NK~  122 (274)
T 3i8s_A           93 VDASN--LERNLYLTLQLLELGIP-CIVALNML  122 (274)
T ss_dssp             EEGGG--HHHHHHHHHHHHHHTCC-EEEEEECH
T ss_pred             ecCCC--hHHHHHHHHHHHhcCCC-EEEEEECc
Confidence            99976  23445566777788998 88999995

>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=98.73  E-value=7.4e-09  Score=88.67  Aligned_cols=101  Identities=13%  Similarity=0.237  Sum_probs=70.3

Q ss_pred             hhhhhhhcccccccc-cchhhcccceEEeEeEEEeeeCCceeEeecCCc----------ccccHh-HHhhhccccceEEE
Q psy9646         110 ADKKLAKVKQYADID-NAPEEKARGITINVAHVEYATENRHYSHTDCPG----------HADYIK-NMITGTSQMDGAIL  177 (211)
Q Consensus       110 ~~~~~~~f~~~i~~~-~~~~e~~rg~tv~~~~~~~~~~~~~~~~iDtPG----------~~~~~~-~~~~~~~~~d~~~~  177 (211)
                      +..|++++...+... ........+++.+.....++..+..+.++||||          ++.|.. ....++..+|++++
T Consensus       204 ~~vGKSslin~l~~~~~~~~~~~~gtt~~~~~~~~~~~~~~~~l~DT~G~~~~~~~~~~~e~~~~~~~~~~~~~ad~~ll  283 (456)
T 4dcu_A          204 PNVGKSSLVNAMLGEERVIVSNVAGTTRDAVDTSFTYNQQEFVIVDTAGMRKKGKVYETTEKYSVLRALKAIDRSEVVAV  283 (456)
T ss_dssp             TTSSHHHHHHHHHTSTTEEECC------CTTSEEEEETTEEEEETTGGGTTTBTTBCCCCSHHHHHHHHHHHHHCSEEEE
T ss_pred             CCCCHHHHHHHHhCCCccccCCCCCeEEEEEEEEEEECCceEEEEECCCCCcCcccchHHHHHHHHHHHHHHhhCCEEEE
Confidence            344555554433211 122333445666666667777888999999999          444543 34567889999999


Q ss_pred             EEeccCCCCcchHHHHHHHHHcCCCeEEEEEeCC
Q psy9646         178 VVAATDGAMPQTREHLLLAKQIGVTNIVVFINKF  211 (211)
Q Consensus       178 vvd~~~~~~~~~~~~~~~~~~~~~~~~i~~inK~  211 (211)
                      |+|+.++...++.+++..+...+.| +|+|+||+
T Consensus       284 viD~~~~~~~~~~~~~~~~~~~~~~-~ilv~NK~  316 (456)
T 4dcu_A          284 VLDGEEGIIEQDKRIAGYAHEAGKA-VVIVVNKW  316 (456)
T ss_dssp             EEETTTCCCHHHHHHHHHHHHTTCE-EEEEEECG
T ss_pred             EEeCCCCcCHHHHHHHHHHHHcCCC-EEEEEECh
Confidence            9999999999999999999999988 88999996

>3tr5_A RF-3, peptide chain release factor 3; protein synthesis, translation; HET: GDP; 2.11A {Coxiella burnetii}

Probab=98.72  E-value=1.8e-08  Score=87.73  Aligned_cols=99  Identities=21%  Similarity=0.280  Sum_probs=79.9

Q ss_pred             hHHHHHhhhCCCCCCC---------CCCCeeEEEeeEEe--ec-CCcEEEEEEEEEEEEecCCEEEEeecCceeeEEEEE
Q psy9646           2 ELLNQIDTYIPQPVRD---------LDKPFYLPVEHTYS--IP-GRGTVVTGRLERGIVKKGMECEFTGYGRQFKTTVTG   69 (211)
Q Consensus         2 ~ll~~l~~~i~~p~~~---------~~~p~~~~v~~~~~--~~-~~G~v~~G~v~~G~i~~g~~v~i~p~~~~~~~~v~~   69 (211)
                      +||++|.+.+|.|...         .+.||...|..+..  .+ ++|++..+||.+|+++.|+.|...+.++  +.+|.+
T Consensus       266 ~Lld~i~~~~p~p~~~~~~~~~~~~~~~~~~~~VFKi~~~~dp~~~g~l~~~RV~sG~l~~g~~v~~~~~~~--~~rv~~  343 (528)
T 3tr5_A          266 ELLDAFVKEAPPPQGRETNSRLVKPEEEKFSGFVFKIQANMDPGHRDRIAFLRIASGQYQKGMKAYHVRLKK--EIQINN  343 (528)
T ss_dssp             HHHHHHHHHSCCCCCBCBSSSCBCTTSSSCEEEEEEEEECCC-CCCCEEEEEEEEESCEETTEEEEETTTTE--EEEESS
T ss_pred             HHHHHHHHhCCCCCcccccceeeCCCcccceeEEEEEecccCccCCceEEEEEEecCeEcCCCEEEecCCCc--eEEEee
Confidence            5899999988877532         25789998888764  45 8999999999999999999999988874  778888


Q ss_pred             EEec----ceecceecccCceehhccCCCcccccccccccc
Q psy9646          70 IEMF----HKILDEAQAGDQLGALVKGMKRDEVNRGLIMAK  106 (211)
Q Consensus        70 i~~~----~~~~~~a~~G~~v~~~l~~~~~~~v~~G~ii~~  106 (211)
                      +...    ..++++|.|||++++    .+..+++.|++++.
T Consensus       344 ~~~~~~~~~~~v~~a~aGdI~~~----~~l~~~~~GDtl~~  380 (528)
T 3tr5_A          344 ALTFMAGKRENAEEAWPGDIIGL----HNHGTIQIGDTFTQ  380 (528)
T ss_dssp             CBCCBTTCSSCCSEECTTCEEEE----EESSSCCTTCEEES
T ss_pred             eEEEeCCCeeECCEECCCCEEEE----cCCCCCccCCEEcC
Confidence            8764    358999999999987    23456789999986

>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=98.71  E-value=1.5e-08  Score=80.29  Aligned_cols=98  Identities=16%  Similarity=0.111  Sum_probs=65.8

Q ss_pred             hhhhhhcccccccccchhhcccceEEeEeEEEeeeCCceeEeecCCcccccHh------------HHhhhccccceEEEE
Q psy9646         111 DKKLAKVKQYADIDNAPEEKARGITINVAHVEYATENRHYSHTDCPGHADYIK------------NMITGTSQMDGAILV  178 (211)
Q Consensus       111 ~~~~~~f~~~i~~~~~~~e~~rg~tv~~~~~~~~~~~~~~~~iDtPG~~~~~~------------~~~~~~~~~d~~~~v  178 (211)
                      ..|++++...+.-.........+.|++.....+...+..+.++||||+..+..            ..+.....+|++++|
T Consensus        11 n~GKSTL~n~L~g~~~~v~~~pg~Tv~~~~~~~~~~~~~~~lvDtpG~~~~~~~~~~~~~~e~i~~~~~~~~~~d~vi~V   90 (256)
T 3iby_A           11 NCGKTTLFNALTNANQRVGNWPGVTVEKKTGEFLLGEHLIEITDLPGVYSLVANAEGISQDEQIAAQSVIDLEYDCIINV   90 (256)
T ss_dssp             TSSHHHHHHHHHTTSEEEEECTTSSSEEEEEEEEETTEEEEEEECCCCSSCC------CHHHHHHHHHHHHSCCSEEEEE
T ss_pred             CCCHHHHHHHHHCCCCCccCCCCceEEEEEEEEEECCeEEEEEeCCCcccccccccCCCHHHHHHHHHHhhCCCCEEEEE
Confidence            34455544433222222333456777777788888888999999999887643            112222789999999


Q ss_pred             EeccCCCCcchHHHHHHHHHcCCCeEEEEEeCC
Q psy9646         179 VAATDGAMPQTREHLLLAKQIGVTNIVVFINKF  211 (211)
Q Consensus       179 vd~~~~~~~~~~~~~~~~~~~~~~~~i~~inK~  211 (211)
                      +|+..  ......+..++...++| +++++||+
T Consensus        91 vDas~--~~~~~~l~~~l~~~~~p-vilv~NK~  120 (256)
T 3iby_A           91 IDACH--LERHLYLTSQLFELGKP-VVVALNMM  120 (256)
T ss_dssp             EEGGG--HHHHHHHHHHHTTSCSC-EEEEEECH
T ss_pred             eeCCC--chhHHHHHHHHHHcCCC-EEEEEECh
Confidence            99976  23344566677778888 88999995

>3clv_A RAB5 protein, putative; malaria, GTPase, structural genomics, GTP-binding, nucleotide-binding, signaling protein; HET: GDP; 1.89A {Plasmodium falciparum}

Probab=98.62  E-value=4.9e-08  Score=73.39  Aligned_cols=63  Identities=16%  Similarity=0.143  Sum_probs=48.1

Q ss_pred             ceeEeecCCcccccHhHHhhhccccceEEEEEeccCCCCcch-HHHHHHHHH-cCCCeEEEEEeCC
Q psy9646         148 RHYSHTDCPGHADYIKNMITGTSQMDGAILVVAATDGAMPQT-REHLLLAKQ-IGVTNIVVFINKF  211 (211)
Q Consensus       148 ~~~~~iDtPG~~~~~~~~~~~~~~~d~~~~vvd~~~~~~~~~-~~~~~~~~~-~~~~~~i~~inK~  211 (211)
                      ..+.++||||+..|.......+..+|++++|+|+..+...+. +.++..+.. .+.| +++|+||+
T Consensus        93 ~~~~i~Dt~G~~~~~~~~~~~~~~~d~~i~v~D~~~~~s~~~~~~~~~~i~~~~~~p-iilv~NK~  157 (208)
T 3clv_A           93 IKFDIWDTAGQERYASIVPLYYRGATCAIVVFDISNSNTLDRAKTWVNQLKISSNYI-IILVANKI  157 (208)
T ss_dssp             EEEEEEECTTGGGCTTTHHHHHTTCSEEEEEEETTCHHHHHHHHHHHHHHHHHSCCE-EEEEEECT
T ss_pred             eEEEEEECCCcHHHHHHHHHHhcCCCEEEEEEECCCHHHHHHHHHHHHHHHhhCCCc-EEEEEECC
Confidence            678999999999998888888999999999999977643222 233444433 4555 88999996

>2gj8_A MNME, tRNA modification GTPase TRME; G-domain dimer, alpha-beta-sandwich, hydrolase; HET: GDP; 1.70A {Escherichia coli BL21} SCOP: c.37.1.8 PDB: 2gj9_A* 2gja_A* 1rfl_A

Probab=98.62  E-value=8.2e-08  Score=71.13  Aligned_cols=78  Identities=19%  Similarity=0.129  Sum_probs=53.8

Q ss_pred             ceEEeEeEEEeeeCCceeEeecCCccccc--------HhHHhhhccccceEEEEEeccCCCCcchHHHHHHHHHc---CC
Q psy9646         133 GITINVAHVEYATENRHYSHTDCPGHADY--------IKNMITGTSQMDGAILVVAATDGAMPQTREHLLLAKQI---GV  201 (211)
Q Consensus       133 g~tv~~~~~~~~~~~~~~~~iDtPG~~~~--------~~~~~~~~~~~d~~~~vvd~~~~~~~~~~~~~~~~~~~---~~  201 (211)
                      +.+.+.....+...+..+.++||||++++        +..++..+..+|++++|+|+..........++..+...   ++
T Consensus        37 ~~t~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~~~~~~~~ad~~i~v~D~~~~~s~~~~~~~~~~~~~~~~~~  116 (172)
T 2gj8_A           37 GTTRDVLREHIHIDGMPLHIIDTAGLREASDEVERIGIERAWQEIEQADRVLFMVDGTTTDAVDPAEIWPEFIARLPAKL  116 (172)
T ss_dssp             TCCCSCEEEEEEETTEEEEEEECCCCSCCSSHHHHHHHHHHHHHHHTCSEEEEEEETTTCCCCSHHHHCHHHHHHSCTTC
T ss_pred             CceeceeeEEEEECCeEEEEEECCCcccchhHHHHHHHHHHHHHHHhCCEEEEEEECCCCCCHHHHHHHHHHHHhcccCC
Confidence            33444334455566778899999998753        12244567899999999999877665555555555443   57


Q ss_pred             CeEEEEEeCC
Q psy9646         202 TNIVVFINKF  211 (211)
Q Consensus       202 ~~~i~~inK~  211 (211)
                      | +++|+||+
T Consensus       117 p-~ilv~NK~  125 (172)
T 2gj8_A          117 P-ITVVRNKA  125 (172)
T ss_dssp             C-EEEEEECH
T ss_pred             C-EEEEEECc
Confidence            7 88999995

>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=98.61  E-value=5.9e-08  Score=71.80  Aligned_cols=64  Identities=16%  Similarity=0.123  Sum_probs=48.6

Q ss_pred             CceeEeecCCcccccHhHHhhhccccceEEEEEeccCCCC-cchHHHHHHHHHc---CCCeEEEEEeCC
Q psy9646         147 NRHYSHTDCPGHADYIKNMITGTSQMDGAILVVAATDGAM-PQTREHLLLAKQI---GVTNIVVFINKF  211 (211)
Q Consensus       147 ~~~~~~iDtPG~~~~~~~~~~~~~~~d~~~~vvd~~~~~~-~~~~~~~~~~~~~---~~~~~i~~inK~  211 (211)
                      ..++.++||||+..|.......+..+|++++|+|+..... .....++..+...   ++| +++++||+
T Consensus        60 ~~~~~i~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p-~i~v~nK~  127 (181)
T 2efe_B           60 TVKFEIWDTAGQERYHSLAPMYYRGAAAAIIVFDVTNQASFERAKKWVQELQAQGNPNMV-MALAGNKS  127 (181)
T ss_dssp             EEEEEEEECCCSGGGGGGTHHHHTTCSEEEEEEETTCHHHHHHHHHHHHHHHHHSCTTCE-EEEEEECT
T ss_pred             EEEEEEEeCCCChhhhhhhHHHhccCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCc-EEEEEECC
Confidence            4578999999999998888888899999999999876543 2234444555443   555 88999996

>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=98.60  E-value=7e-08  Score=76.93  Aligned_cols=98  Identities=13%  Similarity=0.053  Sum_probs=66.2

Q ss_pred             hhhhhhcccccccccchhhcccceEEeEeEEEeeeCCceeEeecCCcccccHh--------HHhhhccccceEEEEEecc
Q psy9646         111 DKKLAKVKQYADIDNAPEEKARGITINVAHVEYATENRHYSHTDCPGHADYIK--------NMITGTSQMDGAILVVAAT  182 (211)
Q Consensus       111 ~~~~~~f~~~i~~~~~~~e~~rg~tv~~~~~~~~~~~~~~~~iDtPG~~~~~~--------~~~~~~~~~d~~~~vvd~~  182 (211)
                      ..|++++...+...........+.+++.....+...+..+.++||||+..|..        ..+.....+|++++|+|+.
T Consensus        13 g~GKTTL~n~l~g~~~~~~~~~~~t~~~~~~~~~~~~~~~~l~DtpG~~~~~~~~~~~~~~~~~~~~~~~d~vi~v~D~~   92 (271)
T 3k53_A           13 NVGKTTIFNALTGLRQHVGNWPGVTVEKKEGIMEYREKEFLVVDLPGIYSLTAHSIDELIARNFILDGNADVIVDIVDST   92 (271)
T ss_dssp             SSSHHHHHHHHHTTCEEEEECTTSSCEEEEEEEEETTEEEEEEECCCCSCCCSSCHHHHHHHHHHHTTCCSEEEEEEEGG
T ss_pred             CCCHHHHHHHHhCCCcccCCCCCeEEEeeEEEEEECCceEEEEeCCCccccccCCHHHHHHHHhhhccCCcEEEEEecCC
Confidence            34445544333222223334456777777778888888999999999887643        2223336799999999997


Q ss_pred             CCCCcchHHHHHHHHHcC-CCeEEEEEeCC
Q psy9646         183 DGAMPQTREHLLLAKQIG-VTNIVVFINKF  211 (211)
Q Consensus       183 ~~~~~~~~~~~~~~~~~~-~~~~i~~inK~  211 (211)
                      ..  .....++..+...+ .| +++++||+
T Consensus        93 ~~--~~~~~~~~~~~~~~~~p-~ilv~NK~  119 (271)
T 3k53_A           93 CL--MRNLFLTLELFEMEVKN-IILVLNKF  119 (271)
T ss_dssp             GH--HHHHHHHHHHHHTTCCS-EEEEEECH
T ss_pred             cc--hhhHHHHHHHHhcCCCC-EEEEEECh
Confidence            75  34445566667777 77 88999995

>3vqt_A RF-3, peptide chain release factor 3; translation, GTPase; HET: GDP; 1.80A {Desulfovibrio vulgaris} PDB: 3vr1_A*

Probab=98.60  E-value=6.9e-08  Score=84.45  Aligned_cols=101  Identities=21%  Similarity=0.298  Sum_probs=77.8

Q ss_pred             hHHHHHhhhCCCCCC---------CCCCCeeEEEeeEEee---cCCcEEEEEEEEEEEEecCCEEEEeecCceeeEEEEE
Q psy9646           2 ELLNQIDTYIPQPVR---------DLDKPFYLPVEHTYSI---PGRGTVVTGRLERGIVKKGMECEFTGYGRQFKTTVTG   69 (211)
Q Consensus         2 ~ll~~l~~~i~~p~~---------~~~~p~~~~v~~~~~~---~~~G~v~~G~v~~G~i~~g~~v~i~p~~~~~~~~v~~   69 (211)
                      +||+++.+++|.|..         +.+.||...|..++..   ++.|++..+||.+|+++.|++|.....++  +.++..
T Consensus       284 ~LLd~iv~~~PsP~~~~~~~~~~~~~~~p~~a~vfKi~~~~~~~~~Grla~~RV~sG~l~~g~~v~~~~~~~--~~rv~~  361 (548)
T 3vqt_A          284 EMLDMFVEFAPGPQPRPAATRVVEPGEEAFTGVVFKIQANMDKAHRDRMAFLRICSGTFTRGMRLKHHRTGK--DVTVAN  361 (548)
T ss_dssp             HHHHHHHHHSCCSCCEEBSSSEECTTCSSCEEEEEEEECC-------CEEEEEEEESCEETTCEEEETTTTE--EEECTT
T ss_pred             HHHHHHHHhCCCCCCccccccccCCCCcCceEEEEEEEccCCcCCCCeEEEEEEecceecCCCEEEeecccc--ccccch
Confidence            589999999987742         2367899988888765   68999999999999999999999876654  566666


Q ss_pred             EEecc----eecceecccCceehhccCCCcccccccccccccc
Q psy9646          70 IEMFH----KILDEAQAGDQLGALVKGMKRDEVNRGLIMAKPV  108 (211)
Q Consensus        70 i~~~~----~~~~~a~~G~~v~~~l~~~~~~~v~~G~ii~~~~  108 (211)
                      +....    .++++|.|||++++    .+..+...|++++...
T Consensus       362 l~~~~g~~~~~v~~a~AGdIvai----~gl~~~~~GDTl~~~~  400 (548)
T 3vqt_A          362 ATIFMAQDRTGVEEAFPGDIIGI----PNHGTIKIGDTFTESK  400 (548)
T ss_dssp             CEECCCSSCCSSCEECTTCEEEE----ECSSCCCTTCEEESSS
T ss_pred             hhhhccccccccCEEecCCEEEe----cCCccCccCCEecCCC
Confidence            66543    57999999999987    3455788999998654

>4bas_A ADP-ribosylation factor, putative (small GTPase, putative); hydrolase; HET: GNP; 2.00A {Trypanosoma brucei TREU927}

Probab=98.60  E-value=9.8e-08  Score=71.76  Aligned_cols=72  Identities=17%  Similarity=0.185  Sum_probs=53.8

Q ss_pred             eEEEeeeCCceeEeecCCcccccHhHHhhhccccceEEEEEeccCCCC-cchHHHHHHHHHc-----------CCCeEEE
Q psy9646         139 AHVEYATENRHYSHTDCPGHADYIKNMITGTSQMDGAILVVAATDGAM-PQTREHLLLAKQI-----------GVTNIVV  206 (211)
Q Consensus       139 ~~~~~~~~~~~~~~iDtPG~~~~~~~~~~~~~~~d~~~~vvd~~~~~~-~~~~~~~~~~~~~-----------~~~~~i~  206 (211)
                      ....+......+.++||||+++|.......+..+|++++|+|+.+... ......+..+...           ++| +|+
T Consensus        54 ~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~d~ii~v~D~~~~~s~~~~~~~~~~~~~~~~~~~~~~~~~~~p-iil  132 (199)
T 4bas_A           54 NVETFEKGRVAFTVFDMGGAKKFRGLWETYYDNIDAVIFVVDSSDHLRLCVVKSEIQAMLKHEDIRRELPGGGRVP-FLF  132 (199)
T ss_dssp             EEEEEEETTEEEEEEEECCSGGGGGGGGGGCTTCSEEEEEEETTCGGGHHHHHHHHHHHHTSHHHHSBCTTSCBCC-EEE
T ss_pred             eEEEEEeCCEEEEEEECCCCHhHHHHHHHHHhcCCEEEEEEECCcHHHHHHHHHHHHHHHhChhhhhcccccCCCC-EEE
Confidence            344556778899999999999998888888999999999999986642 2222333333332           777 889


Q ss_pred             EEeCC
Q psy9646         207 FINKF  211 (211)
Q Consensus       207 ~inK~  211 (211)
                      |+||+
T Consensus       133 v~NK~  137 (199)
T 4bas_A          133 FANKM  137 (199)
T ss_dssp             EEECT
T ss_pred             EEECc
Confidence            99996

>3tw8_B RAS-related protein RAB-35; longin domain, RAB GTPase, guanine exchange factor; 2.10A {Homo sapiens}

Probab=98.59  E-value=5.5e-08  Score=71.83  Aligned_cols=100  Identities=13%  Similarity=0.009  Sum_probs=61.7

Q ss_pred             hhhhhhcccccccccchhhcccceEEeEeEEEeeeCC--ceeEeecCCcccccHhHHhhhccccceEEEEEeccCCCCcc
Q psy9646         111 DKKLAKVKQYADIDNAPEEKARGITINVAHVEYATEN--RHYSHTDCPGHADYIKNMITGTSQMDGAILVVAATDGAMPQ  188 (211)
Q Consensus       111 ~~~~~~f~~~i~~~~~~~e~~rg~tv~~~~~~~~~~~--~~~~~iDtPG~~~~~~~~~~~~~~~d~~~~vvd~~~~~~~~  188 (211)
                      ..|++++...+.......+.....+.+.....+...+  ..+.++||||++++.......+..+|++++|+|+.......
T Consensus        19 ~~GKssl~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~   98 (181)
T 3tw8_B           19 GVGKSSLLLRFADNTFSGSYITTIGVDFKIRTVEINGEKVKLQIWDTAGQERFRTITSTYYRGTHGVIVVYDVTSAESFV   98 (181)
T ss_dssp             TSCHHHHHHHHCSCC---CCTTTBSEEEEEEEEEETTEEEEEEEEEETTGGGCSSCCGGGGTTCSEEEEEEETTCHHHHH
T ss_pred             CCCHHHHHHHHhcCCCCCccCCCceeEEEEEEEEECCEEEEEEEEcCCCchhhhhhHHHHhccCCEEEEEEECCCHHHHH
Confidence            3445555444433333333334444455455555555  67889999999999888888889999999999997653222


Q ss_pred             h-HHHHHHHHHc--CCCeEEEEEeCC
Q psy9646         189 T-REHLLLAKQI--GVTNIVVFINKF  211 (211)
Q Consensus       189 ~-~~~~~~~~~~--~~~~~i~~inK~  211 (211)
                      . ..++..+...  ++| +++|+||+
T Consensus        99 ~~~~~~~~~~~~~~~~p-~ilv~nK~  123 (181)
T 3tw8_B           99 NVKRWLHEINQNCDDVC-RILVGNKN  123 (181)
T ss_dssp             HHHHHHHHHHHHCTTSE-EEEEEECT
T ss_pred             HHHHHHHHHHHhCCCCC-EEEEEECC
Confidence            2 2233333332  355 78999996

>3a1s_A Iron(II) transport protein B; FEOB, iron transporter, small GTPase, G protein, GDI; HET: GDP; 1.50A {Thermotoga maritima} PDB: 3a1t_A* 3a1u_A* 3a1v_A* 3a1w_A

Probab=98.59  E-value=8.7e-08  Score=75.99  Aligned_cols=98  Identities=12%  Similarity=0.055  Sum_probs=64.5

Q ss_pred             hhhhhhcccccccccchhhcccceEEeEeEEEeeeCCceeEeecCCcccccHh--------HHhhhccccceEEEEEecc
Q psy9646         111 DKKLAKVKQYADIDNAPEEKARGITINVAHVEYATENRHYSHTDCPGHADYIK--------NMITGTSQMDGAILVVAAT  182 (211)
Q Consensus       111 ~~~~~~f~~~i~~~~~~~e~~rg~tv~~~~~~~~~~~~~~~~iDtPG~~~~~~--------~~~~~~~~~d~~~~vvd~~  182 (211)
                      ..|++++...+...........|.|+......+...+..+.++||||+..|..        ..+.....+|++++|+|+.
T Consensus        15 nvGKTsL~n~l~g~~~~~~~~pg~tv~~~~~~~~~~~~~~~l~DtpG~~~~~~~~~~e~v~~~~~~~~~~d~ii~V~D~t   94 (258)
T 3a1s_A           15 NVGKTSLFNALTGTKQYVANWPGVTVEKKEGVFTYKGYTINLIDLPGTYSLGYSSIDEKIARDYLLKGDADLVILVADSV   94 (258)
T ss_dssp             TSSHHHHHHHHHTTCEEEEECTTSCCEEEEEEEEETTEEEEEEECCCCSSCCSSSHHHHHHHHHHHHSCCSEEEEEEETT
T ss_pred             CCCHHHHHHHHHCCCCcccCCCCceEEEEEEEEEECCeEEEEEECCCcCccCCCCHHHHHHHHHHhhcCCCEEEEEeCCC
Confidence            34455544333222222233457777777777888888999999999887642        1111126899999999987


Q ss_pred             CCCCcchHHHHHHHHHcCCCeEEEEEeCC
Q psy9646         183 DGAMPQTREHLLLAKQIGVTNIVVFINKF  211 (211)
Q Consensus       183 ~~~~~~~~~~~~~~~~~~~~~~i~~inK~  211 (211)
                      ..  .....++..+...++| +++++||+
T Consensus        95 ~~--~~~~~~~~~l~~~~~p-vilv~NK~  120 (258)
T 3a1s_A           95 NP--EQSLYLLLEILEMEKK-VILAMTAI  120 (258)
T ss_dssp             SC--HHHHHHHHHHHTTTCC-EEEEEECH
T ss_pred             ch--hhHHHHHHHHHhcCCC-EEEEEECc
Confidence            63  2334456667778888 88999995

>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=98.59  E-value=1.1e-07  Score=83.88  Aligned_cols=105  Identities=19%  Similarity=0.143  Sum_probs=79.9

Q ss_pred             hHHHHHhhhCCCC-----CCCCCCCeeEEEeeEEeecCCcEEEEEEEEEEEEecCCEEEEeecCceeeEEEEEEEec---
Q psy9646           2 ELLNQIDTYIPQP-----VRDLDKPFYLPVEHTYSIPGRGTVVTGRLERGIVKKGMECEFTGYGRQFKTTVTGIEMF---   73 (211)
Q Consensus         2 ~ll~~l~~~i~~p-----~~~~~~p~~~~v~~~~~~~~~G~v~~G~v~~G~i~~g~~v~i~p~~~~~~~~v~~i~~~---   73 (211)
                      +|+++|....+.|     ..+.++|++++|.+++..++.|+++.|+|.+|++++||.+.+.|.+....++|++|...   
T Consensus       207 eLl~~I~~~~~~~~~~~l~~~~~~p~~~~V~~~~~d~g~G~v~~~rV~~G~Lk~Gd~v~~~~~~~~~~~rV~~i~~~~~~  286 (594)
T 1g7s_A          207 ELLTMLMGLAQQYLREQLKIEEDSPARGTILEVKEETGLGMTIDAVIYDGILRKDDTIAMMTSKDVISTRIRSLLKPRPL  286 (594)
T ss_dssp             HHHHHHHHHHHHHCSGGGEECTTSBCEEEEEEEEEETTEEEEEEEEEEESEEETTCEEEEEBSSSEEEEECCEEEEECCC
T ss_pred             hHHHHHHhhccccchhhhccccCCCceeEEEEEEEeCCcEEEEEEEEeeCEEeeCCEEEECCCCCceeEEEeEEEecccc
Confidence            4666666543311     22457899999999999999999999999999999999999998875456789999753   


Q ss_pred             ---------ceecceec--ccCceehhccCCCcccccccccccccchh
Q psy9646          74 ---------HKILDEAQ--AGDQLGALVKGMKRDEVNRGLIMAKPVLA  110 (211)
Q Consensus        74 ---------~~~~~~a~--~G~~v~~~l~~~~~~~v~~G~ii~~~~~~  110 (211)
                               ..++++|.  +|+.+.+  .  +..++..|+.++....+
T Consensus       287 ~elr~~~~~~~~v~ea~~~aG~~v~~--~--~l~~~~~Gd~l~~~~~~  330 (594)
T 1g7s_A          287 EEMRESRKKFQKVDEVVAAAGIKIVA--P--GIDDVMAGSPLRVVTDP  330 (594)
T ss_dssp             C----CCCSEEECSEEESSEEEEEEC--S--SCTTBCTTCEEEECSSH
T ss_pred             chhhhccCCceEccEEcCCCCcEEEE--c--ccCCCCCCCEEEecCCH
Confidence                     24677887  8887765  2  33466889999875543

>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=98.58  E-value=1.2e-07  Score=70.75  Aligned_cols=63  Identities=17%  Similarity=0.067  Sum_probs=48.4

Q ss_pred             ceeEeecCCcccccHhHHhhhccccceEEEEEeccCCCCcch-HHHHHHHHH----cCCCeEEEEEeCC
Q psy9646         148 RHYSHTDCPGHADYIKNMITGTSQMDGAILVVAATDGAMPQT-REHLLLAKQ----IGVTNIVVFINKF  211 (211)
Q Consensus       148 ~~~~~iDtPG~~~~~~~~~~~~~~~d~~~~vvd~~~~~~~~~-~~~~~~~~~----~~~~~~i~~inK~  211 (211)
                      ..+.++||||++.|.......+..+|++++|+|+........ +.++..+..    .+.| +++++||+
T Consensus        70 ~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~p-iilv~nK~  137 (195)
T 3bc1_A           70 IHLQLWDTAGLERFRSLTTAFFRDAMGFLLLFDLTNEQSFLNVRNWISQLQMHAYSENPD-IVLCGNKS  137 (195)
T ss_dssp             EEEEEEEECCSGGGHHHHHHTTTTCSEEEEEEETTCHHHHHTHHHHHHHHHHHSSSSSCC-EEEEEECT
T ss_pred             EEEEEEeCCCcHHHHHHHHHHHcCCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCC-EEEEEECc
Confidence            479999999999999888899999999999999876543222 334444433    4667 88999996

>3tkl_A RAS-related protein RAB-1A; vesicle trafficking, protein transport-protein binding compl; HET: GTP; 2.18A {Homo sapiens}

Probab=98.58  E-value=7.5e-08  Score=72.24  Aligned_cols=100  Identities=14%  Similarity=0.058  Sum_probs=63.7

Q ss_pred             hhhhhhcccccccccchhhcccceEEeEeEEEeeeCC--ceeEeecCCcccccHhHHhhhccccceEEEEEeccCCCC-c
Q psy9646         111 DKKLAKVKQYADIDNAPEEKARGITINVAHVEYATEN--RHYSHTDCPGHADYIKNMITGTSQMDGAILVVAATDGAM-P  187 (211)
Q Consensus       111 ~~~~~~f~~~i~~~~~~~e~~rg~tv~~~~~~~~~~~--~~~~~iDtPG~~~~~~~~~~~~~~~d~~~~vvd~~~~~~-~  187 (211)
                      ..|++++...+.......+.....+.+.....+...+  ..+.++||||++.+.......+..+|++++|+|+.+... .
T Consensus        26 ~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~  105 (196)
T 3tkl_A           26 GVGKSCLLLRFADDTYTESYISTIGVDFKIRTIELDGKTIKLQIWDTAGQERFRTITSSYYRGAHGIIVVYDVTDQESFN  105 (196)
T ss_dssp             TSSHHHHHHHHHHSCCCSCCCCCSSEEEEEEEEEETTEEEEEEEEEECCSGGGCTTHHHHHTTCSEEEEEEETTCHHHHH
T ss_pred             CCCHHHHHHHHHcCCCCCCCCCcccceEEEEEEEECCEEEEEEEEECCCcHhhhhhHHHHHhhCCEEEEEEECcCHHHHH
Confidence            3445555444433333333334444455555555555  568899999999998888888899999999999876432 2


Q ss_pred             chHHHHHHHHHc---CCCeEEEEEeCC
Q psy9646         188 QTREHLLLAKQI---GVTNIVVFINKF  211 (211)
Q Consensus       188 ~~~~~~~~~~~~---~~~~~i~~inK~  211 (211)
                      ....++..+...   ++| +++++||+
T Consensus       106 ~~~~~~~~i~~~~~~~~p-~ilv~nK~  131 (196)
T 3tkl_A          106 NVKQWLQEIDRYASENVN-KLLVGNKC  131 (196)
T ss_dssp             THHHHHHHHHHHSCTTCE-EEEEEECT
T ss_pred             HHHHHHHHHHHhcCCCCC-EEEEEECc
Confidence            223344444433   566 78999996

>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=98.55  E-value=9.7e-08  Score=71.01  Aligned_cols=100  Identities=13%  Similarity=0.051  Sum_probs=61.2

Q ss_pred             hhhhhhcccccccccchhhcccceEEeEeEEEeeeCC--ceeEeecCCcccccHhHHhhhccccceEEEEEeccCCCCcc
Q psy9646         111 DKKLAKVKQYADIDNAPEEKARGITINVAHVEYATEN--RHYSHTDCPGHADYIKNMITGTSQMDGAILVVAATDGAMPQ  188 (211)
Q Consensus       111 ~~~~~~f~~~i~~~~~~~e~~rg~tv~~~~~~~~~~~--~~~~~iDtPG~~~~~~~~~~~~~~~d~~~~vvd~~~~~~~~  188 (211)
                      ..|++++...+.............+.+.....+...+  ..+.++||||+++|.......+..+|++++|+|+.....-+
T Consensus        20 ~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~   99 (186)
T 2bme_A           20 GTGKSCLLHQFIEKKFKDDSNHTIGVEFGSKIINVGGKYVKLQIWDTAGQERFRSVTRSYYRGAAGALLVYDITSRETYN   99 (186)
T ss_dssp             TSSHHHHHHHHHHSSCCTTCCCCSEEEEEEEEEEETTEEEEEEEEEECCSGGGHHHHHTTSTTCSEEEEEEETTCHHHHH
T ss_pred             CCCHHHHHHHHHcCCCCCCCCCccceEEEEEEEEECCEEEEEEEEeCCCcHHHHHHHHHHHhcCCEEEEEEECcCHHHHH
Confidence            3444554443332222222233334344344444444  57889999999999888888899999999999987643222


Q ss_pred             h-HHHHHHHHH---cCCCeEEEEEeCC
Q psy9646         189 T-REHLLLAKQ---IGVTNIVVFINKF  211 (211)
Q Consensus       189 ~-~~~~~~~~~---~~~~~~i~~inK~  211 (211)
                      . ..++..+..   .++| +++++||+
T Consensus       100 ~~~~~~~~~~~~~~~~~p-iilv~nK~  125 (186)
T 2bme_A          100 ALTNWLTDARMLASQNIV-IILCGNKK  125 (186)
T ss_dssp             THHHHHHHHHHHSCTTCE-EEEEEECG
T ss_pred             HHHHHHHHHHHhcCCCCc-EEEEEECc
Confidence            1 223333332   4566 88999995

>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=98.54  E-value=5.7e-08  Score=72.16  Aligned_cols=70  Identities=14%  Similarity=0.094  Sum_probs=41.1

Q ss_pred             EEeeeCC--ceeEeecCCcccccHhHHhhhccccceEEEEEeccCCCC-cchHHHHHHHHHc---CCCeEEEEEeCC
Q psy9646         141 VEYATEN--RHYSHTDCPGHADYIKNMITGTSQMDGAILVVAATDGAM-PQTREHLLLAKQI---GVTNIVVFINKF  211 (211)
Q Consensus       141 ~~~~~~~--~~~~~iDtPG~~~~~~~~~~~~~~~d~~~~vvd~~~~~~-~~~~~~~~~~~~~---~~~~~i~~inK~  211 (211)
                      ..+...+  ..+.++||||+++|.......+..+|++++|+|+..... .....++..+...   ++| ++++.||+
T Consensus        48 ~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p-iilv~nK~  123 (183)
T 2fu5_C           48 RTIELDGKRIKLQIWDTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIRNWIRNIEEHASADVE-KMILGNKC  123 (183)
T ss_dssp             EEEEETTEEEEEEEEEC---------CCTTTTTCSEEEEEEETTCHHHHHHHHHHHHHHHHHSCTTCE-EEEEEEC-
T ss_pred             EEEEECCEEEEEEEEcCCCChhhhhhHHHHHhcCCEEEEEEECcCHHHHHHHHHHHHHHHHhcCCCCC-EEEEEECc
Confidence            3344444  678999999999988777778889999999999876432 2223344444442   566 88999995

>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=98.54  E-value=7.8e-08  Score=73.18  Aligned_cols=74  Identities=14%  Similarity=0.095  Sum_probs=51.7

Q ss_pred             eEeEEEeeeCC--ceeEeecCCcccccHhHHhhhccccceEEEEEeccCCCC-cchHHHHHHHHHc---CCCeEEEEEeC
Q psy9646         137 NVAHVEYATEN--RHYSHTDCPGHADYIKNMITGTSQMDGAILVVAATDGAM-PQTREHLLLAKQI---GVTNIVVFINK  210 (211)
Q Consensus       137 ~~~~~~~~~~~--~~~~~iDtPG~~~~~~~~~~~~~~~d~~~~vvd~~~~~~-~~~~~~~~~~~~~---~~~~~i~~inK  210 (211)
                      +.....+...+  .++.++||||++.|.......+..+|++++|+|+..... .....++..+...   +.| +++|+||
T Consensus        56 ~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p-iilv~nK  134 (213)
T 3cph_A           56 DFKIKTVDINGKKVKLQLWDTAGQERFRTITTAYYRGAMGIILVYDVTDERTFTNIKQWFKTVNEHANDEAQ-LLLVGNK  134 (213)
T ss_dssp             CEEEEEEEETTEEEEEEEECCTTGGGGTCCCHHHHTTCSEEEEEEETTCHHHHHTHHHHHHHHHHHTTTCSE-EEEEEEC
T ss_pred             eEEEEEEEECCEEEEEEEEeCCCcHHHHHHHHHHhccCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCC-EEEEEEC
Confidence            33334444455  578999999999988777788899999999999875432 1223344444432   566 8899999


Q ss_pred             C
Q psy9646         211 F  211 (211)
Q Consensus       211 ~  211 (211)
                      +
T Consensus       135 ~  135 (213)
T 3cph_A          135 S  135 (213)
T ss_dssp             T
T ss_pred             C
Confidence            6

>3gee_A MNME, tRNA modification GTPase MNME; G protein, cytoplasm, GTP- binding, hydrolase, magnesium, metal-binding, nucleotide- binding, potassium; HET: GDP FON; 2.95A {Chlorobium tepidum} PDB: 3gei_A*

Probab=98.54  E-value=6.3e-08  Score=83.27  Aligned_cols=79  Identities=13%  Similarity=0.143  Sum_probs=43.6

Q ss_pred             cccceEEeEeEEEeeeCCceeEeecCCcccccH--------hHHhhhccccceEEEEEeccCCCCc----chHHHHHHHH
Q psy9646         130 KARGITINVAHVEYATENRHYSHTDCPGHADYI--------KNMITGTSQMDGAILVVAATDGAMP----QTREHLLLAK  197 (211)
Q Consensus       130 ~~rg~tv~~~~~~~~~~~~~~~~iDtPG~~~~~--------~~~~~~~~~~d~~~~vvd~~~~~~~----~~~~~~~~~~  197 (211)
                      ...+.|.+.....+...+..+.++||||+.++.        +.+...+..+|++++|+|+..+...    ....+++.+.
T Consensus       263 ~~~gtT~d~~~~~i~~~g~~l~liDT~G~~~~~~~ve~~gi~~~~~~~~~aD~vl~VvD~s~~~s~~~~~~~~~~l~~l~  342 (476)
T 3gee_A          263 HMPGTTRDYIEECFIHDKTMFRLTDTAGLREAGEEIEHEGIRRSRMKMAEADLILYLLDLGTERLDDELTEIRELKAAHP  342 (476)
T ss_dssp             ----------CEEEEETTEEEEEEC--------------------CCCSSCSEEEEEEETTTCSSGGGHHHHHHHHHHCT
T ss_pred             CCCCceEEEEEEEEEECCeEEEEEECCCCCcchhHHHHHHHHHHHhhcccCCEEEEEEECCCCcchhhhHHHHHHHHhcC
Confidence            344566666666777788899999999987753        2345577899999999999988765    3333433332


Q ss_pred             HcCCCeEEEEEeCC
Q psy9646         198 QIGVTNIVVFINKF  211 (211)
Q Consensus       198 ~~~~~~~i~~inK~  211 (211)
                        +.| +|+|+||+
T Consensus       343 --~~p-iIvV~NK~  353 (476)
T 3gee_A          343 --AAK-FLTVANKL  353 (476)
T ss_dssp             --TSE-EEEEEECT
T ss_pred             --CCC-EEEEEECc
Confidence              455 88999996

>2hxs_A RAB-26, RAS-related protein RAB-28; GTPase, signaling protein; HET: G3D; 1.10A {Homo sapiens} PDB: 2hy4_A* 3e5h_A*

Probab=98.53  E-value=7.1e-08  Score=71.18  Aligned_cols=64  Identities=16%  Similarity=0.005  Sum_probs=47.4

Q ss_pred             ceeEeecCCcccccHhHHhhhccccceEEEEEeccCCCCc-chHHHHHHHHH-----cCCCeEEEEEeCC
Q psy9646         148 RHYSHTDCPGHADYIKNMITGTSQMDGAILVVAATDGAMP-QTREHLLLAKQ-----IGVTNIVVFINKF  211 (211)
Q Consensus       148 ~~~~~iDtPG~~~~~~~~~~~~~~~d~~~~vvd~~~~~~~-~~~~~~~~~~~-----~~~~~~i~~inK~  211 (211)
                      .++.+.||||++.|.......+..+|++++|+|+.....- ....++..+..     .+.|+++++.||+
T Consensus        56 ~~~~~~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~~~~iilv~nK~  125 (178)
T 2hxs_A           56 VTLQIWDIGGQTIGGKMLDKYIYGAQGVLLVYDITNYQSFENLEDWYTVVKKVSEESETQPLVALVGNKI  125 (178)
T ss_dssp             EEEEEEECTTCCTTCTTHHHHHTTCSEEEEEEETTCHHHHHTHHHHHHHHHHHHHHHTCCCEEEEEEECG
T ss_pred             EEEEEEECCCCccccchhhHHHhhCCEEEEEEECCCHHHHHHHHHHHHHHHHHhcccCCCCeEEEEEEcc
Confidence            6789999999999887778888999999999998765321 22233344433     2567678899995

>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=98.52  E-value=1.3e-07  Score=70.75  Aligned_cols=73  Identities=16%  Similarity=0.228  Sum_probs=52.6

Q ss_pred             EeEEEeeeCCceeEeecCCcccccHhHHhhhccccceEEEEEeccCCCC-cchHHHHHHH-HH-----cCCCeEEEEEeC
Q psy9646         138 VAHVEYATENRHYSHTDCPGHADYIKNMITGTSQMDGAILVVAATDGAM-PQTREHLLLA-KQ-----IGVTNIVVFINK  210 (211)
Q Consensus       138 ~~~~~~~~~~~~~~~iDtPG~~~~~~~~~~~~~~~d~~~~vvd~~~~~~-~~~~~~~~~~-~~-----~~~~~~i~~inK  210 (211)
                      .....+..++..+.++||||++++.......+..+|++++|+|+..... ......+..+ ..     .+.| +++++||
T Consensus        57 ~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~ii~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~p-iilv~nK  135 (190)
T 2h57_A           57 FSIEKFKSSSLSFTVFDMSGQGRYRNLWEHYYKEGQAIIFVIDSSDRLRMVVAKEELDTLLNHPDIKHRRIP-ILFFANK  135 (190)
T ss_dssp             EEEEEEECSSCEEEEEEECCSTTTGGGGGGGGGGCSEEEEEEETTCHHHHHHHHHHHHHHHHSTTTTTSCCC-EEEEEEC
T ss_pred             eeEEEEEECCEEEEEEECCCCHHHHHHHHHHHhcCCEEEEEEECCCHHHHHHHHHHHHHHHhChhhccCCCe-EEEEEeC
Confidence            3344556667899999999999998888888899999999999876421 1222233333 32     3667 8899999


Q ss_pred             C
Q psy9646         211 F  211 (211)
Q Consensus       211 ~  211 (211)
                      +
T Consensus       136 ~  136 (190)
T 2h57_A          136 M  136 (190)
T ss_dssp             T
T ss_pred             c
Confidence            6

>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=98.52  E-value=1.5e-07  Score=68.79  Aligned_cols=71  Identities=21%  Similarity=0.142  Sum_probs=51.9

Q ss_pred             EEEeeeCCceeEeecCCcccccHhHHhhhccccceEEEEEeccCCCCc-chHHHHHHHHH----cCCCeEEEEEeCC
Q psy9646         140 HVEYATENRHYSHTDCPGHADYIKNMITGTSQMDGAILVVAATDGAMP-QTREHLLLAKQ----IGVTNIVVFINKF  211 (211)
Q Consensus       140 ~~~~~~~~~~~~~iDtPG~~~~~~~~~~~~~~~d~~~~vvd~~~~~~~-~~~~~~~~~~~----~~~~~~i~~inK~  211 (211)
                      ...+...+..+.++||||++++.......+..+|++++|+|+.....- .....+.....    .+.| +++++||+
T Consensus        43 ~~~~~~~~~~~~~~Dt~G~~~~~~~~~~~~~~~d~ii~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~p-iilv~nK~  118 (171)
T 1upt_A           43 VETVTYKNLKFQVWDLGGLTSIRPYWRCYYSNTDAVIYVVDSCDRDRIGISKSELVAMLEEEELRKAI-LVVFANKQ  118 (171)
T ss_dssp             EEEEEETTEEEEEEEECCCGGGGGGGGGGCTTCSEEEEEEETTCCTTHHHHHHHHHHHHTCGGGTTCE-EEEEEECT
T ss_pred             eEEEEECCEEEEEEECCCChhhhHHHHHHhccCCEEEEEEECCCHHHHHHHHHHHHHHHhchhhCCCE-EEEEEECC
Confidence            344556688999999999999888888888999999999999766432 22223333322    3666 88999996

>3pqc_A Probable GTP-binding protein ENGB; rossmann fold, GTPase, cell cycle, hydrolase; HET: GDP; 1.90A {Thermotoga maritima} PDB: 3pr1_A

Probab=98.51  E-value=2.6e-07  Score=69.03  Aligned_cols=64  Identities=14%  Similarity=0.245  Sum_probs=51.4

Q ss_pred             CceeEeecCCcc----------c---ccHhHHhhhccccceEEEEEeccCCCCcchHHHHHHHHHcCCCeEEEEEeCC
Q psy9646         147 NRHYSHTDCPGH----------A---DYIKNMITGTSQMDGAILVVAATDGAMPQTREHLLLAKQIGVTNIVVFINKF  211 (211)
Q Consensus       147 ~~~~~~iDtPG~----------~---~~~~~~~~~~~~~d~~~~vvd~~~~~~~~~~~~~~~~~~~~~~~~i~~inK~  211 (211)
                      +.++.++||||.          .   .+....+.....+|++++|+|+..+.......+++.+...++| +++++||+
T Consensus        67 ~~~~~i~Dt~G~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~vi~v~d~~~~~~~~~~~~~~~~~~~~~p-~i~v~nK~  143 (195)
T 3pqc_A           67 NSKYYFVDLPGYGYAKVSKKERMLWKRLVEDYFKNRWSLQMVFLLVDGRIPPQDSDLMMVEWMKSLNIP-FTIVLTKM  143 (195)
T ss_dssp             TTTEEEEECCCBSSSCCCHHHHHHHHHHHHHHHHHCTTEEEEEEEEETTSCCCHHHHHHHHHHHHTTCC-EEEEEECG
T ss_pred             CCcEEEEECCCCccccCChhhHHHHHHHHHHHHhcCcCceEEEEEecCCCCCCHHHHHHHHHHHHcCCC-EEEEEECh
Confidence            457889999992          2   2345566666778999999999888887778888888888988 88999995

>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=98.51  E-value=1.9e-07  Score=70.03  Aligned_cols=64  Identities=17%  Similarity=0.310  Sum_probs=49.0

Q ss_pred             CceeEeecCCc----------ccccH---hHHhhhccccceEEEEEeccCCCCcchHHHHHHHHHcCCCeEEEEEeCC
Q psy9646         147 NRHYSHTDCPG----------HADYI---KNMITGTSQMDGAILVVAATDGAMPQTREHLLLAKQIGVTNIVVFINKF  211 (211)
Q Consensus       147 ~~~~~~iDtPG----------~~~~~---~~~~~~~~~~d~~~~vvd~~~~~~~~~~~~~~~~~~~~~~~~i~~inK~  211 (211)
                      +.++.++||||          ++.|.   ...+.....+|++++|+|+..+....+.++++.+...+.| +++++||+
T Consensus        68 ~~~~~l~Dt~G~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~p-~i~v~nK~  144 (195)
T 1svi_A           68 NDELHFVDVPGYGFAKVSKSEREAWGRMIETYITTREELKAVVQIVDLRHAPSNDDVQMYEFLKYYGIP-VIVIATKA  144 (195)
T ss_dssp             TTTEEEEECCCBCCCSSCHHHHHHHHHHHHHHHHHCTTEEEEEEEEETTSCCCHHHHHHHHHHHHTTCC-EEEEEECG
T ss_pred             CCcEEEEECCCCCccccCHHHHHHHHHHHHHHHhhhhcCCEEEEEEECCCCCCHHHHHHHHHHHHcCCC-EEEEEECc
Confidence            34799999999          44443   3334444556999999999988877777777888888888 88999995

>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=98.50  E-value=1.9e-07  Score=68.07  Aligned_cols=65  Identities=14%  Similarity=0.090  Sum_probs=47.2

Q ss_pred             CCceeEeecCCcccccHhHHhhhccccceEEEEEeccCCCCcc-hHHHHHHHHH---cCCCeEEEEEeCC
Q psy9646         146 ENRHYSHTDCPGHADYIKNMITGTSQMDGAILVVAATDGAMPQ-TREHLLLAKQ---IGVTNIVVFINKF  211 (211)
Q Consensus       146 ~~~~~~~iDtPG~~~~~~~~~~~~~~~d~~~~vvd~~~~~~~~-~~~~~~~~~~---~~~~~~i~~inK~  211 (211)
                      ....+.++||||+..+.......+..+|++++|+|+.....-. ...++..+..   .+.| +++++||+
T Consensus        50 ~~~~~~~~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p-iilv~nK~  118 (170)
T 1ek0_A           50 HTVKFEIWDTAGQERFASLAPXYYRNAQAALVVYDVTKPQSFIKARHWVKELHEQASKDII-IALVGNKI  118 (170)
T ss_dssp             EEEEEEEEEECCSGGGGGGHHHHHTTCSEEEEEEETTCHHHHHHHHHHHHHHHHHSCTTCE-EEEEEECG
T ss_pred             EEEEEEEEECCCChhhhhhhhhhhccCcEEEEEEecCChHHHHHHHHHHHHHHHhcCCCCc-EEEEEECC
Confidence            3357899999999999888888899999999999987653222 2223333332   2566 88899995

>4fn5_A EF-G 1, elongation factor G 1; translation, translation-antibiotic compl; HET: 0UO; 2.90A {Pseudomonas aeruginosa}

Probab=98.50  E-value=5.9e-08  Score=87.42  Aligned_cols=101  Identities=24%  Similarity=0.333  Sum_probs=80.0

Q ss_pred             hHHHHHhhhCCCCC--------------------CCCCCCeeEEEeeEEeecCCcEEEEEEEEEEEEecCCEEEEeecCc
Q psy9646           2 ELLNQIDTYIPQPV--------------------RDLDKPFYLPVEHTYSIPGRGTVVTGRLERGIVKKGMECEFTGYGR   61 (211)
Q Consensus         2 ~ll~~l~~~i~~p~--------------------~~~~~p~~~~v~~~~~~~~~G~v~~G~v~~G~i~~g~~v~i~p~~~   61 (211)
                      .||+++.+++|.|.                    .+.++||.+.|..+...++.|++..|||-+|+++.|++|.....++
T Consensus       280 ~lLd~i~~~lPsP~~~~~~~~~~~~~~~~~~~~~~d~~~pl~~~VfK~~~d~~~G~la~~RV~sGtl~~G~~v~~~~~~~  359 (709)
T 4fn5_A          280 LVLDAVIDYLPAPTEIPAIKGVSPDDETVEDERHADDNEPFSSLAFKIATDPFVGTLTFARVYSGVLSSGDSVLNSVKGK  359 (709)
T ss_dssp             HHHHHHHHHSCCTTSSCCEECBCCC-CCSCCEECSCTTSCCEEEEEECCCBTTTBCCCEEEEEESCEETTCBCBCTTTCC
T ss_pred             HHHHHHHhhCCCCcccccccccCCccccccccccCCccCcceEEEEEeecccCCCceEEEeccCCCCCCCCEEEEecCCc
Confidence            48999999998773                    3457899999999999999999999999999999999998655443


Q ss_pred             eeeEEEEEEEecc----eecceecccCceehhccCCCcccccccccccccc
Q psy9646          62 QFKTTVTGIEMFH----KILDEAQAGDQLGALVKGMKRDEVNRGLIMAKPV  108 (211)
Q Consensus        62 ~~~~~v~~i~~~~----~~~~~a~~G~~v~~~l~~~~~~~v~~G~ii~~~~  108 (211)
                        +.++..+....    .++++|.|||++++  .+  ..++..|+++++..
T Consensus       360 --~~~v~~l~~~~g~~~~~v~~~~aGdIv~i--~G--l~~~~~gdTl~~~~  404 (709)
T 4fn5_A          360 --KERVGRMVQMHANQREEIKEVRAGDIAAL--IG--MKDVTTGDTLCSIE  404 (709)
T ss_dssp             --CCBCCCEECCCSSCCCEESEECTTCEEEE--CS--CSSCCTTCEEECSS
T ss_pred             --EEeecceeEeecceeeEeeeecCCCeeee--cC--CCcCccCCEecCCC
Confidence              44555664433    68999999999987  33  34678888887543

>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=98.50  E-value=1.6e-07  Score=69.99  Aligned_cols=71  Identities=20%  Similarity=0.167  Sum_probs=51.9

Q ss_pred             EEEeeeCCceeEeecCCcccccHhHHhhhccccceEEEEEeccCCCC-cchHHHHHHHHH----cCCCeEEEEEeCC
Q psy9646         140 HVEYATENRHYSHTDCPGHADYIKNMITGTSQMDGAILVVAATDGAM-PQTREHLLLAKQ----IGVTNIVVFINKF  211 (211)
Q Consensus       140 ~~~~~~~~~~~~~iDtPG~~~~~~~~~~~~~~~d~~~~vvd~~~~~~-~~~~~~~~~~~~----~~~~~~i~~inK~  211 (211)
                      ...+..++..+.+.||||++++.......+..+|++++|+|+..... ......+..+..    .+.| +++++||+
T Consensus        54 ~~~~~~~~~~~~~~Dt~G~~~~~~~~~~~~~~~d~ii~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~p-iilv~nK~  129 (186)
T 1ksh_A           54 IKTLEHRGFKLNIWDVGGQKSLRSYWRNYFESTDGLIWVVDSADRQRMQDCQRELQSLLVEERLAGAT-LLIFANKQ  129 (186)
T ss_dssp             EEEEEETTEEEEEEEECCSHHHHTTGGGGCTTCSEEEEEEETTCGGGHHHHHHHHHHHHTCGGGTTCE-EEEEEECT
T ss_pred             eEEEEECCEEEEEEECCCCHhHHHHHHHHhcCCCEEEEEEECcCHHHHHHHHHHHHHHHhChhcCCCc-EEEEEeCc
Confidence            34455578899999999999998888888999999999999876542 222233333322    3566 88999996

>1xzp_A Probable tRNA modification GTPase TRME; GTP-binding, THF-binding, hydrolase; 2.30A {Thermotoga maritima} SCOP: a.24.25.1 c.37.1.8 d.250.1.2 PDB: 1xzq_A* 1xzp_B 1xzq_B*

Probab=98.49  E-value=1.3e-07  Score=81.51  Aligned_cols=101  Identities=16%  Similarity=0.100  Sum_probs=69.7

Q ss_pred             chhhhhhhhccccccccc-chhhcccceEEeEeEEEeeeCCceeEeecCCccc-ccH--------hHHhhhccccceEEE
Q psy9646         108 VLADKKLAKVKQYADIDN-APEEKARGITINVAHVEYATENRHYSHTDCPGHA-DYI--------KNMITGTSQMDGAIL  177 (211)
Q Consensus       108 ~~~~~~~~~f~~~i~~~~-~~~e~~rg~tv~~~~~~~~~~~~~~~~iDtPG~~-~~~--------~~~~~~~~~~d~~~~  177 (211)
                      +.+..||+++...+.-.. .......+.|.+.....+...+..+.++||||+. ++.        +.++..+..+|++++
T Consensus       250 G~pnvGKSSLln~L~~~~~a~vs~~~gTT~d~~~~~i~~~g~~~~l~DTaG~~~~~~~~ve~~gi~~~~~~~~~aD~vl~  329 (482)
T 1xzp_A          250 GKPNVGKSTLLNRLLNEDRAIVTDIPGTTRDVISEEIVIRGILFRIVDTAGVRSETNDLVERLGIERTLQEIEKADIVLF  329 (482)
T ss_dssp             CCHHHHTCHHHHHHHHHTBCCCCCSSCCSSCSCCEEEEETTEEEEEEESSCCCSSCCTTCCCCCHHHHHHHHHHCSEEEE
T ss_pred             CcCCCcHHHHHHHHHCCCCCccCCCCCeeeeeEEEEEecCCeEEEEEECCCccccchhhHHHHHHHHHHHHhhcccEEEE
Confidence            344556666554443221 1123344566666666677788899999999998 542        446677889999999


Q ss_pred             EEeccCCCCcchHHHHHHHHHcCCCeEEEEEeCC
Q psy9646         178 VVAATDGAMPQTREHLLLAKQIGVTNIVVFINKF  211 (211)
Q Consensus       178 vvd~~~~~~~~~~~~~~~~~~~~~~~~i~~inK~  211 (211)
                      |+|+..+...++.++++.+  .+.| +|+|+||+
T Consensus       330 VvD~s~~~s~~~~~il~~l--~~~p-iivV~NK~  360 (482)
T 1xzp_A          330 VLDASSPLDEEDRKILERI--KNKR-YLVVINKV  360 (482)
T ss_dssp             EEETTSCCCHHHHHHHHHH--TTSS-EEEEEEEC
T ss_pred             EecCCCCCCHHHHHHHHHh--cCCC-EEEEEECc
Confidence            9999888776666676655  3667 88999996

>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=98.49  E-value=1.3e-07  Score=68.80  Aligned_cols=70  Identities=21%  Similarity=0.210  Sum_probs=50.6

Q ss_pred             EEeeeCCceeEeecCCcccccHhHHhhhccccceEEEEEeccCCCC-cchHHHHHHHHH----cCCCeEEEEEeCC
Q psy9646         141 VEYATENRHYSHTDCPGHADYIKNMITGTSQMDGAILVVAATDGAM-PQTREHLLLAKQ----IGVTNIVVFINKF  211 (211)
Q Consensus       141 ~~~~~~~~~~~~iDtPG~~~~~~~~~~~~~~~d~~~~vvd~~~~~~-~~~~~~~~~~~~----~~~~~~i~~inK~  211 (211)
                      ..+...+..+.+.||||+++|.......+..+|++++|+|+..... ......+..+..    .+.| ++++.||+
T Consensus        37 ~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~p-iilv~nK~  111 (164)
T 1r8s_A           37 ETVEYKNISFTVWDVGGQDKIRPLWRHYFQNTQGLIFVVDSNDRERVNEAREELMRMLAEDELRDAV-LLVFANKQ  111 (164)
T ss_dssp             EEEECSSCEEEEEECCCCGGGHHHHHHHTTTCSEEEEEEETTCGGGHHHHHHHHHHHHTCGGGTTCE-EEEEEECT
T ss_pred             EEEEECCEEEEEEEcCCChhhHHHHHHHhccCCEEEEEEECCCHHHHHHHHHHHHHHHhchhhcCCe-EEEEEECc
Confidence            3455677899999999999998877788899999999999876532 112223333322    2566 88999996

>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=98.49  E-value=3.8e-07  Score=67.13  Aligned_cols=71  Identities=13%  Similarity=0.045  Sum_probs=50.0

Q ss_pred             EEEeeeCC--ceeEeecCCcccccHhHHhhhccccceEEEEEeccCCCCcch-HHHHHHHHH-------cCCCeEEEEEe
Q psy9646         140 HVEYATEN--RHYSHTDCPGHADYIKNMITGTSQMDGAILVVAATDGAMPQT-REHLLLAKQ-------IGVTNIVVFIN  209 (211)
Q Consensus       140 ~~~~~~~~--~~~~~iDtPG~~~~~~~~~~~~~~~d~~~~vvd~~~~~~~~~-~~~~~~~~~-------~~~~~~i~~in  209 (211)
                      ...+...+  ..+.++||||++.+.......+..+|++++|+|+.....-+. ..++..+..       .+.| +++++|
T Consensus        46 ~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~~p-~i~v~n  124 (177)
T 1wms_A           46 NKDLEVDGHFVTMQIWDTAGQERFRSLRTPFYRGSDCCLLTFSVDDSQSFQNLSNWKKEFIYYADVKEPESFP-FVILGN  124 (177)
T ss_dssp             EEEEEETTEEEEEEEEECCCCGGGHHHHGGGGTTCSEEEEEEETTCHHHHHTHHHHHHHHHHHHTCSCTTTSC-EEEEEE
T ss_pred             EEEEEECCEEEEEEEEeCCCchhhhhhHHHHHhcCCEEEEEEECcCHHHHHHHHHHHHHHHHHccccccCCCc-EEEEEE
Confidence            33444444  478999999999998888888899999999999876542221 223333322       4567 889999


Q ss_pred             CC
Q psy9646         210 KF  211 (211)
Q Consensus       210 K~  211 (211)
                      |+
T Consensus       125 K~  126 (177)
T 1wms_A          125 KI  126 (177)
T ss_dssp             CT
T ss_pred             CC
Confidence            96

>2y8e_A RAB-protein 6, GH09086P, RAB6; hydrolase, nucleotide binding, GTP binding; HET: GNP; 1.39A {Drosophila melanogaster} PDB: 3cwz_A* 1yzq_A* 2gil_A* 2e9s_A* 2fe4_A* 2ffq_A* 1d5c_A*

Probab=98.49  E-value=1.5e-07  Score=69.22  Aligned_cols=99  Identities=15%  Similarity=0.051  Sum_probs=59.3

Q ss_pred             hhhhhcccccccccchhhcccceEEeEeEEEeeeCC--ceeEeecCCcccccHhHHhhhccccceEEEEEeccCCCC-cc
Q psy9646         112 KKLAKVKQYADIDNAPEEKARGITINVAHVEYATEN--RHYSHTDCPGHADYIKNMITGTSQMDGAILVVAATDGAM-PQ  188 (211)
Q Consensus       112 ~~~~~f~~~i~~~~~~~e~~rg~tv~~~~~~~~~~~--~~~~~iDtPG~~~~~~~~~~~~~~~d~~~~vvd~~~~~~-~~  188 (211)
                      .|++++...+.............+.+.....+...+  ..+.++||||+++|.......+..+|++++|+|+..... ..
T Consensus        25 ~GKssli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~  104 (179)
T 2y8e_A           25 VGKTSLITRFMYDSFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQERFRSLIPSYIRDSTVAVVVYDITNTNSFHQ  104 (179)
T ss_dssp             SSHHHHHHHHHHSCCCSSCCCCCSEEEEEEEEEETTEEEEEEEEEECCSGGGGGGSHHHHHTCSEEEEEEETTCHHHHHT
T ss_pred             CCHHHHHHHHHcCCCCCCCCCceeeEEEEEEEEECCeEEEEEEEECCCcHHHHHHHHHHhcCCCEEEEEEECCCHHHHHH
Confidence            444554443332222222223333333333444444  578999999999998888888899999999999875432 22


Q ss_pred             hHHHHHHHHH---cCCCeEEEEEeCC
Q psy9646         189 TREHLLLAKQ---IGVTNIVVFINKF  211 (211)
Q Consensus       189 ~~~~~~~~~~---~~~~~~i~~inK~  211 (211)
                      ...++..+..   .++| +++++||+
T Consensus       105 ~~~~~~~i~~~~~~~~p-iilv~nK~  129 (179)
T 2y8e_A          105 TSKWIDDVRTERGSDVI-IMLVGNKT  129 (179)
T ss_dssp             HHHHHHHHHHHHTTSSE-EEEEEECG
T ss_pred             HHHHHHHHHHhcCCCCc-EEEEEECC
Confidence            2233333332   3566 88999995

>2il1_A RAB12; G-protein, GDP, GTPase, predicted, structural genomics, structural genomics consortium, SGC, protein transport; HET: GDP; 2.10A {Homo sapiens}

Probab=98.49  E-value=8.6e-08  Score=72.12  Aligned_cols=70  Identities=13%  Similarity=0.102  Sum_probs=50.3

Q ss_pred             EEeeeCC--ceeEeecCCcccccHhHHhhhccccceEEEEEeccCCCCcch-HHHHHHHHHc---CCCeEEEEEeCC
Q psy9646         141 VEYATEN--RHYSHTDCPGHADYIKNMITGTSQMDGAILVVAATDGAMPQT-REHLLLAKQI---GVTNIVVFINKF  211 (211)
Q Consensus       141 ~~~~~~~--~~~~~iDtPG~~~~~~~~~~~~~~~d~~~~vvd~~~~~~~~~-~~~~~~~~~~---~~~~~i~~inK~  211 (211)
                      ..+...+  ..+.++||||+.+|.......+..+|++++|+|+......+. ..++..+...   +.| +++++||+
T Consensus        66 ~~~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~iilV~D~~~~~s~~~~~~~~~~i~~~~~~~~p-iilV~NK~  141 (192)
T 2il1_A           66 KTVELRGKKIRLQIWDTAGQERFNSITSAYYRSAKGIILVYDITKKETFDDLPKWMKMIDKYASEDAE-LLLVGNKL  141 (192)
T ss_dssp             EEEEETTEEEEEEEEEECCSGGGHHHHHHHHHHCSEEEEEEETTCHHHHHTHHHHHHHHHHHSCTTCE-EEEEEECG
T ss_pred             EEEEECCeEEEEEEEeCCCcHHHHHHHHHHhcCCCEEEEEEECcCHHHHHHHHHHHHHHHHhcCCCCc-EEEEEECc
Confidence            3344444  578999999999998888888899999999999876543222 2333444432   566 88999995

>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=98.47  E-value=3.5e-07  Score=74.15  Aligned_cols=65  Identities=12%  Similarity=0.127  Sum_probs=51.1

Q ss_pred             CCceeEeecCCcccc-------------cHhHHhhhccccceEEEEEec-cCCCCcch-HHHHHHHHHcCCCeEEEEEeC
Q psy9646         146 ENRHYSHTDCPGHAD-------------YIKNMITGTSQMDGAILVVAA-TDGAMPQT-REHLLLAKQIGVTNIVVFINK  210 (211)
Q Consensus       146 ~~~~~~~iDtPG~~~-------------~~~~~~~~~~~~d~~~~vvd~-~~~~~~~~-~~~~~~~~~~~~~~~i~~inK  210 (211)
                      ...++.|+||||+.+             +...+...+..+|++++++|+ ..+...++ ..+++.+...+.| +++|+||
T Consensus       129 ~~~~~~lvDTpG~~~~~~~~~~~~~~~~~~~~~~~~~~~~d~iilvvd~~~~~~~~~~~~~i~~~~~~~~~~-~i~v~NK  207 (315)
T 1jwy_B          129 HVVNLTLVDLPGITKVPVGDQPTDIEQQIRRMVMAYIKKQNAIIVAVTPANTDLANSDALQLAKEVDPEGKR-TIGVITK  207 (315)
T ss_dssp             TSCSEEEEECCCCC---------CSHHHHHHHHHHHHHSTTEEEEEEEESSSCSTTCSHHHHHHHHCSSCSS-EEEEEEC
T ss_pred             CCCCcEEEECCCCccCCCCCCchhHHHHHHHHHHHHHcCCCeEEEEEEecCcchhhhHHHHHHHHhCCCCCc-EEEEEcC
Confidence            457899999999764             566777888999999999997 56665444 4677777777888 7899999


Q ss_pred             C
Q psy9646         211 F  211 (211)
Q Consensus       211 ~  211 (211)
                      +
T Consensus       208 ~  208 (315)
T 1jwy_B          208 L  208 (315)
T ss_dssp             T
T ss_pred             c
Confidence            6

>2yc2_C IFT27, small RAB-related GTPase; transport protein, cilium, IFT complex; 2.59A {Chlamydomonas reinhardtii} PDB: 2yc4_C

Probab=98.47  E-value=1.7e-07  Score=70.89  Aligned_cols=64  Identities=19%  Similarity=0.100  Sum_probs=48.5

Q ss_pred             CceeEeecCCcccccHhHHhhhccccceEEEEEeccCCCC-cchHHHHHHHHH------cCCCeEEEEEeCC
Q psy9646         147 NRHYSHTDCPGHADYIKNMITGTSQMDGAILVVAATDGAM-PQTREHLLLAKQ------IGVTNIVVFINKF  211 (211)
Q Consensus       147 ~~~~~~iDtPG~~~~~~~~~~~~~~~d~~~~vvd~~~~~~-~~~~~~~~~~~~------~~~~~~i~~inK~  211 (211)
                      ...+.++||||+++|.......+..+|++++|+|+..... .....++..+..      .++| +++|+||+
T Consensus        72 ~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~~~p-iilv~nK~  142 (208)
T 2yc2_C           72 SVELFLLDTAGSDLYKEQISQYWNGVYYAILVFDVSSMESFESCKAWFELLKSARPDRERPLR-AVLVANKT  142 (208)
T ss_dssp             EEEEEEEETTTTHHHHHHHSTTCCCCCEEEEEEETTCHHHHHHHHHHHHHHHHHCSCTTSCCE-EEEEEECC
T ss_pred             EEEEEEEECCCcHHHHHHHHHHHhhCcEEEEEEECCCHHHHHHHHHHHHHHHHhhcccccCCc-EEEEEECc
Confidence            4578999999999998888888999999999999876543 222334444444      3566 88999996

>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=98.47  E-value=1.2e-07  Score=69.14  Aligned_cols=63  Identities=16%  Similarity=0.120  Sum_probs=46.5

Q ss_pred             ceeEeecCCcccccHhHHhhhccccceEEEEEeccCCCC-cchHHHHHHHHHc---CCCeEEEEEeCC
Q psy9646         148 RHYSHTDCPGHADYIKNMITGTSQMDGAILVVAATDGAM-PQTREHLLLAKQI---GVTNIVVFINKF  211 (211)
Q Consensus       148 ~~~~~iDtPG~~~~~~~~~~~~~~~d~~~~vvd~~~~~~-~~~~~~~~~~~~~---~~~~~i~~inK~  211 (211)
                      ..+.++||||++++.......+..+|++++|+|+..... .....++..+...   +.| +++++||+
T Consensus        52 ~~~~l~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p-iilv~nK~  118 (170)
T 1g16_A           52 VKLQIWDTAGQERFRTITTAYYRGAMGIILVYDITDERTFTNIKQWFKTVNEHANDEAQ-LLLVGNKS  118 (170)
T ss_dssp             EEEEEECCTTGGGTSCCCHHHHTTEEEEEEEEETTCHHHHHTHHHHHHHHHHHSCTTCE-EEEEEECT
T ss_pred             EEEEEEeCCCChhhhhhHHHHhccCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCc-EEEEEECc
Confidence            478899999999988777788899999999999875432 1223344444432   566 88999996

>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=98.47  E-value=3e-07  Score=79.36  Aligned_cols=100  Identities=19%  Similarity=0.036  Sum_probs=77.4

Q ss_pred             hHHHHHhhhC--CCCCCCCCCCeeEEEeeEEeecCCcEEEEEEEEEEEEecCCEEEEeecCceeeEEEEEEEec-ceecc
Q psy9646           2 ELLNQIDTYI--PQPVRDLDKPFYLPVEHTYSIPGRGTVVTGRLERGIVKKGMECEFTGYGRQFKTTVTGIEMF-HKILD   78 (211)
Q Consensus         2 ~ll~~l~~~i--~~p~~~~~~p~~~~v~~~~~~~~~G~v~~G~v~~G~i~~g~~v~i~p~~~~~~~~v~~i~~~-~~~~~   78 (211)
                      +|++.|....  ..+....+.|++++|.+++..++.|++.+|+|.+|++++||.+.+.+.    ..+|+++... ..+++
T Consensus       156 eLle~I~~~~~~~~~~~~~~~~~~~~V~e~~~d~g~G~v~~~~V~~Gtlk~Gd~v~~g~~----~~kVr~i~~~~g~~v~  231 (501)
T 1zo1_I          156 ELLDAILLQAEVLELKAVRKGMASGAVIESFLDKGRGPVATVLVREGTLHKGDIVLCGFE----YGRVRAMRNELGQEVL  231 (501)
T ss_dssp             THHHHTTTTCCCSTTTSCCCSBCEEEEEEEEECSSSSEEEEEEEEESBCCTTCEEEEEBS----SCEEEEECCTTTTSEE
T ss_pred             hhhhhhhhhhhhhccccccccccccceEEEEEeCCcEEEEEEEEEeeEEecCCEEEEccc----eeEEEEEEecCCCcCc
Confidence            4677776532  223445678999999999999999999999999999999999987653    5789999865 46899


Q ss_pred             eecccCceehhccCCCcccccccccccccc
Q psy9646          79 EAQAGDQLGALVKGMKRDEVNRGLIMAKPV  108 (211)
Q Consensus        79 ~a~~G~~v~~~l~~~~~~~v~~G~ii~~~~  108 (211)
                      +|.+|+.+.+.  +++ .....|++++...
T Consensus       232 ~a~~g~~V~i~--gl~-~~~~~Gd~~~~~~  258 (501)
T 1zo1_I          232 EAGPSIPVEIL--GLS-GVPAAGDEVTVVR  258 (501)
T ss_dssp             EECCSSCSSSE--EEC-SCCCTTEEEEEEC
T ss_pred             EeccCCcEEEe--CCC-CCCCCCCEEEecC
Confidence            99999999874  333 1247788887543

>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=98.46  E-value=3.4e-07  Score=69.39  Aligned_cols=70  Identities=13%  Similarity=0.083  Sum_probs=50.1

Q ss_pred             EEeeeCC--ceeEeecCCcccccHhHHhhhccccceEEEEEeccCCCC-cchHHHHHHHHH---cCCCeEEEEEeCC
Q psy9646         141 VEYATEN--RHYSHTDCPGHADYIKNMITGTSQMDGAILVVAATDGAM-PQTREHLLLAKQ---IGVTNIVVFINKF  211 (211)
Q Consensus       141 ~~~~~~~--~~~~~iDtPG~~~~~~~~~~~~~~~d~~~~vvd~~~~~~-~~~~~~~~~~~~---~~~~~~i~~inK~  211 (211)
                      ..+...+  .++.+.||||+++|.......+..+|++++|+|+.+... .....++..+..   .++| ++++.||+
T Consensus        69 ~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~~d~iilv~D~~~~~s~~~~~~~~~~i~~~~~~~~p-iilv~NK~  144 (201)
T 2hup_A           69 KTLEIQGKRVKLQIWDTAGQERFRTITQSYYRSANGAILAYDITKRSSFLSVPHWIEDVRKYAGSNIV-QLLIGNKS  144 (201)
T ss_dssp             EEEEETTEEEEEEEECCTTCGGGHHHHHHHHTTCSEEEEEEETTBHHHHHTHHHHHHHHHHHSCTTCE-EEEEEECT
T ss_pred             EEEEECCEEEEEEEEECCCcHhHHHHHHHHHhhCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCC-EEEEEECC
Confidence            3344444  578999999999998888888899999999999865432 222334444443   3466 78999996

>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=98.46  E-value=1.4e-07  Score=70.51  Aligned_cols=63  Identities=14%  Similarity=0.065  Sum_probs=44.6

Q ss_pred             ceeEeecCCcccccH-hHHhhhccccceEEEEEeccCCCCc-chHHHHHHHHH----cCCCeEEEEEeCC
Q psy9646         148 RHYSHTDCPGHADYI-KNMITGTSQMDGAILVVAATDGAMP-QTREHLLLAKQ----IGVTNIVVFINKF  211 (211)
Q Consensus       148 ~~~~~iDtPG~~~~~-~~~~~~~~~~d~~~~vvd~~~~~~~-~~~~~~~~~~~----~~~~~~i~~inK~  211 (211)
                      ..+.++||||+++|. ......+..+|++++|+|+.....- ....++..+..    .+.| +++++||+
T Consensus        69 ~~~~l~Dt~G~~~~~~~~~~~~~~~~d~iilv~D~~~~~s~~~~~~~~~~i~~~~~~~~~p-iilv~nK~  137 (189)
T 1z06_A           69 IKIQLWDTAGQERFRKSMVQHYYRNVHAVVFVYDMTNMASFHSLPAWIEECKQHLLANDIP-RILVGNKC  137 (189)
T ss_dssp             EEEEEEECCCSHHHHTTTHHHHHTTCCEEEEEEETTCHHHHHTHHHHHHHHHHHCCCSCCC-EEEEEECT
T ss_pred             EEEEEEECCCchhhhhhhhHHHhcCCCEEEEEEECcCHHHHHHHHHHHHHHHHhcCCCCCC-EEEEEECc
Confidence            578999999999887 5566667899999999998754321 12223333322    3567 88999996

>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=98.45  E-value=1.7e-07  Score=70.21  Aligned_cols=64  Identities=19%  Similarity=0.256  Sum_probs=49.1

Q ss_pred             CceeEeecCCcccccHhHHhhhccccceEEEEEeccCCCCcchHHHHHHHHH---------cCCCeEEEEEeCC
Q psy9646         147 NRHYSHTDCPGHADYIKNMITGTSQMDGAILVVAATDGAMPQTREHLLLAKQ---------IGVTNIVVFINKF  211 (211)
Q Consensus       147 ~~~~~~iDtPG~~~~~~~~~~~~~~~d~~~~vvd~~~~~~~~~~~~~~~~~~---------~~~~~~i~~inK~  211 (211)
                      ..++.+.||||+++|.......+..+|++++|+|+.++...++.+.++.+..         .++| +++|.||+
T Consensus        73 ~~~~~i~Dt~G~~~~~~~~~~~~~~~d~~i~v~D~~~~~~~~~~~s~~~l~~~l~~~~~~~~~~p-iilv~NK~  145 (198)
T 3t1o_A           73 KTRFHLYTVPGQVFYNASRKLILRGVDGIVFVADSAPNRLRANAESMRNMRENLAEYGLTLDDVP-IVIQVNKR  145 (198)
T ss_dssp             EEEEEEEECCSCCSCSHHHHHHTTTCCEEEEEEECCGGGHHHHHHHHHHHHHHHHHTTCCTTSSC-EEEEEECT
T ss_pred             ceEEEEEeCCChHHHHHHHHHHHhcCCEEEEEEECCcchhhHhHHHHHHHHHHHHhhccccCCCC-EEEEEEch
Confidence            4578899999999998888888999999999999986554444444433322         4667 88999996

>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=98.45  E-value=1.9e-07  Score=69.86  Aligned_cols=68  Identities=12%  Similarity=0.087  Sum_probs=50.1

Q ss_pred             eeeCCceeEeecCCcccccHhHHhhhccccceEEEEEeccCCCC-cchHHHHHHHHHc---CCCeEEEEEeCC
Q psy9646         143 YATENRHYSHTDCPGHADYIKNMITGTSQMDGAILVVAATDGAM-PQTREHLLLAKQI---GVTNIVVFINKF  211 (211)
Q Consensus       143 ~~~~~~~~~~iDtPG~~~~~~~~~~~~~~~d~~~~vvd~~~~~~-~~~~~~~~~~~~~---~~~~~i~~inK~  211 (211)
                      +......+.++||||+.+|.......+..+|++++|+|+..... .....++..+...   +.| +++++||+
T Consensus        66 ~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p-iilv~nK~  137 (189)
T 2gf9_A           66 RHDKRIKLQIWDTAGQERYRTITTAYYRGAMGFLLMYDIANQESFAAVQDWATQIKTYSWDNAQ-VILVGNKC  137 (189)
T ss_dssp             ETTEEEEEEEEECCSCCSSCCSGGGGGTTCSEEEEEEETTCHHHHHTHHHHHHHHHHHSCTTCE-EEEEEECT
T ss_pred             ECCeEEEEEEEeCCCcHHHhhhHHHhccCCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCC-EEEEEECc
Confidence            33344678999999999988888888899999999999865432 2233455555543   566 88999996

>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=98.45  E-value=1.8e-07  Score=68.08  Aligned_cols=64  Identities=13%  Similarity=0.062  Sum_probs=46.4

Q ss_pred             CceeEeecCCcccccHhHHhhhccccceEEEEEeccCCCC-cchHHHHHHHHH--cCCCeEEEEEeCC
Q psy9646         147 NRHYSHTDCPGHADYIKNMITGTSQMDGAILVVAATDGAM-PQTREHLLLAKQ--IGVTNIVVFINKF  211 (211)
Q Consensus       147 ~~~~~~iDtPG~~~~~~~~~~~~~~~d~~~~vvd~~~~~~-~~~~~~~~~~~~--~~~~~~i~~inK~  211 (211)
                      ...+.++||||+.++.......+..+|++++|+|+..... .....++..+..  .+.| +++++||+
T Consensus        53 ~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~p-iilv~nK~  119 (168)
T 1z2a_A           53 DVRLMLWDTAGQEEFDAITKAYYRGAQACVLVFSTTDRESFEAISSWREKVVAEVGDIP-TALVQNKI  119 (168)
T ss_dssp             EEEEEEECCTTGGGTTCCCHHHHTTCCEEEEEEETTCHHHHHTHHHHHHHHHHHHCSCC-EEEEEECG
T ss_pred             EEEEEEEcCCCcHhHHHHHHHHhcCCCEEEEEEECcCHHHHHHHHHHHHHHHHhCCCCC-EEEEEECc
Confidence            3578899999999888777788889999999999876432 222233333332  3677 88999995

>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=98.44  E-value=2.7e-07  Score=67.23  Aligned_cols=68  Identities=15%  Similarity=0.117  Sum_probs=48.7

Q ss_pred             eeeCCceeEeecCCcccccHhHHhhhccccceEEEEEeccCCCC-cchHHHHHHHHHc---CCCeEEEEEeCC
Q psy9646         143 YATENRHYSHTDCPGHADYIKNMITGTSQMDGAILVVAATDGAM-PQTREHLLLAKQI---GVTNIVVFINKF  211 (211)
Q Consensus       143 ~~~~~~~~~~iDtPG~~~~~~~~~~~~~~~d~~~~vvd~~~~~~-~~~~~~~~~~~~~---~~~~~i~~inK~  211 (211)
                      +......+.++||||+.+|.......+..+|++++|+|+..... .....++..+...   ++| ++++.||+
T Consensus        50 ~~~~~~~~~~~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~-iilv~nK~  121 (170)
T 1r2q_A           50 LDDTTVKFEIWDTAGQERYHSLAPMYYRGAQAAIVVYDITNEESFARAKNWVKELQRQASPNIV-IALSGNKA  121 (170)
T ss_dssp             ETTEEEEEEEEEECCSGGGGGGHHHHHTTCSEEEEEEETTCHHHHHHHHHHHHHHHHHSCTTCE-EEEEEECG
T ss_pred             ECCEEEEEEEEeCCCcHHhhhhhHHhccCCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCc-EEEEEECc
Confidence            33345678999999999998888888899999999999876532 2223344444433   455 77888995

>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=98.44  E-value=2.6e-07  Score=68.18  Aligned_cols=63  Identities=14%  Similarity=0.115  Sum_probs=40.2

Q ss_pred             ceeEeecCCcccccHhHHhhhccccceEEEEEeccCCCCcc-hHHHHHHHHH---cCCCeEEEEEeCC
Q psy9646         148 RHYSHTDCPGHADYIKNMITGTSQMDGAILVVAATDGAMPQ-TREHLLLAKQ---IGVTNIVVFINKF  211 (211)
Q Consensus       148 ~~~~~iDtPG~~~~~~~~~~~~~~~d~~~~vvd~~~~~~~~-~~~~~~~~~~---~~~~~~i~~inK~  211 (211)
                      ..+.++||||+++|.......+..+|++++|+|+.....-. ...++..+..   .+.| +++++||+
T Consensus        60 ~~~~~~Dt~G~~~~~~~~~~~~~~~d~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p-iilv~nK~  126 (180)
T 2g6b_A           60 VKLQMWDTAGQERFRSVTHAYYRDAHALLLLYDVTNKASFDNIQAWLTEIHEYAQHDVA-LMLLGNKV  126 (180)
T ss_dssp             EEEEEEECCCC--------CCGGGCSEEEEEEETTCHHHHHTHHHHHHHHHHHSCTTCE-EEEEEECC
T ss_pred             EEEEEEeCCCcHHHHHHHHHHccCCCEEEEEEECCCHHHHHHHHHHHHHHHHhCCCCCc-EEEEEECc
Confidence            47889999999999888888889999999999987653222 2334444443   4566 88999996

>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=98.44  E-value=1.1e-07  Score=70.78  Aligned_cols=69  Identities=25%  Similarity=0.216  Sum_probs=51.2

Q ss_pred             EeeeCCceeEeecCCcccccHhHHhhhccccceEEEEEeccCCCCc-chHHHHHHHHH----cCCCeEEEEEeCC
Q psy9646         142 EYATENRHYSHTDCPGHADYIKNMITGTSQMDGAILVVAATDGAMP-QTREHLLLAKQ----IGVTNIVVFINKF  211 (211)
Q Consensus       142 ~~~~~~~~~~~iDtPG~~~~~~~~~~~~~~~d~~~~vvd~~~~~~~-~~~~~~~~~~~----~~~~~~i~~inK~  211 (211)
                      .+..++..+.++||||+++|.......+..+|++++|+|+.....- .....+..+..    .+.| +++++||+
T Consensus        59 ~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~d~ii~v~D~~~~~s~~~~~~~~~~~~~~~~~~~~p-iilv~NK~  132 (181)
T 2h17_A           59 EIVINNTRFLMWDIGGQESLRSSWNTYYTNTEFVIVVVDSTDRERISVTREELYKMLAHEDLRKAG-LLIFANKQ  132 (181)
T ss_dssp             EEEETTEEEEEEEESSSGGGTCGGGGGGTTCCEEEEEEETTCTTTHHHHHHHHHHHHTCGGGTTCE-EEEEEECT
T ss_pred             EEEECCEEEEEEECCCCHhHHHHHHHHhccCCEEEEEEECCCHHHHHHHHHHHHHHHhChhhCCCe-EEEEEECC
Confidence            3445678899999999999888778888999999999999876432 22333333332    4566 88999996

>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=98.44  E-value=3.2e-07  Score=69.34  Aligned_cols=65  Identities=15%  Similarity=0.072  Sum_probs=48.5

Q ss_pred             CCceeEeecCCcccccHhHHhhhccccceEEEEEeccCCCC-cchHHHHHHHHH---cCCCeEEEEEeCC
Q psy9646         146 ENRHYSHTDCPGHADYIKNMITGTSQMDGAILVVAATDGAM-PQTREHLLLAKQ---IGVTNIVVFINKF  211 (211)
Q Consensus       146 ~~~~~~~iDtPG~~~~~~~~~~~~~~~d~~~~vvd~~~~~~-~~~~~~~~~~~~---~~~~~~i~~inK~  211 (211)
                      ....+.++||||+++|.......+..+|++++|+|+..... .....++..+..   .+.| +++++||+
T Consensus        55 ~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p-iilv~nK~  123 (203)
T 1zbd_A           55 KRIKLQIWDTAGLERYRTITTAYYRGAMGFILMYDITNEESFNAVQDWSTQIKTYSWDNAQ-VLLVGNKC  123 (203)
T ss_dssp             EEEEEEEEEECCSGGGHHHHHTTGGGCSEEEEEEETTCHHHHHHHHHHHHHHHHHSCSSCE-EEEEEECT
T ss_pred             eEEEEEEEECCCchhhcchHHHhhcCCCEEEEEEECcCHHHHHHHHHHHHHHHHhcCCCCC-EEEEEECc
Confidence            34578999999999998888888999999999999876532 122334444444   3566 88999996

>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=98.43  E-value=3.2e-07  Score=68.90  Aligned_cols=78  Identities=14%  Similarity=0.098  Sum_probs=54.5

Q ss_pred             ceEEeEeEEEeeeCCceeEeecCCcccccHhHHhhhccccceEEEEEeccCCCCc-chHHHHHHHHHc---CCCeEEEEE
Q psy9646         133 GITINVAHVEYATENRHYSHTDCPGHADYIKNMITGTSQMDGAILVVAATDGAMP-QTREHLLLAKQI---GVTNIVVFI  208 (211)
Q Consensus       133 g~tv~~~~~~~~~~~~~~~~iDtPG~~~~~~~~~~~~~~~d~~~~vvd~~~~~~~-~~~~~~~~~~~~---~~~~~i~~i  208 (211)
                      +.+.......+......+.++||||+.+|.......+..+|++++|+|+.....- ....++..+...   ++| +++++
T Consensus        57 ~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~d~iilV~d~~~~~s~~~~~~~~~~i~~~~~~~~p-iiiv~  135 (192)
T 2fg5_A           57 GASFMTKTVPCGNELHKFLIWDTAGQERFHSLAPMYYRGSAAAVIVYDITKQDSFYTLKKWVKELKEHGPENIV-MAIAG  135 (192)
T ss_dssp             SEEEEEEEEECSSSEEEEEEEEECCSGGGGGGTHHHHTTCSEEEEEEETTCTHHHHHHHHHHHHHHHHSCTTCE-EEEEE
T ss_pred             ceeEEEEEEEeCCEEEEEEEEcCCCchhhHhhhHHhhccCCEEEEEEeCCCHHHHHHHHHHHHHHHHhCCCCCc-EEEEE
Confidence            3444443444444556899999999999988888888999999999998765322 223344444443   566 88999


Q ss_pred             eCC
Q psy9646         209 NKF  211 (211)
Q Consensus       209 nK~  211 (211)
                      ||+
T Consensus       136 NK~  138 (192)
T 2fg5_A          136 NKC  138 (192)
T ss_dssp             ECG
T ss_pred             ECc
Confidence            995

>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=98.43  E-value=1.8e-07  Score=70.09  Aligned_cols=72  Identities=15%  Similarity=0.127  Sum_probs=52.2

Q ss_pred             eEEEeeeCCceeEeecCCcccccHhHHhhhccccceEEEEEeccCCCC-cchHHHHHHHHH----cCCCeEEEEEeCC
Q psy9646         139 AHVEYATENRHYSHTDCPGHADYIKNMITGTSQMDGAILVVAATDGAM-PQTREHLLLAKQ----IGVTNIVVFINKF  211 (211)
Q Consensus       139 ~~~~~~~~~~~~~~iDtPG~~~~~~~~~~~~~~~d~~~~vvd~~~~~~-~~~~~~~~~~~~----~~~~~~i~~inK~  211 (211)
                      .+..+...+..+.++||||+++|.......+..+|++++|+|+..... ......+..+..    .++| +++++||+
T Consensus        58 ~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~ii~v~D~~~~~s~~~~~~~~~~~~~~~~~~~~p-iilv~NK~  134 (188)
T 1zd9_A           58 NMRKITKGNVTIKLWDIGGQPRFRSMWERYCRGVSAIVYMVDAADQEKIEASKNELHNLLDKPQLQGIP-VLVLGNKR  134 (188)
T ss_dssp             EEEEEEETTEEEEEEEECCSHHHHTTHHHHHTTCSEEEEEEETTCGGGHHHHHHHHHHHHTCGGGTTCC-EEEEEECT
T ss_pred             eEEEEEeCCEEEEEEECCCCHhHHHHHHHHHccCCEEEEEEECCCHHHHHHHHHHHHHHHhCcccCCCC-EEEEEECC
Confidence            344466678899999999999988888788899999999999875432 122223333322    4677 88999996

>2qu8_A Putative nucleolar GTP-binding protein 1; GTPase, malaria, structural genomics, structural genomics consortium, SGC, unknown function; HET: GDP; 2.01A {Plasmodium falciparum}

Probab=98.43  E-value=7.6e-07  Score=68.82  Aligned_cols=78  Identities=14%  Similarity=0.145  Sum_probs=49.8

Q ss_pred             ceEEeEeEEEeeeCCceeEeecCCccc------cc---HhHHhhhccccceEEEEEeccCCCCcc---hHHHHHHHHHc-
Q psy9646         133 GITINVAHVEYATENRHYSHTDCPGHA------DY---IKNMITGTSQMDGAILVVAATDGAMPQ---TREHLLLAKQI-  199 (211)
Q Consensus       133 g~tv~~~~~~~~~~~~~~~~iDtPG~~------~~---~~~~~~~~~~~d~~~~vvd~~~~~~~~---~~~~~~~~~~~-  199 (211)
                      +.+.......+...+..+.++||||+.      ..   ......-...+|++++|+|+.....-.   ...++..+... 
T Consensus        61 ~~t~~~~~~~~~~~~~~~~l~DtpG~~~~~~~~~~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~l~~~~  140 (228)
T 2qu8_A           61 FTTKNLYVGHFDHKLNKYQIIDTPGLLDRAFENRNTIEMTTITALAHINGVILFIIDISEQCGLTIKEQINLFYSIKSVF  140 (228)
T ss_dssp             ----CEEEEEEEETTEEEEEEECTTTTTSCGGGCCHHHHHHHHHHHTSSEEEEEEEETTCTTSSCHHHHHHHHHHHHTCC
T ss_pred             CcceeeeeeeeecCCCeEEEEECCCCcCcccchhhhHHHHHHHHhhccccEEEEEEecccccCcchHHHHHHHHHHHHhh
Confidence            345555555666677889999999983      21   122223356789999999998765422   23455555554 


Q ss_pred             -CCCeEEEEEeCC
Q psy9646         200 -GVTNIVVFINKF  211 (211)
Q Consensus       200 -~~~~~i~~inK~  211 (211)
                       +.| +++|+||+
T Consensus       141 ~~~p-iilv~nK~  152 (228)
T 2qu8_A          141 SNKS-IVIGFNKI  152 (228)
T ss_dssp             -CCC-EEEEEECG
T ss_pred             cCCc-EEEEEeCc
Confidence             677 88999995

>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=98.43  E-value=2.4e-07  Score=70.24  Aligned_cols=71  Identities=15%  Similarity=0.061  Sum_probs=49.6

Q ss_pred             EEEeeeCC--ceeEeecCCcccccHhHHhhhccccceEEEEEeccCCCCcc-hHHHHHHHHH---cCCCeEEEEEeCC
Q psy9646         140 HVEYATEN--RHYSHTDCPGHADYIKNMITGTSQMDGAILVVAATDGAMPQ-TREHLLLAKQ---IGVTNIVVFINKF  211 (211)
Q Consensus       140 ~~~~~~~~--~~~~~iDtPG~~~~~~~~~~~~~~~d~~~~vvd~~~~~~~~-~~~~~~~~~~---~~~~~~i~~inK~  211 (211)
                      ...+...+  ..+.++||||+++|.......+..+|++++|+|+.....-+ ...++..+..   .+.| +++++||+
T Consensus        47 ~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~vilv~d~~~~~s~~~~~~~~~~i~~~~~~~~p-iilv~nK~  123 (206)
T 2bcg_Y           47 IKTVELDGKTVKLQIWDTAGQERFRTITSSYYRGSHGIIIVYDVTDQESFNGVKMWLQEIDRYATSTVL-KLLVGNKC  123 (206)
T ss_dssp             EEEEEETTEEEEEEEECCTTTTTTTCCCGGGGTTCSEEEEEEETTCHHHHHHHHHHHHHHHHHSCTTCE-EEEEEECT
T ss_pred             EEEEEECCEEEEEEEEeCCChHHHHHHHHHhccCCCEEEEEEECcCHHHHHHHHHHHHHHHHhcCCCCC-EEEEEECC
Confidence            33444444  47899999999998887888889999999999987653222 2223444433   2455 78999996

>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=98.43  E-value=2e-07  Score=68.64  Aligned_cols=64  Identities=17%  Similarity=0.119  Sum_probs=47.5

Q ss_pred             CceeEeecCCcccccHhHHhhhccccceEEEEEeccCCCCcch-HHHHHHHHH---cCCCeEEEEEeCC
Q psy9646         147 NRHYSHTDCPGHADYIKNMITGTSQMDGAILVVAATDGAMPQT-REHLLLAKQ---IGVTNIVVFINKF  211 (211)
Q Consensus       147 ~~~~~~iDtPG~~~~~~~~~~~~~~~d~~~~vvd~~~~~~~~~-~~~~~~~~~---~~~~~~i~~inK~  211 (211)
                      ...+.++||||++++.......+..+|++++|+|+........ ..++..+..   .+.| +++++||+
T Consensus        63 ~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p-iilv~nK~  130 (179)
T 1z0f_A           63 KIKLQIWDTAGQERFRAVTRSYYRGAAGALMVYDITRRSTYNHLSSWLTDARNLTNPNTV-IILIGNKA  130 (179)
T ss_dssp             EEEEEEEECTTGGGTCHHHHHHHHTCSEEEEEEETTCHHHHHTHHHHHHHHHHHSCTTCE-EEEEEECT
T ss_pred             EEEEEEEECCCChHhhhhHHHHhccCCEEEEEEeCcCHHHHHHHHHHHHHHHHhcCCCCc-EEEEEECc
Confidence            4578999999999998888888999999999999876533222 233333333   4566 88999996

>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=98.42  E-value=2.5e-07  Score=69.90  Aligned_cols=64  Identities=19%  Similarity=0.128  Sum_probs=47.2

Q ss_pred             CceeEeecCCcccccHhHHhhhccccceEEEEEeccCCCCcc-hHHHHHHHHH---cCCCeEEEEEeCC
Q psy9646         147 NRHYSHTDCPGHADYIKNMITGTSQMDGAILVVAATDGAMPQ-TREHLLLAKQ---IGVTNIVVFINKF  211 (211)
Q Consensus       147 ~~~~~~iDtPG~~~~~~~~~~~~~~~d~~~~vvd~~~~~~~~-~~~~~~~~~~---~~~~~~i~~inK~  211 (211)
                      ...+.++||||+.+|.......+..+|++++|+|+.....-+ ...++..+..   .++| +++|+||+
T Consensus        76 ~~~l~i~Dt~G~~~~~~~~~~~~~~~d~iilv~d~~~~~s~~~~~~~~~~i~~~~~~~~p-iilv~NK~  143 (199)
T 2p5s_A           76 RTVLQLWDTAGQERFRSIAKSYFRKADGVLLLYDVTCEKSFLNIREWVDMIEDAAHETVP-IMLVGNKA  143 (199)
T ss_dssp             EEEEEEEECTTCTTCHHHHHHHHHHCSEEEEEEETTCHHHHHTHHHHHHHHHHHC---CC-EEEEEECG
T ss_pred             EEEEEEEECCCCcchhhhHHHHHhhCCEEEEEEECCChHHHHHHHHHHHHHHHhcCCCCC-EEEEEECc
Confidence            356899999999999888888889999999999987654322 2334444443   2677 88999995

>3o47_A ADP-ribosylation factor GTPase-activating protein ribosylation factor 1; structural genomics consortium, GTPase activation; HET: GDP; 2.80A {Homo sapiens}

Probab=98.42  E-value=1.4e-07  Score=77.41  Aligned_cols=76  Identities=20%  Similarity=0.178  Sum_probs=50.8

Q ss_pred             EEeEeEEEeeeCCceeEeecCCcccccHhHHhhhccccceEEEEEeccCCCC--cchHHHHHHHHHc---CCCeEEEEEe
Q psy9646         135 TINVAHVEYATENRHYSHTDCPGHADYIKNMITGTSQMDGAILVVAATDGAM--PQTREHLLLAKQI---GVTNIVVFIN  209 (211)
Q Consensus       135 tv~~~~~~~~~~~~~~~~iDtPG~~~~~~~~~~~~~~~d~~~~vvd~~~~~~--~~~~~~~~~~~~~---~~~~~i~~in  209 (211)
                      |+...+..+...+.++.|+||||++.|.......+..+|++++|+|+.+...  .....+...+...   ++| +|+|+|
T Consensus       196 T~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~ad~vilV~D~~~~~s~~~~~~~~~~~~~~~~~~~~p-iilV~N  274 (329)
T 3o47_A          196 TIGFNVETVEYKNISFTVWDVGGQDKIRPLWRHYFQNTQGLIFVVDSNDRERVNEAREELMRMLAEDELRDAV-LLVFAN  274 (329)
T ss_dssp             ETTEEEEEEEETTEEEEEEECC-----CCSHHHHHTTEEEEEEEEETTCSSSHHHHHHHHHHHHTCGGGTTCE-EEEEEE
T ss_pred             ccceEEEEEecCcEEEEEEECCCCHhHHHHHHHHhccCCEEEEEEECCchHHHHHHHHHHHHHHhhhccCCCe-EEEEEE
Confidence            4445556677788899999999999998888888899999999999965433  2222333333332   666 889999


Q ss_pred             CC
Q psy9646         210 KF  211 (211)
Q Consensus       210 K~  211 (211)
                      |+
T Consensus       275 K~  276 (329)
T 3o47_A          275 KQ  276 (329)
T ss_dssp             CT
T ss_pred             Cc
Confidence            96

>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=98.41  E-value=2.3e-07  Score=70.00  Aligned_cols=65  Identities=20%  Similarity=0.250  Sum_probs=48.5

Q ss_pred             CCceeEeecCCcccccHhHH---hhhccccceEEEEEeccCCCCcchHHHHHHHHHc-----CCCeEEEEEeCC
Q psy9646         146 ENRHYSHTDCPGHADYIKNM---ITGTSQMDGAILVVAATDGAMPQTREHLLLAKQI-----GVTNIVVFINKF  211 (211)
Q Consensus       146 ~~~~~~~iDtPG~~~~~~~~---~~~~~~~d~~~~vvd~~~~~~~~~~~~~~~~~~~-----~~~~~i~~inK~  211 (211)
                      ...++.+.||||+++|....   ...+..+|++++|+|+.+........+...+...     ++| +++|.||+
T Consensus        67 ~~~~l~i~Dt~G~~~~~~~~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~l~~~~~~~~~~p-iilv~nK~  139 (196)
T 3llu_A           67 SFVNFQIWDFPGQMDFFDPTFDYEMIFRGTGALIYVIDAQDDYMEALTRLHITVSKAYKVNPDMN-FEVFIHKV  139 (196)
T ss_dssp             TSCCEEEEECCSSCCTTCTTCCHHHHHHTCSEEEEEEETTSCCHHHHHHHHHHHHHHHHHCTTCE-EEEEEECG
T ss_pred             CeeEEEEEECCCCHHHHhhhhhcccccccCCEEEEEEECCCchHHHHHHHHHHHHHHHhcCCCCc-EEEEEecc
Confidence            44689999999999987777   5778899999999999887333334444444432     566 88999995

>2qpt_A EH domain-containing protein-2; protein-nucleotide complex, membrane protein, endocytosis; HET: ANP; 3.10A {Mus musculus}

Probab=98.41  E-value=1.4e-07  Score=82.59  Aligned_cols=63  Identities=21%  Similarity=0.134  Sum_probs=53.2

Q ss_pred             ceeEeecCCcccc-----------cHhHHhhhccccceEEEEEeccC-CCCcchHHHHHHHHHcCCCeEEEEEeCC
Q psy9646         148 RHYSHTDCPGHAD-----------YIKNMITGTSQMDGAILVVAATD-GAMPQTREHLLLAKQIGVTNIVVFINKF  211 (211)
Q Consensus       148 ~~~~~iDtPG~~~-----------~~~~~~~~~~~~d~~~~vvd~~~-~~~~~~~~~~~~~~~~~~~~~i~~inK~  211 (211)
                      .++.|+||||+.+           |...+...+..+|++++|+|+.. +...++..+++.+...+.| +++|+||+
T Consensus       154 ~~l~lIDTPG~~~~~~~~~~~~~~f~~~~~~~l~~aD~il~VvDa~~~~~~~~~~~~l~~l~~~~~p-vilVlNK~  228 (550)
T 2qpt_A          154 ESISIIDTPGILSGAKQRVSRGYDFPAVLRWFAERVDLIILLFDAHKLEISDEFSEAIGALRGHEDK-IRVVLNKA  228 (550)
T ss_dssp             HHCEEEECCCBCC-------CCSCHHHHHHHHHHHCSEEEEEEETTSCCCCHHHHHHHHHTTTCGGG-EEEEEECG
T ss_pred             CCEEEEECcCCCCcchhHHHHHhhHHHHHHHHHHhCCEEEEEEeCCcCCCCHHHHHHHHHHHhcCCC-EEEEEECC
Confidence            4799999999875           56677788899999999999987 5777788888888777777 88999996

>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=98.41  E-value=1.4e-07  Score=70.39  Aligned_cols=70  Identities=24%  Similarity=0.218  Sum_probs=47.8

Q ss_pred             EEeeeCCceeEeecCCcccccHhHHhhhccccceEEEEEeccCCCC-cchHHHHHHHHH----cCCCeEEEEEeCC
Q psy9646         141 VEYATENRHYSHTDCPGHADYIKNMITGTSQMDGAILVVAATDGAM-PQTREHLLLAKQ----IGVTNIVVFINKF  211 (211)
Q Consensus       141 ~~~~~~~~~~~~iDtPG~~~~~~~~~~~~~~~d~~~~vvd~~~~~~-~~~~~~~~~~~~----~~~~~~i~~inK~  211 (211)
                      ..+..++..+.++||||++++.......+..+|++++|+|+..... ......+..+..    .+.| +++++||+
T Consensus        53 ~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~d~ii~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~p-iilv~NK~  127 (187)
T 1zj6_A           53 EEIVINNTRFLMWDIGGQESLRSSWNTYYTNTEFVIVVVDSTDRERISVTREELYKMLAHEDLRKAG-LLIFANKQ  127 (187)
T ss_dssp             EEEEETTEEEEEEECCC----CGGGHHHHTTCCEEEEEEETTCTTTHHHHHHHHHHHHTSGGGTTCE-EEEEEECT
T ss_pred             EEEEECCEEEEEEECCCCHhHHHHHHHHhcCCCEEEEEEeCCCHHHHHHHHHHHHHHHhchhhCCCe-EEEEEECC
Confidence            3445567899999999999888777778899999999999987643 222333333433    3566 88999996

>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=98.41  E-value=5.7e-07  Score=68.39  Aligned_cols=70  Identities=17%  Similarity=0.018  Sum_probs=49.6

Q ss_pred             EEeeeCC--ceeEeecCCcccccHhHHhhhccccceEEEEEeccCCCCc-chHHHHHHHHH---cCCCeEEEEEeCC
Q psy9646         141 VEYATEN--RHYSHTDCPGHADYIKNMITGTSQMDGAILVVAATDGAMP-QTREHLLLAKQ---IGVTNIVVFINKF  211 (211)
Q Consensus       141 ~~~~~~~--~~~~~iDtPG~~~~~~~~~~~~~~~d~~~~vvd~~~~~~~-~~~~~~~~~~~---~~~~~~i~~inK~  211 (211)
                      ..+..++  .++.+.||||++.|.......+..+|++++|+|+.....- ....++..+..   .++| +++|.||+
T Consensus        66 ~~~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~D~~~~~s~~~~~~~~~~i~~~~~~~~p-iilv~NK~  141 (201)
T 2ew1_A           66 KTVEINGEKVKLQIWDTAGQERFRSITQSYYRSANALILTYDITCEESFRCLPEWLREIEQYASNKVI-TVLVGNKI  141 (201)
T ss_dssp             EEEEETTEEEEEEEEEECCSGGGHHHHGGGSTTCSEEEEEEETTCHHHHHTHHHHHHHHHHHSCTTCE-EEEEEECG
T ss_pred             EEEEECCEEEEEEEEECCCcHHHHHHHHHHHhcCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCC-EEEEEECC
Confidence            3444444  4788999999999988888889999999999998754321 12334444433   2455 78899995

>2wji_A Ferrous iron transport protein B homolog; membrane G-proteins, cell membrane, ION transport, transmembrane; HET: GNP; 1.90A {Methanocaldococcus jannaschii} PDB: 2wjj_A* 2wjh_A*

Probab=98.40  E-value=4.8e-07  Score=66.30  Aligned_cols=75  Identities=17%  Similarity=0.232  Sum_probs=48.7

Q ss_pred             eEEeEeEEEeeeCCceeEeecCCcccccH-----hHH---hhhccccceEEEEEeccCCCCcchHHHHHHHHHcCCCeEE
Q psy9646         134 ITINVAHVEYATENRHYSHTDCPGHADYI-----KNM---ITGTSQMDGAILVVAATDGAMPQTREHLLLAKQIGVTNIV  205 (211)
Q Consensus       134 ~tv~~~~~~~~~~~~~~~~iDtPG~~~~~-----~~~---~~~~~~~d~~~~vvd~~~~~~~~~~~~~~~~~~~~~~~~i  205 (211)
                      .+++.....+...+..+.++||||+.+|.     +.+   +.....+|++++++|+...  .....++..+...+.| ++
T Consensus        36 ~t~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~~~~~~~~~~~~~i~v~D~~~~--~~~~~~~~~~~~~~~p-~i  112 (165)
T 2wji_A           36 VTVEKKEGEFEYNGEKFKVVDLPGVYSLTANSIDEIIARDYIINEKPDLVVNIVDATAL--ERNLYLTLQLMEMGAN-LL  112 (165)
T ss_dssp             -CCCCCEEEEEETTEEEEEEECCCCSCSSSSSHHHHHHHHHHHHHCCSEEEEEEETTCH--HHHHHHHHHHHHTTCC-EE
T ss_pred             cceeeeEEEEEECCcEEEEEECCCcccCCCcchhHHHHHHHHhcCCCCEEEEEecCCch--hHhHHHHHHHHhcCCC-EE
Confidence            34443444455667889999999988763     111   1122478999999998652  2233355556667888 88


Q ss_pred             EEEeCC
Q psy9646         206 VFINKF  211 (211)
Q Consensus       206 ~~inK~  211 (211)
                      ++.||+
T Consensus       113 lv~nK~  118 (165)
T 2wji_A          113 LALNKM  118 (165)
T ss_dssp             EEEECH
T ss_pred             EEEEch
Confidence            999995

>2a5j_A RAS-related protein RAB-2B; GTPase, signal transduction, structural genomics, structural genomics consortium, SGC, protein transport; HET: GDP; 1.50A {Homo sapiens} SCOP: c.37.1.8 PDB: 1z0a_A*

Probab=98.40  E-value=2e-07  Score=69.92  Aligned_cols=63  Identities=21%  Similarity=0.117  Sum_probs=46.7

Q ss_pred             ceeEeecCCcccccHhHHhhhccccceEEEEEeccCCCCc-chHHHHHHHHHc---CCCeEEEEEeCC
Q psy9646         148 RHYSHTDCPGHADYIKNMITGTSQMDGAILVVAATDGAMP-QTREHLLLAKQI---GVTNIVVFINKF  211 (211)
Q Consensus       148 ~~~~~iDtPG~~~~~~~~~~~~~~~d~~~~vvd~~~~~~~-~~~~~~~~~~~~---~~~~~i~~inK~  211 (211)
                      ..+.++||||+..|.......+..+|++++|+|+.....- ....++..+...   +.| +++++||+
T Consensus        70 ~~~~i~Dt~G~~~~~~~~~~~~~~~d~ii~v~d~~~~~s~~~~~~~l~~i~~~~~~~~p-iilv~nK~  136 (191)
T 2a5j_A           70 IKLQIWDTAGQESFRSITRSYYRGAAGALLVYDITRRETFNHLTSWLEDARQHSSSNMV-IMLIGNKS  136 (191)
T ss_dssp             EEEEEECCTTGGGTSCCCHHHHTTCSEEEEEEETTCHHHHHTHHHHHHHHHHHSCTTCE-EEEEEECT
T ss_pred             EEEEEEECCCchhhhhhHHHHhccCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCC-EEEEEECc
Confidence            5789999999999887777888899999999998764322 223344444432   566 88999996

>3l0i_B RAS-related protein RAB-1A; GEF-GDF-RAB complex, GTP-binding, guanine-nucleotide exchang GDI-displacement factor; 2.85A {Homo sapiens}

Probab=98.40  E-value=8.1e-08  Score=72.62  Aligned_cols=99  Identities=14%  Similarity=0.049  Sum_probs=56.6

Q ss_pred             hhhhhcccccccccchhhcccceEEeEeEEEeeeCC--ceeEeecCCcccccHhHHhhhccccceEEEEEeccCCCCc-c
Q psy9646         112 KKLAKVKQYADIDNAPEEKARGITINVAHVEYATEN--RHYSHTDCPGHADYIKNMITGTSQMDGAILVVAATDGAMP-Q  188 (211)
Q Consensus       112 ~~~~~f~~~i~~~~~~~e~~rg~tv~~~~~~~~~~~--~~~~~iDtPG~~~~~~~~~~~~~~~d~~~~vvd~~~~~~~-~  188 (211)
                      .|++++...+.......+.....+.+.....+...+  ..+.++||||+++|.......+..+|++++|+|+.+...- .
T Consensus        44 ~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~  123 (199)
T 3l0i_B           44 VGKSCLLLRFADDTYTESYISTIGVDFKIRTIELDGKTIKLQIWDTAGQERFRTITSSYYRGAHGIIVVYDVTDQESFNN  123 (199)
T ss_dssp             SCCTTTTTSSBCCCCCCHHHHHHCCSEEEEEEEETTEEEEEEEECCTTCTTCCCCSCC--CCCSEEEECC-CCCSHHHHH
T ss_pred             CCHHHHHHHHhcCCCCCCcCCcccceEEEEEEEECCEEEEEEEEECCCcHhHHHHHHHHhhcCCEEEEEEECCCHHHHHH
Confidence            344454444432222222222333333334444444  5788999999999888777888999999999998765332 2


Q ss_pred             hHHHHHHHHHc---CCCeEEEEEeCC
Q psy9646         189 TREHLLLAKQI---GVTNIVVFINKF  211 (211)
Q Consensus       189 ~~~~~~~~~~~---~~~~~i~~inK~  211 (211)
                      ...++..+...   ++| +++++||+
T Consensus       124 ~~~~~~~i~~~~~~~~p-~ilv~nK~  148 (199)
T 3l0i_B          124 VKQWLQEIDRYASENVN-KLLVGNKC  148 (199)
T ss_dssp             HHHHHHHHHSCC-CCSE-EEEC-CCS
T ss_pred             HHHHHHHHHHhccCCCC-EEEEEECc
Confidence            23344444433   566 78899996

>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=98.39  E-value=2.9e-07  Score=69.69  Aligned_cols=63  Identities=16%  Similarity=0.004  Sum_probs=45.4

Q ss_pred             ceeEeecCCcccccHhHHhhhccccceEEEEEeccCCCCcc-hHHHHHHHHH-------cCCCeEEEEEeCC
Q psy9646         148 RHYSHTDCPGHADYIKNMITGTSQMDGAILVVAATDGAMPQ-TREHLLLAKQ-------IGVTNIVVFINKF  211 (211)
Q Consensus       148 ~~~~~iDtPG~~~~~~~~~~~~~~~d~~~~vvd~~~~~~~~-~~~~~~~~~~-------~~~~~~i~~inK~  211 (211)
                      ..+.++||||+.+|.......+..+|++++|+|+.....-. ...++..+..       .++| +++++||+
T Consensus        57 ~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~~p-iilv~nK~  127 (207)
T 1vg8_A           57 VTMQIWDTAGQERFQSLGVAFYRGADCCVLVFDVTAPNTFKTLDSWRDEFLIQASPRDPENFP-FVVLGNKI  127 (207)
T ss_dssp             EEEEEEEECSSGGGSCSCCGGGTTCSEEEEEEETTCHHHHHTHHHHHHHHHHHHCCSSGGGSC-EEEEEECT
T ss_pred             EEEEEEeCCCcHHHHHhHHHHHhCCcEEEEEEECCCHHHHHHHHHHHHHHHHhcccccCCCCc-EEEEEECC
Confidence            57899999999998877777888999999999987653211 1222222222       3667 88999996

>2x77_A ADP-ribosylation factor; GTP-binding protein, small GTPase, nucleotide-binding; HET: GDP; 2.10A {Leishmania major}

Probab=98.39  E-value=9e-08  Score=71.59  Aligned_cols=70  Identities=20%  Similarity=0.142  Sum_probs=50.4

Q ss_pred             EEeeeCCceeEeecCCcccccHhHHhhhccccceEEEEEeccCCCCc-chHHHHHHHHH----cCCCeEEEEEeCC
Q psy9646         141 VEYATENRHYSHTDCPGHADYIKNMITGTSQMDGAILVVAATDGAMP-QTREHLLLAKQ----IGVTNIVVFINKF  211 (211)
Q Consensus       141 ~~~~~~~~~~~~iDtPG~~~~~~~~~~~~~~~d~~~~vvd~~~~~~~-~~~~~~~~~~~----~~~~~~i~~inK~  211 (211)
                      ..+...+.++.++||||++++.......+..+|++++|+|+.+...- .....+..+..    .+.| +++++||+
T Consensus        59 ~~~~~~~~~~~~~Dt~G~~~~~~~~~~~~~~~d~ii~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~p-iilv~nK~  133 (189)
T 2x77_A           59 ETLQYKNISFEVWDLGGQTGVRPYWRCYFSDTDAVIYVVDSTDRDRMGVAKHELYALLDEDELRKSL-LLIFANKQ  133 (189)
T ss_dssp             EEEEETTEEEEEEEECCSSSSCCCCSSSSTTCCEEEEEEETTCCTTHHHHHHHHHHHHTCSTTTTCE-EEEEEECT
T ss_pred             EEEEECCEEEEEEECCCCHhHHHHHHHHhhcCCEEEEEEeCCCHHHHHHHHHHHHHHHhhhhcCCCe-EEEEEECC
Confidence            34555678999999999998877777778899999999999766432 22223333322    2566 88999996

>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=98.39  E-value=3.5e-07  Score=67.49  Aligned_cols=64  Identities=14%  Similarity=0.034  Sum_probs=37.9

Q ss_pred             CceeEeecCCcccccHhHHhhhccccceEEEEEeccCCCCcc-hHHHHHHHHH-------cCCCeEEEEEeCC
Q psy9646         147 NRHYSHTDCPGHADYIKNMITGTSQMDGAILVVAATDGAMPQ-TREHLLLAKQ-------IGVTNIVVFINKF  211 (211)
Q Consensus       147 ~~~~~~iDtPG~~~~~~~~~~~~~~~d~~~~vvd~~~~~~~~-~~~~~~~~~~-------~~~~~~i~~inK~  211 (211)
                      ...+.++||||+..|.......+..+|++++|+|+.....-. ...++..+..       .++| +++++||+
T Consensus        57 ~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~~p-~ilv~nK~  128 (182)
T 1ky3_A           57 VATMQVWDTAGQERFQSLGVAFYRGADCCVLVYDVTNASSFENIKSWRDEFLVHANVNSPETFP-FVILGNKI  128 (182)
T ss_dssp             CEEEEEECCC----------CCSTTCCEEEEEEETTCHHHHHTHHHHHHHHHHHHCCSCTTTCC-EEEEEECT
T ss_pred             EEEEEEEECCCChHhhhhhHHHhhcCCEEEEEEECCChHHHHHHHHHHHHHHHHhcccCcCCCc-EEEEEECC
Confidence            357899999999998888888889999999999987653211 2223333322       4667 88999996

>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=98.39  E-value=5.3e-07  Score=65.74  Aligned_cols=77  Identities=17%  Similarity=0.127  Sum_probs=52.4

Q ss_pred             eEEeEeEEEeeeCCceeEeecCCcccccHhHHhhhccccceEEEEEeccCCCCcch-HHHHHHHHHc---CCCeEEEEEe
Q psy9646         134 ITINVAHVEYATENRHYSHTDCPGHADYIKNMITGTSQMDGAILVVAATDGAMPQT-REHLLLAKQI---GVTNIVVFIN  209 (211)
Q Consensus       134 ~tv~~~~~~~~~~~~~~~~iDtPG~~~~~~~~~~~~~~~d~~~~vvd~~~~~~~~~-~~~~~~~~~~---~~~~~i~~in  209 (211)
                      .+.......+......+.++||||++++.......+..+|++++|+|+.....-.. ..++..+...   ++| ++++.|
T Consensus        41 ~~~~~~~~~~~~~~~~~~~~Dt~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~l~~~~~~~~~-iilv~n  119 (170)
T 1z0j_A           41 ASFMTKTVQYQNELHKFLIWDTAGLERFRALAPMYYRGSAAAIIVYDITKEETFSTLKNWVRELRQHGPPSIV-VAIAGN  119 (170)
T ss_dssp             EEEEEEEEEETTEEEEEEEEEECCSGGGGGGTHHHHTTCSEEEEEEETTCHHHHHHHHHHHHHHHHHSCTTSE-EEEEEE
T ss_pred             EEEEEEEEEECCeEEEEEEEcCCCchhhhcccHhhCcCCCEEEEEEECcCHHHHHHHHHHHHHHHHhCCCCCc-EEEEEE
Confidence            33333333333344678999999999998888888899999999999876543222 3344555443   344 778899


Q ss_pred             CC
Q psy9646         210 KF  211 (211)
Q Consensus       210 K~  211 (211)
                      |+
T Consensus       120 K~  121 (170)
T 1z0j_A          120 KC  121 (170)
T ss_dssp             CT
T ss_pred             CC
Confidence            96

>2wjg_A FEOB, ferrous iron transport protein B homolog; membrane G-proteins, cell membrane, ION transport, transmembrane; HET: GDP; 2.20A {Methanocaldococcus jannaschii}

Probab=98.39  E-value=5.2e-07  Score=67.19  Aligned_cols=77  Identities=18%  Similarity=0.296  Sum_probs=52.6

Q ss_pred             cceEEeEeEEEeeeCCceeEeecCCcccccHh-----HHhhh---ccccceEEEEEeccCCCCcchHHHHHHHHHcCCCe
Q psy9646         132 RGITINVAHVEYATENRHYSHTDCPGHADYIK-----NMITG---TSQMDGAILVVAATDGAMPQTREHLLLAKQIGVTN  203 (211)
Q Consensus       132 rg~tv~~~~~~~~~~~~~~~~iDtPG~~~~~~-----~~~~~---~~~~d~~~~vvd~~~~~~~~~~~~~~~~~~~~~~~  203 (211)
                      .+.+.+.....+...+..+.++||||+.+|..     .+...   ...+|++++++|+..  ......++..+...+.| 
T Consensus        38 ~~~t~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~~~~~~~~~~~~i~v~d~~~--~~~~~~~~~~~~~~~~p-  114 (188)
T 2wjg_A           38 PGVTVEKKEGEFEYNGEKFKVVDLPGVYSLTANSIDEIIARDYIINEKPDLVVNIVDATA--LERNLYLTLQLMEMGAN-  114 (188)
T ss_dssp             TTSCCEEEEEEEEETTEEEEEEECCCCSCCSSSSHHHHHHHHHHHHHCCSEEEEEEEGGG--HHHHHHHHHHHHTTTCC-
T ss_pred             CCeeccceEEEEEeCCcEEEEEECCCcCccccccHHHHHHHHHHhccCCCEEEEEecchh--HHHHHHHHHHHHhcCCC-
Confidence            34555555666777788999999999987631     11111   145899999999864  23334455666667777 


Q ss_pred             EEEEEeCC
Q psy9646         204 IVVFINKF  211 (211)
Q Consensus       204 ~i~~inK~  211 (211)
                      ++++.||+
T Consensus       115 iilv~nK~  122 (188)
T 2wjg_A          115 LLLALNKM  122 (188)
T ss_dssp             EEEEEECH
T ss_pred             EEEEEEhh
Confidence            78999995

>3cpj_B GTP-binding protein YPT31/YPT8; RAB GTPase, prenylation, vesicular transport, acetylation, golgi apparatus, lipoprotein, membrane; HET: GDP; 2.35A {Saccharomyces cerevisiae}

Probab=98.38  E-value=2e-07  Score=71.78  Aligned_cols=69  Identities=16%  Similarity=0.087  Sum_probs=47.9

Q ss_pred             EeeeCC--ceeEeecCCcccccHhHHhhhccccceEEEEEeccCCCCcc-hHHHHHHHHHc---CCCeEEEEEeCC
Q psy9646         142 EYATEN--RHYSHTDCPGHADYIKNMITGTSQMDGAILVVAATDGAMPQ-TREHLLLAKQI---GVTNIVVFINKF  211 (211)
Q Consensus       142 ~~~~~~--~~~~~iDtPG~~~~~~~~~~~~~~~d~~~~vvd~~~~~~~~-~~~~~~~~~~~---~~~~~i~~inK~  211 (211)
                      .+...+  ..+.++||||++.|.......+..+|++++|+|+.....-+ ...++..+...   ++| +++|+||+
T Consensus        54 ~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~d~vilV~D~~~~~s~~~~~~~l~~i~~~~~~~~p-iilv~nK~  128 (223)
T 3cpj_B           54 TLEIEGKRIKAQIWDTAGQERYRAITSAYYRGAVGALIVYDISKSSSYENCNHWLSELRENADDNVA-VGLIGNKS  128 (223)
T ss_dssp             EEEETTEEEEEEEECCTTTTTTTCCCGGGTTTCCEEEEEEC-CCHHHHHHHHHHHHHHHHHCC--CE-EEEEECCG
T ss_pred             EEEECCEEEEEEEEECCCccchhhhHHHHhccCCEEEEEEeCCCHHHHHHHHHHHHHHHHhCCCCCe-EEEEEECc
Confidence            344444  57899999999998877778889999999999987654322 22334444433   566 88899995

>1m2o_B GTP-binding protein SAR1, GTP binding protein; zinc-finger, beta barrel, VWA domain, gelsolin domain,; HET: GNP; 2.50A {Saccharomyces cerevisiae} SCOP: c.37.1.8 PDB: 2qtv_B*

Probab=98.37  E-value=7e-07  Score=67.04  Aligned_cols=71  Identities=23%  Similarity=0.232  Sum_probs=51.7

Q ss_pred             EEEeeeCCceeEeecCCcccccHhHHhhhccccceEEEEEeccCCCC-cchHHHHHHHHH----cCCCeEEEEEeCC
Q psy9646         140 HVEYATENRHYSHTDCPGHADYIKNMITGTSQMDGAILVVAATDGAM-PQTREHLLLAKQ----IGVTNIVVFINKF  211 (211)
Q Consensus       140 ~~~~~~~~~~~~~iDtPG~~~~~~~~~~~~~~~d~~~~vvd~~~~~~-~~~~~~~~~~~~----~~~~~~i~~inK~  211 (211)
                      ...+..++..+.+.||||++.+.......+..+|++++|+|+..... ......+..+..    .+.| ++++.||+
T Consensus        59 ~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~p-iilv~NK~  134 (190)
T 1m2o_B           59 SEELAIGNIKFTTFDLGGHIQARRLWKDYFPEVNGIVFLVDAADPERFDEARVELDALFNIAELKDVP-FVILGNKI  134 (190)
T ss_dssp             EEEEEETTEEEEEEECCCSGGGTTSGGGGCTTCCEEEEEEETTCGGGHHHHHHHHHHHHTCGGGTTCC-EEEEEECT
T ss_pred             eEEEEECCEEEEEEECCCCHHHHHHHHHHHhcCCEEEEEEECCChHHHHHHHHHHHHHHcchhhcCCC-EEEEEECC
Confidence            45566677899999999999887777777889999999999976542 222233333322    4666 88999996

>4djt_A GTP-binding nuclear protein GSP1; structural genomics, seattle structural genomics center for infectious disease, ssgcid, RAN family; HET: GDP; 1.80A {Encephalitozoon cuniculi}

Probab=98.36  E-value=3.8e-07  Score=69.74  Aligned_cols=63  Identities=21%  Similarity=0.088  Sum_probs=45.8

Q ss_pred             ceeEeecCCcccccHhHHhhhccccceEEEEEeccCCCCcch-HHHHHHHHH---cCCCeEEEEEeCC
Q psy9646         148 RHYSHTDCPGHADYIKNMITGTSQMDGAILVVAATDGAMPQT-REHLLLAKQ---IGVTNIVVFINKF  211 (211)
Q Consensus       148 ~~~~~iDtPG~~~~~~~~~~~~~~~d~~~~vvd~~~~~~~~~-~~~~~~~~~---~~~~~~i~~inK~  211 (211)
                      ..+.++||||++++.......+..+|++++|+|+..+...+. ..++..+..   .+.| +++|+||+
T Consensus        61 ~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p-iilv~nK~  127 (218)
T 4djt_A           61 IKFNVWDTAGQEKKAVLKDVYYIGASGAILFFDVTSRITCQNLARWVKEFQAVVGNEAP-IVVCANKI  127 (218)
T ss_dssp             EEEEEEEECSGGGTSCCCHHHHTTCSEEEEEEETTCHHHHHTHHHHHHHHHHHHCSSSC-EEEEEECT
T ss_pred             EEEEEEecCCchhhchHHHHHhhcCCEEEEEEeCCCHHHHHHHHHHHHHHHHhcCCCCC-EEEEEECC
Confidence            568999999999887666667788999999999986654332 223333333   3567 88999996

>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=98.36  E-value=1.2e-07  Score=81.22  Aligned_cols=77  Identities=17%  Similarity=0.193  Sum_probs=49.4

Q ss_pred             cceEEeEeEEEeeeCCceeEeecCCcccccH--------hHHhhhccccceEEEEEeccCCCCcchHHHHHHHHHcCCCe
Q psy9646         132 RGITINVAHVEYATENRHYSHTDCPGHADYI--------KNMITGTSQMDGAILVVAATDGAMPQTREHLLLAKQIGVTN  203 (211)
Q Consensus       132 rg~tv~~~~~~~~~~~~~~~~iDtPG~~~~~--------~~~~~~~~~~d~~~~vvd~~~~~~~~~~~~~~~~~~~~~~~  203 (211)
                      .+.|.+.....+..++..+.++||||+.++.        +.+...+..+|++++|+|+..+...+..++++.+..  .| 
T Consensus       256 ~gtT~d~~~~~i~~~g~~v~liDT~G~~~~~~~ve~~gi~~~~~~~~~aD~vl~VvD~s~~~~~~~~~i~~~l~~--~p-  332 (462)
T 3geh_A          256 PGTTRDVVESQLVVGGIPVQVLDTAGIRETSDQVEKIGVERSRQAANTADLVLLTIDAATGWTTGDQEIYEQVKH--RP-  332 (462)
T ss_dssp             TTCCHHHHHHEEEETTEEEEECC--------------------CCCCSCSEEEEEEETTTCSCHHHHHHHHHHTT--SC-
T ss_pred             CCeeEEEEEEEEEECCEEEEEEECCccccchhHHHHHHHHHHhhhhhcCCEEEEEeccCCCCCHHHHHHHHhccC--Cc-
Confidence            3444444444556678889999999987653        334557788999999999999888777777766643  46 


Q ss_pred             EEEEEeCC
Q psy9646         204 IVVFINKF  211 (211)
Q Consensus       204 ~i~~inK~  211 (211)
                      +++|+||+
T Consensus       333 iivV~NK~  340 (462)
T 3geh_A          333 LILVMNKI  340 (462)
T ss_dssp             EEEEEECT
T ss_pred             EEEEEECC
Confidence            88999996

>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=98.35  E-value=4e-07  Score=66.46  Aligned_cols=63  Identities=17%  Similarity=0.144  Sum_probs=39.3

Q ss_pred             ceeEeecCCcccccHhHHhhhccccceEEEEEeccCCCCc-chHHHHHHHHH---cCCCeEEEEEeCC
Q psy9646         148 RHYSHTDCPGHADYIKNMITGTSQMDGAILVVAATDGAMP-QTREHLLLAKQ---IGVTNIVVFINKF  211 (211)
Q Consensus       148 ~~~~~iDtPG~~~~~~~~~~~~~~~d~~~~vvd~~~~~~~-~~~~~~~~~~~---~~~~~~i~~inK~  211 (211)
                      ..+.++||||++++.......+..+|++++|+|+.+...- ....++..+..   .+.| +++++||+
T Consensus        55 ~~l~i~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p-iilv~nK~  121 (170)
T 1z08_A           55 VNLAIWDTAGQERFHALGPIYYRDSNGAILVYDITDEDSFQKVKNWVKELRKMLGNEIC-LCIVGNKI  121 (170)
T ss_dssp             EEEEEEECCCC-------CCSSTTCSEEEEEEETTCHHHHHHHHHHHHHHHHHHGGGSE-EEEEEECG
T ss_pred             EEEEEEECCCcHhhhhhHHHHhccCCEEEEEEECcCHHHHHHHHHHHHHHHHhcCCCCe-EEEEEECc
Confidence            4678889999999887777788899999999998764321 12223333332   4566 88999995

>3dz8_A RAS-related protein RAB-3B; GDP, GTPase, structural genomics consortium, SGC, cell GTP-binding, lipoprotein, membrane, methylation; HET: GDP; 1.90A {Homo sapiens} SCOP: c.37.1.8

Probab=98.35  E-value=2.7e-07  Score=69.19  Aligned_cols=72  Identities=15%  Similarity=0.079  Sum_probs=52.8

Q ss_pred             eEEEeeeCCceeEeecCCcccccHhHHhhhccccceEEEEEeccCCCC-cchHHHHHHHHH---cCCCeEEEEEeCC
Q psy9646         139 AHVEYATENRHYSHTDCPGHADYIKNMITGTSQMDGAILVVAATDGAM-PQTREHLLLAKQ---IGVTNIVVFINKF  211 (211)
Q Consensus       139 ~~~~~~~~~~~~~~iDtPG~~~~~~~~~~~~~~~d~~~~vvd~~~~~~-~~~~~~~~~~~~---~~~~~~i~~inK~  211 (211)
                      ....+......+.++||||++.|.......+..+|++++|+|+.+... .....++..+..   .++| ++++.||+
T Consensus        63 ~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p-iilv~nK~  138 (191)
T 3dz8_A           63 KTVYRHEKRVKLQIWDTAGQERYRTITTAYYRGAMGFILMYDITNEESFNAVQDWATQIKTYSWDNAQ-VILVGNKC  138 (191)
T ss_dssp             EEEEETTTTEEEEEECHHHHHHCHHHHHHHHTTCCEEEEEEETTCHHHHHTHHHHHHHHHHHSCTTCE-EEEEEECT
T ss_pred             EEEEECCEEEEEEEEeCCChHHHHHHHHHHHccCCEEEEEEECcCHHHHHHHHHHHHHHHHhcCCCCC-EEEEEECC
Confidence            333444456789999999999999888888999999999999875422 223345555544   3566 88999996

>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=98.35  E-value=2.7e-07  Score=69.84  Aligned_cols=63  Identities=17%  Similarity=0.111  Sum_probs=45.9

Q ss_pred             ceeEeecCCcccccHhHHhhhccccceEEEEEeccCCCCcc-hHHHHHHHHH---cCCCeEEEEEeCC
Q psy9646         148 RHYSHTDCPGHADYIKNMITGTSQMDGAILVVAATDGAMPQ-TREHLLLAKQ---IGVTNIVVFINKF  211 (211)
Q Consensus       148 ~~~~~iDtPG~~~~~~~~~~~~~~~d~~~~vvd~~~~~~~~-~~~~~~~~~~---~~~~~~i~~inK~  211 (211)
                      ..+.++||||+.+|.......+..+|++++|+|+.....-+ ...++..+..   .++| +++++||+
T Consensus        74 ~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p-iilv~nK~  140 (200)
T 2o52_A           74 VKLQIWDTAGQERFRSVTRSYYRGAAGALLVYDITSRETYNSLAAWLTDARTLASPNIV-VILCGNKK  140 (200)
T ss_dssp             EEEEEECCTTHHHHSCCCHHHHTTCSEEEEEEETTCHHHHHTHHHHHHHHHHHTCTTCE-EEEEEECG
T ss_pred             eEEEEEcCCCcHhHHHHHHHHhccCCEEEEEEECcCHHHHHHHHHHHHHHHHhcCCCCc-EEEEEECC
Confidence            67899999999988777777788999999999987643222 2233333333   3566 88999995

>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=98.33  E-value=4.6e-07  Score=67.03  Aligned_cols=63  Identities=21%  Similarity=0.189  Sum_probs=42.1

Q ss_pred             ceeEeecCCcccccHhHHhhhccccceEEEEEeccCCCCcc-hHHHH----HHHHHcCCCeEEEEEeCC
Q psy9646         148 RHYSHTDCPGHADYIKNMITGTSQMDGAILVVAATDGAMPQ-TREHL----LLAKQIGVTNIVVFINKF  211 (211)
Q Consensus       148 ~~~~~iDtPG~~~~~~~~~~~~~~~d~~~~vvd~~~~~~~~-~~~~~----~~~~~~~~~~~i~~inK~  211 (211)
                      .++.++||||+++|.......+..+|++++|+|+.....-. ...++    +.+...++| +++++||+
T Consensus        54 ~~~~l~Dt~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~p-~ilv~nK~  121 (181)
T 3t5g_A           54 YHLQLVDTAGQDEYSIFPQTYSIDINGYILVYSVTSIKSFEVIKVIHGKLLDMVGKVQIP-IMLVGNKK  121 (181)
T ss_dssp             EEEEEEECCCCCTTCCCCGGGTTTCSEEEEEEETTCHHHHHHHHHHHHHHHHHC----CC-EEEEEECT
T ss_pred             EEEEEEeCCCchhhhHHHHHHHhcCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCC-EEEEEECc
Confidence            56789999999998766667778899999999986532211 11122    222234677 88999996

>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=98.33  E-value=5.3e-07  Score=66.84  Aligned_cols=62  Identities=18%  Similarity=0.185  Sum_probs=43.9

Q ss_pred             eeEeecCCcccccHhHHhhhccccceEEEEEeccCCCCc-chHHHHHHH----HHcCCCeEEEEEeCC
Q psy9646         149 HYSHTDCPGHADYIKNMITGTSQMDGAILVVAATDGAMP-QTREHLLLA----KQIGVTNIVVFINKF  211 (211)
Q Consensus       149 ~~~~iDtPG~~~~~~~~~~~~~~~d~~~~vvd~~~~~~~-~~~~~~~~~----~~~~~~~~i~~inK~  211 (211)
                      .+.++||||+++|.......+..+|++++|+|+.+...- ....++..+    ...++| ++++.||+
T Consensus        67 ~l~i~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~p-~ilv~nK~  133 (183)
T 3kkq_A           67 ILDVLDTAGQEEFSAMREQYMRTGDGFLIVYSVTDKASFEHVDRFHQLILRVKDRESFP-MILVANKV  133 (183)
T ss_dssp             EEEEEECCSCGGGCSSHHHHHHHCSEEEEEEETTCHHHHHTHHHHHHHHHHHHTSSCCC-EEEEEECT
T ss_pred             EEEEEECCCchhhHHHHHHHHhcCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCc-EEEEEECC
Confidence            456799999999887777788899999999998765221 112222222    235677 88999996

>4gzl_A RAS-related C3 botulinum toxin substrate 1; rossmann fold, GTP binding, membrane, hydrolase; HET: GNP; 2.00A {Homo sapiens} PDB: 3th5_A* 4gzm_A*

Probab=98.33  E-value=5.1e-07  Score=68.60  Aligned_cols=63  Identities=14%  Similarity=0.087  Sum_probs=47.8

Q ss_pred             ceeEeecCCcccccHhHHhhhccccceEEEEEeccCCCCcchH--HHHHHHHHc--CCCeEEEEEeCC
Q psy9646         148 RHYSHTDCPGHADYIKNMITGTSQMDGAILVVAATDGAMPQTR--EHLLLAKQI--GVTNIVVFINKF  211 (211)
Q Consensus       148 ~~~~~iDtPG~~~~~~~~~~~~~~~d~~~~vvd~~~~~~~~~~--~~~~~~~~~--~~~~~i~~inK~  211 (211)
                      ..+.++||||+++|.......+..+|++++|+|+.+...-+..  .++..+...  +.| +++|+||+
T Consensus        78 ~~l~i~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p-iilv~nK~  144 (204)
T 4gzl_A           78 VNLGLWDTAGLEDYDRLRPLSYPQTDVFLICFSLVSPASFENVRAKWYPEVRHHCPNTP-IILVGTKL  144 (204)
T ss_dssp             EEEEEEEECCSGGGTTTGGGGCTTCSEEEEEEETTCHHHHHHHHHTHHHHHHHHCSSCC-EEEEEECH
T ss_pred             EEEEEEECCCchhhHHHHHHHhccCCEEEEEEECCCHHHHHHHHHHHHHHHHHhCCCCC-EEEEEech
Confidence            4566999999999988888889999999999998765433322  344455544  677 88999995

>3def_A T7I23.11 protein; chloroplast, TOC33, GTPase, hydrolase; HET: GDP; 1.96A {Arabidopsis thaliana} PDB: 3bb3_A* 3bb4_A* 2j3e_A*

Probab=98.32  E-value=5.6e-07  Score=71.32  Aligned_cols=79  Identities=10%  Similarity=0.055  Sum_probs=51.3

Q ss_pred             cceEEeEeEEEeeeCCceeEeecCCcccccH-------hHHhhhc--cccceEEEEEeccC-CCCcchHHHHHHHHHc-C
Q psy9646         132 RGITINVAHVEYATENRHYSHTDCPGHADYI-------KNMITGT--SQMDGAILVVAATD-GAMPQTREHLLLAKQI-G  200 (211)
Q Consensus       132 rg~tv~~~~~~~~~~~~~~~~iDtPG~~~~~-------~~~~~~~--~~~d~~~~vvd~~~-~~~~~~~~~~~~~~~~-~  200 (211)
                      .+.+.......+...+..+.++||||+.+|.       +.+...+  ..+|++++|++... .....+..+++.+... +
T Consensus        68 ~~~t~~~~~~~~~~~~~~l~liDTpG~~~~~~~~~~~~~~i~~~l~~~~~~~il~V~~~d~~~~~~~~~~~~~~l~~~~~  147 (262)
T 3def_A           68 QAEGLRPVMVSRTMGGFTINIIDTPGLVEAGYVNHQALELIKGFLVNRTIDVLLYVDRLDVYAVDELDKQVVIAITQTFG  147 (262)
T ss_dssp             CC-CCCCEEEEEEETTEEEEEEECCCSEETTEECHHHHHHHHHHTTTCEECEEEEEEESSCSCCCHHHHHHHHHHHHHHC
T ss_pred             CCcceeeEEEEEEECCeeEEEEECCCCCCcccchHHHHHHHHHHHhcCCCCEEEEEEcCCCCCCCHHHHHHHHHHHHHhc
Confidence            3445555556677788899999999998763       2222222  27899999977654 3444455666666553 2


Q ss_pred             ----CCeEEEEEeCC
Q psy9646         201 ----VTNIVVFINKF  211 (211)
Q Consensus       201 ----~~~~i~~inK~  211 (211)
                          .| +++++||+
T Consensus       148 ~~~~~~-~ivv~nK~  161 (262)
T 3def_A          148 KEIWCK-TLLVLTHA  161 (262)
T ss_dssp             GGGGGG-EEEEEECT
T ss_pred             hhhhcC-EEEEEeCc
Confidence                25 78999996

>2f7s_A C25KG, RAS-related protein RAB-27B; G-protein, structural genomics, structural genomics consortium, SGC, signaling protein; HET: GDP; 2.70A {Homo sapiens} SCOP: c.37.1.8 PDB: 2iez_A*

Probab=98.32  E-value=2.7e-07  Score=70.54  Aligned_cols=64  Identities=17%  Similarity=0.093  Sum_probs=45.9

Q ss_pred             CceeEeecCCcccccHhHHhhhccccceEEEEEeccCCCCcch-HHHHHHHHH----cCCCeEEEEEeCC
Q psy9646         147 NRHYSHTDCPGHADYIKNMITGTSQMDGAILVVAATDGAMPQT-REHLLLAKQ----IGVTNIVVFINKF  211 (211)
Q Consensus       147 ~~~~~~iDtPG~~~~~~~~~~~~~~~d~~~~vvd~~~~~~~~~-~~~~~~~~~----~~~~~~i~~inK~  211 (211)
                      ..++.|+||||+.+|.......+..+|++++|+|+.....-+. +.++..+..    .++| +++|+||+
T Consensus        83 ~~~l~l~Dt~G~~~~~~~~~~~~~~~d~iilV~D~~~~~s~~~~~~~l~~i~~~~~~~~~p-iilV~NK~  151 (217)
T 2f7s_A           83 KVHLQLWDTAGQERFRSLTTAFFRDAMGFLLMFDLTSQQSFLNVRNWMSQLQANAYCENPD-IVLIGNKA  151 (217)
T ss_dssp             EEEEEEEEEESHHHHHHHHHHHHTTCCEEEEEEETTCHHHHHHHHHHHHTCCCCCTTTCCE-EEEEEECT
T ss_pred             eEEEEEEECCCcHhHHhHHHHHhcCCCEEEEEEECcCHHHHHHHHHHHHHHHHhcCcCCCC-EEEEEECC
Confidence            4579999999999998888888999999999999866432211 122222221    3455 88999996

>2oil_A CATX-8, RAS-related protein RAB-25; G-protein, GDP, structural genomics, structural genomics consortium, SGC, protein transport; HET: GDP; 2.30A {Homo sapiens}

Probab=98.31  E-value=5.1e-07  Score=67.64  Aligned_cols=70  Identities=19%  Similarity=0.052  Sum_probs=49.7

Q ss_pred             EEeeeCCceeEeecCCcccccHhHHhhhccccceEEEEEeccCCCCc-chHHHHHHHHHc---CCCeEEEEEeCC
Q psy9646         141 VEYATENRHYSHTDCPGHADYIKNMITGTSQMDGAILVVAATDGAMP-QTREHLLLAKQI---GVTNIVVFINKF  211 (211)
Q Consensus       141 ~~~~~~~~~~~~iDtPG~~~~~~~~~~~~~~~d~~~~vvd~~~~~~~-~~~~~~~~~~~~---~~~~~i~~inK~  211 (211)
                      ..+.....++.++||||+++|.......+..+|++++|+|+.....- ....++..+...   +.| +++++||+
T Consensus        67 ~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~d~vi~v~D~~~~~s~~~~~~~l~~i~~~~~~~~p-iilv~nK~  140 (193)
T 2oil_A           67 VMLGTAAVKAQIWDTAGLERYRAITSAYYRGAVGALLVFDLTKHQTYAVVERWLKELYDHAEATIV-VMLVGNKS  140 (193)
T ss_dssp             EEETTEEEEEEEEEESCCCTTCTTHHHHHTTCCEEEEEEETTCHHHHHTHHHHHHHHHTTSCTTCE-EEEEEECG
T ss_pred             EEECCEEEEEEEEeCCCchhhhhhhHHHhccCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCe-EEEEEECC
Confidence            33333456789999999999887778888999999999998764321 223344444432   555 88999995

>3r7w_A Gtpase1, GTP-binding protein GTR1; RAG gtpases, GTR1P, GTR2P, MTOR, protein transport; HET: GNP; 2.77A {Saccharomyces cerevisiae} PDB: 4arz_A*

Probab=98.31  E-value=8.6e-07  Score=71.95  Aligned_cols=80  Identities=23%  Similarity=0.221  Sum_probs=54.0

Q ss_pred             ccceEEeEeEEEeee-CCceeEeecCCcccccH-----hHHhhhccccceEEEEEeccCCCCcchHH-HHHHHHH-----
Q psy9646         131 ARGITINVAHVEYAT-ENRHYSHTDCPGHADYI-----KNMITGTSQMDGAILVVAATDGAMPQTRE-HLLLAKQ-----  198 (211)
Q Consensus       131 ~rg~tv~~~~~~~~~-~~~~~~~iDtPG~~~~~-----~~~~~~~~~~d~~~~vvd~~~~~~~~~~~-~~~~~~~-----  198 (211)
                      ..+.|+...+..+.. ++.++.+.||||+++|.     ......+..+|++++|+|+.....-+... +.+.+..     
T Consensus        34 ~~~~Ti~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~~~~~~ad~vi~V~D~t~~~s~~~l~~~~~~l~~l~~~~  113 (307)
T 3r7w_A           34 RLGATIDVEHSHLRFLGNMTLNLWDCGGQDVFMENYFTKQKDHIFQMVQVLIHVFDVESTEVLKDIEIFAKALKQLRKYS  113 (307)
T ss_dssp             GCCCCCSEEEEEEEETTTEEEEEEEECCSHHHHHHHHTTTHHHHHTTCSEEEEEEETTCSCHHHHHHHHHHHHHHHHHHC
T ss_pred             CcCCccceEEEEEEeCCceEEEEEECCCcHHHhhhhhhhHHHHHhccCCEEEEEEECCChhhHHHHHHHHHHHHHHHHhC
Confidence            445666666666654 56789999999999884     33444557899999999998765433322 2222222     


Q ss_pred             cCCCeEEEEEeCC
Q psy9646         199 IGVTNIVVFINKF  211 (211)
Q Consensus       199 ~~~~~~i~~inK~  211 (211)
                      .++| +++++||+
T Consensus       114 ~~~p-iilv~NK~  125 (307)
T 3r7w_A          114 PDAK-IFVLLHKM  125 (307)
T ss_dssp             TTCE-EEEEEECG
T ss_pred             CCCe-EEEEEecc
Confidence            2667 88999995

>3lxx_A GTPase IMAP family member 4; structural genomics consortium, SGC, coiled coil, GTP- binding, nucleotide-binding, immune system; HET: GDP; 2.15A {Homo sapiens}

Probab=98.31  E-value=7.9e-07  Score=69.29  Aligned_cols=77  Identities=12%  Similarity=0.126  Sum_probs=51.2

Q ss_pred             ceEEeEeEEEeeeCCceeEeecCCccc-----------ccHhHHhhhccccceEEEEEeccCCCCcchHHHHHHHH----
Q psy9646         133 GITINVAHVEYATENRHYSHTDCPGHA-----------DYIKNMITGTSQMDGAILVVAATDGAMPQTREHLLLAK----  197 (211)
Q Consensus       133 g~tv~~~~~~~~~~~~~~~~iDtPG~~-----------~~~~~~~~~~~~~d~~~~vvd~~~~~~~~~~~~~~~~~----  197 (211)
                      +.+.......+...+..+.++||||+.           .+.+.+......+|++++|+|+.. ....+...++.+.    
T Consensus        63 ~~t~~~~~~~~~~~~~~i~liDTpG~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~v~d~~~-~~~~~~~~l~~~~~~~~  141 (239)
T 3lxx_A           63 SITKKCEKRSSSWKETELVVVDTPGIFDTEVPNAETSKEIIRCILLTSPGPHALLLVVPLGR-YTEEEHKATEKILKMFG  141 (239)
T ss_dssp             --CCSCEEEEEEETTEEEEEEECCSCC-----CHHHHHHHHHHHHHTTTCCSEEEEEEETTC-CSSHHHHHHHHHHHHHH
T ss_pred             ceeeeEEEEEEEeCCceEEEEECCCccCCCCCHHHHHHHHHHHHHhcCCCCcEEEEEeeCCC-CCHHHHHHHHHHHHHhh
Confidence            445555555667788899999999954           344555566678899999999864 4444444444442    


Q ss_pred             -HcCCCeEEEEEeCC
Q psy9646         198 -QIGVTNIVVFINKF  211 (211)
Q Consensus       198 -~~~~~~~i~~inK~  211 (211)
                       ....| +++++||+
T Consensus       142 ~~~~~~-~iiv~nK~  155 (239)
T 3lxx_A          142 ERARSF-MILIFTRK  155 (239)
T ss_dssp             HHHGGG-EEEEEECG
T ss_pred             hhccce-EEEEEeCC
Confidence             23346 78899995

>3gj0_A GTP-binding nuclear protein RAN; G protein, GDP, acetylation, cytoplasm, HOST- virus interaction, nucleotide-binding, nucleus, phosphoprotein; HET: GDP; 1.48A {Homo sapiens} SCOP: c.37.1.8 PDB: 3gj3_A* 3gj5_A* 3gj4_A* 3gj6_A* 3gj7_A* 3gj8_A* 1i2m_A 1a2k_C 1ibr_A* 1k5d_A* 1k5g_A* 1qbk_C* 3a6p_C* 3ch5_A* 4gmx_A* 4gpt_A* 4hat_A* 4hau_A* 4hav_A* 4haw_A* ...

Probab=98.31  E-value=4.8e-07  Score=69.45  Aligned_cols=79  Identities=14%  Similarity=0.071  Sum_probs=54.3

Q ss_pred             cceEEeEeEEEeeeCCceeEeecCCcccccHhHHhhhccccceEEEEEeccCCCCcch-HHHHHHHHHc--CCCeEEEEE
Q psy9646         132 RGITINVAHVEYATENRHYSHTDCPGHADYIKNMITGTSQMDGAILVVAATDGAMPQT-REHLLLAKQI--GVTNIVVFI  208 (211)
Q Consensus       132 rg~tv~~~~~~~~~~~~~~~~iDtPG~~~~~~~~~~~~~~~d~~~~vvd~~~~~~~~~-~~~~~~~~~~--~~~~~i~~i  208 (211)
                      .+.+.......+......+.++||||++.|.......+..+|++++|+|+.....-+. ..++..+...  ++| +++|+
T Consensus        48 ~~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~p-~ilv~  126 (221)
T 3gj0_A           48 LGVEVHPLVFHTNRGPIKFNVWDTAGQEKFGGLRDGYYIQAQCAIIMFDVTSRVTYKNVPNWHRDLVRVCENIP-IVLCG  126 (221)
T ss_dssp             TTEEEEEEEEEETTEEEEEEEEEECSGGGTSCCCHHHHTTCCEEEEEEETTCHHHHHTHHHHHHHHHHHSTTCC-EEEEE
T ss_pred             cceeEEEEEEEECCEEEEEEEEeCCChHHHhHHHHHHHhcCCEEEEEEECCCHHHHHHHHHHHHHHHHhCCCCC-EEEEE
Confidence            3455554444444455678999999999887777777889999999999976543222 2333333332  677 88999


Q ss_pred             eCC
Q psy9646         209 NKF  211 (211)
Q Consensus       209 nK~  211 (211)
                      ||+
T Consensus       127 nK~  129 (221)
T 3gj0_A          127 NKV  129 (221)
T ss_dssp             ECT
T ss_pred             ECC
Confidence            996

>1h65_A Chloroplast outer envelope protein OEP34; GTPase, translocon; HET: GDP; 2.0A {Pisum sativum} SCOP: c.37.1.8 PDB: 3bb1_A*

Probab=98.30  E-value=1.2e-06  Score=69.64  Aligned_cols=78  Identities=10%  Similarity=-0.022  Sum_probs=50.6

Q ss_pred             ceEEeEeEEEeeeCCceeEeecCCcccccH---hHHhhh------ccccceEEEEEeccC-CCCcchHHHHHHHHHc-C-
Q psy9646         133 GITINVAHVEYATENRHYSHTDCPGHADYI---KNMITG------TSQMDGAILVVAATD-GAMPQTREHLLLAKQI-G-  200 (211)
Q Consensus       133 g~tv~~~~~~~~~~~~~~~~iDtPG~~~~~---~~~~~~------~~~~d~~~~vvd~~~-~~~~~~~~~~~~~~~~-~-  200 (211)
                      +.+.......+...+..+.++||||+.++.   ......      ...+|++++|+|... .....+.++++.+... + 
T Consensus        72 ~~t~~~~~~~~~~~~~~l~iiDTpG~~~~~~~~~~~~~~i~~~~~~~~~d~il~v~~~d~~~~~~~~~~~~~~l~~~~~~  151 (270)
T 1h65_A           72 SEGPRPVMVSRSRAGFTLNIIDTPGLIEGGYINDMALNIIKSFLLDKTIDVLLYVDRLDAYRVDNLDKLVAKAITDSFGK  151 (270)
T ss_dssp             CCCSSCEEEEEEETTEEEEEEECCCSEETTEECHHHHHHHHHHTTTCEECEEEEEEESSCCCCCHHHHHHHHHHHHHHCG
T ss_pred             CcceeeEEEEEeeCCeEEEEEECCCCCCCccchHHHHHHHHHHhhcCCCCEEEEEEeCCCCcCCHHHHHHHHHHHHHhCc
Confidence            344444445566678889999999997653   222222      236899999987654 3444555666666443 4 


Q ss_pred             ---CCeEEEEEeCC
Q psy9646         201 ---VTNIVVFINKF  211 (211)
Q Consensus       201 ---~~~~i~~inK~  211 (211)
                         .| +++++||+
T Consensus       152 ~~~~~-iivV~nK~  164 (270)
T 1h65_A          152 GIWNK-AIVALTHA  164 (270)
T ss_dssp             GGGGG-EEEEEECC
T ss_pred             ccccC-EEEEEECc
Confidence               35 88999996

>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=98.30  E-value=6.1e-07  Score=67.51  Aligned_cols=71  Identities=20%  Similarity=0.165  Sum_probs=46.2

Q ss_pred             EEEeeeCCceeEeecCCcccccHhHHhhhccccceEEEEEeccCCCC-cchHHHHHHHHH----cCCCeEEEEEeCC
Q psy9646         140 HVEYATENRHYSHTDCPGHADYIKNMITGTSQMDGAILVVAATDGAM-PQTREHLLLAKQ----IGVTNIVVFINKF  211 (211)
Q Consensus       140 ~~~~~~~~~~~~~iDtPG~~~~~~~~~~~~~~~d~~~~vvd~~~~~~-~~~~~~~~~~~~----~~~~~~i~~inK~  211 (211)
                      ...+...+..+.++||||+++|.......+..+|++++|+|+.+... ......+..+..    .+.| +++++||+
T Consensus        65 ~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~d~iilv~D~~~~~s~~~~~~~l~~~~~~~~~~~~p-iilv~NK~  140 (192)
T 2b6h_A           65 VETVEYKNICFTVWDVGGQDKIRPLWRHYFQNTQGLIFVVDSNDRERVQESADELQKMLQEDELRDAV-LLVFANKQ  140 (192)
T ss_dssp             EEEEEETTEEEEEEECC-----CTTHHHHHHTCCEEEEEEETTCGGGHHHHHHHHHHHHTCGGGTTCE-EEEEEECT
T ss_pred             EEEEEECCEEEEEEECCCCHhHHHHHHHHhccCCEEEEEEECCCHHHHHHHHHHHHHHhcccccCCCe-EEEEEECC
Confidence            34456677899999999999887777778889999999999976532 112223333322    2566 88999996

>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=98.30  E-value=8e-07  Score=66.40  Aligned_cols=71  Identities=14%  Similarity=0.082  Sum_probs=49.7

Q ss_pred             EEEeeeCCceeEeecCCcccccHhHHhhhccccceEEEEEeccCCCCc-chHHHHHHHHH----cCCCeEEEEEeCC
Q psy9646         140 HVEYATENRHYSHTDCPGHADYIKNMITGTSQMDGAILVVAATDGAMP-QTREHLLLAKQ----IGVTNIVVFINKF  211 (211)
Q Consensus       140 ~~~~~~~~~~~~~iDtPG~~~~~~~~~~~~~~~d~~~~vvd~~~~~~~-~~~~~~~~~~~----~~~~~~i~~inK~  211 (211)
                      ...+......+.++||||+++|.......+..+|++++|+|+...... ....++..+..    .++| +++++||+
T Consensus        56 ~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~d~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~p-~ilv~nK~  131 (195)
T 1x3s_A           56 TISVDGNKAKLAIWDTAGQERFRTLTPSYYRGAQGVILVYDVTRRDTFVKLDNWLNELETYCTRNDIV-NMLVGNKI  131 (195)
T ss_dssp             EEEETTEEEEEEEEEECSSGGGCCSHHHHHTTCCEEEEEEETTCHHHHHTHHHHHHHHTTCCSCSCCE-EEEEEECT
T ss_pred             EEEECCeEEEEEEEeCCCchhhhhhhHHHhccCCEEEEEEECcCHHHHHHHHHHHHHHHHhcCcCCCc-EEEEEECC
Confidence            333333446789999999999888788888999999999998765322 22233344433    2455 78999996

>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=98.30  E-value=7.7e-07  Score=64.49  Aligned_cols=63  Identities=14%  Similarity=0.027  Sum_probs=45.2

Q ss_pred             ceeEeecCCcccccHhHHhhhccccceEEEEEeccCCCCc-chHHHHHHHH----HcCCCeEEEEEeCC
Q psy9646         148 RHYSHTDCPGHADYIKNMITGTSQMDGAILVVAATDGAMP-QTREHLLLAK----QIGVTNIVVFINKF  211 (211)
Q Consensus       148 ~~~~~iDtPG~~~~~~~~~~~~~~~d~~~~vvd~~~~~~~-~~~~~~~~~~----~~~~~~~i~~inK~  211 (211)
                      ..+.++||||++++.......+..+|++++|+|+.....- .....+..+.    ..+.| +++++||+
T Consensus        51 ~~~~l~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~p-iilv~nK~  118 (167)
T 1kao_A           51 SVLEILDTAGTEQFASMRDLYIKNGQGFILVYSLVNQQSFQDIKPMRDQIIRVKRYEKVP-VILVGNKV  118 (167)
T ss_dssp             EEEEEEECCCTTCCHHHHHHHHHHCSEEEEEEETTCHHHHHHHHHHHHHHHHHTTTSCCC-EEEEEECG
T ss_pred             EEEEEEECCCchhhHHHHHHHhccCCEEEEEEeCCCHHHHHHHHHHHHHHHHhcCCCCCC-EEEEEECC
Confidence            4588999999999988777888899999999998754321 1122222222    23677 88999995

>1moz_A ARL1, ADP-ribosylation factor-like protein 1; GTP-binding, protein binding; HET: GDP; 3.17A {Saccharomyces cerevisiae} SCOP: c.37.1.8

Probab=98.29  E-value=5.6e-07  Score=66.64  Aligned_cols=70  Identities=21%  Similarity=0.178  Sum_probs=47.2

Q ss_pred             EEeeeCCceeEeecCCcccccHhHHhhhccccceEEEEEeccCCCC-cchHHHHHHHHH----cCCCeEEEEEeCC
Q psy9646         141 VEYATENRHYSHTDCPGHADYIKNMITGTSQMDGAILVVAATDGAM-PQTREHLLLAKQ----IGVTNIVVFINKF  211 (211)
Q Consensus       141 ~~~~~~~~~~~~iDtPG~~~~~~~~~~~~~~~d~~~~vvd~~~~~~-~~~~~~~~~~~~----~~~~~~i~~inK~  211 (211)
                      ..+..++.++.+.||||++++.......+..+|++++|+|+..... ......+..+..    .+.| +++++||+
T Consensus        55 ~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~d~ii~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~p-iilv~nK~  129 (183)
T 1moz_A           55 ETLSYKNLKLNVWDLGGQTSIRPYWRCYYADTAAVIFVVDSTDKDRMSTASKELHLMLQEEELQDAA-LLVFANKQ  129 (183)
T ss_dssp             EEEEETTEEEEEEEEC----CCTTGGGTTTTEEEEEEEEETTCTTTHHHHHHHHHHHTTSSTTSSCE-EEEEEECT
T ss_pred             EEEEECCEEEEEEECCCCHhHHHHHHHHhccCCEEEEEEECCCHHHHHHHHHHHHHHHcChhhCCCe-EEEEEECC
Confidence            3445567889999999999988777788899999999999876643 222233333322    4566 88999996

>3b1v_A Ferrous iron uptake transporter protein B; G protein, iron transport, GTPase, transmembrane, potassium; HET: GGM; 1.85A {Streptococcus thermophilus} PDB: 3b1w_A* 3lx5_A* 3lx8_A* 3ss8_A* 3b1z_A 3b1y_A* 3b1x_A* 3tah_A*

Probab=98.29  E-value=7.8e-07  Score=71.05  Aligned_cols=76  Identities=17%  Similarity=0.182  Sum_probs=51.7

Q ss_pred             cceEEeEeEEEeeeCCceeEeecCCcccccHh-----HH---hhhccccceEEEEEeccCCCCcchHHHHHHHHHcCCCe
Q psy9646         132 RGITINVAHVEYATENRHYSHTDCPGHADYIK-----NM---ITGTSQMDGAILVVAATDGAMPQTREHLLLAKQIGVTN  203 (211)
Q Consensus       132 rg~tv~~~~~~~~~~~~~~~~iDtPG~~~~~~-----~~---~~~~~~~d~~~~vvd~~~~~~~~~~~~~~~~~~~~~~~  203 (211)
                      .|.|++.....+.. +..+.++||||+..|..     .+   +.....+|++++|+|+...  .....+...+...++| 
T Consensus        34 pg~tv~~~~~~~~~-~~~l~l~DtpG~~~~~~~~~~e~v~~~~~~~~~~d~vi~V~D~t~~--e~~~~~~~~l~~~~~p-  109 (272)
T 3b1v_A           34 PGVTVERKSGLVKK-NKDLEIQDLPGIYSMSPYSPEAKVARDYLLSQRADSILNVVDATNL--ERNLYLTTQLIETGIP-  109 (272)
T ss_dssp             SCCCCSCEEEECTT-CTTEEEEECCCCSCSSCSSHHHHHHHHHHHTTCCSEEEEEEEGGGH--HHHHHHHHHHHHTCSC-
T ss_pred             CCCcEEEEEEEEec-CCeEEEEECCCcCccCCCChHHHHHHHHHhcCCCCEEEEEecCCch--HhHHHHHHHHHhcCCC-
Confidence            35666655555655 77899999999887631     11   1111469999999999652  2233455566677888 


Q ss_pred             EEEEEeCC
Q psy9646         204 IVVFINKF  211 (211)
Q Consensus       204 ~i~~inK~  211 (211)
                      +++++||+
T Consensus       110 ~ilv~NK~  117 (272)
T 3b1v_A          110 VTIALNMI  117 (272)
T ss_dssp             EEEEEECH
T ss_pred             EEEEEECh
Confidence            78999995

>1mh1_A RAC1; GTP-binding, GTPase, small G-protein, RHO family, RAS super family; HET: GNP; 1.38A {Homo sapiens} SCOP: c.37.1.8 PDB: 1hh4_A* 2p2l_A* 2h7v_A* 1g4u_R* 1i4d_D* 1i4l_D* 2vrw_A 1e96_A* 1i4t_D* 2rmk_A* 2yin_C 1ryf_A* 1ryh_A* 3su8_A* 3sua_A* 2fju_A* 1he1_C* 2nz8_A 1foe_B 3bji_C ...

Probab=98.29  E-value=6.4e-07  Score=66.35  Aligned_cols=63  Identities=14%  Similarity=0.121  Sum_probs=46.7

Q ss_pred             ceeEeecCCcccccHhHHhhhccccceEEEEEeccCCCCcchH--HHHHHHHHc--CCCeEEEEEeCC
Q psy9646         148 RHYSHTDCPGHADYIKNMITGTSQMDGAILVVAATDGAMPQTR--EHLLLAKQI--GVTNIVVFINKF  211 (211)
Q Consensus       148 ~~~~~iDtPG~~~~~~~~~~~~~~~d~~~~vvd~~~~~~~~~~--~~~~~~~~~--~~~~~i~~inK~  211 (211)
                      ..+.++||||+++|.......+..+|++++|+|+.....-+..  .++..+...  +.| +++++||+
T Consensus        53 ~~~~i~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p-iilv~nK~  119 (186)
T 1mh1_A           53 VNLGLWDTAGQEDYDRLRPLSYPQTDVSLICFSLVSPASFENVRAKWYPEVRHHCPNTP-IILVGTKL  119 (186)
T ss_dssp             EEEEEECCCCSGGGTTTGGGGCTTCSEEEEEEETTCHHHHHHHHHTHHHHHHHHSTTSC-EEEEEECH
T ss_pred             EEEEEEECCCCHhHHHHHHHhccCCcEEEEEEECCChhhHHHHHHHHHHHHHHhCCCCC-EEEEeEcc
Confidence            4577999999999887777788999999999998765332222  244445443  677 88999995

>2fh5_B SR-beta, signal recognition particle receptor beta subunit; endomembrane targeting, GTPase, GAP, longin domain, SEDL, transport protein; HET: GTP; 2.45A {Mus musculus} SCOP: c.37.1.8 PDB: 2go5_2

Probab=98.29  E-value=1e-06  Score=67.12  Aligned_cols=63  Identities=14%  Similarity=0.162  Sum_probs=42.9

Q ss_pred             CceeEeecCCcccccHhHH-hhhccccceEEEEEeccCCCCcchHHHHHHHH---------HcCCCeEEEEEeCC
Q psy9646         147 NRHYSHTDCPGHADYIKNM-ITGTSQMDGAILVVAATDGAMPQTREHLLLAK---------QIGVTNIVVFINKF  211 (211)
Q Consensus       147 ~~~~~~iDtPG~~~~~~~~-~~~~~~~d~~~~vvd~~~~~~~~~~~~~~~~~---------~~~~~~~i~~inK~  211 (211)
                      ...+.++||||+.+|...+ ..-+..+|++++|+|+.. .........+.+.         ..++| ++++.||+
T Consensus        53 ~~~~~i~Dt~G~~~~~~~~~~~~~~~~~~~i~v~d~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~p-iilv~nK~  125 (214)
T 2fh5_B           53 GNSLTLIDLPGHESLRFQLLDRFKSSARAVVFVVDSAA-FQREVKDVAEFLYQVLIDSMALKNSPS-LLIACNKQ  125 (214)
T ss_dssp             CCEEEEEECCCCHHHHHHHHHHHGGGEEEEEEEEETTT-HHHHHHHHHHHHHHHHHHHHTSTTCCE-EEEEEECT
T ss_pred             ccEEEEEECCCChhHHHHHHHHHHhhCCEEEEEEECCC-cCHHHHHHHHHHHHHHhhhhhcccCCC-EEEEEECC
Confidence            5679999999999987744 344789999999999865 1122222222221         12466 88999996

>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=98.28  E-value=1e-06  Score=74.99  Aligned_cols=80  Identities=24%  Similarity=0.317  Sum_probs=57.0

Q ss_pred             ccceEEeEeEEEeeeCCceeEeecCCcccccHh------------HHhhhccccceEEEEEeccCCCCcchHHHHHHHHH
Q psy9646         131 ARGITINVAHVEYATENRHYSHTDCPGHADYIK------------NMITGTSQMDGAILVVAATDGAMPQTREHLLLAKQ  198 (211)
Q Consensus       131 ~rg~tv~~~~~~~~~~~~~~~~iDtPG~~~~~~------------~~~~~~~~~d~~~~vvd~~~~~~~~~~~~~~~~~~  198 (211)
                      ..+.|.+.....+...+..+.++||||+..+..            .....+..+|++++++|+..+...++..+...+..
T Consensus       211 ~~gtT~d~~~~~i~~~g~~~~l~Dt~G~~~~~~~~~~~~e~~~~~~~~~~i~~ad~vllv~d~~~~~~~~~~~i~~~l~~  290 (439)
T 1mky_A          211 IPGTTRDPVDDEVFIDGRKYVFVDTAGLRRKSRVEPRTVEKYSNYRVVDSIEKADVVVIVLDATQGITRQDQRMAGLMER  290 (439)
T ss_dssp             CC------CCEEEEETTEEEEESSCSCC-----------CCSCCHHHHHHHHHCSEEEEEEETTTCCCHHHHHHHHHHHH
T ss_pred             CCCCcCCceEEEEEECCEEEEEEECCCCccccccchhhHHHHHHHHHHHHHhhCCEEEEEEeCCCCCCHHHHHHHHHHHH
Confidence            345666666667777888899999999854321            23456788999999999999888888778888888


Q ss_pred             cCCCeEEEEEeCC
Q psy9646         199 IGVTNIVVFINKF  211 (211)
Q Consensus       199 ~~~~~~i~~inK~  211 (211)
                      .+.| +++++||+
T Consensus       291 ~~~~-~ilv~NK~  302 (439)
T 1mky_A          291 RGRA-SVVVFNKW  302 (439)
T ss_dssp             TTCE-EEEEEECG
T ss_pred             cCCC-EEEEEECc
Confidence            8887 88999995

>2erx_A GTP-binding protein DI-RAS2; GTP hydrolysis, transport protein; HET: GDP; 1.65A {Homo sapiens} SCOP: c.37.1.8

Probab=98.28  E-value=1.2e-06  Score=63.79  Aligned_cols=64  Identities=17%  Similarity=0.078  Sum_probs=47.2

Q ss_pred             CceeEeecCCcccccHhHHhhhccccceEEEEEeccCCCC-cchHHHHHHHHH-----cCCCeEEEEEeCC
Q psy9646         147 NRHYSHTDCPGHADYIKNMITGTSQMDGAILVVAATDGAM-PQTREHLLLAKQ-----IGVTNIVVFINKF  211 (211)
Q Consensus       147 ~~~~~~iDtPG~~~~~~~~~~~~~~~d~~~~vvd~~~~~~-~~~~~~~~~~~~-----~~~~~~i~~inK~  211 (211)
                      ...+.++||||++++.......+..+|++++|+|+..... .....++..+..     .+.| +++++||+
T Consensus        50 ~~~~~~~Dt~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~i~~~~~~~~~~p-ii~v~nK~  119 (172)
T 2erx_A           50 ICTLQITDTTGSHQFPAMQRLSISKGHAFILVYSITSRQSLEELKPIYEQICEIKGDVESIP-IMLVGNKC  119 (172)
T ss_dssp             EEEEEEEECCSCSSCHHHHHHHHHHCSEEEEEEETTCHHHHHTTHHHHHHHHHHHC---CCC-EEEEEECG
T ss_pred             EEEEEEEECCCchhhHHHHHHhcccCCEEEEEEECcCHHHHHHHHHHHHHHHHHhCCCCCCC-EEEEEEcc
Confidence            3568999999999998888888889999999999875432 223334444443     2577 88999995

>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=98.27  E-value=5.4e-07  Score=68.19  Aligned_cols=63  Identities=16%  Similarity=0.130  Sum_probs=47.1

Q ss_pred             ceeEeecCCcccccHhHHhhhccccceEEEEEeccCCCCcch--HHHHHHHHHc--CCCeEEEEEeCC
Q psy9646         148 RHYSHTDCPGHADYIKNMITGTSQMDGAILVVAATDGAMPQT--REHLLLAKQI--GVTNIVVFINKF  211 (211)
Q Consensus       148 ~~~~~iDtPG~~~~~~~~~~~~~~~d~~~~vvd~~~~~~~~~--~~~~~~~~~~--~~~~~i~~inK~  211 (211)
                      ..+.++||||+++|.......+..+|++++|+|+.....-+.  ..++..+...  +.| +++++||+
T Consensus        73 ~~l~i~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p-iilv~nK~  139 (201)
T 2gco_A           73 VELALWDTAGQEDYDRLRPLSYPDTDVILMCFSIDSPDSLENIPEKWTPEVKHFCPNVP-IILVGNKK  139 (201)
T ss_dssp             EEEEEECCCCSGGGTTTGGGGCTTCSEEEEEEETTCHHHHHHHHHTHHHHHHHHSTTCC-EEEEEECG
T ss_pred             EEEEEEECCCchhHHHHHHHhcCCCCEEEEEEECCCHHHHHHHHHHHHHHHHHhCCCCC-EEEEEecH
Confidence            478899999999988777788899999999999865422111  3344555544  677 88999995

>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=98.26  E-value=1.1e-06  Score=65.94  Aligned_cols=63  Identities=16%  Similarity=0.134  Sum_probs=47.7

Q ss_pred             ceeEeecCCcccccHhHHhhhccccceEEEEEeccCCCCcc-hH-HHHHHHHHc--CCCeEEEEEeCC
Q psy9646         148 RHYSHTDCPGHADYIKNMITGTSQMDGAILVVAATDGAMPQ-TR-EHLLLAKQI--GVTNIVVFINKF  211 (211)
Q Consensus       148 ~~~~~iDtPG~~~~~~~~~~~~~~~d~~~~vvd~~~~~~~~-~~-~~~~~~~~~--~~~~~i~~inK~  211 (211)
                      ..+.+.||||+++|.......+..+|++++|+|+.....-. .. .++..+...  ++| ++++.||+
T Consensus        66 ~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p-iilv~nK~  132 (194)
T 2atx_A           66 YLLGLYDTAGQEDYDRLRPLSYPMTDVFLICFSVVNPASFQNVKEEWVPELKEYAPNVP-FLLIGTQI  132 (194)
T ss_dssp             EEEEEECCCCSSSSTTTGGGGCTTCSEEEEEEETTCHHHHHHHHHTHHHHHHHHSTTCC-EEEEEECT
T ss_pred             EEEEEEECCCCcchhHHHHHhcCCCCEEEEEEECCCHHHHHHHHHHHHHHHHHhCCCCC-EEEEEECh
Confidence            57889999999999888888889999999999987653211 12 344555544  677 88999996

>3reg_A RHO-like small GTPase; cytoskeleton, nucleotide-binding, GTP-binding, signaling Pro lipoprotein, prenylation; HET: GSP; 1.80A {Entamoeba histolytica} PDB: 3ref_B* 4dvg_A*

Probab=98.26  E-value=1.1e-06  Score=65.85  Aligned_cols=63  Identities=14%  Similarity=0.031  Sum_probs=46.9

Q ss_pred             ceeEeecCCcccccHhHHhhhccccceEEEEEeccCCCCcch--HHHHHHHHHc--CCCeEEEEEeCC
Q psy9646         148 RHYSHTDCPGHADYIKNMITGTSQMDGAILVVAATDGAMPQT--REHLLLAKQI--GVTNIVVFINKF  211 (211)
Q Consensus       148 ~~~~~iDtPG~~~~~~~~~~~~~~~d~~~~vvd~~~~~~~~~--~~~~~~~~~~--~~~~~i~~inK~  211 (211)
                      ..+.+.||||+++|.......+..+|++++|+|+.+...-..  ..++..+...  ++| +++|.||+
T Consensus        71 ~~~~i~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p-~ilv~nK~  137 (194)
T 3reg_A           71 FILHLWDTAGQEEYDRLRPLSYADSDVVLLCFAVNNRTSFDNISTKWEPEIKHYIDTAK-TVLVGLKV  137 (194)
T ss_dssp             EEEEEEEECCSGGGTTTGGGGCTTCSEEEEEEETTCHHHHHHHHHTHHHHHHHHCTTSE-EEEEEECG
T ss_pred             EEEEEEECCCcHHHHHHhHhhccCCcEEEEEEECCCHHHHHHHHHHHHHHHHHhCCCCC-EEEEEECh
Confidence            456899999999998888888999999999999876533222  2344444433  456 88999995

>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=98.25  E-value=3.5e-06  Score=77.26  Aligned_cols=87  Identities=24%  Similarity=0.395  Sum_probs=70.3

Q ss_pred             hHHHHHhhhCCCCC-------------------------CCCCCCeeEEEeeEEeecCCcE-EEEEEEEEEEEecCCEEE
Q psy9646           2 ELLNQIDTYIPQPV-------------------------RDLDKPFYLPVEHTYSIPGRGT-VVTGRLERGIVKKGMECE   55 (211)
Q Consensus         2 ~ll~~l~~~i~~p~-------------------------~~~~~p~~~~v~~~~~~~~~G~-v~~G~v~~G~i~~g~~v~   55 (211)
                      .||+++.+++|.|.                         .+.++||.+.|..++..++.|+ +..+||-+|+++.|++|.
T Consensus       333 ~LLd~i~~~lPsP~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~p~~a~VfK~~~~~~~G~~l~~~RV~sG~l~~g~~v~  412 (842)
T 1n0u_A          333 ALLEMIVLHLPSPVTAQAYRAEQLYEGPADDANCIAIKNCDPKADLMLYVSKMVPTSDKGRFYAFGRVFAGTVKSGQKVR  412 (842)
T ss_dssp             HHHHHHHHHSCCHHHHHHHHHHHHBSSCTTSHHHHHHHTTCTTSSCEEEEEEEEEBSSTTCEEEEEEEEESEEETTCEEE
T ss_pred             HHHHHHHHhCCChhHhcccccccccCCcccccccceeeccCCCCCeEEEEEeeeecCCCCceEEEEEEEeeeecCCCEEE
Confidence            58899999888774                         1457899999999999999995 999999999999999998


Q ss_pred             EeecC----cee---eEEEEEEEecc----eecceecccCceeh
Q psy9646          56 FTGYG----RQF---KTTVTGIEMFH----KILDEAQAGDQLGA   88 (211)
Q Consensus        56 i~p~~----~~~---~~~v~~i~~~~----~~~~~a~~G~~v~~   88 (211)
                      +...+    +..   ..+|..|...+    .++++|.|||++++
T Consensus       413 v~~~~~n~~~~~~~~~~rv~~l~~~~g~~~~~v~~~~aGdI~ai  456 (842)
T 1n0u_A          413 IQGPNYVPGKKDDLFIKAIQRVVLMMGRFVEPIDDCPAGNIIGL  456 (842)
T ss_dssp             EECTTCCSSSCTTEEEEECCEEEEEETTEEEEESEEETTCEEEE
T ss_pred             eccccccCCCCcccceEEeeeeEeeccCcccccceeCCCCEEEE
Confidence            75322    111   46778886653    68999999999886

>1f6b_A SAR1; gtpases, N-terminal helix, Mg-containing complex, protein transport; HET: GDP; 1.70A {Cricetulus griseus} SCOP: c.37.1.8 PDB: 2fmx_A* 2fa9_A* 2gao_A*

Probab=98.23  E-value=1.3e-06  Score=66.07  Aligned_cols=70  Identities=19%  Similarity=0.241  Sum_probs=46.4

Q ss_pred             EEeeeCCceeEeecCCcccccHhHHhhhccccceEEEEEeccCCCC-cchHHHHHHHHH----cCCCeEEEEEeCC
Q psy9646         141 VEYATENRHYSHTDCPGHADYIKNMITGTSQMDGAILVVAATDGAM-PQTREHLLLAKQ----IGVTNIVVFINKF  211 (211)
Q Consensus       141 ~~~~~~~~~~~~iDtPG~~~~~~~~~~~~~~~d~~~~vvd~~~~~~-~~~~~~~~~~~~----~~~~~~i~~inK~  211 (211)
                      ..+..++.++.+.||||++++.......+..+|++++|+|+..... ......+..+..    .++| ++++.||+
T Consensus        62 ~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~~d~~i~v~D~~~~~s~~~~~~~~~~~~~~~~~~~~p-iilv~NK~  136 (198)
T 1f6b_A           62 EELTIAGMTFTTFDLGGHIQARRVWKNYLPAINGIVFLVDCADHERLLESKEELDSLMTDETIANVP-ILILGNKI  136 (198)
T ss_dssp             EEEEETTEEEEEEEECC----CCGGGGGGGGCSEEEEEEETTCGGGHHHHHHHHHHHHTCGGGTTSC-EEEEEECT
T ss_pred             EEEEECCEEEEEEECCCcHhhHHHHHHHHhcCCEEEEEEECCCHHHHHHHHHHHHHHHhCcccCCCc-EEEEEECC
Confidence            4455667889999999999887666677889999999999976532 222233333322    4677 88999996

>1fzq_A ADP-ribosylation factor-like protein 3; protein-GDP complex without magnesium, ARF family, RAS superfamily, G-domain, signaling protein; HET: MES GDP; 1.70A {Mus musculus} SCOP: c.37.1.8 PDB: 3bh7_A* 3bh6_A*

Probab=98.22  E-value=2.1e-06  Score=63.80  Aligned_cols=69  Identities=17%  Similarity=0.112  Sum_probs=49.6

Q ss_pred             EeeeCCceeEeecCCcccccHhHHhhhccccceEEEEEeccCCCCc-chHHHHHHH-H---HcCCCeEEEEEeCC
Q psy9646         142 EYATENRHYSHTDCPGHADYIKNMITGTSQMDGAILVVAATDGAMP-QTREHLLLA-K---QIGVTNIVVFINKF  211 (211)
Q Consensus       142 ~~~~~~~~~~~iDtPG~~~~~~~~~~~~~~~d~~~~vvd~~~~~~~-~~~~~~~~~-~---~~~~~~~i~~inK~  211 (211)
                      .+...+..+.+.||||++.|.......+..+|++++|+|+.+...- .....+..+ .   ..+.| ++++.||+
T Consensus        54 ~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~p-iilv~NK~  127 (181)
T 1fzq_A           54 SVQSQGFKLNVWDIGGQRKIRPYWRSYFENTDILIYVIDSADRKRFEETGQELTELLEEEKLSCVP-VLIFANKQ  127 (181)
T ss_dssp             EEEETTEEEEEEECSSCGGGHHHHHHHHTTCSEEEEEEETTCGGGHHHHHHHHHHHTTCGGGTTCC-EEEEEECT
T ss_pred             EEEECCEEEEEEECCCCHHHHHHHHHHhCCCCEEEEEEECcCHHHHHHHHHHHHHHHhChhhcCCC-EEEEEECc
Confidence            3455678899999999999988777888999999999998765321 122222222 2   13567 88999996

>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=98.21  E-value=1.2e-06  Score=63.61  Aligned_cols=65  Identities=14%  Similarity=0.058  Sum_probs=46.4

Q ss_pred             CCceeEeecCCcccccHhHHhhhccccceEEEEEeccCCCC-cchHHHHHHHHH----cCCCeEEEEEeCC
Q psy9646         146 ENRHYSHTDCPGHADYIKNMITGTSQMDGAILVVAATDGAM-PQTREHLLLAKQ----IGVTNIVVFINKF  211 (211)
Q Consensus       146 ~~~~~~~iDtPG~~~~~~~~~~~~~~~d~~~~vvd~~~~~~-~~~~~~~~~~~~----~~~~~~i~~inK~  211 (211)
                      ....+.++||||++++.......+..+|++++|+|+..... .....++..+..    .+.| +++++||+
T Consensus        49 ~~~~~~l~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~p-iilv~nK~  118 (167)
T 1c1y_A           49 QQCMLEILDTAGTEQFTAMRDLYMKNGQGFALVYSITAQSTFNDLQDLREQILRVKDTEDVP-MILVGNKC  118 (167)
T ss_dssp             CEEEEEEEEECSSCSSTTHHHHHHHHCSEEEEEEETTCHHHHHTHHHHHHHHHHHHCCSCCC-EEEEEECT
T ss_pred             EEEEEEEEECCChHHHHHHHHHHhccCCEEEEEEECCCHHHHHHHHHHHHHHHHhhCcCCCc-EEEEEECc
Confidence            34578899999999988777778889999999999865422 112223333332    3677 88999996

>2fn4_A P23, RAS-related protein R-RAS; GDP/GTP binding, GTP hydrolysis, structural genomics, structural genomics consortium, SGC, signaling protein; HET: GDP; 1.65A {Homo sapiens} SCOP: c.37.1.8 PDB: 2ery_A*

Probab=98.21  E-value=1.1e-06  Score=64.67  Aligned_cols=63  Identities=16%  Similarity=0.112  Sum_probs=44.3

Q ss_pred             ceeEeecCCcccccHhHHhhhccccceEEEEEeccCCCC-cchHHHHHHH----HHcCCCeEEEEEeCC
Q psy9646         148 RHYSHTDCPGHADYIKNMITGTSQMDGAILVVAATDGAM-PQTREHLLLA----KQIGVTNIVVFINKF  211 (211)
Q Consensus       148 ~~~~~iDtPG~~~~~~~~~~~~~~~d~~~~vvd~~~~~~-~~~~~~~~~~----~~~~~~~~i~~inK~  211 (211)
                      ..+.++||||+++|.......+..+|++++|+|+..... .....++..+    ...++| +++++||+
T Consensus        57 ~~~~~~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~p-iilv~nK~  124 (181)
T 2fn4_A           57 ARLDILDTAGQEEFGAMREQYMRAGHGFLLVFAINDRQSFNEVGKLFTQILRVKDRDDFP-VVLVGNKA  124 (181)
T ss_dssp             EEEEEEECCCTTTTSCCHHHHHHHCSEEEEEEETTCHHHHHHHHHHHHHHHHHHTSSCCC-EEEEEECG
T ss_pred             EEEEEEECCCchhhHHHHHHHHhhCCEEEEEEeCCCHHHHHHHHHHHHHHHHhcCCCCCC-EEEEEECc
Confidence            478899999999887777777788999999999875422 1112222222    224667 88999995

>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=98.21  E-value=1.5e-06  Score=66.02  Aligned_cols=63  Identities=16%  Similarity=0.157  Sum_probs=47.1

Q ss_pred             ceeEeecCCcccccHhHHhhhccccceEEEEEeccCCCC--cchHHHHHHHHHc--CCCeEEEEEeCC
Q psy9646         148 RHYSHTDCPGHADYIKNMITGTSQMDGAILVVAATDGAM--PQTREHLLLAKQI--GVTNIVVFINKF  211 (211)
Q Consensus       148 ~~~~~iDtPG~~~~~~~~~~~~~~~d~~~~vvd~~~~~~--~~~~~~~~~~~~~--~~~~~i~~inK~  211 (211)
                      ..+.++||||+++|.......+..+|++++|+|+.....  .....++..+...  ++| +++++||+
T Consensus        73 ~~~~i~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p-iilv~nK~  139 (207)
T 2fv8_A           73 VELALWDTAGQEDYDRLRPLSYPDTDVILMCFSVDSPDSLENIPEKWVPEVKHFCPNVP-IILVANKK  139 (207)
T ss_dssp             EEEEEEECTTCTTCTTTGGGGCTTCCEEEEEEETTCHHHHHHHHHTHHHHHHHHSTTCC-EEEEEECG
T ss_pred             EEEEEEECCCcHHHHHHHHhhcCCCCEEEEEEECCCHHHHHHHHHHHHHHHHHhCCCCC-EEEEEEch
Confidence            468899999999988777788899999999999865422  1113344555444  677 88999995

>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=98.19  E-value=9.7e-07  Score=64.01  Aligned_cols=63  Identities=17%  Similarity=0.066  Sum_probs=42.7

Q ss_pred             ceeEeecCCcccccHhHHhhhccccceEEEEEeccCCCCc-chHHHHHHHHH----cCCCeEEEEEeCC
Q psy9646         148 RHYSHTDCPGHADYIKNMITGTSQMDGAILVVAATDGAMP-QTREHLLLAKQ----IGVTNIVVFINKF  211 (211)
Q Consensus       148 ~~~~~iDtPG~~~~~~~~~~~~~~~d~~~~vvd~~~~~~~-~~~~~~~~~~~----~~~~~~i~~inK~  211 (211)
                      ..+.++||||++++.......+..+|++++|+|+.....- ....++..+..    .+.| +++++||+
T Consensus        52 ~~~~l~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~p-iilv~nK~  119 (168)
T 1u8z_A           52 VQIDILDTAGQEDYAAIRDNYFRSGEGFLCVFSITEMESFAATADFREQILRVKEDENVP-FLLVGNKS  119 (168)
T ss_dssp             EEEEEEECCC---CHHHHHHHHHHCSEEEEEEETTCHHHHHHHHHHHHHHHHHHCCTTSC-EEEEEECG
T ss_pred             EEEEEEECCCcchhHHHHHHHhhcCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCc-EEEEEECc
Confidence            4788999999999988888888899999999998754321 11222233322    2667 88999995

>3t5d_A Septin-7; GTP-binding protein, cytoskeleton, signaling protein; HET: GDP; 3.30A {Homo sapiens} PDB: 3tw4_A*

Probab=98.19  E-value=2.7e-06  Score=67.82  Aligned_cols=38  Identities=21%  Similarity=0.326  Sum_probs=30.4

Q ss_pred             cceEEEEEecc-CCCCcchHHHHHHHHHcCCCeEEEEEeCC
Q psy9646         172 MDGAILVVAAT-DGAMPQTREHLLLAKQIGVTNIVVFINKF  211 (211)
Q Consensus       172 ~d~~~~vvd~~-~~~~~~~~~~~~~~~~~~~~~~i~~inK~  211 (211)
                      +|+++++++.. .+....+.++++.+.. ++| +|+|+||+
T Consensus       116 ~~~~l~~i~~~~~~~~~~d~~~l~~l~~-~~p-vi~V~nK~  154 (274)
T 3t5d_A          116 VQCCLYFIAPSGHGLKPLDIEFMKRLHE-KVN-IIPLIAKA  154 (274)
T ss_dssp             CCEEEEEECSCCSSCCHHHHHHHHHHTT-TSC-EEEEESSG
T ss_pred             eeEEEEEecCCCCCCCHHHHHHHHHHhc-cCC-EEEEEecc
Confidence            67888888554 5788888888888876 788 88999995

>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=98.17  E-value=1.9e-06  Score=62.23  Aligned_cols=64  Identities=17%  Similarity=0.103  Sum_probs=45.8

Q ss_pred             CceeEeecCCcccccHhHHhhhccccceEEEEEeccCCCCc-chHHHHHHHHHc----CCCeEEEEEeCC
Q psy9646         147 NRHYSHTDCPGHADYIKNMITGTSQMDGAILVVAATDGAMP-QTREHLLLAKQI----GVTNIVVFINKF  211 (211)
Q Consensus       147 ~~~~~~iDtPG~~~~~~~~~~~~~~~d~~~~vvd~~~~~~~-~~~~~~~~~~~~----~~~~~i~~inK~  211 (211)
                      ...+.++||||+.++.......+..+|++++++|+.....- ....++..+...    +.| +++++||+
T Consensus        50 ~~~~~~~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~i~~~~~~~~~p-~iiv~nK~  118 (166)
T 2ce2_X           50 TCLLDILDTAGQEEYSAMRDQYMRTGEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVP-MVLVGNKS  118 (166)
T ss_dssp             EEEEEEEECCCCSSCCHHHHHHHHHCSEEEEEEETTCHHHHHHHHHHHHHHHHHHTCSCCC-EEEEEECT
T ss_pred             EEEEEEEECCCchhhhHHHHHhhccCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCc-EEEEEEch
Confidence            34578999999998887777788899999999998654321 123333333332    677 88999996

>3oes_A GTPase rhebl1; small GTPase, structural genomics, structural genomics conso SGC, hydrolase; HET: GNP; 2.30A {Homo sapiens}

Probab=98.16  E-value=7.8e-07  Score=67.24  Aligned_cols=67  Identities=18%  Similarity=0.123  Sum_probs=46.3

Q ss_pred             eeCCceeEeecCCcccccHhHHhhhccccceEEEEEeccCCCCc-chHHHHHHHHH----cCCCeEEEEEeCC
Q psy9646         144 ATENRHYSHTDCPGHADYIKNMITGTSQMDGAILVVAATDGAMP-QTREHLLLAKQ----IGVTNIVVFINKF  211 (211)
Q Consensus       144 ~~~~~~~~~iDtPG~~~~~~~~~~~~~~~d~~~~vvd~~~~~~~-~~~~~~~~~~~----~~~~~~i~~inK~  211 (211)
                      ......+.++||||+++|.......+..+|++++|+|+.....- ....++..+..    .++| +++|+||+
T Consensus        68 ~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~p-iilv~nK~  139 (201)
T 3oes_A           68 GKDEFHLHLVDTAGQDEYSILPYSFIIGVHGYVLVYSVTSLHSFQVIESLYQKLHEGHGKTRVP-VVLVGNKA  139 (201)
T ss_dssp             ---CEEEEEEEECCCCTTCCCCGGGTTTCCEEEEEEETTCHHHHHHHHHHHHHHHC-----CCC-EEEEEECT
T ss_pred             CCEEEEEEEEECCCccchHHHHHHHHhcCCEEEEEEeCCCHHHHHHHHHHHHHHHHhcCCCCCC-EEEEEECc
Confidence            34556789999999999887788888999999999998754321 11223333322    3667 88999996

>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=98.15  E-value=1.4e-06  Score=64.38  Aligned_cols=63  Identities=17%  Similarity=0.066  Sum_probs=45.5

Q ss_pred             ceeEeecCCcccccHhHHhhhccccceEEEEEeccCCCCc-chHHHHHHHHH----cCCCeEEEEEeCC
Q psy9646         148 RHYSHTDCPGHADYIKNMITGTSQMDGAILVVAATDGAMP-QTREHLLLAKQ----IGVTNIVVFINKF  211 (211)
Q Consensus       148 ~~~~~iDtPG~~~~~~~~~~~~~~~d~~~~vvd~~~~~~~-~~~~~~~~~~~----~~~~~~i~~inK~  211 (211)
                      ..+.++||||+.+|.......+..+|++++|+|+.....- ....++..+..    .++| +++++||+
T Consensus        66 ~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~p-iilv~nK~  133 (187)
T 2a9k_A           66 VQIDILDTAGQEDYAAIRDNYFRSGEGFLCVFSITEMESFAATADFREQILRVKEDENVP-FLLVGNKS  133 (187)
T ss_dssp             EEEEEEECCCTTCCHHHHHHHHHHCSEEEEEEETTCHHHHHHHHHHHHHHHHHHCCTTCC-EEEEEECG
T ss_pred             EEEEEEECCCCcccHHHHHHHhccCCEEEEEEECcCHHHHHHHHHHHHHHHHhcCCCCCC-EEEEEECc
Confidence            4788999999999988888888999999999998754321 11222222222    2677 88999995

>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=98.13  E-value=3.3e-06  Score=61.79  Aligned_cols=63  Identities=13%  Similarity=0.032  Sum_probs=37.8

Q ss_pred             ceeEeecCCccccc--HhHHhhhccccceEEEEEeccCCCC-cchHHHHHHHHHc----CCCeEEEEEeCC
Q psy9646         148 RHYSHTDCPGHADY--IKNMITGTSQMDGAILVVAATDGAM-PQTREHLLLAKQI----GVTNIVVFINKF  211 (211)
Q Consensus       148 ~~~~~iDtPG~~~~--~~~~~~~~~~~d~~~~vvd~~~~~~-~~~~~~~~~~~~~----~~~~~i~~inK~  211 (211)
                      .++.++||||+..+  ......-+..+|++++|+|...... .....++..+...    ++| +++++||+
T Consensus        52 ~~~~~~D~~g~~~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~l~~~~~~~~~p-iilv~NK~  121 (175)
T 2nzj_A           52 TTLVVVDTWEAEKLDKSWSQESCLQGGSAYVIVYSIADRGSFESASELRIQLRRTHQADHVP-IILVGNKA  121 (175)
T ss_dssp             EEEEEECCC-------CHHHHHTTTSCSEEEEEEETTCHHHHHHHHHHHHHHHHCC----CC-EEEEEECT
T ss_pred             EEEEEEecCCCCccchhhhHHhhcccCCEEEEEEECCCHHHHHHHHHHHHHHHHhhccCCCC-EEEEEECh
Confidence            47889999999874  3333445677999999999865432 1223344444443    677 88999996

>3q3j_B RHO-related GTP-binding protein RHO6; RAS-binding domain, plexin, small GTPase, structural genomic consortium, SGC; HET: GNP; 1.97A {Homo sapiens} PDB: 2rex_B* 2cls_A*

Probab=98.12  E-value=3.2e-06  Score=64.69  Aligned_cols=66  Identities=12%  Similarity=0.042  Sum_probs=48.4

Q ss_pred             eCCceeEeecCCcccccHhHHhhhccccceEEEEEeccCCCCcch--HHHHHHHHHc--CCCeEEEEEeCC
Q psy9646         145 TENRHYSHTDCPGHADYIKNMITGTSQMDGAILVVAATDGAMPQT--REHLLLAKQI--GVTNIVVFINKF  211 (211)
Q Consensus       145 ~~~~~~~~iDtPG~~~~~~~~~~~~~~~d~~~~vvd~~~~~~~~~--~~~~~~~~~~--~~~~~i~~inK~  211 (211)
                      .....+.+.||||++.|.......+..+|++++|+|+.....-..  ..++..+...  ++| +++|.||+
T Consensus        72 ~~~~~l~i~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~i~~~~~~~p-iilv~nK~  141 (214)
T 3q3j_B           72 EQRVELSLWDTSGSPYYDNVRPLCYSDSDAVLLCFDISRPETVDSALKKWRTEILDYCPSTR-VLLIGCKT  141 (214)
T ss_dssp             -CEEEEEEEEECCSGGGTTTGGGGCTTCSEEEEEEETTCTHHHHHHHTHHHHHHHHHCTTSE-EEEEEECG
T ss_pred             CEEEEEEEEECCCCHhHHHHHHHHcCCCeEEEEEEECcCHHHHHHHHHHHHHHHHHhCCCCC-EEEEEECh
Confidence            334578899999999988777778899999999999976543222  3344555444  566 88999995

>3bwd_D RAC-like GTP-binding protein ARAC6; G domain, cytoplasm, lipoprotein, membrane, methylation, nucleotide-binding, prenylation, ----; HET: GDP; 1.53A {Arabidopsis thaliana} PDB: 2nty_C* 2wbl_C

Probab=98.11  E-value=2e-06  Score=63.41  Aligned_cols=64  Identities=22%  Similarity=0.172  Sum_probs=44.4

Q ss_pred             CceeEeecCCcccccHhHHhhhccccceEEEEEeccCCCCcchH--HHHHHHHHc--CCCeEEEEEeCC
Q psy9646         147 NRHYSHTDCPGHADYIKNMITGTSQMDGAILVVAATDGAMPQTR--EHLLLAKQI--GVTNIVVFINKF  211 (211)
Q Consensus       147 ~~~~~~iDtPG~~~~~~~~~~~~~~~d~~~~vvd~~~~~~~~~~--~~~~~~~~~--~~~~~i~~inK~  211 (211)
                      ...+.++||||+++|.......+..+|++++|+|+.....-+..  .++..+...  +.| +++++||+
T Consensus        55 ~~~~~i~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p-iilv~nK~  122 (182)
T 3bwd_D           55 TVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVSKKWIPELKHYAPGVP-IVLVGTKL  122 (182)
T ss_dssp             ---CEEECCCC-CTTTTTGGGGGTTCSEEEEEEETTCHHHHHHHHHTHHHHHHHHCTTCC-EEEEEECH
T ss_pred             EEEEEEEECCCChhhhhhHHhhccCCCEEEEEEECCCHHHHHHHHHHHHHHHHHhCCCCC-EEEEEech
Confidence            34577999999999988888888999999999998654322221  244444442  677 88999995

>2j0v_A RAC-like GTP-binding protein ARAC7; nucleotide-binding protein, ROP9, atrac7, membrane, palmitate, RHO GTPase; HET: GDP; 1.78A {Arabidopsis thaliana}

Probab=98.11  E-value=2.1e-06  Score=65.27  Aligned_cols=63  Identities=17%  Similarity=0.167  Sum_probs=45.3

Q ss_pred             ceeEeecCCcccccHhHHhhhccccceEEEEEeccCCCCcch--HHHHHHHHHc--CCCeEEEEEeCC
Q psy9646         148 RHYSHTDCPGHADYIKNMITGTSQMDGAILVVAATDGAMPQT--REHLLLAKQI--GVTNIVVFINKF  211 (211)
Q Consensus       148 ~~~~~iDtPG~~~~~~~~~~~~~~~d~~~~vvd~~~~~~~~~--~~~~~~~~~~--~~~~~i~~inK~  211 (211)
                      ..+.+.||||+++|.......+..+|++++|+|+.....-..  ..++..+...  ++| ++++.||+
T Consensus        57 ~~~~i~Dt~G~~~~~~~~~~~~~~~d~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~p-iilv~nK~  123 (212)
T 2j0v_A           57 VNLGLWDTAGQEDYSRLRPLSYRGADIFVLAFSLISKASYENVLKKWMPELRRFAPNVP-IVLVGTKL  123 (212)
T ss_dssp             EEEEEECCCCCCCCCC--CGGGTTCSEEEEEEETTCHHHHHHHHHTHHHHHHHHCTTCC-EEEEEECH
T ss_pred             EEEEEEECCCcHHHHHHHHhhccCCCEEEEEEECCCHHHHHHHHHHHHHHHHHhCCCCC-EEEEEeCH
Confidence            578899999999988777778899999999999865432222  1344444443  677 88999994

>1m7b_A RND3/RHOE small GTP-binding protein; small GTPase, signaling protein; HET: GTP; 2.00A {Homo sapiens} SCOP: c.37.1.8 PDB: 2v55_B*

Probab=98.10  E-value=2.6e-06  Score=63.30  Aligned_cols=64  Identities=9%  Similarity=0.015  Sum_probs=45.9

Q ss_pred             CceeEeecCCcccccHhHHhhhccccceEEEEEeccCCCCcch--HHHHHHHHH--cCCCeEEEEEeCC
Q psy9646         147 NRHYSHTDCPGHADYIKNMITGTSQMDGAILVVAATDGAMPQT--REHLLLAKQ--IGVTNIVVFINKF  211 (211)
Q Consensus       147 ~~~~~~iDtPG~~~~~~~~~~~~~~~d~~~~vvd~~~~~~~~~--~~~~~~~~~--~~~~~~i~~inK~  211 (211)
                      ..++.+.||||++.|.......+..+|++++|+|+.....-..  ..++..+..  .+.| ++++.||+
T Consensus        54 ~~~~~i~Dt~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~i~~~~~~~p-iilv~nK~  121 (184)
T 1m7b_A           54 RIELSLWDTSGSPYYDNVRPLSYPDSDAVLICFDISRPETLDSVLKKWKGEIQEFCPNTK-MLLVGCKS  121 (184)
T ss_dssp             EEEEEEEEECCSGGGTTTGGGGCTTCSEEEEEEETTCHHHHHHHHHTHHHHHHHHCTTCE-EEEEEECG
T ss_pred             EEEEEEEECCCChhhhhhHHhhcCCCcEEEEEEECCCHHHHHHHHHHHHHHHHHHCCCCC-EEEEEEcc
Confidence            4578899999999987777778899999999999875432221  223333433  2566 88999995

>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=98.10  E-value=3.4e-06  Score=61.26  Aligned_cols=65  Identities=17%  Similarity=0.009  Sum_probs=33.5

Q ss_pred             CCceeEeecCCcccccHhHHhhhccccceEEEEEeccCCCC-cchHHHHHHHHH----cCCCeEEEEEeCC
Q psy9646         146 ENRHYSHTDCPGHADYIKNMITGTSQMDGAILVVAATDGAM-PQTREHLLLAKQ----IGVTNIVVFINKF  211 (211)
Q Consensus       146 ~~~~~~~iDtPG~~~~~~~~~~~~~~~d~~~~vvd~~~~~~-~~~~~~~~~~~~----~~~~~~i~~inK~  211 (211)
                      ....+.+.||||++.|.......+..+|++++|+|...... .....++..+..    .++| ++++.||+
T Consensus        47 ~~~~~~i~D~~g~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~p-~ilv~nK~  116 (166)
T 3q72_A           47 EEASLMVYDIWEQDGGRWLPGHCMAMGDAYVIVYSVTDKGSFEKASELRVQLRRARQTDDVP-IILVGNKS  116 (166)
T ss_dssp             EEEEEEEEECC---------------CCEEEEEEETTCHHHHHHHHHHHHHHHHCC---CCC-EEEEEECT
T ss_pred             EEEEEEEEECCCCccchhhhhhhhhhCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCC-EEEEEecc
Confidence            34567899999999987777777889999999999875432 122233344433    3677 88999996

>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=98.10  E-value=5.3e-06  Score=62.43  Aligned_cols=63  Identities=17%  Similarity=0.066  Sum_probs=45.8

Q ss_pred             ceeEeecCCcccccHhHHhhhccccceEEEEEeccCCCCc-chHHHHHHHHH----cCCCeEEEEEeCC
Q psy9646         148 RHYSHTDCPGHADYIKNMITGTSQMDGAILVVAATDGAMP-QTREHLLLAKQ----IGVTNIVVFINKF  211 (211)
Q Consensus       148 ~~~~~iDtPG~~~~~~~~~~~~~~~d~~~~vvd~~~~~~~-~~~~~~~~~~~----~~~~~~i~~inK~  211 (211)
                      ..+.++||||+++|.......+..+|++++|+|+.....- ....++..+..    .++| +++++||+
T Consensus        62 ~~~~l~Dt~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~p-iilv~nK~  129 (206)
T 2bov_A           62 VQIDILDTAGQEDYAAIRDNYFRSGEGFLCVFSITEMESFAATADFREQILRVKEDENVP-FLLVGNKS  129 (206)
T ss_dssp             EEEEEEECCCTTCCHHHHHHHHHHCSEEEEEEETTCHHHHHHHHHHHHHHHHHTTCSCCC-EEEEEECT
T ss_pred             EEEEEEcCCChhhhHHHHHHHHhhCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCC-EEEEEecc
Confidence            4788999999999988888888899999999998654321 12223333333    2677 88999996

>2q3h_A RAS homolog gene family, member U; GTPase, structural genomics, structural genomics consortium,; HET: GDP; 1.73A {Homo sapiens}

Probab=98.09  E-value=3.7e-06  Score=63.27  Aligned_cols=63  Identities=11%  Similarity=0.023  Sum_probs=45.1

Q ss_pred             ceeEeecCCcccccHhHHhhhccccceEEEEEeccCCCCcchH--HHHHHHHHc--CCCeEEEEEeCC
Q psy9646         148 RHYSHTDCPGHADYIKNMITGTSQMDGAILVVAATDGAMPQTR--EHLLLAKQI--GVTNIVVFINKF  211 (211)
Q Consensus       148 ~~~~~iDtPG~~~~~~~~~~~~~~~d~~~~vvd~~~~~~~~~~--~~~~~~~~~--~~~~~i~~inK~  211 (211)
                      ..+.+.||||+++|.......+..+|++++|+|+.....-...  .++..+...  ++| ++++.||+
T Consensus        68 ~~~~i~Dt~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p-~ilv~nK~  134 (201)
T 2q3h_A           68 VRLQLCDTAGQDEFDKLRPLCYTNTDIFLLCFSVVSPSSFQNVSEKWVPEIRCHCPKAP-IILVGTQS  134 (201)
T ss_dssp             EEEEEEECCCSTTCSSSGGGGGTTCSEEEEEEETTCHHHHHHHHHTHHHHHHHHCSSSC-EEEEEECG
T ss_pred             EEEEEEECCCCHHHHHHhHhhcCCCcEEEEEEECCCHHHHHHHHHHHHHHHHHhCCCCC-EEEEEECH
Confidence            3567999999998877666778899999999998754322221  233334432  677 88999995

>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=98.09  E-value=3.3e-06  Score=62.54  Aligned_cols=63  Identities=17%  Similarity=0.075  Sum_probs=42.2

Q ss_pred             ceeEeecCCcccccHhHHhhhccccceEEEEEeccCCCCc-chHHHHHHHHH----cCCCeEEEEEeCC
Q psy9646         148 RHYSHTDCPGHADYIKNMITGTSQMDGAILVVAATDGAMP-QTREHLLLAKQ----IGVTNIVVFINKF  211 (211)
Q Consensus       148 ~~~~~iDtPG~~~~~~~~~~~~~~~d~~~~vvd~~~~~~~-~~~~~~~~~~~----~~~~~~i~~inK~  211 (211)
                      ..+.++||||+++|.......+..+|++++|+|+.....- ....++..+..    .+.| +++++||+
T Consensus        52 ~~~~i~Dt~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~p-~i~v~nK~  119 (189)
T 4dsu_A           52 CLLDILDTAGQEEYSAMRDQYMRTGEGFLCVFAINNTKSFEDIHHYREQIKRVKDSEDVP-MVLVGNKC  119 (189)
T ss_dssp             EEEEEEECCCC---CTTHHHHHHHCSEEEEEEETTCHHHHHHHHHHHHHHHHHTTCSCCC-EEEEEECT
T ss_pred             EEEEEEECCCcHHHHHHHHHHHhcCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCc-EEEEEECc
Confidence            4477899999999887777788899999999998754321 12223333333    3677 88999996

>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=98.08  E-value=4.9e-06  Score=63.46  Aligned_cols=65  Identities=18%  Similarity=0.236  Sum_probs=43.8

Q ss_pred             CCceeEeecCCcccccHhHHhhhccc----cceEEEEEecc---CCCCcchHHHHHHHHH------cCCCeEEEEEeCC
Q psy9646         146 ENRHYSHTDCPGHADYIKNMITGTSQ----MDGAILVVAAT---DGAMPQTREHLLLAKQ------IGVTNIVVFINKF  211 (211)
Q Consensus       146 ~~~~~~~iDtPG~~~~~~~~~~~~~~----~d~~~~vvd~~---~~~~~~~~~~~~~~~~------~~~~~~i~~inK~  211 (211)
                      ....+.++||||++.+.......+..    +|++++|+|+.   +........+.+.+..      .++| +++++||+
T Consensus        53 ~~~~~~l~Dt~G~~~~~~~~~~~~~~~~~~~~~~i~v~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p-~ilv~nK~  130 (218)
T 1nrj_B           53 DGSGVTLVDFPGHVKLRYKLSDYLKTRAKFVKGLIFMVDSTVDPKKLTTTAEFLVDILSITESSCENGID-ILIACNKS  130 (218)
T ss_dssp             GGSSCEEEECCCCGGGTHHHHHHHHHHGGGEEEEEEEEETTSCTTCCHHHHHHHHHHHHHHHHHSTTCCC-EEEEEECT
T ss_pred             eCceEEEEECCCcHHHHHHHHHHHHhccccCCEEEEEEECCCChHHHHHHHHHHHHHHhcccccccCCCC-EEEEEEch
Confidence            45678999999999886655555554    89999999997   2222222233333322      3677 88999996

>2aka_B Dynamin-1; fusion protein, GTPase domain, myosin, contractIle protein; 1.90A {Rattus norvegicus} SCOP: c.37.1.8 PDB: 3l43_A*

Probab=98.08  E-value=9e-06  Score=65.14  Aligned_cols=64  Identities=14%  Similarity=0.108  Sum_probs=47.1

Q ss_pred             CceeEeecCCccc-------------ccHhHHhhhccccceEE-EEEeccCCCCcchH-HHHHHHHHcCCCeEEEEEeCC
Q psy9646         147 NRHYSHTDCPGHA-------------DYIKNMITGTSQMDGAI-LVVAATDGAMPQTR-EHLLLAKQIGVTNIVVFINKF  211 (211)
Q Consensus       147 ~~~~~~iDtPG~~-------------~~~~~~~~~~~~~d~~~-~vvd~~~~~~~~~~-~~~~~~~~~~~~~~i~~inK~  211 (211)
                      ..++.|+||||+.             .+...+...+..+|.++ +|+|+..+...++. .+++.+...+.| +++|+||+
T Consensus       124 ~~~l~lvDtpG~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~il~v~d~~~~~~~~~~~~~~~~~~~~~~~-~i~V~NK~  202 (299)
T 2aka_B          124 VLNLTLVDLPGMTKVPVGDQPPDIEFQIRDMLMQFVTKENCLILAVSPANSDLANSDALKIAKEVDPQGQR-TIGVITKL  202 (299)
T ss_dssp             CCSEEEEECCCBCSSCCSSSCTTHHHHHHHHHHHHHTSTTEEEEEEEESSSCGGGCHHHHHHHHHCTTCSS-EEEEEECG
T ss_pred             CCCceEEeCCCCCCCcCCCCCchHHHHHHHHHHHHHcCCCeEEEEEecCCcchhhhHHHHHHHHhCCCCCe-EEEEEEcc
Confidence            4689999999964             23344556666777665 79999888776664 466777667777 78999995

>1d1n_A Initiation factor 2; beta-barrel, gene regulation; NMR {Geobacillus stearothermophilus} SCOP: b.43.3.1

Probab=98.07  E-value=2.4e-06  Score=56.97  Aligned_cols=81  Identities=14%  Similarity=0.341  Sum_probs=71.0

Q ss_pred             eEEEeeEEeecCCcEEEEEEEEEEEEecCCEEEEeecCc-eeeEEEEEEEecceecceecccCceehhccCCCccccccc
Q psy9646          23 YLPVEHTYSIPGRGTVVTGRLERGIVKKGMECEFTGYGR-QFKTTVTGIEMFHKILDEAQAGDQLGALVKGMKRDEVNRG  101 (211)
Q Consensus        23 ~~~v~~~~~~~~~G~v~~G~v~~G~i~~g~~v~i~p~~~-~~~~~v~~i~~~~~~~~~a~~G~~v~~~l~~~~~~~v~~G  101 (211)
                      +.-|.++|+++..|++...+|.+|.++.+..+.+.-++. -...++.|+..+.+++.++.+|.-+++.+.+.  .|++.|
T Consensus         8 ~AeVr~vF~isk~g~IAGc~V~~G~i~r~~~vRv~Rd~~vI~eG~i~SLkr~KddV~EV~~G~ECGi~l~~~--~dik~G   85 (99)
T 1d1n_A            8 QAEVRQTFKVSKVGTIAGCYVTDGKITRDSKVRLIRQGIVVYEGEIDSLKRYKDDVREVAQGYECGLTIKNF--NDIKEG   85 (99)
T ss_dssp             EEEECCCCCCSSSCCCEEEEECSSBCCSSSEEEEECSSSEEEEEECSEEECSSSCCSCCBTTCEEEEECTTC--SSCSSC
T ss_pred             EEEEEEEEEcCCceEEEEEEEEcCEEEcCCeEEEEECCEEEEEeEEhhhcccccccceECCCcEEEEEEcCc--CCCCCC
Confidence            456788899999999999999999999999999987774 23578999999999999999999999999865  489999


Q ss_pred             cccc
Q psy9646         102 LIMA  105 (211)
Q Consensus       102 ~ii~  105 (211)
                      |++-
T Consensus        86 D~Ie   89 (99)
T 1d1n_A           86 DVIE   89 (99)
T ss_dssp             SEEE
T ss_pred             CEEE
Confidence            9874

>3j25_A Tetracycline resistance protein TETM; antibiotic resistance, translation; HET: GCP; 7.20A {Enterococcus faecalis}

Probab=98.06  E-value=9.5e-08  Score=85.06  Aligned_cols=85  Identities=15%  Similarity=0.040  Sum_probs=70.8

Q ss_pred             hHHHHHhhhCCCCCCCCCCCeeEEEeeEEeecCCcEEEEEEEEEEEEecCCEEEEeecCceeeEEEEEEEecc----eec
Q psy9646           2 ELLNQIDTYIPQPVRDLDKPFYLPVEHTYSIPGRGTVVTGRLERGIVKKGMECEFTGYGRQFKTTVTGIEMFH----KIL   77 (211)
Q Consensus         2 ~ll~~l~~~i~~p~~~~~~p~~~~v~~~~~~~~~G~v~~G~v~~G~i~~g~~v~i~p~~~~~~~~v~~i~~~~----~~~   77 (211)
                      .||+++.+++|.|....+.||.+.|..+...++.|++..+||.+|+++.||+|.+...+   +.++..+....    .++
T Consensus       228 ~LLd~i~~~~p~p~~~~~~~~~~~Vfk~~~d~~~G~la~~RV~sG~l~~g~~v~~~~~~---~~~v~~l~~~~g~~~~~v  304 (638)
T 3j25_A          228 NLIEVITNKFYSSTHRGPSELCGNVFKIEYTKKRQRLAYIRLYSGVLHLRDSVRVSEKE---KIKVTEMYTSINGELCKI  304 (638)
T ss_dssp             HHHHHHHHSCCCSGGGSCCCCCBEEBCCCCCSTTCCCCBCCBSSBCCCSCCCSSSCCCC---CSSBCCCCSSCCCCBSCC
T ss_pred             hHhhhhhccccCcccchhhhhcceeeeeeeeccCceEEEEEEEcCcccCCCccccccCc---ceeEEeeecccccccccc
Confidence            58999999898888888899999999999999999999999999999999999776544   34455554332    578


Q ss_pred             ceecccCceehh
Q psy9646          78 DEAQAGDQLGAL   89 (211)
Q Consensus        78 ~~a~~G~~v~~~   89 (211)
                      ++|.|||++++.
T Consensus       305 ~~a~aGdIv~i~  316 (638)
T 3j25_A          305 DRAYSGEIVILQ  316 (638)
T ss_dssp             CTTBCCCCSCCC
T ss_pred             cccccceEEEEe
Confidence            999999999873

>3zvr_A Dynamin-1; hydrolase, DRP1, DRP, endocytosis, mitochondrial fission, GT stalk, PH, BSE, membrane fission; HET: 1PE; 3.10A {Rattus norvegicus} PDB: 3snh_A

Probab=98.06  E-value=1.1e-05  Score=72.77  Aligned_cols=64  Identities=13%  Similarity=0.054  Sum_probs=49.0

Q ss_pred             CceeEeecCCcccc-------------cHhHHhhhc-cccceEEEEEeccCCCCcchH-HHHHHHHHcCCCeEEEEEeCC
Q psy9646         147 NRHYSHTDCPGHAD-------------YIKNMITGT-SQMDGAILVVAATDGAMPQTR-EHLLLAKQIGVTNIVVFINKF  211 (211)
Q Consensus       147 ~~~~~~iDtPG~~~-------------~~~~~~~~~-~~~d~~~~vvd~~~~~~~~~~-~~~~~~~~~~~~~~i~~inK~  211 (211)
                      ..+++|+||||...             +...+...+ ..+|++++|+|+..++..++. .+++.+...+.| +|+|+||+
T Consensus       149 ~~qL~LVDTPGi~~~~~~~qp~di~~~i~~lv~~yi~~~aDlIL~VVDAs~~~~~~d~l~ll~~L~~~g~p-vIlVlNKi  227 (772)
T 3zvr_A          149 VLNLTLVDLPGMTKVPVGDQPPDIEFQIRDMLMQFVTKENCLILAVSPANSDLANSDALKIAKEVDPQGQR-TIGVITKL  227 (772)
T ss_dssp             CCSEEEEECCCCCCCCSSCCCCHHHHHHHHHHHHHHTSTTEEEEEEEETTSCSSSCHHHHHHHHHCTTCSS-EEEEEECT
T ss_pred             CCceEEEECCCcccCCCCCCcHHHHHHHHHHHHHHHhcCCcEEEEEEcCCCCcchhHHHHHHHHHHhcCCC-EEEEEeCc
Confidence            45899999999654             111222222 578999999999999888887 688888888888 77999996

>2j1l_A RHO-related GTP-binding protein RHOD; GTPase, membrane, prenylation, hydrolase, nucleotide-binding, methylation, lipoprotein, endosome DYNA; HET: GDP; 2.5A {Homo sapiens}

Probab=98.05  E-value=5e-06  Score=63.50  Aligned_cols=63  Identities=17%  Similarity=0.050  Sum_probs=32.8

Q ss_pred             ceeEeecCCcccccHhHHhhhccccceEEEEEeccCCCCcch--HHHHHHHHH--cCCCeEEEEEeCC
Q psy9646         148 RHYSHTDCPGHADYIKNMITGTSQMDGAILVVAATDGAMPQT--REHLLLAKQ--IGVTNIVVFINKF  211 (211)
Q Consensus       148 ~~~~~iDtPG~~~~~~~~~~~~~~~d~~~~vvd~~~~~~~~~--~~~~~~~~~--~~~~~~i~~inK~  211 (211)
                      ..+.+.||||+++|.......+..+|++++|+|+.....-..  ..++..+..  .++| +++|+||+
T Consensus        82 ~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p-iilv~nK~  148 (214)
T 2j1l_A           82 VHLHIWDTAGQDDYDRLRPLFYPDASVLLLCFDVTSPNSFDNIFNRWYPEVNHFCKKVP-IIVVGCKT  148 (214)
T ss_dssp             EEEEEEEC---------------CEEEEEEEEETTCHHHHHHHHHTHHHHHHHHCSSCC-EEEEEECG
T ss_pred             EEEEEEECCCchhhhHHHHHHhccCCEEEEEEECcCHHHHHHHHHHHHHHHHHhCCCCC-EEEEEECh
Confidence            468899999999988777777889999999999875432211  123344433  2677 88999995

>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=98.05  E-value=6.9e-06  Score=61.14  Aligned_cols=63  Identities=17%  Similarity=0.053  Sum_probs=36.9

Q ss_pred             ceeEeecCCcccccHhHHhhhccccceEEEEEeccCCCCcc-hHHHHHHHHH----cCCCeEEEEEeCC
Q psy9646         148 RHYSHTDCPGHADYIKNMITGTSQMDGAILVVAATDGAMPQ-TREHLLLAKQ----IGVTNIVVFINKF  211 (211)
Q Consensus       148 ~~~~~iDtPG~~~~~~~~~~~~~~~d~~~~vvd~~~~~~~~-~~~~~~~~~~----~~~~~~i~~inK~  211 (211)
                      ..+.++||||+.++.......+..+|++++|+|+.....-. ...++..+..    .++| +++++||+
T Consensus        69 ~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~p-~ilv~nK~  136 (190)
T 3con_A           69 CLLDILDTAGQEEYSAMRDQYMRTGEGFLCVFAINNSKSFADINLYREQIKRVKDSDDVP-MVLVGNKC  136 (190)
T ss_dssp             EEEEEEECCC-----------CTTCSEEEEEEETTCHHHHHHHHHHHHHHHHHHTCSCCC-EEEEEECT
T ss_pred             EEEEEEECCChHHHHHHHHHhhCcCCEEEEEEECcCHHHHHHHHHHHHHHHHHhCCCCCe-EEEEEECC
Confidence            45889999999998888888889999999999987653222 2223333333    3677 88999996

>1gwn_A RHO-related GTP-binding protein RHOE; GTPase, inactive GTPase, signal transduction; HET: GTP; 2.1A {Mus musculus} SCOP: c.37.1.8

Probab=98.05  E-value=3.7e-06  Score=63.98  Aligned_cols=64  Identities=9%  Similarity=0.015  Sum_probs=45.8

Q ss_pred             CceeEeecCCcccccHhHHhhhccccceEEEEEeccCCCCcch--HHHHHHHHH--cCCCeEEEEEeCC
Q psy9646         147 NRHYSHTDCPGHADYIKNMITGTSQMDGAILVVAATDGAMPQT--REHLLLAKQ--IGVTNIVVFINKF  211 (211)
Q Consensus       147 ~~~~~~iDtPG~~~~~~~~~~~~~~~d~~~~vvd~~~~~~~~~--~~~~~~~~~--~~~~~~i~~inK~  211 (211)
                      ..++.+.||||+++|.......+..+|++++|+|+.....-..  ..++..+..  .+.| ++++.||+
T Consensus        75 ~~~l~i~Dt~G~~~~~~~~~~~~~~~d~~ilv~D~~~~~s~~~~~~~~~~~i~~~~~~~p-iilv~nK~  142 (205)
T 1gwn_A           75 RIELSLWDTSGSPYYDNVRPLSYPDSDAVLICFDISRPETLDSVLKKWKGEIQEFCPNTK-MLLVGCKS  142 (205)
T ss_dssp             EEEEEEEEECCSGGGTTTGGGGCTTCSEEEEEEETTCHHHHHHHHHTHHHHHHHHCTTCE-EEEEEECG
T ss_pred             EEEEEEEeCCCcHhhhHHHHhhccCCCEEEEEEECCCHHHHHHHHHHHHHHHHHHCCCCC-EEEEEech
Confidence            4578899999999887777777889999999999875432121  223344433  2556 88999995

>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=98.02  E-value=4.9e-06  Score=62.45  Aligned_cols=63  Identities=19%  Similarity=0.115  Sum_probs=43.2

Q ss_pred             CceeEeecCCcccccHhHHhhhccccceEEEEEeccCCCC-cchHHHHHHHHH----cCCCeEEEEEeCC
Q psy9646         147 NRHYSHTDCPGHADYIKNMITGTSQMDGAILVVAATDGAM-PQTREHLLLAKQ----IGVTNIVVFINKF  211 (211)
Q Consensus       147 ~~~~~~iDtPG~~~~~~~~~~~~~~~d~~~~vvd~~~~~~-~~~~~~~~~~~~----~~~~~~i~~inK~  211 (211)
                      ...+.++||||+.+ .......+..+|++++|+|+..... .....++..+..    .++| ++++.||+
T Consensus        75 ~~~~~l~Dt~G~~~-~~~~~~~~~~~d~iilv~D~~~~~s~~~~~~~~~~i~~~~~~~~~p-iilv~NK~  142 (196)
T 2atv_A           75 VVSMEILDTAGQED-TIQREGHMRWGEGFVLVYDITDRGSFEEVLPLKNILDEIKKPKNVT-LILVGNKA  142 (196)
T ss_dssp             EEEEEEEECCCCCC-CHHHHHHHHHCSEEEEEEETTCHHHHHTHHHHHHHHHHHHTTSCCC-EEEEEECG
T ss_pred             EEEEEEEECCCCCc-ccchhhhhccCCEEEEEEECcCHHHHHHHHHHHHHHHHhhCCCCCc-EEEEEECc
Confidence            45688999999988 4455566778999999999875322 122223333332    4677 88999995

>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=98.02  E-value=7.3e-06  Score=59.61  Aligned_cols=64  Identities=17%  Similarity=0.074  Sum_probs=37.5

Q ss_pred             CceeEeecCCcccccHhHHh-hhccccceEEEEEeccCCCC-cchHHHHHHHHHc----CCCeEEEEEeCC
Q psy9646         147 NRHYSHTDCPGHADYIKNMI-TGTSQMDGAILVVAATDGAM-PQTREHLLLAKQI----GVTNIVVFINKF  211 (211)
Q Consensus       147 ~~~~~~iDtPG~~~~~~~~~-~~~~~~d~~~~vvd~~~~~~-~~~~~~~~~~~~~----~~~~~i~~inK~  211 (211)
                      ..++.+.||||++++...+. ..+..+|++++|+|+..... ......+..+...    ++| ++++.||+
T Consensus        50 ~~~~~i~D~~g~~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~p-~ilv~nK~  119 (169)
T 3q85_A           50 EVTLIVYDIWEQGDAGGWLQDHCLQTGDAFLIVFSVTDRRSFSKVPETLLRLRAGRPHHDLP-VILVGNKS  119 (169)
T ss_dssp             EEEEEEECCCCC--------CHHHHHCSEEEEEEETTCHHHHHTHHHHHHHHHHHSTTSCCC-EEEEEECT
T ss_pred             EEEEEEEECCCccccchhhhhhhhccCCEEEEEEECCChHHHHHHHHHHHHHHhcccCCCCC-EEEEeeCc
Confidence            35678999999998765333 33567899999999876322 1222333333332    677 88999996

>1lnz_A SPO0B-associated GTP-binding protein; GTPase, OBG, stringent factor, stress response, sporulation, large G-protein, structural genomics, PSI; HET: G4P; 2.60A {Bacillus subtilis} SCOP: b.117.1.1 c.37.1.8

Probab=98.01  E-value=2.3e-06  Score=70.48  Aligned_cols=101  Identities=9%  Similarity=0.023  Sum_probs=60.4

Q ss_pred             hhhhhhhcccccccccchhhcccceEEeEeEEEeeeCC-ceeEeecCCcccc-------cHhHHhhhccccceEEEEEec
Q psy9646         110 ADKKLAKVKQYADIDNAPEEKARGITINVAHVEYATEN-RHYSHTDCPGHAD-------YIKNMITGTSQMDGAILVVAA  181 (211)
Q Consensus       110 ~~~~~~~f~~~i~~~~~~~e~~rg~tv~~~~~~~~~~~-~~~~~iDtPG~~~-------~~~~~~~~~~~~d~~~~vvd~  181 (211)
                      +..+++++...+.-...........|.......+...+ ..+.+.||||+.+       +....+..+..+|++++|+|+
T Consensus       167 ~nvGKSTLln~L~~~~~~i~~~~ftTl~p~~g~v~~~~~~~~~l~DtPG~i~~a~~~~~l~~~fl~~i~~~d~ll~VvD~  246 (342)
T 1lnz_A          167 PSVGKSTLLSVVSSAKPKIADYHFTTLVPNLGMVETDDGRSFVMADLPGLIEGAHQGVGLGHQFLRHIERTRVIVHVIDM  246 (342)
T ss_dssp             TTSSHHHHHHHSEEECCEESSTTSSCCCCCEEEEECSSSCEEEEEEHHHHHHHTTCTTTTHHHHHHHHHHCCEEEEEEES
T ss_pred             CCCCHHHHHHHHHcCCCccccCCccccCceEEEEEeCCCceEEEecCCCCcccccccchhHHHHHHHHHhccEEEEEEEC
Confidence            44555665544432221112222344444445566554 7899999999643       445566667789999999999


Q ss_pred             cCC----CCcchHHHHHHHHHc-----CCCeEEEEEeCC
Q psy9646         182 TDG----AMPQTREHLLLAKQI-----GVTNIVVFINKF  211 (211)
Q Consensus       182 ~~~----~~~~~~~~~~~~~~~-----~~~~~i~~inK~  211 (211)
                      ...    .......+...+...     +.| +++|+||+
T Consensus       247 s~~~~~~~~~~~~~~~~eL~~~~~~l~~~p-~ilV~NK~  284 (342)
T 1lnz_A          247 SGLEGRDPYDDYLTINQELSEYNLRLTERP-QIIVANKM  284 (342)
T ss_dssp             SCSSCCCHHHHHHHHHHHHHHSCSSTTTSC-BCBEEECT
T ss_pred             CcccccChHHHHHHHHHHHHHhhhhhcCCC-EEEEEECc
Confidence            752    112233455555552     566 77899996

>2gf0_A GTP-binding protein DI-RAS1; GDP/GTP binding, GTP hydrolysis, structural genomics, structural genomics consortium, SGC, transport protein; HET: GDP; 1.90A {Homo sapiens} SCOP: c.37.1.8

Probab=98.00  E-value=6.5e-06  Score=61.60  Aligned_cols=64  Identities=19%  Similarity=0.109  Sum_probs=46.4

Q ss_pred             CceeEeecCCcccccHhHHhhhccccceEEEEEeccCCCC-cchHHHHHHHHH-----cCCCeEEEEEeCC
Q psy9646         147 NRHYSHTDCPGHADYIKNMITGTSQMDGAILVVAATDGAM-PQTREHLLLAKQ-----IGVTNIVVFINKF  211 (211)
Q Consensus       147 ~~~~~~iDtPG~~~~~~~~~~~~~~~d~~~~vvd~~~~~~-~~~~~~~~~~~~-----~~~~~~i~~inK~  211 (211)
                      ...+.++||||+++|.......+..+|++++|+|+..... .....++..+..     .++| +++++||+
T Consensus        55 ~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~~p-iilv~nK~  124 (199)
T 2gf0_A           55 VCTLQITDTTGSHQFPAMQRLSISKGHAFILVFSVTSKQSLEELGPIYKLIVQIKGSVEDIP-VMLVGNKC  124 (199)
T ss_dssp             EEEEEEEECCGGGSCHHHHHHHHHHCSEEEEEEETTCHHHHHTTHHHHHHHHHHHSCGGGSC-EEEEEECT
T ss_pred             EEEEEEEeCCChHHhHHHHHHhhccCCEEEEEEECcCHHHHHHHHHHHHHHHHHhcCCCCCC-EEEEEECc
Confidence            3578899999999998877788889999999999865422 122233333333     2567 88999996

>3th5_A RAS-related C3 botulinum toxin substrate 1; rossmann fold, GTPase, GTP binding, protein binding, signali protein; HET: GNP; 2.30A {Homo sapiens}

Probab=97.24  E-value=8.4e-07  Score=67.17  Aligned_cols=63  Identities=14%  Similarity=0.103  Sum_probs=46.6

Q ss_pred             ceeEeecCCcccccHhHHhhhccccceEEEEEeccCCCCcchH--HHHHHHHHc--CCCeEEEEEeCC
Q psy9646         148 RHYSHTDCPGHADYIKNMITGTSQMDGAILVVAATDGAMPQTR--EHLLLAKQI--GVTNIVVFINKF  211 (211)
Q Consensus       148 ~~~~~iDtPG~~~~~~~~~~~~~~~d~~~~vvd~~~~~~~~~~--~~~~~~~~~--~~~~~i~~inK~  211 (211)
                      ..+.++||||+.+|.......+..+|++++|+|+.....-...  .++..+...  ++| +++++||+
T Consensus        78 ~~l~i~Dt~G~~~~~~~~~~~~~~~d~iilv~D~~~~~s~~~~~~~~~~~l~~~~~~~p-iilv~NK~  144 (204)
T 3th5_A           78 VNLGLWDTAGQEDYDRLRPLSYPQTDVFLICFSLVSPASFENVRAKWYPEVRHHCPNTP-IILVGTKL  144 (204)
Confidence            4566999999999987777888899999999998765433222  344444433  667 78899995

>2wkq_A NPH1-1, RAS-related C3 botulinum toxin substrate 1; transferase, cell adhesion, nucleotide-binding, protein engineering, RAS superfamily LOV2; HET: GTP FMN; 1.60A {Avena sativa} PDB: 2wkr_A* 2wkp_A*

Probab=97.97  E-value=7.1e-06  Score=66.51  Aligned_cols=68  Identities=13%  Similarity=0.104  Sum_probs=48.3

Q ss_pred             eeeCCc--eeEeecCCcccccHhHHhhhccccceEEEEEeccCCCCcchH--HHHHHHHHc--CCCeEEEEEeCC
Q psy9646         143 YATENR--HYSHTDCPGHADYIKNMITGTSQMDGAILVVAATDGAMPQTR--EHLLLAKQI--GVTNIVVFINKF  211 (211)
Q Consensus       143 ~~~~~~--~~~~iDtPG~~~~~~~~~~~~~~~d~~~~vvd~~~~~~~~~~--~~~~~~~~~--~~~~~i~~inK~  211 (211)
                      +...+.  .+.+.||||+++|.......+..+|++++|+|+.....-...  .++..+...  ++| ++++.||+
T Consensus       196 ~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p-~ilv~nK~  269 (332)
T 2wkq_A          196 VMVDGKPVNLGLWDTAGLEDYDRLRPLSYPQTDVFLICFSLVSPASFHHVRAKWYPEVRHHCPNTP-IILVGTKL  269 (332)
T ss_dssp             EEETTEEEEEEEEEECCCGGGTTTGGGGCTTCSEEEEEEETTCHHHHHHHHHTHHHHHHHHCTTSC-EEEEEECH
T ss_pred             EEECCEEEEEEEEeCCCchhhhHHHHHhccCCCEEEEEEeCCCHHHHHHHHHHHHHHHHhhCCCCc-EEEEEEch
Confidence            334444  455999999999988888888999999999998765432221  233444443  677 88999995

>2crv_A IF-2MT, translation initiation factor IF-2; ribosome, beta barrel, structural genomics, NPPSFA; NMR {Mus musculus}

Probab=97.97  E-value=2e-05  Score=54.37  Aligned_cols=83  Identities=13%  Similarity=0.215  Sum_probs=71.8

Q ss_pred             eeEEEeeEEeecCCcE---EEEEEEEEEEEecCCEEEEeecCce-eeEEEEEEEecceecceecccCceehhccCCCcc-
Q psy9646          22 FYLPVEHTYSIPGRGT---VVTGRLERGIVKKGMECEFTGYGRQ-FKTTVTGIEMFHKILDEAQAGDQLGALVKGMKRD-   96 (211)
Q Consensus        22 ~~~~v~~~~~~~~~G~---v~~G~v~~G~i~~g~~v~i~p~~~~-~~~~v~~i~~~~~~~~~a~~G~~v~~~l~~~~~~-   96 (211)
                      =+.-|.++|+++..|+   +...+|..|.++.+..+.+.-++.. ...++.|+..+.+++.++.+|.-+++.+.+  .. 
T Consensus        11 G~AeVr~vF~isk~g~~~~IAGC~V~~G~i~r~~~vRviRdg~vI~eG~i~SLkrfKdDVkEV~~G~ECGi~l~~--fni   88 (120)
T 2crv_A           11 GEASILATFTVTEGKKKIPVADCRVQKGQLERHKKFKLIRNGQVIWKGSLTSLKHHKDDISVIKTGMDCGLSLDE--EKV   88 (120)
T ss_dssp             EEEEEEEEEEEEETTEEEEEEEEEEEESCEETTSCEEEEETTEEEEEECCSEEESSSSCCSEECTTCEEEEECSC--TTS
T ss_pred             EEEEEeEEEEeCCCCceeEEeEEEEEcCEEEcCCeEEEEECCEEEEEeEehhhcccccccceecCCCEEEEEEcc--CCC
Confidence            3577899999998888   9999999999999999999887742 256899999999999999999999999984  45 


Q ss_pred             cccccccccc
Q psy9646          97 EVNRGLIMAK  106 (211)
Q Consensus        97 ~v~~G~ii~~  106 (211)
                      |++.||++-.
T Consensus        89 Dik~GDiIE~   98 (120)
T 2crv_A           89 EFKPGDQVIC   98 (120)
T ss_dssp             CCCTTEEEEE
T ss_pred             CCCCCCEEEE
Confidence            8999998853

>2cxx_A Probable GTP-binding protein ENGB; structural genomics, NPPSFA, national P protein structural and functional analyses; HET: GDP; 1.70A {Pyrococcus horikoshii} SCOP: c.37.1.8

Probab=97.96  E-value=1.1e-05  Score=59.76  Aligned_cols=62  Identities=24%  Similarity=0.439  Sum_probs=41.1

Q ss_pred             eeEeecCCcc-----------cccHhH---Hhhh-ccccceEEEEEeccC-----------CCCcchHHHHHHHHHcCCC
Q psy9646         149 HYSHTDCPGH-----------ADYIKN---MITG-TSQMDGAILVVAATD-----------GAMPQTREHLLLAKQIGVT  202 (211)
Q Consensus       149 ~~~~iDtPG~-----------~~~~~~---~~~~-~~~~d~~~~vvd~~~-----------~~~~~~~~~~~~~~~~~~~  202 (211)
                      .+.++||||+           +.+...   .... ...++++++++|+..           +...++.++...+...++|
T Consensus        45 ~~~l~Dt~G~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~~v~d~~s~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p  124 (190)
T 2cxx_A           45 NHKIIDMPGFGFMMGLPKEVQERIKDEIVHFIEDNAKNIDVAVLVVDGKAAPEIIKRWEKRGEIPIDVEFYQFLRELDIP  124 (190)
T ss_dssp             TEEEEECCCBSCCTTSCHHHHHHHHHHHHHHHHHHGGGCCEEEEEEETTHHHHHHHHHHHTTCCCHHHHHHHHHHHTTCC
T ss_pred             CEEEEECCCccccccCCHHHHHHHHHHHHHHHHhhhccCCEEEEEEcchhhhhHHHhhhccCccHHHHHHHHHHHhcCCc
Confidence            7889999994           333322   2333 566788888888743           2233445566666677888


Q ss_pred             eEEEEEeCC
Q psy9646         203 NIVVFINKF  211 (211)
Q Consensus       203 ~~i~~inK~  211 (211)
                       +++++||+
T Consensus       125 -iilv~nK~  132 (190)
T 2cxx_A          125 -TIVAVNKL  132 (190)
T ss_dssp             -EEEEEECG
T ss_pred             -eEEEeehH
Confidence             88999995

>2j69_A Bacterial dynamin-like protein; FZO, FZL, GTPase, hydrolase; 3.0A {Nostoc punctiforme} PDB: 2j68_A 2w6d_A*

Probab=97.96  E-value=6.4e-06  Score=74.01  Aligned_cols=63  Identities=19%  Similarity=0.261  Sum_probs=49.5

Q ss_pred             ceeEeecCCcccc---cHhHHhhhccccceEEEEEeccCCCCcchHHHHH-HHHHcCCCeEEEEEeCC
Q psy9646         148 RHYSHTDCPGHAD---YIKNMITGTSQMDGAILVVAATDGAMPQTREHLL-LAKQIGVTNIVVFINKF  211 (211)
Q Consensus       148 ~~~~~iDtPG~~~---~~~~~~~~~~~~d~~~~vvd~~~~~~~~~~~~~~-~~~~~~~~~~i~~inK~  211 (211)
                      ..+.++||||+.+   +...+...+..+|++++|+|+..+....+...+. .+...+.| +++|+||+
T Consensus       174 ~~l~LiDTPGl~~~~~~~~~~~~~i~~aD~vL~Vvda~~~~s~~e~~~l~~~l~~~~~~-iiiVlNK~  240 (695)
T 2j69_A          174 KGIEIVDSPGLNDTEARNELSLGYVNNCHAILFVMRASQPCTLGERRYLENYIKGRGLT-VFFLVNAW  240 (695)
T ss_dssp             TTEEEEECCCHHHHHTCHHHHTHHHHSSSEEEEEEETTSTTCHHHHHHHHHHTTTSCCC-EEEEEECG
T ss_pred             CCeEEEECCCCCchhhHHHHHHHHHHhCCEEEEEEeCCCccchhHHHHHHHHHHhhCCC-EEEEEECc
Confidence            4699999999765   4556667778999999999998888776666554 45556777 88999995

>1pui_A ENGB, probable GTP-binding protein ENGB; structural genomics, nysgxrc T16, GTPase, PSI, protein structure initiative; 2.00A {Escherichia coli} SCOP: c.37.1.8

Probab=97.86  E-value=5e-05  Score=57.37  Aligned_cols=110  Identities=12%  Similarity=0.179  Sum_probs=62.7

Q ss_pred             ccccccccccchhhhhhhhccccccccc--chhhcccceEEeEeEEEeeeCCceeEeecCCcccc----------c---H
Q psy9646          98 VNRGLIMAKPVLADKKLAKVKQYADIDN--APEEKARGITINVAHVEYATENRHYSHTDCPGHAD----------Y---I  162 (211)
Q Consensus        98 v~~G~ii~~~~~~~~~~~~f~~~i~~~~--~~~e~~rg~tv~~~~~~~~~~~~~~~~iDtPG~~~----------~---~  162 (211)
                      +.+|..++--+.+..|++++...+.-..  .......|.+.....  +...+ ++.++||||+..          +   +
T Consensus        23 ~~~~~~v~lvG~~g~GKSTLl~~l~g~~~~~~~~~~~G~~~~~~~--~~~~~-~~~l~Dt~G~~~~~~~~~~~~~~~~~~   99 (210)
T 1pui_A           23 SDTGIEVAFAGRSNAGKSSALNTLTNQKSLARTSKTPGRTQLINL--FEVAD-GKRLVDLPGYGYAEVPEEMKRKWQRAL   99 (210)
T ss_dssp             CSCSEEEEEEECTTSSHHHHHTTTCCC-------------CCEEE--EEEET-TEEEEECCCCC------CCHHHHHHHH
T ss_pred             CCCCcEEEEECCCCCCHHHHHHHHhCCCccccccCCCccceeeEE--EEecC-CEEEEECcCCcccccCHHHHHHHHHHH
Confidence            4555555544555566666655443221  111222333332222  22233 678999999842          1   2


Q ss_pred             hHHhhhccccceEEEEEeccCCCCcchHHHHHHHHHcCCCeEEEEEeCC
Q psy9646         163 KNMITGTSQMDGAILVVAATDGAMPQTREHLLLAKQIGVTNIVVFINKF  211 (211)
Q Consensus       163 ~~~~~~~~~~d~~~~vvd~~~~~~~~~~~~~~~~~~~~~~~~i~~inK~  211 (211)
                      .........+|++++++|+..+....+.++.+++...++| ++++.||+
T Consensus       100 ~~~~~~~~~~~~~~~v~d~~~~~~~~~~~~~~~~~~~~~~-~~~v~nK~  147 (210)
T 1pui_A          100 GEYLEKRQSLQGLVVLMDIRHPLKDLDQQMIEWAVDSNIA-VLVLLTKA  147 (210)
T ss_dssp             HHHHHHCTTEEEEEEEEETTSCCCHHHHHHHHHHHHTTCC-EEEEEECG
T ss_pred             HHHHHhhhcccEEEEEEECCCCCchhHHHHHHHHHHcCCC-eEEEEecc
Confidence            2333444678999999999887766566677777778888 66789995

>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=97.86  E-value=1.3e-05  Score=59.74  Aligned_cols=58  Identities=17%  Similarity=0.056  Sum_probs=40.9

Q ss_pred             ceeEeecCCcccccHhHHhhhccccceEEEEEeccCCCCcch-HHHHHHHHH----cCCCeEEEEEeCC
Q psy9646         148 RHYSHTDCPGHADYIKNMITGTSQMDGAILVVAATDGAMPQT-REHLLLAKQ----IGVTNIVVFINKF  211 (211)
Q Consensus       148 ~~~~~iDtPG~~~~~~~~~~~~~~~d~~~~vvd~~~~~~~~~-~~~~~~~~~----~~~~~~i~~inK~  211 (211)
                      ..+.+.||||++.|.     .+..+|++++|+|+.+...-+. ..++..+..    .++| ++++.||+
T Consensus        67 ~~l~i~Dt~G~~~~~-----~~~~~~~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~p-iilv~nK~  129 (184)
T 3ihw_A           67 YLLLIRDEGGPPELQ-----FAAWVDAVVFVFSLEDEISFQTVYNYFLRLCSFRNASEVP-MVLVGTQD  129 (184)
T ss_dssp             EEEEEEECSSSCCHH-----HHHHCSEEEEEEETTCHHHHHHHHHHHHHHHTTSCGGGSC-EEEEEECT
T ss_pred             EEEEEEECCCChhhh-----eecCCCEEEEEEECcCHHHHHHHHHHHHHHHHhcCCCCCC-EEEEEECc
Confidence            456779999998876     4567899999999876543222 334444444    3567 88999995

>3t34_A Dynamin-related protein 1A, linker, dynamin-relat 1A; dynamin-like protein 1A, GTPase, membrane fission, motor Pro; HET: GDP; 2.40A {Arabidopsis thaliana} PDB: 3t35_A*

Probab=97.83  E-value=2.7e-05  Score=64.45  Aligned_cols=65  Identities=11%  Similarity=0.074  Sum_probs=45.5

Q ss_pred             CCceeEeecCCccccc-------------HhHHhhhccccceEEEEEeccC-CCC-cchHHHHHHHHHcCCCeEEEEEeC
Q psy9646         146 ENRHYSHTDCPGHADY-------------IKNMITGTSQMDGAILVVAATD-GAM-PQTREHLLLAKQIGVTNIVVFINK  210 (211)
Q Consensus       146 ~~~~~~~iDtPG~~~~-------------~~~~~~~~~~~d~~~~vvd~~~-~~~-~~~~~~~~~~~~~~~~~~i~~inK  210 (211)
                      ....+.++||||..++             ...+...+..+|++++++|+.. ... .....+++.+...+.| +|+|+||
T Consensus       134 ~~~~l~lvDtPG~~~~~~~~q~~~~~~~~~~~~~~~i~~~d~iilvv~~~~~~~~~~~~~~l~~~~~~~~~~-~i~V~nK  212 (360)
T 3t34_A          134 NVVNLTLIDLPGLTKVAVDGQSDSIVKDIENMVRSYIEKPNCIILAISPANQDLATSDAIKISREVDPSGDR-TFGVLTK  212 (360)
T ss_dssp             TSCSEEEEECCCBCSSCCTTCCSSHHHHHHHHHHHHHHSSSEEEEEEEETTSCGGGCHHHHHHHHSCTTCTT-EEEEEEC
T ss_pred             CCCCeEEEECCCCCcCCcCCCchhHHHHHHHHHHHHhhcCCeEEEEeecccCCcCCHHHHHHHHHhcccCCC-EEEEEeC
Confidence            3457999999998776             4556677789999999998643 222 2224444555455777 7799999


Q ss_pred             C
Q psy9646         211 F  211 (211)
Q Consensus       211 ~  211 (211)
                      +
T Consensus       213 ~  213 (360)
T 3t34_A          213 I  213 (360)
T ss_dssp             G
T ss_pred             C
Confidence            5

>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=97.79  E-value=4e-05  Score=63.63  Aligned_cols=101  Identities=15%  Similarity=0.131  Sum_probs=56.0

Q ss_pred             hhhhhhhcccccccccchhhcccceEEeEeEEEeeeCCceeEeecCCccc-----cc---HhHHhhhccccceEEEEEec
Q psy9646         110 ADKKLAKVKQYADIDNAPEEKARGITINVAHVEYATENRHYSHTDCPGHA-----DY---IKNMITGTSQMDGAILVVAA  181 (211)
Q Consensus       110 ~~~~~~~f~~~i~~~~~~~e~~rg~tv~~~~~~~~~~~~~~~~iDtPG~~-----~~---~~~~~~~~~~~d~~~~vvd~  181 (211)
                      +..|++++...+.-.....+...+.|.+.....+..++..+.++||||+.     ++   .+.+...+..+|++++|+|+
T Consensus       188 ~naGKSTLln~L~~~~~~~~~~~~~T~d~~~~~i~~~g~~v~l~DT~G~i~~lp~~lve~f~~tl~~~~~aD~il~VvD~  267 (364)
T 2qtf_A          188 TNSGKTSLFNSLTGLTQKVDTKLFTTMSPKRYAIPINNRKIMLVDTVGFIRGIPPQIVDAFFVTLSEAKYSDALILVIDS  267 (364)
T ss_dssp             TTSSHHHHHHHHHCC-----------CCSCEEEEEETTEEEEEEECCCBCSSCCGGGHHHHHHHHHGGGGSSEEEEEEET
T ss_pred             CCCCHHHHHHHHHCCCccccCCcccccCCEEEEEEECCEEEEEEeCCCchhcCCHHHHHHHHHHHHHHHhCCEEEEEEEC
Confidence            44455555443322222222223445445555666677889999999972     22   24455678899999999998


Q ss_pred             cCCC--C-cchHHHHHHHHH---cCCCeEEEEEeCC
Q psy9646         182 TDGA--M-PQTREHLLLAKQ---IGVTNIVVFINKF  211 (211)
Q Consensus       182 ~~~~--~-~~~~~~~~~~~~---~~~~~~i~~inK~  211 (211)
                      ....  . .+...+.+.+..   .+.| +|+|.||+
T Consensus       268 s~~~~~~~~~~~~~~~~L~~l~~~~~p-~ilV~NK~  302 (364)
T 2qtf_A          268 TFSENLLIETLQSSFEILREIGVSGKP-ILVTLNKI  302 (364)
T ss_dssp             TSCHHHHHHHHHHHHHHHHHHTCCSCC-EEEEEECG
T ss_pred             CCCcchHHHHHHHHHHHHHHhCcCCCC-EEEEEECC
Confidence            7653  1 122223344444   3566 78999995

>3c5c_A RAS-like protein 12; GDP, GTPase, structural genomics consortium, SGC, limited proteolysis, GTP-binding, nucleotide-binding, signaling protein; HET: GDP; 1.85A {Homo sapiens}

Probab=97.78  E-value=2e-05  Score=58.76  Aligned_cols=63  Identities=11%  Similarity=0.015  Sum_probs=40.2

Q ss_pred             CceeEeecCCcccccHhHHhhhccccceEEEEEeccCCCC-cchHHHHHHHHH------cCCCeEEEEEeCC
Q psy9646         147 NRHYSHTDCPGHADYIKNMITGTSQMDGAILVVAATDGAM-PQTREHLLLAKQ------IGVTNIVVFINKF  211 (211)
Q Consensus       147 ~~~~~~iDtPG~~~~~~~~~~~~~~~d~~~~vvd~~~~~~-~~~~~~~~~~~~------~~~~~~i~~inK~  211 (211)
                      ...+.+.||||++.|.. +...+..+|++++|+|...... .....++..+..      .++| ++++.||+
T Consensus        68 ~~~l~i~Dt~G~~~~~~-~~~~~~~~~~~ilv~d~~~~~s~~~~~~~~~~i~~~~~~~~~~~p-iilv~nK~  137 (187)
T 3c5c_A           68 PVHLRVMDTADLDTPRN-CERYLNWAHAFLVVYSVDSRQSFDSSSSYLELLALHAKETQRSIP-ALLLGNKL  137 (187)
T ss_dssp             EEEEEEEECCC---CCC-THHHHTTCSEEEEEEETTCHHHHHHHHHHHHHHHHHHHHHCCCCC-EEEEEECG
T ss_pred             EEEEEEEECCCCCcchh-HHHHHhhCCEEEEEEECCCHHHHHHHHHHHHHHHHHhhccCCCCC-EEEEEECc
Confidence            35678899999987754 3456778999999999875422 112223333333      3677 88999995

>1wxq_A GTP-binding protein; structural genomics, riken structural genomics/proteomics initiative, RSGI, NPPSFA; 2.60A {Pyrococcus horikoshii} SCOP: c.37.1.8 d.15.10.2

Probab=97.77  E-value=2.2e-05  Score=65.94  Aligned_cols=37  Identities=19%  Similarity=0.128  Sum_probs=24.9

Q ss_pred             ceeEeecCCcccc-------cHhHHhhhccccceEEEEEeccCC
Q psy9646         148 RHYSHTDCPGHAD-------YIKNMITGTSQMDGAILVVAATDG  184 (211)
Q Consensus       148 ~~~~~iDtPG~~~-------~~~~~~~~~~~~d~~~~vvd~~~~  184 (211)
                      .++.|+||||+.+       +..+.+..+..+|++++|+|+.++
T Consensus        71 ~~i~lvDtpG~~~~a~~~~~l~~~~l~~i~~aD~il~VvD~~~~  114 (397)
T 1wxq_A           71 IPVKMVDVAGLVPGAHEGRGLGNKFLDDLRMASALIHVVDATGK  114 (397)
T ss_dssp             EEEEEEECC---------------CCCSSTTCSEEEEEEETTCC
T ss_pred             EEEEEEECCCcccchhhhhhHHHHHHHHHhcCCEEEEEEecccc
Confidence            4799999999854       223445677899999999999775

>2ged_A SR-beta, signal recognition particle receptor beta subunit; protein transport, G protein, proline isomerization, circular permutation; 2.20A {Saccharomyces cerevisiae}

Probab=97.73  E-value=1.8e-05  Score=58.94  Aligned_cols=65  Identities=23%  Similarity=0.275  Sum_probs=40.8

Q ss_pred             CCceeEeecCCcccccHhHHhhhc----cccceEEEEEeccCCCCc--chHHHH-HHHHH------cCCCeEEEEEeCC
Q psy9646         146 ENRHYSHTDCPGHADYIKNMITGT----SQMDGAILVVAATDGAMP--QTREHL-LLAKQ------IGVTNIVVFINKF  211 (211)
Q Consensus       146 ~~~~~~~iDtPG~~~~~~~~~~~~----~~~d~~~~vvd~~~~~~~--~~~~~~-~~~~~------~~~~~~i~~inK~  211 (211)
                      ....+.++||||+..+.......+    ..+|++++|+|+......  .....+ ..+..      .+.| +++++||+
T Consensus        89 ~~~~~~l~Dt~G~~~~~~~~~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p-~ilv~nK~  166 (193)
T 2ged_A           89 DGSGVTLVDFPGHVKLRYKLSDYLKTRAKFVKGLIFMVDSTVDPKKLTTTAEFLVDILSITESSCENGID-ILIACNKS  166 (193)
T ss_dssp             CCTTCSEEEETTCCBSSCCHHHHHHHHGGGEEEEEEEEETTCCHHHHHHHHHHHHHHHHHHHHHSTTCCC-EEEEEECT
T ss_pred             cCCeEEEEECCCCchHHHHHHHHHHhhcccCCEEEEEEECCCCchhHHHHHHHHHHHHhhhhhccccCCC-EEEEEEch
Confidence            566889999999987754433333    448999999998622111  111222 22211      3677 88999996

>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=97.71  E-value=3.6e-05  Score=56.48  Aligned_cols=58  Identities=14%  Similarity=0.021  Sum_probs=38.1

Q ss_pred             ceeEeecCCcccccHhHHhhhccccceEEEEEeccCCCCcch-HHHHHHHHH------cCCCeEEEEEeCC
Q psy9646         148 RHYSHTDCPGHADYIKNMITGTSQMDGAILVVAATDGAMPQT-REHLLLAKQ------IGVTNIVVFINKF  211 (211)
Q Consensus       148 ~~~~~iDtPG~~~~~~~~~~~~~~~d~~~~vvd~~~~~~~~~-~~~~~~~~~------~~~~~~i~~inK~  211 (211)
                      .++.+.||||++.+     ..+..+|++++|+|+.....-.. ..+++.+..      .++| ++++.||+
T Consensus        54 ~~l~i~Dt~G~~~~-----~~~~~~d~~ilv~D~~~~~s~~~~~~~~~~i~~~~~~~~~~~p-iilv~nK~  118 (178)
T 2iwr_A           54 HLVLIREEAGAPDA-----KFSGWADAVIFVFSLEDENSFQAVSRLHGQLSSLRGEGRGGLA-LALVGTQD  118 (178)
T ss_dssp             EEEEEEECSSSCCH-----HHHHHCSEEEEEEETTCHHHHHHHHHHHHHHHHHHCSSSCCCE-EEEEEECT
T ss_pred             EEEEEEECCCCchh-----HHHHhCCEEEEEEECcCHHHHHHHHHHHHHHHHHHhcCCCCCC-EEEEEECc
Confidence            46788999999872     34567999999999875432222 222222322      2566 88999995

>2x2e_A Dynamin-1; nitration, hydrolase, membrane fission, nucleotide-binding, endocytosis, motor protein; HET: GDP; 2.00A {Homo sapiens} PDB: 2x2f_A* 3zyc_A* 3zys_A

Probab=97.70  E-value=9.6e-05  Score=60.94  Aligned_cols=64  Identities=14%  Similarity=0.097  Sum_probs=43.7

Q ss_pred             CceeEeecCCcccc------------cHhH-Hhhhc-cccceEEEEEeccCCCCcchHH-HHHHHHHcCCCeEEEEEeCC
Q psy9646         147 NRHYSHTDCPGHAD------------YIKN-MITGT-SQMDGAILVVAATDGAMPQTRE-HLLLAKQIGVTNIVVFINKF  211 (211)
Q Consensus       147 ~~~~~~iDtPG~~~------------~~~~-~~~~~-~~~d~~~~vvd~~~~~~~~~~~-~~~~~~~~~~~~~i~~inK~  211 (211)
                      ..++.|+||||...            .... +..-+ ...+++++++|+..++..++.. +++.+...+.| +++|+||+
T Consensus       129 ~~~l~lvDTPG~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiL~v~~a~~~~~~~~~~~i~~~~~~~~~~-~i~V~NK~  207 (353)
T 2x2e_A          129 VLNLTLVDLPGMTKVPVGDQPPDIEFQIRDMLMQFVTKENCLILAVSPANSDLANSDALKVAKEVDPQGQR-TIGVITKL  207 (353)
T ss_dssp             CCSEEEEECCCBCSSCCTTCCTTHHHHHHHHHHHHHTSTTEEEEEEEETTSCGGGCHHHHHHHHHCTTCTT-EEEEEECG
T ss_pred             CCCcEEEECCCCCCCccCCCchhHHHHHHHHHHHHHcCCCeEEEEEecCCCccchhHHHHHHHHhCcCCCc-eEEEeccc
Confidence            46899999999643            2222 22333 3456777788888777666653 66766667888 77999995

>2e87_A Hypothetical protein PH1320; GTP-binding, GTPase, OBG, bundle, GDP, complex, structural G NPPSFA; HET: GDP; 2.35A {Pyrococcus horikoshii}

Probab=97.70  E-value=0.00011  Score=60.74  Aligned_cols=77  Identities=17%  Similarity=0.166  Sum_probs=47.9

Q ss_pred             eEEeEeEEEeeeCCceeEeecCCccccc--------HhHHhhhcc-ccceEEEEEeccCCC--Ccch-HHHHHHHHH-c-
Q psy9646         134 ITINVAHVEYATENRHYSHTDCPGHADY--------IKNMITGTS-QMDGAILVVAATDGA--MPQT-REHLLLAKQ-I-  199 (211)
Q Consensus       134 ~tv~~~~~~~~~~~~~~~~iDtPG~~~~--------~~~~~~~~~-~~d~~~~vvd~~~~~--~~~~-~~~~~~~~~-~-  199 (211)
                      .|.......+...+..+.++||||+.++        ......++. .+|++++|+|+....  .... ..++..+.. . 
T Consensus       200 ~t~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~~~~~~~~~ad~illV~D~s~~~~~~~~~~~~~~~~i~~~~~  279 (357)
T 2e87_A          200 TTRGINVGQFEDGYFRYQIIDTPGLLDRPISERNEIEKQAILALRYLGNLIIYIFDPSEHCGFPLEEQIHLFEEVHGEFK  279 (357)
T ss_dssp             CSSCEEEEEEEETTEEEEEEECTTTSSSCSTTSCHHHHHHHHGGGGTCSEEEEEECTTCTTSSCHHHHHHHHHHHHHHTT
T ss_pred             eeeceeEEEEEecCceEEEEeCCCccccchhhhhHHHHHHHHHHHhcCCEEEEEEeCCccccCCHHHHHHHHHHHHHhcC
Confidence            3444444455556778999999997543        123333443 589999999986543  2222 334444433 2 


Q ss_pred             CCCeEEEEEeCC
Q psy9646         200 GVTNIVVFINKF  211 (211)
Q Consensus       200 ~~~~~i~~inK~  211 (211)
                      +.| +|++.||+
T Consensus       280 ~~p-iilV~NK~  290 (357)
T 2e87_A          280 DLP-FLVVINKI  290 (357)
T ss_dssp             TSC-EEEEECCT
T ss_pred             CCC-EEEEEECc
Confidence            677 88999996

>3cbq_A GTP-binding protein REM 2; FLJ38964A, structural genomics consortium, SGC, GDP, membrane, nucleotide-binding, nucleotide binding protein; HET: GDP; 1.82A {Homo sapiens}

Probab=97.66  E-value=0.0001  Score=55.37  Aligned_cols=63  Identities=17%  Similarity=0.077  Sum_probs=41.2

Q ss_pred             ceeEeecCCcccccHhHH-hhhccccceEEEEEeccCCCC-cchHHHHHHHHH----cCCCeEEEEEeCC
Q psy9646         148 RHYSHTDCPGHADYIKNM-ITGTSQMDGAILVVAATDGAM-PQTREHLLLAKQ----IGVTNIVVFINKF  211 (211)
Q Consensus       148 ~~~~~iDtPG~~~~~~~~-~~~~~~~d~~~~vvd~~~~~~-~~~~~~~~~~~~----~~~~~~i~~inK~  211 (211)
                      .++.+.||||+.++...+ ...+..+|++++|+|...... .....++..+..    .++| ++++.||+
T Consensus        72 ~~l~i~Dt~g~~~~~~~~~~~~~~~~d~~ilv~d~~~~~s~~~~~~~~~~i~~~~~~~~~p-iilv~nK~  140 (195)
T 3cbq_A           72 VTLVVYDIWEQGDAGGWLRDHCLQTGDAFLIVFSVTDRRSFSKVPETLLRLRAGRPHHDLP-VILVGNKS  140 (195)
T ss_dssp             EEEEEECCCCCSGGGHHHHHHHHHHCSEEEEEEETTCHHHHHTHHHHHHHHHHHSTTSCCC-EEEEEECT
T ss_pred             EEEEEEecCCCccchhhhHHHhhccCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCC-EEEEeech
Confidence            456788999998765433 334567999999999865322 122333333433    3677 88999996

>4a9a_A Ribosome-interacting GTPase 1; DRG-DFRP complex, ribosome binding GTPase; 2.67A {Saccharomyces cerevisiae}

Probab=97.65  E-value=5.2e-05  Score=63.13  Aligned_cols=101  Identities=9%  Similarity=-0.013  Sum_probs=65.7

Q ss_pred             hhhhhhhhcccccccccchhhcccceEEeEeEEEeeeCCceeEeecCCcccc-------cHhHHhhhccccceEEEEEec
Q psy9646         109 LADKKLAKVKQYADIDNAPEEKARGITINVAHVEYATENRHYSHTDCPGHAD-------YIKNMITGTSQMDGAILVVAA  181 (211)
Q Consensus       109 ~~~~~~~~f~~~i~~~~~~~e~~rg~tv~~~~~~~~~~~~~~~~iDtPG~~~-------~~~~~~~~~~~~d~~~~vvd~  181 (211)
                      .|..|++++...+.-.........+.|++...+.+..++.++.|+||||..+       +..+++..++.+|++++|+|+
T Consensus        80 ~PNvGKSTL~n~Lt~~~~~v~~~pftT~~~~~g~~~~~~~~i~l~D~pGl~~~a~~~~~~g~~~l~~i~~ad~il~vvD~  159 (376)
T 4a9a_A           80 FPSVGKSTLLSKLTGTESEAAEYEFTTLVTVPGVIRYKGAKIQMLDLPGIIDGAKDGRGRGKQVIAVARTCNLLFIILDV  159 (376)
T ss_dssp             CCCHHHHHHHHHHHSBCCCGGGTCSSCCCEEEEEEEETTEEEEEEECGGGCCC-----CHHHHHHHHHHHCSEEEEEEET
T ss_pred             CCCCCHHHHHHHHhCCCCcccCCCCceeeeeeEEEEeCCcEEEEEeCCCccCCchhhhHHHHHHHHHHHhcCcccccccc
Confidence            3455666655444322333344456777777788888999999999999643       456678888999999999999


Q ss_pred             cCCCCcchHHHHHHHHHc-----CCCeEEEEEeCC
Q psy9646         182 TDGAMPQTREHLLLAKQI-----GVTNIVVFINKF  211 (211)
Q Consensus       182 ~~~~~~~~~~~~~~~~~~-----~~~~~i~~inK~  211 (211)
                      .+.+. +.+.+...+...     ..| .++++||+
T Consensus       160 ~~p~~-~~~~i~~EL~~~~~~l~~k~-~~i~~nK~  192 (376)
T 4a9a_A          160 NKPLH-HKQIIEKELEGVGIRLNKTP-PDILIKKK  192 (376)
T ss_dssp             TSHHH-HHHHHHHHHHHTTEEETCCC-CCEEEEEC
T ss_pred             CccHH-HHHHHHHHHHHhhHhhccCC-hhhhhhHh
Confidence            75432 222233334332     335 45788985

>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=97.62  E-value=9.9e-05  Score=57.81  Aligned_cols=62  Identities=18%  Similarity=0.266  Sum_probs=41.9

Q ss_pred             ceeEeecCCcccccH------hHHhhhccccceEEEEEeccCCCCcchHH-H----HHHHHHcCCCeEEEEEeCC
Q psy9646         148 RHYSHTDCPGHADYI------KNMITGTSQMDGAILVVAATDGAMPQTRE-H----LLLAKQIGVTNIVVFINKF  211 (211)
Q Consensus       148 ~~~~~iDtPG~~~~~------~~~~~~~~~~d~~~~vvd~~~~~~~~~~~-~----~~~~~~~~~~~~i~~inK~  211 (211)
                      +.++++||||..++.      ..+...+.+ +++++++|+.......+.. .    .......+.| +++++||+
T Consensus       109 ~d~iiiDtpG~~~~~~~~~l~~~~~~~~~~-~~iv~vvD~~~~~~~~~~~~~~~~~~~~~~~~~~p-~~iv~NK~  181 (262)
T 1yrb_A          109 NDYVLIDTPGQMETFLFHEFGVRLMENLPY-PLVVYISDPEILKKPNDYCFVRFFALLIDLRLGAT-TIPALNKV  181 (262)
T ss_dssp             CSEEEEECCSSHHHHHHSHHHHHHHHTSSS-CEEEEEECGGGCCSHHHHHHHHHHHHHHHHHHTSC-EEEEECCG
T ss_pred             CCEEEEeCCCccchhhhhhhHHHHHHHHhh-ceEEeccchhhhcCHHHHHHHHHHHHHHhcccCCC-eEEEEecc
Confidence            578999999987653      234456677 8999999997665544322 1    1223345778 77899995

>3dpu_A RAB family protein; roccor, G-domain, COR, GTP-binding, nucleotide-binding, SIGN protein; 2.90A {Chlorobaculum tepidum}

Probab=97.60  E-value=7.4e-05  Score=65.05  Aligned_cols=62  Identities=13%  Similarity=0.131  Sum_probs=48.9

Q ss_pred             CceeEeecCCcccccHhHHhhhccccceEEEEEeccCCCCcchHHHHHHHHHcC--CCeEEEEEeCC
Q psy9646         147 NRHYSHTDCPGHADYIKNMITGTSQMDGAILVVAATDGAMPQTREHLLLAKQIG--VTNIVVFINKF  211 (211)
Q Consensus       147 ~~~~~~iDtPG~~~~~~~~~~~~~~~d~~~~vvd~~~~~~~~~~~~~~~~~~~~--~~~~i~~inK~  211 (211)
                      +..+.+.||||++.|.......+..+|++++|+|+...  .....++..+...+  .| +|+|.||+
T Consensus        97 ~~~~~i~Dt~G~e~~~~~~~~~l~~~d~ii~V~D~s~~--~~~~~~~~~l~~~~~~~p-vilV~NK~  160 (535)
T 3dpu_A           97 ECLFHFWDFGGQEIMHASHQFFMTRSSVYMLLLDSRTD--SNKHYWLRHIEKYGGKSP-VIVVMNKI  160 (535)
T ss_dssp             TCEEEEECCCSCCTTTTTCHHHHHSSEEEEEEECGGGG--GGHHHHHHHHHHHSSSCC-EEEEECCT
T ss_pred             eEEEEEEECCcHHHHHHHHHHHccCCcEEEEEEeCCCc--hhHHHHHHHHHHhCCCCC-EEEEEECC
Confidence            46799999999988876666667789999999999764  44555666776654  77 78999996

>1cip_A Protein (guanine nucleotide-binding protein alpha-1 subunit); GTPase, hydrolase; HET: GNP; 1.50A {Rattus norvegicus} SCOP: a.66.1.1 c.37.1.8 PDB: 1agr_A* 1bof_A* 1gdd_A* 1gfi_A* 1gia_A* 1gp2_A* 3ffa_A* 3ffb_A* 1gg2_A* 1git_A* 1svs_A* 1svk_A* 2zjz_A* 2zjy_A* 3ums_A* 2pz2_A* 2pz3_A* 1as0_A* 1as2_A* 1as3_A* ...

Probab=97.51  E-value=0.00016  Score=59.76  Aligned_cols=76  Identities=20%  Similarity=0.266  Sum_probs=54.3

Q ss_pred             EEeEeEEEeeeCCceeEeecCCcccccHhHHhhhccccceEEEEEeccCCC-----------CcchHHHHHHHHH----c
Q psy9646         135 TINVAHVEYATENRHYSHTDCPGHADYIKNMITGTSQMDGAILVVAATDGA-----------MPQTREHLLLAKQ----I  199 (211)
Q Consensus       135 tv~~~~~~~~~~~~~~~~iDtPG~~~~~~~~~~~~~~~d~~~~vvd~~~~~-----------~~~~~~~~~~~~~----~  199 (211)
                      |+.+....+..++..+.+.||+|++.|-+....-..+++++|||+|..+.-           +.....+++....    .
T Consensus       180 T~Gi~~~~~~~~~~~l~iwDt~GQe~~r~~w~~yf~~a~~iIfV~dls~~d~~l~ed~~~nr~~e~~~~~~~i~~~~~~~  259 (353)
T 1cip_A          180 TTGIVETHFTFKDLHFKMFDVGGQRSERKKWIHCFEGVTAIIFCVALSDYDLVLAEDEEMNRMHESMKLFDSICNNKWFT  259 (353)
T ss_dssp             CCSEEEEEEEETTEEEEEEEECCSGGGGGGGGGGCTTCSEEEEEEEGGGGGCEETTEEEEEHHHHHHHHHHHHHTCGGGT
T ss_pred             eeceEEEEEeeCCeeEEEEeCCCchhhhHHHHHHHhcCCEEEEEEECccccccccccchhhhHHHHHHHHHHHHcCcccc
Confidence            444445566677888999999999999888788889999999999987631           1222333443333    3


Q ss_pred             CCCeEEEEEeCC
Q psy9646         200 GVTNIVVFINKF  211 (211)
Q Consensus       200 ~~~~~i~~inK~  211 (211)
                      ++| +|++.||+
T Consensus       260 ~~p-iiLv~NK~  270 (353)
T 1cip_A          260 DTS-IILFLNKK  270 (353)
T ss_dssp             TSE-EEEEEECH
T ss_pred             CCc-EEEEEECc
Confidence            566 88999994

>2zej_A Dardarin, leucine-rich repeat kinase 2; parkinson'S disease, LRRK2, ROC, GTPase, ROCO, ATP-B disease mutation, GTP-binding, GTPase activation; HET: GDP; 2.00A {Homo sapiens} PDB: 3d6t_B*

Probab=97.49  E-value=6.9e-05  Score=55.57  Aligned_cols=65  Identities=11%  Similarity=0.095  Sum_probs=42.5

Q ss_pred             CCceeEeecCCcccccHhHHhhhccccceEEEEEeccCCCC--cchHHHHHHHHH--cCCCeEEEEEeCC
Q psy9646         146 ENRHYSHTDCPGHADYIKNMITGTSQMDGAILVVAATDGAM--PQTREHLLLAKQ--IGVTNIVVFINKF  211 (211)
Q Consensus       146 ~~~~~~~iDtPG~~~~~~~~~~~~~~~d~~~~vvd~~~~~~--~~~~~~~~~~~~--~~~~~~i~~inK~  211 (211)
                      ....+.+.||||+++|......-+..+|++++|.|...+..  .....++..+..  .+.| ++++.||+
T Consensus        54 ~~~~~~i~Dt~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~~s~~~~~~~~~~~~~~~~~~p-iilv~nK~  122 (184)
T 2zej_A           54 RDLVLNVWDFAGREEFYSTHPHFMTQRALYLAVYDLSKGQAEVDAMKPWLFNIKARASSSP-VILVGTHL  122 (184)
T ss_dssp             --CEEEEEEECSHHHHHTTSHHHHHHSEEEEEEEEGGGCHHHHHTHHHHHHHHHHHCTTCE-EEEEEECG
T ss_pred             CceEEEEEecCCCHHHHHhhHHHccCCcEEEEEEeCCcchhHHHHHHHHHHHHHhhCCCCc-EEEEEECC
Confidence            35578899999998876554555677899999999876531  222233333332  2566 88889995

>2qag_A Septin-2, protein NEDD5; cell cycle, cell division, GTP-binding, nucleotide-binding, phosphorylation, acetylation, alternative splicing, coiled coil; HET: GDP GTP; 4.00A {Homo sapiens}

Probab=97.44  E-value=0.00017  Score=59.69  Aligned_cols=37  Identities=19%  Similarity=0.194  Sum_probs=25.5

Q ss_pred             ceEEEEEec-cCCCCcchHHHHHHHHHcCCCeEEEEEeCC
Q psy9646         173 DGAILVVAA-TDGAMPQTREHLLLAKQIGVTNIVVFINKF  211 (211)
Q Consensus       173 d~~~~vvd~-~~~~~~~~~~~~~~~~~~~~~~~i~~inK~  211 (211)
                      |+++++|++ ..+....+..+++.+. .++| +|+|+||+
T Consensus       147 ~~~vy~I~~~~~~l~~~d~~~~~~l~-~~~p-iIlV~NK~  184 (361)
T 2qag_A          147 HCCFYFISPFGHGLKPLDVAFMKAIH-NKVN-IVPVIAKA  184 (361)
T ss_dssp             CEEEEEECSSSSSCCHHHHHHHHHTC-S-SC-EEEEEECC
T ss_pred             EEEEEEEecCCCCcchhHHHHHHHhc-cCCC-EEEEEECC
Confidence            578888876 5666666655656553 5677 88999996

>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=97.41  E-value=0.00024  Score=54.52  Aligned_cols=63  Identities=17%  Similarity=0.097  Sum_probs=45.2

Q ss_pred             ceeEeecCCcccccHhHHhhhccccceEEEEEeccCCCC-cchHHHHHHHHH---cCCCeEEEEEeCC
Q psy9646         148 RHYSHTDCPGHADYIKNMITGTSQMDGAILVVAATDGAM-PQTREHLLLAKQ---IGVTNIVVFINKF  211 (211)
Q Consensus       148 ~~~~~iDtPG~~~~~~~~~~~~~~~d~~~~vvd~~~~~~-~~~~~~~~~~~~---~~~~~~i~~inK~  211 (211)
                      ..+.+.||+|+++|......-+..+|+++++.|...... ..-..++..+..   .++| +|||.||+
T Consensus        62 v~l~iwDtaGqe~~~~l~~~~~~~a~~~ilv~di~~~~Sf~~i~~~~~~i~~~~~~~~p-iilVgNK~  128 (216)
T 4dkx_A           62 IRLQLWDTAGLERFRSLIPSYIRDSAAAVVVYDITNVNSFQQTTKWIDDVRTERGSDVI-IMLVGNKT  128 (216)
T ss_dssp             EEEEEECCSCTTTCGGGHHHHHTTCSEEEEEEETTCHHHHHTHHHHHHHHHHHHTTSSE-EEEEEECT
T ss_pred             EEEEEEECCCchhhhhHHHHHhccccEEEEEeecchhHHHHHHHHHHHHHHHhcCCCCe-EEEEeecc
Confidence            457789999999998777777899999999999764432 222334444432   3455 88999995

>1zcb_A G alpha I/13; GTP-binding, lipoprotein, membrane, transducer, signaling PR; HET: GDP; 2.00A {Mus musculus} SCOP: a.66.1.1 c.37.1.8 PDB: 3ab3_A* 3cx8_A* 3cx7_A* 3cx6_A* 1zca_A*

Probab=97.39  E-value=0.00013  Score=60.45  Aligned_cols=76  Identities=14%  Similarity=0.263  Sum_probs=47.3

Q ss_pred             EEeEeEEEeeeCCceeEeecCCcccccHhHHhhhccccceEEEEEeccCC---------C--CcchHHHHHHHHH----c
Q psy9646         135 TINVAHVEYATENRHYSHTDCPGHADYIKNMITGTSQMDGAILVVAATDG---------A--MPQTREHLLLAKQ----I  199 (211)
Q Consensus       135 tv~~~~~~~~~~~~~~~~iDtPG~~~~~~~~~~~~~~~d~~~~vvd~~~~---------~--~~~~~~~~~~~~~----~  199 (211)
                      |+.+....+..++..+.+.||+|++.+-.....-+.++++++||+|..+-         .  +.....+++....    .
T Consensus       188 T~Gi~~~~~~~~~~~l~i~Dt~Gq~~~r~~w~~~f~~~~~iIfv~dls~~dq~l~ed~~~n~~~es~~~~~~i~~~~~~~  267 (362)
T 1zcb_A          188 TKGIHEYDFEIKNVPFKMVDVGGQRSERKRWFECFDSVTSILFLVSSSEFDQVLMEDRQTNRLTESLNIFETIVNNRVFS  267 (362)
T ss_dssp             CSSEEEEEEEETTEEEEEEEECC-------CTTSCTTCCEEEEEEETTCTTCEETTEEEEEHHHHHHHHHHHHHTCGGGT
T ss_pred             ccceEEEEeeeCCeEEEEEeccchhhhhhhHHHHhCCCCEEEEEEECccccccccccccccHHHHHHHHHHHHhcchhhC
Confidence            33444455666788899999999998887777778899999999998762         1  1122333333332    3


Q ss_pred             CCCeEEEEEeCC
Q psy9646         200 GVTNIVVFINKF  211 (211)
Q Consensus       200 ~~~~~i~~inK~  211 (211)
                      ++| +|++.||+
T Consensus       268 ~~p-iILv~NK~  278 (362)
T 1zcb_A          268 NVS-IILFLNKT  278 (362)
T ss_dssp             TSE-EEEEEECH
T ss_pred             CCC-EEEEEECh
Confidence            566 88999994

>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=97.35  E-value=4.7e-05  Score=62.58  Aligned_cols=59  Identities=17%  Similarity=0.062  Sum_probs=37.6

Q ss_pred             eCCceeEeecCCcccccHhHHhhhccccceEEEEEeccCCCCcchHHHHHHHHHcCCCeEEEEEeCC
Q psy9646         145 TENRHYSHTDCPGHADYIKNMITGTSQMDGAILVVAATDGAMPQTREHLLLAKQIGVTNIVVFINKF  211 (211)
Q Consensus       145 ~~~~~~~~iDtPG~~~~~~~~~~~~~~~d~~~~vvd~~~~~~~~~~~~~~~~~~~~~~~~i~~inK~  211 (211)
                      ..+++++|+||||+.++...+   ...+|++++|+|+..+...+..   +. ...+.| .++|+||+
T Consensus       146 ~~~~~i~liDTpG~~~~~~~~---~~~aD~vl~Vvd~~~~~~~~~l---~~-~~~~~p-~ivv~NK~  204 (341)
T 2p67_A          146 AAGYDVVIVETVGVGQSETEV---ARMVDCFISLQIAGGGDDLQGI---KK-GLMEVA-DLIVINKD  204 (341)
T ss_dssp             HTTCSEEEEEEECCTTHHHHH---HTTCSEEEEEECC------CCC---CH-HHHHHC-SEEEECCC
T ss_pred             ccCCCEEEEeCCCccchHHHH---HHhCCEEEEEEeCCccHHHHHH---HH-hhhccc-CEEEEECC
Confidence            456789999999988765543   4899999999998755322211   11 112456 56899996

>1udx_A The GTP-binding protein OBG; TGS domain, riken structural genomics/proteomics initiative, RSGI, structural genomics; 2.07A {Thermus thermophilus} SCOP: b.117.1.1 c.37.1.8 d.242.1.1

Probab=97.28  E-value=0.00064  Score=57.34  Aligned_cols=113  Identities=9%  Similarity=-0.007  Sum_probs=56.2

Q ss_pred             ccccccccccchhhhhhhhcccccccccchhhcccceEEeEeEEEeeeCC-ceeEeecCCcccc-------cHhHHhhhc
Q psy9646          98 VNRGLIMAKPVLADKKLAKVKQYADIDNAPEEKARGITINVAHVEYATEN-RHYSHTDCPGHAD-------YIKNMITGT  169 (211)
Q Consensus        98 v~~G~ii~~~~~~~~~~~~f~~~i~~~~~~~e~~rg~tv~~~~~~~~~~~-~~~~~iDtPG~~~-------~~~~~~~~~  169 (211)
                      ++.|..++--..+..+++++...+.-...........|.......+...+ ..+.+.||||+.+       +.......+
T Consensus       154 lk~g~~VgLVG~~gAGKSTLL~~Lsg~~~~i~~~~ftTl~p~~G~V~~~~~~~~~l~DtpGli~~a~~~~~L~~~fl~~~  233 (416)
T 1udx_A          154 LMLIADVGLVGYPNAGKSSLLAAMTRAHPKIAPYPFTTLSPNLGVVEVSEEERFTLADIPGIIEGASEGKGLGLEFLRHI  233 (416)
T ss_dssp             ECCSCSEEEECCGGGCHHHHHHHHCSSCCEECCCTTCSSCCEEEEEECSSSCEEEEEECCCCCCCGGGSCCSCHHHHHHH
T ss_pred             EcCCCEEEEECCCCCcHHHHHHHHHcCCccccCcccceecceeeEEEecCcceEEEEeccccccchhhhhhhhHHHHHHH
Confidence            44444444444455566665443322111111111122222333444444 6789999999743       223344556


Q ss_pred             cccceEEEEEeccCCCCcchHHHHHHHHH-----cCCCeEEEEEeCC
Q psy9646         170 SQMDGAILVVAATDGAMPQTREHLLLAKQ-----IGVTNIVVFINKF  211 (211)
Q Consensus       170 ~~~d~~~~vvd~~~~~~~~~~~~~~~~~~-----~~~~~~i~~inK~  211 (211)
                      ..+|.+++++|+......+-....+.+..     ...| .++++||+
T Consensus       234 era~~lL~vvDls~~~~~~ls~g~~el~~la~aL~~~P-~ILVlNKl  279 (416)
T 1udx_A          234 ARTRVLLYVLDAADEPLKTLETLRKEVGAYDPALLRRP-SLVALNKV  279 (416)
T ss_dssp             TSSSEEEEEEETTSCHHHHHHHHHHHHHHHCHHHHHSC-EEEEEECC
T ss_pred             HHHHhhhEEeCCccCCHHHHHHHHHHHHHHhHHhhcCC-EEEEEECC
Confidence            78999999999861111111111222221     2467 56788996

>2f9l_A RAB11B, member RAS oncogene family; RAB11B GTPase, vesicle transport, hydrolase; HET: GDP; 1.55A {Homo sapiens} SCOP: c.37.1.8 PDB: 2f9m_A* 1yzk_A* 2hv8_A* 2gzd_A* 2gzh_A* 2d7c_A* 3bfk_A*

Probab=97.24  E-value=0.00042  Score=51.91  Aligned_cols=69  Identities=16%  Similarity=0.107  Sum_probs=44.4

Q ss_pred             EeeeCC--ceeEeecCCcccccHhHHhhhccccceEEEEEeccCCCCcc-hHHHHHHHHH---cCCCeEEEEEeCC
Q psy9646         142 EYATEN--RHYSHTDCPGHADYIKNMITGTSQMDGAILVVAATDGAMPQ-TREHLLLAKQ---IGVTNIVVFINKF  211 (211)
Q Consensus       142 ~~~~~~--~~~~~iDtPG~~~~~~~~~~~~~~~d~~~~vvd~~~~~~~~-~~~~~~~~~~---~~~~~~i~~inK~  211 (211)
                      .+...+  ..+.+.||||++.+..........+|++++|.|......-. ...++..+..   .+.| +++++||+
T Consensus        46 ~i~~~g~~~~~~i~Dt~g~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~-i~~v~nK~  120 (199)
T 2f9l_A           46 SIQVDGKTIKAQIWDTAGQERYRRITSAYYRGAVGALLVYDIAKHLTYENVERWLKELRDHADSNIV-IMLVGNKS  120 (199)
T ss_dssp             EEEETTEEEEEEEEECSSGGGTTCCCHHHHTTCSEEEEEEETTCHHHHHTHHHHHHHHHHHSCTTCE-EEEEEECT
T ss_pred             EEEECCEEEEEEEEECCCchhhhhhhHHHHhcCCEEEEEEECcCHHHHHHHHHHHHHHHHhcCCCCe-EEEEEECc
Confidence            344444  35678999999887655555567889999999986543222 2233333332   2455 78899996

>1puj_A YLQF, conserved hypothetical protein YLQF; structural genomics, nysgxrc T18, GTPase, PSI, protein structure initiative; HET: GNP; 2.00A {Bacillus subtilis} SCOP: c.37.1.8

Probab=97.23  E-value=0.00036  Score=55.79  Aligned_cols=56  Identities=14%  Similarity=0.059  Sum_probs=39.8

Q ss_pred             ecCCccc-ccHhHHhhhccccceEEEEEeccCCCCcchHHHHHHHHHcCCCeEEEEEeCC
Q psy9646         153 TDCPGHA-DYIKNMITGTSQMDGAILVVAATDGAMPQTREHLLLAKQIGVTNIVVFINKF  211 (211)
Q Consensus       153 iDtPG~~-~~~~~~~~~~~~~d~~~~vvd~~~~~~~~~~~~~~~~~~~~~~~~i~~inK~  211 (211)
                      -+.|||. +..+++...++.+|+++.|+||..+.......+.+.+  .+.| .++++||+
T Consensus         4 ~w~PGhm~ka~~~~~~~l~~aDvVl~VvDAr~p~~~~~~~l~~~l--~~kp-~ilVlNK~   60 (282)
T 1puj_A            4 QWFPGHMAKARREVTEKLKLIDIVYELVDARIPMSSRNPMIEDIL--KNKP-RIMLLNKA   60 (282)
T ss_dssp             -----CTTHHHHHHHHHGGGCSEEEEEEETTSTTTTSCHHHHHHC--SSSC-EEEEEECG
T ss_pred             cCCchHHHHHHHHHHHHHhhCCEEEEEEeCCCCCccCCHHHHHHH--CCCC-EEEEEECc
Confidence            3579997 5678999999999999999999988776554444433  3556 77899995

>4fid_A G protein alpha subunit; RAS-like domain, all-helical domain, GTP binding, nucleotide signaling protein, transducer, lipoprotein; HET: MLY MSE GDP; 2.62A {Entamoeba histolytica}

Probab=97.13  E-value=0.00073  Score=55.43  Aligned_cols=77  Identities=17%  Similarity=0.244  Sum_probs=53.7

Q ss_pred             eEEeEeEEEeeeCCceeEeecCCcccccHhHHhhhccccceEEEEEeccC-------CCC----cchHHHHHHHHH----
Q psy9646         134 ITINVAHVEYATENRHYSHTDCPGHADYIKNMITGTSQMDGAILVVAATD-------GAM----PQTREHLLLAKQ----  198 (211)
Q Consensus       134 ~tv~~~~~~~~~~~~~~~~iDtPG~~~~~~~~~~~~~~~d~~~~vvd~~~-------~~~----~~~~~~~~~~~~----  198 (211)
                      -|+......+..++..+.+.||+|++.|-+....-..++++++||+|..+       .-.    ......++.+..    
T Consensus       147 ~TiGi~~~~~~~~~v~l~iwDtaGQe~~R~~w~~yy~~a~~iIfV~diS~ydq~l~e~~~~nr~~es~~~~~~i~~~~~~  226 (340)
T 4fid_A          147 KTTGIHEYDFVVKDIPFHLIDVGGQRSERKXWVSFFSDVDCAIFVTSLAEYDMKLYEDGNTSRLTESIAVFKDIMTNEFL  226 (340)
T ss_dssp             CCCSCEEEEEESSSCEEEEEECCSCHHHHHHHHTTSCSCSEEEEEEEGGGTTCBCC--CCSBHHHHHHHHHHHHHHCGGG
T ss_pred             ceeeeEEEEEEeeeeeeccccCCCcccccccHHHHhccCCEEEEEEECCccccccccccccchHHHHHHHHHHHhhhhcc
Confidence            34444556677778889999999999988877788899999999999862       111    122233333332    


Q ss_pred             cCCCeEEEEEeCC
Q psy9646         199 IGVTNIVVFINKF  211 (211)
Q Consensus       199 ~~~~~~i~~inK~  211 (211)
                      .++| ++++.||+
T Consensus       227 ~~~p-iiLv~NK~  238 (340)
T 4fid_A          227 KGAV-KLIFLNKM  238 (340)
T ss_dssp             TTSE-EEEEEECH
T ss_pred             CCCe-EEEEEECc
Confidence            3566 88999994

>2j37_W Signal recognition particle 54 kDa protein (SRP54); ribosome, SRP, translation/RNA; 8.00A {Canis SP} PDB: 1wgw_A

Probab=97.05  E-value=0.00055  Score=59.14  Aligned_cols=63  Identities=22%  Similarity=0.236  Sum_probs=40.6

Q ss_pred             CCceeEeecCCcccc----cHhHHhhhc--cccceEEEEEeccCCCCcchHHHHHHHHHcCCCeEEEEEeCC
Q psy9646         146 ENRHYSHTDCPGHAD----YIKNMITGT--SQMDGAILVVAATDGAMPQTREHLLLAKQIGVTNIVVFINKF  211 (211)
Q Consensus       146 ~~~~~~~iDtPG~~~----~~~~~~~~~--~~~d~~~~vvd~~~~~~~~~~~~~~~~~~~~~~~~i~~inK~  211 (211)
                      .++.++|+||||...    +..++....  ..+|.+++|+|+..+..  ....++..... +|..++++||+
T Consensus       182 ~~~DvvIIDTpG~~~~~~~l~~el~~~~~~i~pd~vllVvDa~~g~~--~~~~a~~~~~~-~~i~gvVlNK~  250 (504)
T 2j37_W          182 ENFEIIIVDTSGRHKQEDSLFEEMLQVANAIQPDNIVYVMDASIGQA--CEAQAKAFKDK-VDVASVIVTKL  250 (504)
T ss_dssp             TTCCEEEEEECCCCTTCHHHHHHHHHHHHHHCCSEEEEEEETTCCTT--HHHHHHHHHHH-HCCCCEEEECT
T ss_pred             CCCcEEEEeCCCCcccchhHHHHHHHHHhhhcCceEEEEEecccccc--HHHHHHHHHhh-cCceEEEEeCC
Confidence            567899999999763    443432222  27899999999988753  33344444332 45225789996

>3r7w_B Gtpase2, GTP-binding protein GTR2; RAG gtpases, GTR1P, GTR2P, MTOR, protein transport; HET: GNP; 2.77A {Saccharomyces cerevisiae} PDB: 4arz_B*

Probab=97.05  E-value=0.00069  Score=55.30  Aligned_cols=63  Identities=17%  Similarity=0.243  Sum_probs=43.3

Q ss_pred             CceeEeecCCcccccHh---HHhhhccccceEEEEEeccCCCCcchHHHH----HHHHH--cCCCeEEEEEeCC
Q psy9646         147 NRHYSHTDCPGHADYIK---NMITGTSQMDGAILVVAATDGAMPQTREHL----LLAKQ--IGVTNIVVFINKF  211 (211)
Q Consensus       147 ~~~~~~iDtPG~~~~~~---~~~~~~~~~d~~~~vvd~~~~~~~~~~~~~----~~~~~--~~~~~~i~~inK~  211 (211)
                      ...+.+-||||+++|..   ....-.+.++++++|+|+.+. .......+    ..+..  .++| ++++.||+
T Consensus        45 ~v~LqIWDTAGQErf~~~~l~~~~yyr~a~~~IlV~Ditd~-~~~~~~~l~~~l~~~~~~~~~ip-illvgNK~  116 (331)
T 3r7w_B           45 LIDLAVMELPGQLNYFEPSYDSERLFKSVGALVYVIDSQDE-YINAITNLAMIIEYAYKVNPSIN-IEVLIHKV  116 (331)
T ss_dssp             SSCEEEEECCSCSSSCCCSHHHHHHHTTCSEEEEECCCSSC-TTHHHHHHHHHHHHHHHHCTTCE-EEEECCCC
T ss_pred             EEEEEEEECCCchhccchhhhhhhhccCCCEEEEEEECCch-HHHHHHHHHHHHHHHhhcCCCCc-EEEEEECc
Confidence            35788999999999853   223446889999999999877 43333322    22222  3566 78899996

>1azs_C GS-alpha; complex (lyase/hydrolase), hydrolase, signal transducing protein, cyclase, effector enzyme; HET: GSP FKP; 2.30A {Bos taurus} SCOP: a.66.1.1 c.37.1.8 PDB: 1azt_A* 3c14_C* 3c15_C* 3c16_C* 1cjt_C* 1cjk_C* 1cju_C* 1cjv_C* 1tl7_C* 1cs4_C* 1u0h_C* 2gvd_C* 2gvz_C* 3e8a_C* 3g82_C* 3maa_C* 1cul_C* 3sn6_A*

Probab=97.03  E-value=0.0011  Score=55.73  Aligned_cols=76  Identities=16%  Similarity=0.251  Sum_probs=53.2

Q ss_pred             EEeEeEEEeeeCCceeEeecCCcccccHhHHhhhccccceEEEEEeccCC---------CC--cchHHHHHHHHH----c
Q psy9646         135 TINVAHVEYATENRHYSHTDCPGHADYIKNMITGTSQMDGAILVVAATDG---------AM--PQTREHLLLAKQ----I  199 (211)
Q Consensus       135 tv~~~~~~~~~~~~~~~~iDtPG~~~~~~~~~~~~~~~d~~~~vvd~~~~---------~~--~~~~~~~~~~~~----~  199 (211)
                      |+.+....+...+..+.+.||+|++.|-.....-...+++++||+|..+-         ..  .....+++.+..    .
T Consensus       204 TiGi~~~~~~~~~v~l~iwDtaGQe~~r~~w~~yf~~a~~iIfV~dis~ydq~l~ed~~~ns~~e~~~~~~~i~~~~~~~  283 (402)
T 1azs_C          204 TSGIFETKFQVDKVNFHMFDVGGQRDERRKWIQCFNDVTAIIFVVASSSYNMVIREDNQTNRLQEALNLFKSIWNNRWLR  283 (402)
T ss_dssp             CCSEEEEEEEETTEEEEEEEECCSGGGGGGGGGGTTTCCEEEEEEETTGGGCBCTTTSCSBHHHHHHHHHHHHHTCTTCS
T ss_pred             eeeeEEEEeecCCccceecccchhhhhhhhhHhhccCCCEEEEEEECcccccccccccccchHHHHHHHHHHHHhcccCC
Confidence            33344455666778899999999999988777788999999999998751         11  122334443332    2


Q ss_pred             CCCeEEEEEeCC
Q psy9646         200 GVTNIVVFINKF  211 (211)
Q Consensus       200 ~~~~~i~~inK~  211 (211)
                      ++| +||+.||+
T Consensus       284 ~~p-iiLvgNK~  294 (402)
T 1azs_C          284 TIS-VILFLNKQ  294 (402)
T ss_dssp             SCC-EEEEEECH
T ss_pred             CCe-EEEEEECh
Confidence            466 88999994

>3p32_A Probable GTPase RV1496/MT1543; structural genomics, seattle structural genomics center for infectious disease, ssgcid, MEAB, MMAA; HET: GDP PGE; 1.90A {Mycobacterium tuberculosis} PDB: 3md0_A* 4gt1_A* 3nxs_A* 3tk1_A*

Probab=96.87  E-value=0.00043  Score=57.09  Aligned_cols=58  Identities=16%  Similarity=0.092  Sum_probs=38.1

Q ss_pred             CCceeEeecCCcccccHhHHhhhccccceEEEEEeccCCCCcchHHHHHHHHHcCCCeEEEEEeCC
Q psy9646         146 ENRHYSHTDCPGHADYIKNMITGTSQMDGAILVVAATDGAMPQTREHLLLAKQIGVTNIVVFINKF  211 (211)
Q Consensus       146 ~~~~~~~iDtPG~~~~~~~~~~~~~~~d~~~~vvd~~~~~~~~~~~~~~~~~~~~~~~~i~~inK~  211 (211)
                      .+..++|+||||...-   ....+..+|++++|+|+..+...+.  +...  ....| .++|+||+
T Consensus       170 ~~~~~iiiDTpGi~~~---~~~~~~~aD~vl~V~d~~~~~~~~~--l~~~--~~~~p-~ivVlNK~  227 (355)
T 3p32_A          170 AGFDVILIETVGVGQS---EVAVANMVDTFVLLTLARTGDQLQG--IKKG--VLELA-DIVVVNKA  227 (355)
T ss_dssp             TTCCEEEEEECSCSSH---HHHHHTTCSEEEEEEESSTTCTTTT--CCTT--SGGGC-SEEEEECC
T ss_pred             CCCCEEEEeCCCCCcH---HHHHHHhCCEEEEEECCCCCccHHH--HHHh--HhhcC-CEEEEECC
Confidence            5678999999996542   2233488999999999865533221  1111  12346 66899996

>3ohm_A Guanine nucleotide-binding protein G(Q) subunit A; PH domain, EF hand, TIM barrel, C2 domain, GTPase, lipase, C binding, GTP binding; HET: GDP; 2.70A {Mus musculus} PDB: 2bcj_Q* 2rgn_A* 3ah8_A*

Probab=96.75  E-value=0.0037  Score=50.99  Aligned_cols=77  Identities=12%  Similarity=0.213  Sum_probs=53.0

Q ss_pred             eEEeEeEEEeeeCCceeEeecCCcccccHhHHhhhccccceEEEEEecc-------CCCCc----chHHHHHHHHH----
Q psy9646         134 ITINVAHVEYATENRHYSHTDCPGHADYIKNMITGTSQMDGAILVVAAT-------DGAMP----QTREHLLLAKQ----  198 (211)
Q Consensus       134 ~tv~~~~~~~~~~~~~~~~iDtPG~~~~~~~~~~~~~~~d~~~~vvd~~-------~~~~~----~~~~~~~~~~~----  198 (211)
                      -|+......+..++..+.+.||.|++.+-+....-..++++++||+|..       +.-..    .....++.+..    
T Consensus       153 ~TiGi~~~~~~~~~v~l~iwDtgGQe~~R~~w~~yf~~~~~iIfV~dls~ydq~l~d~~~~nr~~es~~~~~~i~~~~~~  232 (327)
T 3ohm_A          153 PTTGIIEYPFDLQSVIFRMVDVGGQRSERRKWIHCFENVTSIMFLVALSEYDQVLVESDNENRMEESKALFRTIITYPWF  232 (327)
T ss_dssp             CCCSEEEEEEEETTEEEEEEEECCSHHHHTTGGGGCSSCSEEEEEEEGGGGGCBCSSCTTSBHHHHHHHHHHHHHTSGGG
T ss_pred             ceeeEEEEEEEeeceeeEEEEcCCchhHHHHHHHHhCCCCEEEEEEECccccccccccccHhHHHHHHHHHHHHhhhhcc
Confidence            3444455566777888999999999988877777889999999999765       22211    12233333322    


Q ss_pred             cCCCeEEEEEeCC
Q psy9646         199 IGVTNIVVFINKF  211 (211)
Q Consensus       199 ~~~~~~i~~inK~  211 (211)
                      .++| ++++.||+
T Consensus       233 ~~~~-iiL~~NK~  244 (327)
T 3ohm_A          233 QNSS-VILFLNKK  244 (327)
T ss_dssp             TTCE-EEEEEECH
T ss_pred             CCce-EEEEEECc
Confidence            3466 88999994

>1oix_A RAS-related protein RAB-11A; small G protein, intracellular trafficking, GTP-binding, lipoprotein, prenylation, protein transport; HET: GDP; 1.7A {Homo sapiens} SCOP: c.37.1.8 PDB: 1oiw_A* 1oiv_A* 3rwo_B* 3rwm_B*

Probab=96.62  E-value=0.0024  Score=47.41  Aligned_cols=71  Identities=15%  Similarity=0.095  Sum_probs=44.3

Q ss_pred             EEEeeeCCc--eeEeecCCcccccHhHHhhhccccceEEEEEeccCCCC-cchHHHHHHHHH---cCCCeEEEEEeCC
Q psy9646         140 HVEYATENR--HYSHTDCPGHADYIKNMITGTSQMDGAILVVAATDGAM-PQTREHLLLAKQ---IGVTNIVVFINKF  211 (211)
Q Consensus       140 ~~~~~~~~~--~~~~iDtPG~~~~~~~~~~~~~~~d~~~~vvd~~~~~~-~~~~~~~~~~~~---~~~~~~i~~inK~  211 (211)
                      ...+...+.  .+.+.||||++.+...+......+|++++|.|...... .....++..+..   .+.| +++++||+
T Consensus        68 ~~~i~~~g~~~~~~i~Dt~g~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~-i~~v~nK~  144 (191)
T 1oix_A           68 TRSIQVDGKTIKAQIWDTAGLERYRAITSAYYRGAVGALLVYDIAKHLTYENVERWLKELRDHADSNIV-IMLVGNKS  144 (191)
T ss_dssp             EEEEEETTEEEEEEEEEECSCCSSSCCCHHHHTTCCEEEEEEETTCHHHHHTHHHHHHHHHHHSCTTCE-EEEEEECG
T ss_pred             EEEEEECCEEEEEEEEECCCCcchhhhhHHHhhcCCEEEEEEECcCHHHHHHHHHHHHHHHHhcCCCCc-EEEEEECc
Confidence            344444554  34569999998876666666678899999999754422 111223333332   2445 78899995

>2xtz_A Guanine nucleotide-binding protein alpha-1 subuni; hydrolase, G-protein signaling, SELF-activation, RAS-like DO; HET: GSP; 2.34A {Arabidopsis thaliana}

Probab=96.52  E-value=0.0028  Score=52.29  Aligned_cols=64  Identities=19%  Similarity=0.265  Sum_probs=44.2

Q ss_pred             CceeEeecCCcccccHhHHhhhccccceEEEEEecc-------CCCC----cchHHHHHHHHH----cCCCeEEEEEeCC
Q psy9646         147 NRHYSHTDCPGHADYIKNMITGTSQMDGAILVVAAT-------DGAM----PQTREHLLLAKQ----IGVTNIVVFINKF  211 (211)
Q Consensus       147 ~~~~~~iDtPG~~~~~~~~~~~~~~~d~~~~vvd~~-------~~~~----~~~~~~~~~~~~----~~~~~~i~~inK~  211 (211)
                      ...+.+.||+|++.|-.....-...+|++++|+|..       +...    ......++.+..    .++| +|++.||+
T Consensus       182 ~v~l~iwDtaGQe~~r~~~~~y~~~~~~iI~v~dis~ydq~l~e~~~~~s~~~~~~~~~~i~~~~~~~~~p-iiLvgNK~  260 (354)
T 2xtz_A          182 GEVYRLFDVGGQRNERRKWIHLFEGVTAVIFCAAISEYDQTLFEDEQKNRMMETKELFDWVLKQPCFEKTS-FMLFLNKF  260 (354)
T ss_dssp             --EEEEEEECCSTTGGGGTGGGCTTEEEEEEEEEGGGTTCBCSSCTTSBHHHHHHHHHHHHHTCGGGSSCE-EEEEEECH
T ss_pred             ceeeEEEECCCchhhhHHHHHHhCCCCEEEEEEECcccccccccccchhHHHHHHHHHHHHHhccccCCCe-EEEEEECc
Confidence            457889999999999887778889999999999986       1111    122233333332    3566 88999994

>2g3y_A GTP-binding protein GEM; small GTPase, GDP, inactive state, RGK family, structur genomics, structural genomics consortium, SGC, signaling PR; HET: GDP; 2.40A {Homo sapiens} SCOP: c.37.1.8

Probab=96.48  E-value=0.0044  Score=47.16  Aligned_cols=63  Identities=16%  Similarity=0.057  Sum_probs=38.5

Q ss_pred             ceeEeecCCcccccHhHHhh-hccccceEEEEEeccCCCC-cchHHHHHHHHH----cCCCeEEEEEeCC
Q psy9646         148 RHYSHTDCPGHADYIKNMIT-GTSQMDGAILVVAATDGAM-PQTREHLLLAKQ----IGVTNIVVFINKF  211 (211)
Q Consensus       148 ~~~~~iDtPG~~~~~~~~~~-~~~~~d~~~~vvd~~~~~~-~~~~~~~~~~~~----~~~~~~i~~inK~  211 (211)
                      .++.++||+|.+.....+.. -...+|++++|.|...... .....++..+..    .++| +|+|.||+
T Consensus        87 ~~l~~~Dt~g~~~~~~~l~~~~~~~a~~~ilVydvt~~~sf~~~~~~~~~l~~~~~~~~~p-iilVgNK~  155 (211)
T 2g3y_A           87 ATIILLDMWENKGENEWLHDHCMQVGDAYLIVYSITDRASFEKASELRIQLRRARQTEDIP-IILVGNKS  155 (211)
T ss_dssp             EEEEEECCTTTTHHHHHHHHCCCCCCSEEEEEEETTCHHHHHHHHHHHHHHHTSGGGTTSC-EEEEEECT
T ss_pred             eEEEEeecCCCcchhhhHHHHHHhhCCEEEEEEECCCHHHHHHHHHHHHHHHHHhCCCCCc-EEEEEECh
Confidence            35678999998763222222 2467899999999754321 112223333432    2577 88999996

>1j8m_F SRP54, signal recognition 54 kDa protein; signaling protein; 2.00A {Acidianus ambivalens} SCOP: a.24.13.1 c.37.1.10 PDB: 1j8y_F

Probab=96.37  E-value=0.0079  Score=48.32  Aligned_cols=63  Identities=17%  Similarity=0.144  Sum_probs=39.6

Q ss_pred             CCceeEeecCCcccc--cHhHHh------hhccccceEEEEEeccCCCCcchHHHHHHHHHcCCCeEEEEEeCC
Q psy9646         146 ENRHYSHTDCPGHAD--YIKNMI------TGTSQMDGAILVVAATDGAMPQTREHLLLAKQIGVTNIVVFINKF  211 (211)
Q Consensus       146 ~~~~~~~iDtPG~~~--~~~~~~------~~~~~~d~~~~vvd~~~~~~~~~~~~~~~~~~~~~~~~i~~inK~  211 (211)
                      .++.++++||||...  ....+.      ..+..+|.+++|+|+..+  ......++.... ..+...+++||+
T Consensus       179 ~~~D~ViIDTpg~~~~~~~~~l~~el~~i~~~~~~d~vllVvda~~g--~~~~~~~~~~~~-~~~i~gvVlnk~  249 (297)
T 1j8m_F          179 EKMEIIIVDTAGRHGYGEEAALLEEMKNIYEAIKPDEVTLVIDASIG--QKAYDLASKFNQ-ASKIGTIIITKM  249 (297)
T ss_dssp             TTCSEEEEECCCSCCTTCHHHHHHHHHHHHHHHCCSEEEEEEEGGGG--GGHHHHHHHHHH-TCTTEEEEEECG
T ss_pred             CCCCEEEEeCCCCcccccHHHHHHHHHHHHHHhcCCEEEEEeeCCch--HHHHHHHHHHHh-hCCCCEEEEeCC
Confidence            456799999999766  322222      244578999999999754  233333343333 455345789985

>1u0l_A Probable GTPase ENGC; permutation, OB-fold, zinc-finger, structural genomics, BSGC structure funded by NIH, protein structure initiative, PSI; HET: GDP; 2.80A {Thermotoga maritima} SCOP: b.40.4.5 c.37.1.8

Probab=96.32  E-value=0.0035  Score=50.41  Aligned_cols=60  Identities=20%  Similarity=0.136  Sum_probs=42.9

Q ss_pred             eeEeecCCcccccHhHHhhhccccceEEEEEeccCCCCc--chHHHHHHHHHcCCCeEEEEEeCC
Q psy9646         149 HYSHTDCPGHADYIKNMITGTSQMDGAILVVAATDGAMP--QTREHLLLAKQIGVTNIVVFINKF  211 (211)
Q Consensus       149 ~~~~iDtPG~~~~~~~~~~~~~~~d~~~~vvd~~~~~~~--~~~~~~~~~~~~~~~~~i~~inK~  211 (211)
                      .+.+.||  ++.|..-....++.+|++++|+|+......  .-..++..++..++| +++|+||+
T Consensus        64 ~~~iwD~--qer~~~l~~~~~~~ad~vilV~D~~~~~~s~~~l~~~l~~~~~~~~p-iilv~NK~  125 (301)
T 1u0l_A           64 SGVIENV--LHRKNLLTKPHVANVDQVILVVTVKMPETSTYIIDKFLVLAEKNELE-TVMVINKM  125 (301)
T ss_dssp             SEEEEEE--CCCSCEETTTTEESCCEEEEEECSSTTCCCHHHHHHHHHHHHHTTCE-EEEEECCG
T ss_pred             eEEEEEE--ccccceeeccccccCCEEEEEEeCCCCCCCHHHHHHHHHHHHHCCCC-EEEEEeHH
Confidence            5667777  666665555678999999999999876422  223455555667777 77999995

>2v3c_C SRP54, signal recognition 54 kDa protein; nucleotide-binding, signal recognition particle, GTP-binding, RNA-binding; 2.50A {Methanocaldococcus jannaschii} PDB: 3ndb_B

Probab=96.19  E-value=0.014  Score=49.44  Aligned_cols=63  Identities=21%  Similarity=0.229  Sum_probs=39.6

Q ss_pred             CCceeEeecCCcccc----cHhHH--hhhccccceEEEEEeccCCCCcchHHHHHHHHHcCC-CeEEEEEeCC
Q psy9646         146 ENRHYSHTDCPGHAD----YIKNM--ITGTSQMDGAILVVAATDGAMPQTREHLLLAKQIGV-TNIVVFINKF  211 (211)
Q Consensus       146 ~~~~~~~iDtPG~~~----~~~~~--~~~~~~~d~~~~vvd~~~~~~~~~~~~~~~~~~~~~-~~~i~~inK~  211 (211)
                      .++.++++||||...    ++.++  ...+..+|.+++|+|+..+.  .....++.. ..++ +...+++||+
T Consensus       179 ~~~D~vIIDT~G~~~~~~~l~~~l~~i~~~~~~d~vllVvda~~g~--~~~~~~~~~-~~~~~~i~gvVlnK~  248 (432)
T 2v3c_C          179 KKADVLIIDTAGRHKEEKGLLEEMKQIKEITNPDEIILVIDGTIGQ--QAGIQAKAF-KEAVGEIGSIIVTKL  248 (432)
T ss_dssp             SSCSEEEEECCCSCSSHHHHHHHHHHTTSSSCCSEEEEEEEGGGGG--GHHHHHHHH-HTTSCSCEEEEEECS
T ss_pred             hCCCEEEEcCCCCccccHHHHHHHHHHHHHhcCcceeEEeeccccH--HHHHHHHHH-hhcccCCeEEEEeCC
Confidence            456789999999664    33333  22334689999999997764  222233322 2235 5456789995

>2www_A Methylmalonic aciduria type A protein, mitochondrial; transport protein, nucleotide-binding; HET: GDP 2PE; 2.64A {Homo sapiens}

Probab=96.10  E-value=0.0055  Score=50.33  Aligned_cols=58  Identities=14%  Similarity=0.056  Sum_probs=33.5

Q ss_pred             CCceeEeecCCcccccHhHHhhhccccceEEEEEeccCCCCcchHHHHHHHHHcCCCeEEEEEeCC
Q psy9646         146 ENRHYSHTDCPGHADYIKNMITGTSQMDGAILVVAATDGAMPQTREHLLLAKQIGVTNIVVFINKF  211 (211)
Q Consensus       146 ~~~~~~~iDtPG~~~~~~~~~~~~~~~d~~~~vvd~~~~~~~~~~~~~~~~~~~~~~~~i~~inK~  211 (211)
                      .+..+.|+||||.....   ..-...+|++++|+|+..+...+.  + +. .-...| .++++||+
T Consensus       165 ~~~~~iliDT~Gi~~~~---~~l~~~~d~vl~V~d~~~~~~~~~--i-~~-~il~~~-~ivVlNK~  222 (349)
T 2www_A          165 AGYDIILIETVGVGQSE---FAVADMVDMFVLLLPPAGGDELQG--I-KR-GIIEMA-DLVAVTKS  222 (349)
T ss_dssp             TTCSEEEEECCCC--CH---HHHHTTCSEEEEEECCC----------------CCSC-SEEEECCC
T ss_pred             CCCCEEEEECCCcchhh---hhHHhhCCEEEEEEcCCcchhHHH--h-HH-HHHhcC-CEEEEeee
Confidence            56789999999975322   222468999999999876532221  1 11 123556 56889996

>4dzz_A Plasmid partitioning protein PARF; deviant walker BOX, DNA segregation, unknown function; HET: ADP; 1.80A {Escherichia coli} PDB: 4e03_A* 4e07_A* 4e09_A*

Probab=95.98  E-value=0.011  Score=44.03  Aligned_cols=61  Identities=11%  Similarity=0.052  Sum_probs=45.9

Q ss_pred             CceeEeecCCcccccHhHHhhhccccceEEEEEeccCCCCcchHHHHHHHHHcC-----CCeEEEEEeCC
Q psy9646         147 NRHYSHTDCPGHADYIKNMITGTSQMDGAILVVAATDGAMPQTREHLLLAKQIG-----VTNIVVFINKF  211 (211)
Q Consensus       147 ~~~~~~iDtPG~~~~~~~~~~~~~~~d~~~~vvd~~~~~~~~~~~~~~~~~~~~-----~~~~i~~inK~  211 (211)
                      .+.++++|||+..  ......++..+|.+++++.....- ......++.++..+     .+ +.+++||+
T Consensus        75 ~yD~viiD~~~~~--~~~~~~~l~~ad~viiv~~~~~~~-~~~~~~~~~l~~~~~~~~~~~-~~vv~N~~  140 (206)
T 4dzz_A           75 DYDFAIVDGAGSL--SVITSAAVMVSDLVIIPVTPSPLD-FSAAGSVVTVLEAQAYSRKVE-ARFLITRK  140 (206)
T ss_dssp             TSSEEEEECCSSS--SHHHHHHHHHCSEEEEEECSCTTT-HHHHHHHHHHHTTSCGGGCCE-EEEEECSB
T ss_pred             CCCEEEEECCCCC--CHHHHHHHHHCCEEEEEecCCHHH-HHHHHHHHHHHHHHHhCCCCc-EEEEEecc
Confidence            4678999999875  345567778899999999987666 66677777777653     45 56789984

>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=95.83  E-value=0.018  Score=45.00  Aligned_cols=66  Identities=9%  Similarity=0.050  Sum_probs=43.7

Q ss_pred             CCceeEeecCCcccccHhHHhhhccccceEEEEEeccCCCCcchHHHHHHHHHcCCCeEEEEEeCC
Q psy9646         146 ENRHYSHTDCPGHADYIKNMITGTSQMDGAILVVAATDGAMPQTREHLLLAKQIGVTNIVVFINKF  211 (211)
Q Consensus       146 ~~~~~~~iDtPG~~~~~~~~~~~~~~~d~~~~vvd~~~~~~~~~~~~~~~~~~~~~~~~i~~inK~  211 (211)
                      ..+.++++|||+..........++..+|.+++++.....-.......++.++..+.+.+-+++|++
T Consensus       127 ~~yD~ViID~pp~~~~~~~~~~~~~~aD~viiv~~~~~~s~~~~~~~~~~l~~~~~~~~gvV~N~~  192 (262)
T 2ph1_A          127 GELDHLLIDLPPGTGDAPLTVMQDAKPTGVVVVSTPQELTAVIVEKAINMAEETNTSVLGLVENMS  192 (262)
T ss_dssp             CSCSEEEEECCSSSSSHHHHHHHHHCCSEEEEEECSSSCCHHHHHHHHHHHHTTTCCEEEEEETTC
T ss_pred             cCCCEEEEECcCCCchHHHHHHhhccCCeEEEEecCccchHHHHHHHHHHHHhCCCCEEEEEECCC
Confidence            456789999998643221122233368999999987655445556677778778888333788974

>2cjw_A GTP-binding protein GEM; nucleotide-binding, small GTPase, conformational change, cysteine-modified, G-protein hydrolase; HET: GDP; 2.10A {Homo sapiens} PDB: 2cjw_B* 2ht6_A*

Probab=95.76  E-value=0.011  Score=43.87  Aligned_cols=63  Identities=16%  Similarity=0.047  Sum_probs=34.9

Q ss_pred             ceeEeecCCcccccHhHH-hhhccccceEEEEEeccCCCC-cchHHHHHHHHH----cCCCeEEEEEeCC
Q psy9646         148 RHYSHTDCPGHADYIKNM-ITGTSQMDGAILVVAATDGAM-PQTREHLLLAKQ----IGVTNIVVFINKF  211 (211)
Q Consensus       148 ~~~~~iDtPG~~~~~~~~-~~~~~~~d~~~~vvd~~~~~~-~~~~~~~~~~~~----~~~~~~i~~inK~  211 (211)
                      .++.++||+|.+.....+ ..-...+|++++|.|...... .....++..+..    .++| ++++.||+
T Consensus        56 ~~l~~~Dt~~~~~~~~~~~~~~~~~~~~~i~v~dv~~~~s~~~~~~~~~~l~~~~~~~~~p-iilV~NK~  124 (192)
T 2cjw_A           56 ATIILLDMWENKGENEWLHDHCMQVGDAYLIVYSITDRASFEKASELRIQLRRARQTEDIP-IILVGNKS  124 (192)
T ss_dssp             EEEEEECCCCC----CTTGGGHHHHCSEEEEEEETTCHHHHHHHHHHHHHHHHHTTTSCCC-EEEEEECT
T ss_pred             EEEEEEEeccCcchhhhHHHhhcccCCEEEEEEECCCHHHHHHHHHHHHHHHHhhCCCCCe-EEEEEech
Confidence            356789999976521111 112346799999999764321 112223333332    2567 88999996

>3kjh_A CO dehydrogenase/acetyl-COA synthase complex, accessory protein COOC; Zn-bound dimer, nickel binding protein, ATPase; 1.90A {Carboxydothermus hydrogenoformans} PDB: 3kjg_A* 3kje_A 3kji_A*

Probab=95.73  E-value=0.0042  Score=47.79  Aligned_cols=64  Identities=16%  Similarity=0.143  Sum_probs=46.4

Q ss_pred             CCceeEeecCCcccccHhHHhhhccccceEEEEEeccCCCCcchHHHHHHHHHcCCCeEEEEEeCC
Q psy9646         146 ENRHYSHTDCPGHADYIKNMITGTSQMDGAILVVAATDGAMPQTREHLLLAKQIGVTNIVVFINKF  211 (211)
Q Consensus       146 ~~~~~~~iDtPG~~~~~~~~~~~~~~~d~~~~vvd~~~~~~~~~~~~~~~~~~~~~~~~i~~inK~  211 (211)
                      ..+.++++|||+....  ....++..+|.+++++.+...-......+.+.+...+++.+.+++||+
T Consensus       130 ~~yD~viiD~pp~~~~--~~~~~l~~aD~viiv~~~~~~s~~~~~~~~~~~~~~~~~~~~~v~N~~  193 (254)
T 3kjh_A          130 DKKEAVVMDMGAGIEH--LTRGTAKAVDMMIAVIEPNLNSIKTGLNIEKLAGDLGIKKVRYVINKV  193 (254)
T ss_dssp             TCCSEEEEEECTTCTT--CCHHHHTTCSEEEEEECSSHHHHHHHHHHHHHHHHHTCSCEEEEEEEE
T ss_pred             CCCCEEEEeCCCcccH--HHHHHHHHCCEEEEecCCCHHHHHHHHHHHHHHHHcCCccEEEEEeCC
Confidence            4567999999885433  455667889999999987533334455666777788887677889974

>3c5h_A Glucocorticoid receptor DNA-binding factor 1; RAS, GTPase, glucorticoid receptor, structural genomics consortium, SGC, alternative splicing; HET: GNP; 1.80A {Homo sapiens}

Probab=95.70  E-value=0.0067  Score=47.39  Aligned_cols=40  Identities=20%  Similarity=0.233  Sum_probs=25.2

Q ss_pred             ccceEEEEEeccCC--CC-cchHHHHHHHH----HcCCCeEEEEEeCC
Q psy9646         171 QMDGAILVVAATDG--AM-PQTREHLLLAK----QIGVTNIVVFINKF  211 (211)
Q Consensus       171 ~~d~~~~vvd~~~~--~~-~~~~~~~~~~~----~~~~~~~i~~inK~  211 (211)
                      .+|++++|+|+...  .. .....++..+.    ..++| +++|.||+
T Consensus       162 ~ad~vilV~D~t~~~~~s~~~~~~~l~~i~~~~~~~~~p-iilV~NK~  208 (255)
T 3c5h_A          162 LVDGFLLGIDVSRGMNRNFDDQLKFVSNLYNQLAKTKKP-IVVVLTKC  208 (255)
T ss_dssp             ECCEEEEEEECBC----CHHHHHHHHHHHHHHHHHTTCC-EEEEEECG
T ss_pred             cCCEEEEEEECCCCchhhHHHHHHHHHHHHHHhccCCCC-EEEEEEcc
Confidence            68999999999875  22 22223333332    24677 88999995

>1g3q_A MIND ATPase, cell division inhibitor; alpha-beta-alpha layered, protein-ADP complex, cell cycle, hydrolase; HET: ADP; 2.00A {Pyrococcus furiosus} SCOP: c.37.1.10 PDB: 1g3r_A* 1ion_A*

Probab=95.46  E-value=0.0094  Score=45.58  Aligned_cols=63  Identities=16%  Similarity=0.307  Sum_probs=45.0

Q ss_pred             CceeEeecCCcccccHhHHhhhccccceEEEEEeccCCCCcchHHHHHHHHHcCCCeEEEEEeCC
Q psy9646         147 NRHYSHTDCPGHADYIKNMITGTSQMDGAILVVAATDGAMPQTREHLLLAKQIGVTNIVVFINKF  211 (211)
Q Consensus       147 ~~~~~~iDtPG~~~~~~~~~~~~~~~d~~~~vvd~~~~~~~~~~~~~~~~~~~~~~~~i~~inK~  211 (211)
                      .+.++++|||+...  ..+..++..+|.+++++.+...-.......++.+...+.+.+-+++||+
T Consensus       111 ~yD~viiD~~~~~~--~~~~~~~~~ad~vi~v~~~~~~~~~~~~~~~~~l~~~~~~~~~vv~N~~  173 (237)
T 1g3q_A          111 KFDFILIDCPAGLQ--LDAMSAMLSGEEALLVTNPEISCLTDTMKVGIVLKKAGLAILGFVLNRY  173 (237)
T ss_dssp             GCSEEEEECCSSSS--HHHHHHHTTCSEEEEEECSCHHHHHHHHHHHHHHHHTTCEEEEEEEEEE
T ss_pred             cCCEEEEECCCCcC--HHHHHHHHHCCeEEEEecCCcccHHHHHHHHHHHHhCCCceEEEEEecC
Confidence            45689999998644  4556777889999999987543334455667777777777566788973

>2wsm_A Hydrogenase expression/formation protein (HYPB); metal binding protein; 2.30A {Archaeoglobus fulgidus}

Probab=95.44  E-value=0.007  Score=45.73  Aligned_cols=58  Identities=14%  Similarity=0.058  Sum_probs=35.0

Q ss_pred             CCceeEeecCCcccccHhHHhhhccccceEEEEEeccCCCCcchHHHHHHHHHcCCCeEEEEEeCC
Q psy9646         146 ENRHYSHTDCPGHADYIKNMITGTSQMDGAILVVAATDGAMPQTREHLLLAKQIGVTNIVVFINKF  211 (211)
Q Consensus       146 ~~~~~~~iDtPG~~~~~~~~~~~~~~~d~~~~vvd~~~~~~~~~~~~~~~~~~~~~~~~i~~inK~  211 (211)
                      .+..++++||||....  ..... ...+.+++|+|+..+...    .+......+.| .++++||+
T Consensus       107 ~~~d~iiidt~G~~~~--~~~~~-~~~~~~i~vvd~~~~~~~----~~~~~~~~~~~-~iiv~NK~  164 (221)
T 2wsm_A          107 SDCDLLLIENVGNLIC--PVDFD-LGENYRVVMVSVTEGDDV----VEKHPEIFRVA-DLIVINKV  164 (221)
T ss_dssp             TTCSEEEEEEEEBSSG--GGGCC-CSCSEEEEEEEGGGCTTH----HHHCHHHHHTC-SEEEEECG
T ss_pred             CCCCEEEEeCCCCCCC--Cchhc-cccCcEEEEEeCCCcchh----hhhhhhhhhcC-CEEEEecc
Confidence            4567889999995110  00011 245789999999876422    22233334677 56899995

>2ohf_A Protein OLA1, GTP-binding protein 9; ATPase, GTPase, P-loop, OBG-like, hydrolase; HET: ACP; 2.70A {Homo sapiens}

Probab=95.36  E-value=0.0071  Score=50.57  Aligned_cols=36  Identities=17%  Similarity=0.202  Sum_probs=24.5

Q ss_pred             ceeEeecCCcccccHh-------HHhhhccccceEEEEEeccC
Q psy9646         148 RHYSHTDCPGHADYIK-------NMITGTSQMDGAILVVAATD  183 (211)
Q Consensus       148 ~~~~~iDtPG~~~~~~-------~~~~~~~~~d~~~~vvd~~~  183 (211)
                      .++.|+||||+..+..       .....++.+|++++|+|+.+
T Consensus        86 ~~i~lvDtpGl~~~as~~~glg~~~l~~ir~aD~Il~VvD~~~  128 (396)
T 2ohf_A           86 AFLNVVDIAGLVKGAHNGQGLGNAFLSHISACDGIFHLTRAFE  128 (396)
T ss_dssp             CEEEEEECCC-----------CCHHHHHHHTSSSEEEEEEC--
T ss_pred             cccEEEECCCcccccchhhHHHHHHHHHHHhcCeEEEEEecCC
Confidence            4689999999876433       55677889999999999864

>1jal_A YCHF protein; nucleotide-binding fold, structural genomics, structure 2 function project, S2F, unknown function; 2.40A {Haemophilus influenzae} SCOP: c.37.1.8 d.15.10.2

Probab=95.30  E-value=0.0069  Score=50.07  Aligned_cols=36  Identities=14%  Similarity=0.146  Sum_probs=28.7

Q ss_pred             ceeEeecCCcccccH-------hHHhhhccccceEEEEEeccC
Q psy9646         148 RHYSHTDCPGHADYI-------KNMITGTSQMDGAILVVAATD  183 (211)
Q Consensus       148 ~~~~~iDtPG~~~~~-------~~~~~~~~~~d~~~~vvd~~~  183 (211)
                      .++.|+||||+.++.       ...+..++.+|++++|+|+.+
T Consensus        66 ~~i~lvDtpGl~~~a~~~~gl~~~fl~~ir~ad~il~VvD~~~  108 (363)
T 1jal_A           66 TTMEFVDIAGLVAGASKGEGLGNKFLANIRETDAIGHVVRCFE  108 (363)
T ss_dssp             CEEEEEECCSCCTTHHHHGGGTCCHHHHHHTCSEEEEEEECSC
T ss_pred             eEEEEEECCCCcccccccchHHHHHHHHHHhcCeEEEEEecCC
Confidence            479999999987653       234456789999999999976

>2yv5_A YJEQ protein; hydrolase, GTPase, permutation, structural genomics, NPPSFA, national project on protein structural and functional analyses; HET: GDP; 1.90A {Aquifex aeolicus}

Probab=95.25  E-value=0.013  Score=47.11  Aligned_cols=44  Identities=18%  Similarity=0.224  Sum_probs=32.8

Q ss_pred             hhccccceEEEEEeccCCCCcch--HHHHHHHHHcCCCeEEEEEeCC
Q psy9646         167 TGTSQMDGAILVVAATDGAMPQT--REHLLLAKQIGVTNIVVFINKF  211 (211)
Q Consensus       167 ~~~~~~d~~~~vvd~~~~~~~~~--~~~~~~~~~~~~~~~i~~inK~  211 (211)
                      ..++.+|++++|+|+.+......  .+++..+...++| +++|+||+
T Consensus        75 ~~~~naD~vliV~d~~~p~~s~~~l~~~l~~~~~~~~~-~ilV~NK~  120 (302)
T 2yv5_A           75 PKVANVDRVIIVETLKMPEFNNYLLDNMLVVYEYFKVE-PVIVFNKI  120 (302)
T ss_dssp             TEEESCCEEEEEECSTTTTCCHHHHHHHHHHHHHTTCE-EEEEECCG
T ss_pred             HHHHhcCEEEEEEECCCCCCCHHHHHHHHHHHHhCCCC-EEEEEEcc
Confidence            35789999999999987643322  3455666777888 67899996

>2xxa_A Signal recognition particle protein; protein transport, RNA/RNA binding protein, hydrolase, gtpas; HET: GCP; 3.94A {Escherichia coli} PDB: 2j28_9

Probab=95.21  E-value=0.04  Score=46.59  Aligned_cols=62  Identities=16%  Similarity=0.152  Sum_probs=37.0

Q ss_pred             CCceeEeecCCcccccHhHHhh------hccccceEEEEEeccCCCCcchHHHHHHHH-HcCCCeEEEEEeCC
Q psy9646         146 ENRHYSHTDCPGHADYIKNMIT------GTSQMDGAILVVAATDGAMPQTREHLLLAK-QIGVTNIVVFINKF  211 (211)
Q Consensus       146 ~~~~~~~iDtPG~~~~~~~~~~------~~~~~d~~~~vvd~~~~~~~~~~~~~~~~~-~~~~~~~i~~inK~  211 (211)
                      .++.++++||||...+...+..      .+..+|.+++|+|+..+.  .....++... ..++.  -+++||+
T Consensus       182 ~~~D~VIIDTpG~l~~~~~l~~~L~~~~~~~~p~~vllVvda~~g~--~~~~~~~~f~~~l~i~--gvVlnK~  250 (433)
T 2xxa_A          182 KFYDVLLVDTAGRLHVDEAMMDEIKQVHASINPVETLFVVDAMTGQ--DAANTAKAFNEALPLT--GVVLTKV  250 (433)
T ss_dssp             TTCSEEEEECCCCCTTCHHHHHHHHHHHHHSCCSEEEEEEETTBCT--THHHHHHHHHHHSCCC--CEEEECT
T ss_pred             CCCCEEEEECCCcccccHHHHHHHHHHHHhhcCcceeEEeecchhH--HHHHHHHHHhccCCCe--EEEEecC
Confidence            4567999999996554322222      234678999999997652  2222223222 23433  2578985

>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=95.01  E-value=0.013  Score=45.68  Aligned_cols=64  Identities=16%  Similarity=0.300  Sum_probs=44.7

Q ss_pred             CCceeEeecCCcccccHhHHhhhccccceEEEEEeccCCCCcchHHHHHHHHHcCCCeEEEEEeCC
Q psy9646         146 ENRHYSHTDCPGHADYIKNMITGTSQMDGAILVVAATDGAMPQTREHLLLAKQIGVTNIVVFINKF  211 (211)
Q Consensus       146 ~~~~~~~iDtPG~~~~~~~~~~~~~~~d~~~~vvd~~~~~~~~~~~~~~~~~~~~~~~~i~~inK~  211 (211)
                      ..+.++++|||+...  .....++..+|.+++++.+...-.......++.+...+.+.+-+++|++
T Consensus       109 ~~yD~viiD~~~~~~--~~~~~~~~~ad~vi~v~~~~~~~~~~~~~~~~~l~~~~~~~~~vv~N~~  172 (263)
T 1hyq_A          109 ESTDILLLDAPAGLE--RSAVIAIAAAQELLLVVNPEISSITDGLKTKIVAERLGTKVLGVVVNRI  172 (263)
T ss_dssp             HTCSEEEEECCSSSS--HHHHHHHHHSSEEEEEECSSHHHHHHHHHHHHHHHHHTCEEEEEEEEEE
T ss_pred             hhCCEEEEeCCCCCC--hHHHHHHHHCCEEEEEeCCChhHHHHHHHHHHHHHhcCCCeeEEEEccC
Confidence            346789999998644  4556677889999999886433334455566777777776565788873

>3ec1_A YQEH GTPase; atnos1, atnoa1, trap, PVHL, hydrolase, signaling protein; HET: GDP; 2.36A {Geobacillus stearothermophilus}

Probab=95.00  E-value=0.0008  Score=55.84  Aligned_cols=62  Identities=10%  Similarity=0.010  Sum_probs=37.5

Q ss_pred             eeEeecCCccccc-------HhHHhhhc---cccceEEEEEeccCCCCcchHHHHHHHHHcCCCeEEEEEeCC
Q psy9646         149 HYSHTDCPGHADY-------IKNMITGT---SQMDGAILVVAATDGAMPQTREHLLLAKQIGVTNIVVFINKF  211 (211)
Q Consensus       149 ~~~~iDtPG~~~~-------~~~~~~~~---~~~d~~~~vvd~~~~~~~~~~~~~~~~~~~~~~~~i~~inK~  211 (211)
                      .+.++||||..+.       ..+....+   ...|.+++++++.+.........+..+...+.| +++++||+
T Consensus       213 ~~~liDtPG~~~~~~~~~~l~~~~l~~~~~~~~i~~~~~~l~~~~~~~~g~l~~l~~l~~~~~~-~~~v~~k~  284 (369)
T 3ec1_A          213 GATLYDTPGIINHHQMAHFVDARDLKIITPKREIHPRVYQLNEGQTLFFGGLARLDYIKGGRRS-FVCYMANE  284 (369)
T ss_dssp             TCEEEECCSCCCCSSGGGGSCTTTHHHHSCSSCCCCEEEEECTTEEEEETTTEEEEEEESSSEE-EEEEECTT
T ss_pred             CeEEEeCCCcCcHHHHHHHHhHHHHHHHhcccccCceEEEEcCCceEEECCEEEEEEccCCCce-EEEEecCC
Confidence            4899999995432       12222223   678999999998533221111113344455666 88899985

>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=94.93  E-value=0.054  Score=45.91  Aligned_cols=63  Identities=22%  Similarity=0.279  Sum_probs=37.8

Q ss_pred             CCceeEeecCCcccc----cHhHH--hhhccccceEEEEEeccCCCCcchHHHHHHHHHcCCCeEEEEEeCC
Q psy9646         146 ENRHYSHTDCPGHAD----YIKNM--ITGTSQMDGAILVVAATDGAMPQTREHLLLAKQIGVTNIVVFINKF  211 (211)
Q Consensus       146 ~~~~~~~iDtPG~~~----~~~~~--~~~~~~~d~~~~vvd~~~~~~~~~~~~~~~~~~~~~~~~i~~inK~  211 (211)
                      .++.++++||||...    ++.++  +.....+|.++||+||..|.  .....++.... ..+...+++||+
T Consensus       181 ~~~DvVIIDTaGrl~~d~~lm~el~~i~~~~~pd~vlLVvDA~~gq--~a~~~a~~f~~-~~~i~gVIlTKl  249 (443)
T 3dm5_A          181 KGVDIIIVDTAGRHKEDKALIEEMKQISNVIHPHEVILVIDGTIGQ--QAYNQALAFKE-ATPIGSIIVTKL  249 (443)
T ss_dssp             TTCSEEEEECCCCSSCCHHHHHHHHHHHHHHCCSEEEEEEEGGGGG--GHHHHHHHHHH-SCTTEEEEEECC
T ss_pred             CCCCEEEEECCCcccchHHHHHHHHHHHHhhcCceEEEEEeCCCch--hHHHHHHHHHh-hCCCeEEEEECC
Confidence            346789999999543    22222  12334579999999998752  22334343332 234345789996

>3cio_A ETK, tyrosine-protein kinase ETK; WZC, escherichia coli tyrosine kinase domain, signaling protein, transferase, inner membrane, membrane; 2.50A {Escherichia coli}

Probab=94.54  E-value=0.078  Score=42.40  Aligned_cols=63  Identities=13%  Similarity=0.039  Sum_probs=46.7

Q ss_pred             ceeEeecCCcccccHhHHhhhccccceEEEEEeccCCCCcchHHHHHHHHHcCCCeEEEEEeCC
Q psy9646         148 RHYSHTDCPGHADYIKNMITGTSQMDGAILVVAATDGAMPQTREHLLLAKQIGVTNIVVFINKF  211 (211)
Q Consensus       148 ~~~~~iDtPG~~~~~~~~~~~~~~~d~~~~vvd~~~~~~~~~~~~~~~~~~~~~~~~i~~inK~  211 (211)
                      +-++++|||+....... ......+|.+++|+.+...........++.+...+.+.+=+++|++
T Consensus       214 yD~VIIDtpp~~~~~d~-~~l~~~ad~vilV~~~~~~~~~~~~~~~~~l~~~~~~~~GvVlN~~  276 (299)
T 3cio_A          214 YDLVIVDTPPMLAVSDA-AVVGRSVGTSLLVARFGLNTAKEVSLSMQRLEQAGVNIKGAILNGV  276 (299)
T ss_dssp             CSEEEEECCCTTTCTHH-HHHGGGCSEEEEEEETTTSCTTHHHHHHHHHHHTTCCCCCEEEEEC
T ss_pred             CCEEEEcCCCCchhHHH-HHHHHHCCEEEEEEcCCCChHHHHHHHHHHHHhCCCCeEEEEEeCC
Confidence            56899999987543322 2334678999999998777777778888888888877444678974

>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=94.51  E-value=0.051  Score=45.94  Aligned_cols=62  Identities=19%  Similarity=0.186  Sum_probs=38.0

Q ss_pred             CCceeEeecCCcccc------cHhHHhh--hccccceEEEEEeccCCCCcchHHHHHHHH-HcCCCeEEEEEeCC
Q psy9646         146 ENRHYSHTDCPGHAD------YIKNMIT--GTSQMDGAILVVAATDGAMPQTREHLLLAK-QIGVTNIVVFINKF  211 (211)
Q Consensus       146 ~~~~~~~iDtPG~~~------~~~~~~~--~~~~~d~~~~vvd~~~~~~~~~~~~~~~~~-~~~~~~~i~~inK~  211 (211)
                      .++.++++||||...      ++.++..  .....|.++||+|+..|.  .....++... ..+ + ..+++||+
T Consensus       178 ~~~DvvIIDTaGr~~~~~d~~lm~el~~i~~~~~pd~vlLVlDa~~gq--~a~~~a~~f~~~~~-~-~gVIlTKl  248 (433)
T 3kl4_A          178 NKMDIIIVDTAGRHGYGEETKLLEEMKEMYDVLKPDDVILVIDASIGQ--KAYDLASRFHQASP-I-GSVIITKM  248 (433)
T ss_dssp             TTCSEEEEEECCCSSSCCTTHHHHHHHHHHHHHCCSEEEEEEEGGGGG--GGHHHHHHHHHHCS-S-EEEEEECG
T ss_pred             cCCCEEEEECCCCccccCCHHHHHHHHHHHHhhCCcceEEEEeCccch--HHHHHHHHHhcccC-C-cEEEEecc
Confidence            356789999999544      3444322  222458999999998752  2333444443 333 3 45789995

>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=94.48  E-value=0.052  Score=43.23  Aligned_cols=63  Identities=13%  Similarity=0.097  Sum_probs=46.3

Q ss_pred             ceeEeecCCcccccHhHHhhhccccceEEEEEeccCCCCcchHHHHHHHHHcCCCeEEEEEeCC
Q psy9646         148 RHYSHTDCPGHADYIKNMITGTSQMDGAILVVAATDGAMPQTREHLLLAKQIGVTNIVVFINKF  211 (211)
Q Consensus       148 ~~~~~iDtPG~~~~~~~~~~~~~~~d~~~~vvd~~~~~~~~~~~~~~~~~~~~~~~~i~~inK~  211 (211)
                      +-++++|||....... +......+|.+++|+.+...-.....+.++.+...+.+.+=+|+||+
T Consensus       202 yD~VIIDtpp~~~~~d-a~~l~~~aD~vllVv~~~~~~~~~~~~~~~~l~~~g~~~~GvVlN~v  264 (286)
T 3la6_A          202 YDLVLIDTPPILAVTD-AAIVGRHVGTTLMVARYAVNTLKEVETSLSRFEQNGIPVKGVILNSI  264 (286)
T ss_dssp             CSEEEEECCCTTTCTH-HHHHTTTCSEEEEEEETTTSBHHHHHHHHHHHHHTTCCCCEEEEEEE
T ss_pred             CCEEEEcCCCCcchHH-HHHHHHHCCeEEEEEeCCCCcHHHHHHHHHHHHhCCCCEEEEEEcCc
Confidence            4589999998754432 33445678999999998665556666778888888887666788974

>3h2y_A GTPase family protein; GTP-binding protein YQEH, possibly involved in replication initiation, csgid, IDP90222; HET: DGI; 1.80A {Bacillus anthracis str}

Probab=94.36  E-value=0.0022  Score=53.19  Aligned_cols=62  Identities=10%  Similarity=0.036  Sum_probs=37.2

Q ss_pred             eeEeecCCccccc-------HhHHhh---hccccceEEEEEeccCCCCcchHHHHHHHHHcCCCeEEEEEeCC
Q psy9646         149 HYSHTDCPGHADY-------IKNMIT---GTSQMDGAILVVAATDGAMPQTREHLLLAKQIGVTNIVVFINKF  211 (211)
Q Consensus       149 ~~~~iDtPG~~~~-------~~~~~~---~~~~~d~~~~vvd~~~~~~~~~~~~~~~~~~~~~~~~i~~inK~  211 (211)
                      .+.++||||..+.       ..+...   .....+..++++++...........+..+...+.| +++++||+
T Consensus       212 ~~~liDtPG~~~~~~~~~~l~~~~l~~~~~~~~i~~~~~~l~~~~~~~~g~l~~~d~l~~~~~~-~~~v~nk~  283 (368)
T 3h2y_A          212 ESSLYDTPGIINHHQMAHYVGKQSLKLITPTKEIKPMVFQLNEEQTLFFSGLARFDYVSGGRRA-FTCHFSNR  283 (368)
T ss_dssp             SCEEEECCCBCCTTSGGGGSCHHHHHHHSCSSCCCCEEEEECTTEEEEETTTEEEEEEESSSEE-EEEEECTT
T ss_pred             CeEEEeCCCcCcHHHHHHHhhHHHHHHhccccccCceEEEEcCCCEEEEcceEEEEEecCCCce-EEEEecCc
Confidence            4899999996432       122222   24678999999998533222221123334445666 88899985

>3cwq_A Para family chromosome partitioning protein; alpha-beta protein, structural genomics, PSI-2, protein STRU initiative; HET: ADP; 2.47A {Synechocystis SP}

Probab=94.23  E-value=0.025  Score=42.69  Aligned_cols=63  Identities=6%  Similarity=0.018  Sum_probs=43.6

Q ss_pred             CCceeEeecCCcc-cccHhHHhhhccccceEEEEEeccCCCCcchHHHHHHHHHc-CCCeEEEEEeCC
Q psy9646         146 ENRHYSHTDCPGH-ADYIKNMITGTSQMDGAILVVAATDGAMPQTREHLLLAKQI-GVTNIVVFINKF  211 (211)
Q Consensus       146 ~~~~~~~iDtPG~-~~~~~~~~~~~~~~d~~~~vvd~~~~~~~~~~~~~~~~~~~-~~~~~i~~inK~  211 (211)
                      ..+.++++|||+. ...  .+..++..+|.+++++.+...-.......++.+... +.+ +.+++|++
T Consensus        66 ~~yD~viiD~p~~~~~~--~~~~~l~~aD~viiv~~~~~~~~~~~~~~~~~l~~~~~~~-~~vv~N~~  130 (209)
T 3cwq_A           66 PKYQNIVIDTQARPEDE--DLEALADGCDLLVIPSTPDALALDALMLTIETLQKLGNNR-FRILLTII  130 (209)
T ss_dssp             GGCSEEEEEEECCCSSS--HHHHHHHTSSEEEEEECSSHHHHHHHHHHHHHHHHTCSSS-EEEEECSB
T ss_pred             hcCCEEEEeCCCCcCcH--HHHHHHHHCCEEEEEecCCchhHHHHHHHHHHHHhccCCC-EEEEEEec
Confidence            3467999999987 433  344567789999999987543334455666777664 566 66789974

>3ea0_A ATPase, para family; alpha-beta-alpha sandwich, structural genomics, PSI-2, prote structure initiative; HET: ATP; 2.20A {Chlorobium tepidum}

Probab=94.20  E-value=0.033  Score=42.62  Aligned_cols=63  Identities=16%  Similarity=0.191  Sum_probs=44.2

Q ss_pred             CceeEeecCCcccccHhHHhhhccccceEEEEEeccCCCCcchHHHHHHHHHcC--CCeEEEEEeCC
Q psy9646         147 NRHYSHTDCPGHADYIKNMITGTSQMDGAILVVAATDGAMPQTREHLLLAKQIG--VTNIVVFINKF  211 (211)
Q Consensus       147 ~~~~~~iDtPG~~~~~~~~~~~~~~~d~~~~vvd~~~~~~~~~~~~~~~~~~~~--~~~~i~~inK~  211 (211)
                      .+.++++|||+....  ....++..+|.+++++.....-.......++.+...+  .+.+-+++|++
T Consensus       118 ~yD~viiD~p~~~~~--~~~~~l~~ad~viiv~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~v~N~~  182 (245)
T 3ea0_A          118 FYDYIIVDFGASIDH--VGVWVLEHLDELCIVTTPSLQSLRRAGQLLKLCKEFEKPISRIEIILNRA  182 (245)
T ss_dssp             HCSEEEEEEESSCCT--THHHHGGGCSEEEEEECSSHHHHHHHHHHHHHHHTCSSCCSCEEEEEEST
T ss_pred             hCCEEEEeCCCCCch--HHHHHHHHCCEEEEEecCcHHHHHHHHHHHHHHHHhCCCccceEEEEecC
Confidence            456899999986432  4556678899999999875433345566777777766  34466789984

>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=94.01  E-value=0.056  Score=42.12  Aligned_cols=63  Identities=16%  Similarity=0.192  Sum_probs=42.5

Q ss_pred             CCceeEeecCCcccccHhHHhhhccccceEEEEEeccCCCCcchHHHHHHHHHcC--CCeEEEEEeCC
Q psy9646         146 ENRHYSHTDCPGHADYIKNMITGTSQMDGAILVVAATDGAMPQTREHLLLAKQIG--VTNIVVFINKF  211 (211)
Q Consensus       146 ~~~~~~~iDtPG~~~~~~~~~~~~~~~d~~~~vvd~~~~~~~~~~~~~~~~~~~~--~~~~i~~inK~  211 (211)
                      ..+-++++|||+...  .....++..+|.+++++.+...-.......++.+...+  .+ +.+++|++
T Consensus       143 ~~yD~viiD~pp~~~--~~~~~~l~~aD~vivv~~~~~~s~~~~~~~~~~l~~~~~~~~-~~vv~N~~  207 (267)
T 3k9g_A          143 YKYDYIVIDTNPSLD--VTLKNALLCSDYVIIPMTAEKWAVESLDLFNFFVRKLNLFLP-IFLIITRF  207 (267)
T ss_dssp             TTCSEEEEEECSSCS--HHHHHHHTTCSEEEEEEESCTTHHHHHHHHHHHHHTTTCCCC-EEEEEEEE
T ss_pred             cCCCEEEEECcCCcc--HHHHHHHHHCCeEEEEeCCChHHHHHHHHHHHHHHHHhccCC-EEEEEecc
Confidence            346689999998643  33556677799999999874433334455666776664  34 56788973

>2qag_C Septin-7; cell cycle, cell division, GTP-binding, nucleotide-binding, phosphorylation, acetylation, alternative splicing, coiled coil; HET: GDP GTP; 4.00A {Homo sapiens}

Probab=94.01  E-value=0.043  Score=46.21  Aligned_cols=38  Identities=21%  Similarity=0.326  Sum_probs=27.6

Q ss_pred             cceEEEEEecc-CCCCcchHHHHHHHHHcCCCeEEEEEeCC
Q psy9646         172 MDGAILVVAAT-DGAMPQTREHLLLAKQIGVTNIVVFINKF  211 (211)
Q Consensus       172 ~d~~~~vvd~~-~~~~~~~~~~~~~~~~~~~~~~i~~inK~  211 (211)
                      ++++++++++. .+..+.+..+++.+.. +++ +|+|+||+
T Consensus       139 ~~vlL~ldePt~~~L~~~d~~~lk~L~~-~v~-iIlVinK~  177 (418)
T 2qag_C          139 VQCCLYFIAPSGHGLKPLDIEFMKRLHE-KVN-IIPLIAKA  177 (418)
T ss_dssp             CCEEEEECCC-CCSCCHHHHHHHHHHTT-TSE-EEEEEEST
T ss_pred             eeEEEEEecCcccCCCHHHHHHHHHHhc-cCc-EEEEEEcc
Confidence            44677777765 6888877777777754 777 88999996

>2qag_B Septin-6, protein NEDD5; cell cycle, cell division, GTP-binding, nucleotide-binding, phosphorylation, acetylation, alternative splicing, coiled coil; HET: GDP GTP; 4.00A {Homo sapiens}

Probab=93.66  E-value=0.1  Score=44.02  Aligned_cols=36  Identities=11%  Similarity=0.035  Sum_probs=27.0

Q ss_pred             eEEEEEeccCCCCcchHHHHHHHHHcCCCeEEEEEeCC
Q psy9646         174 GAILVVAATDGAMPQTREHLLLAKQIGVTNIVVFINKF  211 (211)
Q Consensus       174 ~~~~vvd~~~~~~~~~~~~~~~~~~~~~~~~i~~inK~  211 (211)
                      +++|++|+..++...+.++++.+. .++| +|+++||+
T Consensus       151 ~v~fI~d~~~~l~~~Dieilk~L~-~~~~-vI~Vi~Kt  186 (427)
T 2qag_B          151 CLYFIAPTGHSLKSLDLVTMKKLD-SKVN-IIPIIAKA  186 (427)
T ss_dssp             EEEEECCCC---CHHHHHHHHHTC-SCSE-EEEEESCG
T ss_pred             EEEEEeCCCCCCCHHHHHHHHHHh-hCCC-EEEEEcch
Confidence            577889999999998888888776 5666 88999995

>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=93.61  E-value=0.067  Score=42.16  Aligned_cols=63  Identities=13%  Similarity=0.154  Sum_probs=44.2

Q ss_pred             ceeEeecCCcccccHhHHhhhccccceEEEEEeccCCCCcchHHHHHHHHHcCCCeEEEEEeCC
Q psy9646         148 RHYSHTDCPGHADYIKNMITGTSQMDGAILVVAATDGAMPQTREHLLLAKQIGVTNIVVFINKF  211 (211)
Q Consensus       148 ~~~~~iDtPG~~~~~~~~~~~~~~~d~~~~vvd~~~~~~~~~~~~~~~~~~~~~~~~i~~inK~  211 (211)
                      +.++++|||+...... +......+|.+++++.+...-.......++.+...+.+.+=+++|++
T Consensus       192 yD~VIIDtpp~~~~~d-~~~l~~~aD~vilVv~~~~~~~~~~~~~~~~l~~~~~~~~GvVlN~~  254 (271)
T 3bfv_A          192 YNFVIIDTPPVNTVTD-AQLFSKFTGNVVYVVNSENNNKDEVKKGKELIEATGAKLLGVVLNRM  254 (271)
T ss_dssp             CSEEEEECCCTTTCSH-HHHHHHHHCEEEEEEETTSCCHHHHHHHHHHHHTTTCEEEEEEEEEE
T ss_pred             CCEEEEeCCCCchHHH-HHHHHHHCCEEEEEEeCCCCcHHHHHHHHHHHHhCCCCEEEEEEeCC
Confidence            5689999998654322 22233568999999998666556667777888878887443688974

>2qm8_A GTPase/ATPase; G protein, G3E, metallochaperone, chaperone; HET: MSE; 1.70A {Methylobacterium extorquens} SCOP: c.37.1.10 PDB: 2qm7_A*

Probab=93.28  E-value=0.048  Score=44.44  Aligned_cols=37  Identities=8%  Similarity=0.012  Sum_probs=26.8

Q ss_pred             eCCceeEeecCCcccccHhHHhhhccccceEEEEEeccCC
Q psy9646         145 TENRHYSHTDCPGHADYIKNMITGTSQMDGAILVVAATDG  184 (211)
Q Consensus       145 ~~~~~~~~iDtPG~~~~~~~~~~~~~~~d~~~~vvd~~~~  184 (211)
                      ..+.+++|+||||..+-..   .....+|++++++|+..+
T Consensus       145 ~~~~~~iliDT~Gi~~~~~---~v~~~~d~vl~v~d~~~~  181 (337)
T 2qm8_A          145 AAGFDVILVETVGVGQSET---AVADLTDFFLVLMLPGAG  181 (337)
T ss_dssp             HTTCCEEEEEECSSSSCHH---HHHTTSSEEEEEECSCC-
T ss_pred             cCCCCEEEEECCCCCcchh---hHHhhCCEEEEEEcCCCc
Confidence            3577899999999764322   223689999999997543

>1t9h_A YLOQ, probable GTPase ENGC; N-terminal beta-barrel domain with oligonucleotide binding fold, central GTP binding domain; 1.60A {Bacillus subtilis} SCOP: b.40.4.5 c.37.1.8

Probab=92.99  E-value=0.12  Score=41.63  Aligned_cols=43  Identities=21%  Similarity=0.364  Sum_probs=31.6

Q ss_pred             hccccceEEEEEeccCCCCcch--HHHHHHHHHcCCCeEEEEEeCC
Q psy9646         168 GTSQMDGAILVVAATDGAMPQT--REHLLLAKQIGVTNIVVFINKF  211 (211)
Q Consensus       168 ~~~~~d~~~~vvd~~~~~~~~~--~~~~~~~~~~~~~~~i~~inK~  211 (211)
                      .++.+|.+++|+|+..+.....  .+++..+...++| .++++||+
T Consensus        83 ~~anvD~v~~V~~~~~p~~~~~~i~r~L~~~~~~~~~-~vivlnK~  127 (307)
T 1t9h_A           83 PICNVDQAVLVFSAVQPSFSTALLDRFLVLVEANDIQ-PIICITKM  127 (307)
T ss_dssp             TEECCCEEEEEEESTTTTCCHHHHHHHHHHHHTTTCE-EEEEEECG
T ss_pred             HHHhCCEEEEEEeCCCCCCCHHHHHHHHHHHHHCCCC-EEEEEECC
Confidence            5789999999999987776554  2233344557888 56899995

>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=92.59  E-value=0.047  Score=42.16  Aligned_cols=63  Identities=10%  Similarity=0.160  Sum_probs=41.5

Q ss_pred             CceeEeecCCcccccHhHHhhhccccceEEEEEeccCCCCcchHHHHHHHHHcCC--------CeEEEEEeCC
Q psy9646         147 NRHYSHTDCPGHADYIKNMITGTSQMDGAILVVAATDGAMPQTREHLLLAKQIGV--------TNIVVFINKF  211 (211)
Q Consensus       147 ~~~~~~iDtPG~~~~~~~~~~~~~~~d~~~~vvd~~~~~~~~~~~~~~~~~~~~~--------~~~i~~inK~  211 (211)
                      .+.++++|||+...  .....++..+|.+++++++...-.......++.+...+.        ..+-+++|++
T Consensus       113 ~yD~viiD~p~~~~--~~~~~~l~~ad~vi~v~~~~~~s~~~~~~~~~~l~~~~~~~~~~~~~~~~~~v~N~~  183 (260)
T 3q9l_A          113 DFEFIVCDSPAGIE--TGALMALYFADEAIITTNPEVSSVRDSDRILGILASKSRRAENGEEPIKEHLLLTRY  183 (260)
T ss_dssp             TCSEEEEECCSSSS--HHHHHHHHTCSEEEEEECSSHHHHHHHHHHHHHHTTSSHHHHTTCSCCEEEEEEEEE
T ss_pred             CCCEEEEcCCCCCC--HHHHHHHHhCCEEEEEecCChhHHHHHHHHHHHHHHhccccccccCCcceEEEEecC
Confidence            56799999998543  356677789999999998743333344445555554431        2355788873

>2oze_A ORF delta'; para, walker type atpases, DNA segregation, PSM19035, plasmid, DNA binding protein; HET: AGS EPE; 1.83A {Streptococcus pyogenes}

Probab=92.50  E-value=0.11  Score=41.06  Aligned_cols=63  Identities=8%  Similarity=-0.014  Sum_probs=40.3

Q ss_pred             CceeEeecCCcccccHhHHhhhccccceEEEEEeccCCCCcchHHHHHHHHH------cCCCeEEEEEeCC
Q psy9646         147 NRHYSHTDCPGHADYIKNMITGTSQMDGAILVVAATDGAMPQTREHLLLAKQ------IGVTNIVVFINKF  211 (211)
Q Consensus       147 ~~~~~~iDtPG~~~~~~~~~~~~~~~d~~~~vvd~~~~~~~~~~~~~~~~~~------~~~~~~i~~inK~  211 (211)
                      .+.++++|||+.....  ...++..+|.+++++.+...-.......++.+..      .+.+.+-+++|++
T Consensus       154 ~yD~IiiD~pp~~~~~--~~~~l~~aD~viiv~~~~~~s~~~~~~~~~~l~~~~~~~~~~~~~~gvv~n~~  222 (298)
T 2oze_A          154 DYDLIIIDTVPTPSVY--TNNAIVASDYVMIPLQAEEESTNNIQNYISYLIDLQEQFNPGLDMIGFVPYLV  222 (298)
T ss_dssp             GCSEEEEEECSSCSHH--HHHHHHHCSEEEEEECGGGCCHHHHHHHHHHHHHHHHHHCTTCEEEEEEEEES
T ss_pred             CCCEEEEECCCCccHH--HHHHHHHCCeEEEEecCcHHHHHHHHHHHHHHHHHHHHhCCCCeEEEEEEEEE
Confidence            4568999999865432  2345556999999999865544444555555544      2555333678874

>1ni3_A YCHF GTPase, YCHF GTP-binding protein; structural genomics, GTP1OBG, PSI, protein structure initiative; 2.80A {Schizosaccharomyces pombe} SCOP: c.37.1.8 d.15.10.2

Probab=92.42  E-value=0.1  Score=43.56  Aligned_cols=36  Identities=19%  Similarity=0.198  Sum_probs=28.2

Q ss_pred             ceeEeecCCcccc-------cHhHHhhhccccceEEEEEeccC
Q psy9646         148 RHYSHTDCPGHAD-------YIKNMITGTSQMDGAILVVAATD  183 (211)
Q Consensus       148 ~~~~~iDtPG~~~-------~~~~~~~~~~~~d~~~~vvd~~~  183 (211)
                      .++.++|+||...       +.......+..+|++++|+|+..
T Consensus        85 ~~i~lvD~pGl~~~~s~~e~L~~~fl~~ir~~d~il~Vvd~~~  127 (392)
T 1ni3_A           85 AFLTVFDIAGLTKGASTGVGLGNAFLSHVRAVDAIYQVVRAFD  127 (392)
T ss_dssp             EEEEEECTGGGCCCCCSSSSSCHHHHHHHTTCSEEEEEEECCC
T ss_pred             cceEEEeccccccCCcHHHHHHHHHHHHHHHHHHHHHHHhccc
Confidence            4688999999653       34456777789999999999864

>2dby_A GTP-binding protein; GDP, structural genomics, NPPSFA, natio project on protein structural and functional analyses; HET: GDP; 1.76A {Thermus thermophilus} PDB: 2dwq_A

Probab=91.97  E-value=0.13  Score=42.53  Aligned_cols=37  Identities=11%  Similarity=0.102  Sum_probs=29.7

Q ss_pred             CceeEeecCCccccc-------HhHHhhhccccceEEEEEeccC
Q psy9646         147 NRHYSHTDCPGHADY-------IKNMITGTSQMDGAILVVAATD  183 (211)
Q Consensus       147 ~~~~~~iDtPG~~~~-------~~~~~~~~~~~d~~~~vvd~~~  183 (211)
                      ..++.++||||+.++       ....+..+..+|++++|+|+..
T Consensus        68 ~~~i~lvDtpGl~~~a~~~~~lg~~fl~~ir~ad~ii~VvD~~~  111 (368)
T 2dby_A           68 PTHVEFVDIAGLVKGAHKGEGLGNQFLAHIREVAAIAHVLRCFP  111 (368)
T ss_dssp             CCEEEEEECCSCCCCCCSSSCTTHHHHHHHHTCSEEEEEEECCC
T ss_pred             CceEEEEECCCccccccccchHHHHHHHHHHhCCEEEEEEECCC
Confidence            357899999998754       3456677899999999999975

>1wcv_1 SOJ, segregation protein; ATPase, bacterial, chromosome segregation; 1.6A {Thermus thermophilus} PDB: 2bej_A* 2bek_A*

Probab=91.84  E-value=0.17  Score=39.20  Aligned_cols=64  Identities=13%  Similarity=0.170  Sum_probs=38.4

Q ss_pred             CCceeEeecCCcccccHhHHhhhccccceEEEEEeccCCCCcchHHHHHHHHH------cCCCeEEEEEeCC
Q psy9646         146 ENRHYSHTDCPGHADYIKNMITGTSQMDGAILVVAATDGAMPQTREHLLLAKQ------IGVTNIVVFINKF  211 (211)
Q Consensus       146 ~~~~~~~iDtPG~~~~~~~~~~~~~~~d~~~~vvd~~~~~~~~~~~~~~~~~~------~~~~~~i~~inK~  211 (211)
                      ..+.++++|||+.....  ...++..+|.+++++.+...-.......++.+..      .+.+.+-+++|++
T Consensus       110 ~~yD~iiiD~pp~~~~~--~~~~l~~aD~viiv~~~~~~s~~~~~~~~~~l~~~~~~~~~~~~~~gvv~N~~  179 (257)
T 1wcv_1          110 EGYDLVLLDAPPSLSPL--TLNALAAAEGVVVPVQAEYYALEGVAGLLATLEEVRAGLNPRLRLLGILVTMY  179 (257)
T ss_dssp             TTCSEEEEECCSSCCHH--HHHHHHHCSEEEEEEESSTHHHHHHHHHHHHHHHHHHHTCTTCEEEEEEEESB
T ss_pred             cCCCEEEEeCCCCCCHH--HHHHHHHCCeEEEEecCchHHHHHHHHHHHHHHHHHHHhCCCceEEEEEEEeE
Confidence            45679999999864432  3455677999999998743322223334444432      2455223678874

>4he6_A Peptidase family U32; ultra-tight crystal packing, unknown function; 1.10A {Geobacillus thermoleovorans} PDB: 4he5_A

Probab=91.64  E-value=0.092  Score=34.04  Aligned_cols=56  Identities=23%  Similarity=0.115  Sum_probs=39.8

Q ss_pred             EEEEecCCEEEE-eecCceeeEEEEEEEe-cceeccee-cccCceehhccCCCcccccccccc
Q psy9646          45 RGIVKKGMECEF-TGYGRQFKTTVTGIEM-FHKILDEA-QAGDQLGALVKGMKRDEVNRGLIM  104 (211)
Q Consensus        45 ~G~i~~g~~v~i-~p~~~~~~~~v~~i~~-~~~~~~~a-~~G~~v~~~l~~~~~~~v~~G~ii  104 (211)
                      ...+++||.+.+ .|.+.....++.+|.- ..++++.| .+|+.+.+.+.    ..+..|+++
T Consensus        27 rN~f~~GD~iEi~~P~g~~~~~~v~~m~d~~G~~i~~A~~~~~~v~i~~~----~~~~~~dil   85 (89)
T 4he6_A           27 RNHFRPGDEVEFFGPEIENFTQVIEKIWDEDGNELDAARHPLQIVKFKVK----RPLFPYNMM   85 (89)
T ss_dssp             SSCBCTTCEEEEESTTSCCEEEECCCEEETTSCEESCBCSTTCEEEEECS----SCCCTTCEE
T ss_pred             cCCcCCCCEEEEEcCCCCcEEEEeHHeEcCCCCEeeEcCCCCeEEEEECC----CCCCCCCEE
Confidence            456788999975 7877556778888873 34689998 99999988554    234455543

>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=90.91  E-value=0.48  Score=39.85  Aligned_cols=62  Identities=21%  Similarity=0.308  Sum_probs=35.0

Q ss_pred             CCceeEeecCCccccc----HhHH--hhhccccceEEEEEeccCCCCcchHHHHHHHH-HcCCCeEEEEEeCC
Q psy9646         146 ENRHYSHTDCPGHADY----IKNM--ITGTSQMDGAILVVAATDGAMPQTREHLLLAK-QIGVTNIVVFINKF  211 (211)
Q Consensus       146 ~~~~~~~iDtPG~~~~----~~~~--~~~~~~~d~~~~vvd~~~~~~~~~~~~~~~~~-~~~~~~~i~~inK~  211 (211)
                      .++.++++||||....    +.++  ......+|.+++|+|+..+  ......++... ..++.  -+++||+
T Consensus       179 ~~~DvVIIDTaG~l~~d~~l~~el~~i~~~~~pd~vlLVvDa~tg--q~av~~a~~f~~~l~i~--GVIlTKl  247 (425)
T 2ffh_A          179 EARDLILVDTAGRLQIDEPLMGELARLKEVLGPDEVLLVLDAMTG--QEALSVARAFDEKVGVT--GLVLTKL  247 (425)
T ss_dssp             TTCSEEEEECCCCSSCCHHHHHHHHHHHHHHCCSEEEEEEEGGGT--THHHHHHHHHHHHTCCC--EEEEESG
T ss_pred             CCCCEEEEcCCCcccccHHHHHHHHHhhhccCCceEEEEEeccch--HHHHHHHHHHHhcCCce--EEEEeCc
Confidence            4567899999995432    3322  1222357899999999754  11222222222 23333  3578984

>1zu4_A FTSY; GTPase, signal recognition particle, SRP, receptor, protein transport; 1.95A {Mycoplasma mycoides} PDB: 1zu5_A

Probab=90.18  E-value=0.33  Score=39.18  Aligned_cols=39  Identities=23%  Similarity=0.231  Sum_probs=25.0

Q ss_pred             CCceeEeecCCcccccH----hHHh---hhc-----cccceEEEEEeccCC
Q psy9646         146 ENRHYSHTDCPGHADYI----KNMI---TGT-----SQMDGAILVVAATDG  184 (211)
Q Consensus       146 ~~~~~~~iDtPG~~~~~----~~~~---~~~-----~~~d~~~~vvd~~~~  184 (211)
                      .++-++++||||.....    .++.   ..+     ..+|.+++++++..+
T Consensus       190 ~~yD~VIIDTpg~l~~~~~l~~eL~~~~~vi~~~~p~~~d~vllVl~a~~~  240 (320)
T 1zu4_A          190 QNYDLLLIDTAGRLQNKTNLMAELEKMNKIIQQVEKSAPHEVLLVIDATTG  240 (320)
T ss_dssp             TTCSEEEEECCCCGGGHHHHHHHHHHHHHHHHTTCTTCCSEEEEEEEGGGT
T ss_pred             cCCCEEEEcCCCcccccHHHHHHHHHHHHHHhcccCCCCceEEEEEECCCc
Confidence            45679999999965432    2211   111     237899999999744

>3ec1_A YQEH GTPase; atnos1, atnoa1, trap, PVHL, hydrolase, signaling protein; HET: GDP; 2.36A {Geobacillus stearothermophilus}

Probab=89.69  E-value=0.13  Score=42.33  Aligned_cols=51  Identities=14%  Similarity=-0.014  Sum_probs=33.5

Q ss_pred             ccccHhHHhhhccccceEEEEEeccCCCCcchHHHHHHHHHcCCCeEEEEEeCC
Q psy9646         158 HADYIKNMITGTSQMDGAILVVAATDGAMPQTREHLLLAKQIGVTNIVVFINKF  211 (211)
Q Consensus       158 ~~~~~~~~~~~~~~~d~~~~vvd~~~~~~~~~~~~~~~~~~~~~~~~i~~inK~  211 (211)
                      +++|.+........+|++++|+|+.+.......++.+.+  .+.| +++|+||+
T Consensus        58 ~e~f~~~L~~~~~~~~lil~VvD~~d~~~s~~~~l~~~l--~~~p-iilV~NK~  108 (369)
T 3ec1_A           58 DDDFLSMLHRIGESKALVVNIVDIFDFNGSFIPGLPRFA--ADNP-ILLVGNKA  108 (369)
T ss_dssp             -CHHHHHHHHHHHHCCEEEEEEETTCSGGGCCSSHHHHC--TTSC-EEEEEECG
T ss_pred             HHHHHHHHHHhhccCcEEEEEEECCCCCCchhhHHHHHh--CCCC-EEEEEECh
Confidence            556766666666788999999999876543333333332  2556 77899995

>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=87.03  E-value=1.1  Score=35.59  Aligned_cols=39  Identities=23%  Similarity=0.290  Sum_probs=24.7

Q ss_pred             CCceeEeecCCccccc----HhHHhhhc--cccceEEEEEeccCC
Q psy9646         146 ENRHYSHTDCPGHADY----IKNMITGT--SQMDGAILVVAATDG  184 (211)
Q Consensus       146 ~~~~~~~iDtPG~~~~----~~~~~~~~--~~~d~~~~vvd~~~~  184 (211)
                      .++.++++||||....    +.++....  ..+|.+++++|+..+
T Consensus       179 ~~~D~viiDtpp~~~~d~~~~~~l~~~~~~~~~~~~~lv~~~~~~  223 (295)
T 1ls1_A          179 EARDLILVDTAGRLQIDEPLMGELARLKEVLGPDEVLLVLDAMTG  223 (295)
T ss_dssp             HTCCEEEEECCCCSSCCHHHHHHHHHHHHHHCCSEEEEEEEGGGT
T ss_pred             CCCCEEEEeCCCCccccHHHHHHHHHHhhhcCCCEEEEEEeCCCc
Confidence            4567999999985432    22221111  247888999998743

>1f5n_A Interferon-induced guanylate-binding protein 1; GBP, GTP hydrolysis, GDP, GMP, dynamin related, large GTPase family. GMPPNP, GPPNHP.; HET: GNP; 1.70A {Homo sapiens} SCOP: a.114.1.1 c.37.1.8 PDB: 1dg3_A* 2b8w_A* 2b92_A* 2bc9_A* 2d4h_A*

Probab=86.67  E-value=0.14  Score=45.07  Aligned_cols=52  Identities=15%  Similarity=0.113  Sum_probs=32.5

Q ss_pred             CCceeEeecCCcccccHh------HHhhhccccceEEEEEeccCCCCcchHHHHHHHH
Q psy9646         146 ENRHYSHTDCPGHADYIK------NMITGTSQMDGAILVVAATDGAMPQTREHLLLAK  197 (211)
Q Consensus       146 ~~~~~~~iDtPG~~~~~~------~~~~~~~~~d~~~~vvd~~~~~~~~~~~~~~~~~  197 (211)
                      .+..+.++||||..+..+      ....++...-..++|+|+..++..++..++..+.
T Consensus        89 ~~~~i~LiDTpGi~~~~~~~~~~~~~~fala~llss~lv~n~~~~i~~~dl~~l~~v~  146 (592)
T 1f5n_A           89 PGHILVLLDTEGLGDVEKGDNQNDSWIFALAVLLSSTFVYNSIGTINQQAMDQLYYVT  146 (592)
T ss_dssp             TTCEEEEEEECCBCCGGGCCCTTHHHHHHHHHHHCSEEEEEEESCSSHHHHHTTHHHH
T ss_pred             CCceEEEecCCCcCcccccchhHHHHHHHHHHHhcCeEEEECCCCccHHHHHHHHHHH
Confidence            467899999999764322      1222222211237888888888888777655543

>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=86.47  E-value=1.1  Score=33.55  Aligned_cols=66  Identities=15%  Similarity=0.030  Sum_probs=35.7

Q ss_pred             CCceeEeecCCcccc--cH---hHHhhhccccceEEEEEeccCCCCcchHHHHHHHHHcCCCeEEEEEeCC
Q psy9646         146 ENRHYSHTDCPGHAD--YI---KNMITGTSQMDGAILVVAATDGAMPQTREHLLLAKQIGVTNIVVFINKF  211 (211)
Q Consensus       146 ~~~~~~~iDtPG~~~--~~---~~~~~~~~~~d~~~~vvd~~~~~~~~~~~~~~~~~~~~~~~~i~~inK~  211 (211)
                      .++-++++||||.-.  ..   ..+.-+....+.+++++.+..+-..+....++.++..+.+..=+++|++
T Consensus       107 ~~yD~viID~p~~l~~p~~~~~~~~~l~~~~~~~vi~v~~~~~~~~~~~~~~i~~l~~~~~~i~gvvlN~~  177 (224)
T 1byi_A          107 QQADWVLVEGAGGWFTPLSDTFTFADWVTQEQLPVILVVGVKLGCINHAMLTAQVIQHAGLTLAGWVANDV  177 (224)
T ss_dssp             TTCSEEEEECSSSTTCEEETTEEHHHHHHHHTCCEEEEEECSTTHHHHHHHHHHHHHHTTCCEEEEEEECC
T ss_pred             HhCCEEEEEcCCccccCCCcchhHHHHHHHhCCCEEEEecCCCCcHHHHHHHHHHHHHCCCcEEEEEEeCC
Confidence            356799999997542  11   1111111111247777776433223445556666677777443678974

>3l82_B F-box only protein 4; TRFH domain, helix, GTPase domain, acetylation, ADP- ribosylation, alternative splicing, cell cycle, cell division; 2.40A {Homo sapiens}

Probab=86.39  E-value=1.2  Score=34.02  Aligned_cols=40  Identities=18%  Similarity=0.238  Sum_probs=25.1

Q ss_pred             cccceEEEEEeccCCCCcchHHHH----HHHHH----cCCCeEEEEEeC
Q psy9646         170 SQMDGAILVVAATDGAMPQTREHL----LLAKQ----IGVTNIVVFINK  210 (211)
Q Consensus       170 ~~~d~~~~vvd~~~~~~~~~~~~~----~~~~~----~~~~~~i~~inK  210 (211)
                      ..+|++|||||+.+......++-+    +.+..    .++| ++|+.||
T Consensus       124 ~~TdglIfVVDSsD~~R~eak~EL~eL~~mL~ee~~L~gap-LLVlANK  171 (227)
T 3l82_B          124 EVVDGFIYVANAEAHKRHEWQDEFSHIMAMTDPAFGSSGRP-LLVLSCI  171 (227)
T ss_dssp             HHCSEEEEEEECBTTCCCCHHHHHHHHHHHSCTTSSCSCSC-EEEEEEE
T ss_pred             cCCCEEEEEeccccHhHHHHHHHHHHHHHHhcchhhhCCCe-EEEEeCC
Confidence            468999999999866332233322    22211    4677 7678897

>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=86.22  E-value=0.48  Score=37.22  Aligned_cols=66  Identities=12%  Similarity=-0.057  Sum_probs=35.9

Q ss_pred             CCceeEeecCCcccccHhH-HhhhccccceEEEEEeccCCCCcchHHHHHHHHH----cCCCeEEEEEeCC
Q psy9646         146 ENRHYSHTDCPGHADYIKN-MITGTSQMDGAILVVAATDGAMPQTREHLLLAKQ----IGVTNIVVFINKF  211 (211)
Q Consensus       146 ~~~~~~~iDtPG~~~~~~~-~~~~~~~~d~~~~vvd~~~~~~~~~~~~~~~~~~----~~~~~~i~~inK~  211 (211)
                      .++.+++|||||....... +......+|.+++++.+...-.......++.+..    .+.+.+-+++|+.
T Consensus       117 ~~yD~ViID~~~~~~~~~~~~~~~~~~aD~viiv~~~~~~s~~~~~~~~~~l~~~~~~~~~~~~gvv~N~~  187 (289)
T 2afh_E          117 DDLDFVFYDVLGDVVCGGFAMPIRENKAQEIYIVCSGEMMAMYAANNISKGIVKYANSGSVRLGGLICNSR  187 (289)
T ss_dssp             TTCSEEEEEEECSSCCTTTTHHHHTTCCCEEEEEECSSHHHHHHHHHHHHHHHHHHTTSCCEEEEEEEECC
T ss_pred             cCCCEEEEeCCCccccchhhhhhhhhhCCEEEEEecCCHHHHHHHHHHHHHHHHHHhcCCCceEEEEEecC
Confidence            3567999999985321100 1112357899999987632222222333444433    2555344678874

>1cp2_A CP2, nitrogenase iron protein; oxidoreductase; 1.93A {Clostridium pasteurianum} SCOP: c.37.1.10

Probab=86.08  E-value=0.51  Score=36.48  Aligned_cols=66  Identities=14%  Similarity=0.020  Sum_probs=36.6

Q ss_pred             CCceeEeecCCcccccHhH-HhhhccccceEEEEEeccCCCCcchHHHHHHHHHc----CCCeEEEEEeCC
Q psy9646         146 ENRHYSHTDCPGHADYIKN-MITGTSQMDGAILVVAATDGAMPQTREHLLLAKQI----GVTNIVVFINKF  211 (211)
Q Consensus       146 ~~~~~~~iDtPG~~~~~~~-~~~~~~~~d~~~~vvd~~~~~~~~~~~~~~~~~~~----~~~~~i~~inK~  211 (211)
                      .++.++++||||......- +......+|.+++++.+...-.......++.+...    +.+.+-+++|++
T Consensus       114 ~~yD~iiiD~~~~~~~~~~~~~~~~~~aD~viiv~~~~~~s~~~~~~~~~~l~~~~~~~~~~~~gvv~N~~  184 (269)
T 1cp2_A          114 DDLDYVFYDVLGDVVCGGFAMPIREGKAQEIYIVASGEMMALYAANNISKGIQKYAKSGGVRLGGIICNSR  184 (269)
T ss_dssp             TTCSEEEEEEECSSCSTTTTHHHHTTSCCEEEEEECSSHHHHHHHHHHHHHHHHHBTTBBCEEEEEEEECC
T ss_pred             cCCCEEEEeCCchhhhhhhhhhhhHhhCCEEEEeecCchhhHHHHHHHHHHHHHHHhcCCCcEEEEEeecC
Confidence            3467999999985321100 11122468999999886432222333344555442    455345678874

>3h2y_A GTPase family protein; GTP-binding protein YQEH, possibly involved in replication initiation, csgid, IDP90222; HET: DGI; 1.80A {Bacillus anthracis str}

Probab=85.63  E-value=0.21  Score=41.17  Aligned_cols=48  Identities=13%  Similarity=-0.004  Sum_probs=29.6

Q ss_pred             cccHhHHhhhccccceEEEEEeccCCCCcchHHHHHHHHH--cCCCeEEEEEeCC
Q psy9646         159 ADYIKNMITGTSQMDGAILVVAATDGAMPQTREHLLLAKQ--IGVTNIVVFINKF  211 (211)
Q Consensus       159 ~~~~~~~~~~~~~~d~~~~vvd~~~~~~~~~~~~~~~~~~--~~~~~~i~~inK~  211 (211)
                      ++|.+....-...+|++++|+|+.+..    ..+...+.+  .+.| +++|+||+
T Consensus        57 e~f~~~l~~i~~~~~~il~VvD~~d~~----~~~~~~l~~~~~~~p-~ilV~NK~  106 (368)
T 3h2y_A           57 DDFLRILNGIGKSDALVVKIVDIFDFN----GSWLPGLHRFVGNNK-VLLVGNKA  106 (368)
T ss_dssp             HHHHHHHHHHHHSCCEEEEEEETTSHH----HHCCTTHHHHSSSSC-EEEEEECG
T ss_pred             HHHHHHHHHHhccCcEEEEEEECCCCc----ccHHHHHHHHhCCCc-EEEEEECh
Confidence            456555555556778999999997532    111111222  2566 77999995

>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=85.12  E-value=1  Score=36.10  Aligned_cols=62  Identities=19%  Similarity=0.248  Sum_probs=33.4

Q ss_pred             CCceeEeecCCcccccHh-------HHhhhc-----cccceEEEEEeccCCCCcchHHHHHH-HHHcCCCeEEEEEeCC
Q psy9646         146 ENRHYSHTDCPGHADYIK-------NMITGT-----SQMDGAILVVAATDGAMPQTREHLLL-AKQIGVTNIVVFINKF  211 (211)
Q Consensus       146 ~~~~~~~iDtPG~~~~~~-------~~~~~~-----~~~d~~~~vvd~~~~~~~~~~~~~~~-~~~~~~~~~i~~inK~  211 (211)
                      .++.++++||||......       .....+     ...|.+++++|+..+.  .....++. ....++. - +++||+
T Consensus       185 ~~~dvvIiDtpg~~~~~~~l~~eL~~l~~~i~~~i~~~p~~vllVlda~t~~--~~l~~a~~~~~~~~i~-g-vVlTk~  259 (306)
T 1vma_A          185 RNKDVVIIDTAGRLHTKKNLMEELRKVHRVVKKKIPDAPHETLLVIDATTGQ--NGLVQAKIFKEAVNVT-G-IILTKL  259 (306)
T ss_dssp             TTCSEEEEEECCCCSCHHHHHHHHHHHHHHGGGTCTTCCSEEEEEEEGGGHH--HHHHHHHHHHHHSCCC-E-EEEECG
T ss_pred             cCCCEEEEECCCchhhHHHHHHHHHHHHHHHhhccCCCCcEEEEEEECCCCH--HHHHHHHHHHhcCCCC-E-EEEeCC
Confidence            455689999999533221       122222     2368889999996331  11112222 2235555 2 567884

>2xj4_A MIPZ; replication, cell division, ATPase, WACA; 1.60A {Caulobacter vibrioides} PDB: 2xj9_A* 2xit_A

Probab=84.67  E-value=0.13  Score=40.63  Aligned_cols=34  Identities=12%  Similarity=0.123  Sum_probs=26.9

Q ss_pred             CceeEeecCCcccccHhHHhhhccccceEEEEEecc
Q psy9646         147 NRHYSHTDCPGHADYIKNMITGTSQMDGAILVVAAT  182 (211)
Q Consensus       147 ~~~~~~iDtPG~~~~~~~~~~~~~~~d~~~~vvd~~  182 (211)
                      .+.++++|||+..  ...+..++..+|.+++++...
T Consensus       103 ~yD~viiD~p~~~--~~~~~~~l~~aD~viiv~~~~  136 (286)
T 2xj4_A          103 ECDFILIDTPGGD--SAITRMAHGRADLVVTPMNDS  136 (286)
T ss_dssp             HCSEEEEECCSSC--CHHHHHHHHTCSEEEEEEESS
T ss_pred             cCCEEEEcCCCCc--cHHHHHHHHHCCEEEEEEcCC
Confidence            3568999999874  445667888999999998864

>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=83.42  E-value=0.97  Score=36.93  Aligned_cols=41  Identities=7%  Similarity=0.045  Sum_probs=31.3

Q ss_pred             ccceEEEEEeccCCCCcchHHHHHHHHHcCCCeEEEEEeCC
Q psy9646         171 QMDGAILVVAATDGAMPQTREHLLLAKQIGVTNIVVFINKF  211 (211)
Q Consensus       171 ~~d~~~~vvd~~~~~~~~~~~~~~~~~~~~~~~~i~~inK~  211 (211)
                      .+|.+++|+.+....-..+.+.++.+...+++..-+++|++
T Consensus       234 ~~~~~vlV~~pe~~si~ea~r~~~~L~~~g~~~~gvVvN~v  274 (354)
T 2woj_A          234 DLTTFVCVCISEFLSLYETERLIQELISYDMDVNSIIVNQL  274 (354)
T ss_dssp             TTEEEEEEEESSHHHHHHHHHHHHHHHHTTCCEEEEEEEEE
T ss_pred             CCcEEEEEeCCCcchHHHHHHHHHHHHHcCCCCCEEEEecC
Confidence            57889999886544445677788888889999766789974

>3sop_A Neuronal-specific septin-3; hydrolase; HET: GDP; 2.88A {Homo sapiens}

Probab=82.45  E-value=1.4  Score=34.55  Aligned_cols=39  Identities=15%  Similarity=0.255  Sum_probs=28.4

Q ss_pred             ccceEEEEEec-cCCCCcchHHHHHHHHHcCCCeEEEEEeCC
Q psy9646         171 QMDGAILVVAA-TDGAMPQTREHLLLAKQIGVTNIVVFINKF  211 (211)
Q Consensus       171 ~~d~~~~vvd~-~~~~~~~~~~~~~~~~~~~~~~~i~~inK~  211 (211)
                      .+.++++++|. ..+..+.+.+.++.+... ++ +|+++||+
T Consensus       111 Ral~~lllldep~~gL~~lD~~~l~~L~~~-~~-vI~Vi~K~  150 (270)
T 3sop_A          111 RVHCCLYFISPTGHSLRPLDLEFMKHLSKV-VN-IIPVIAKA  150 (270)
T ss_dssp             SCCEEEEEECCCSSSCCHHHHHHHHHHHTT-SE-EEEEETTG
T ss_pred             eeeeeeEEEecCCCcCCHHHHHHHHHHHhc-Cc-EEEEEecc
Confidence            45777777774 477888888888877665 55 77888884

>3ez9_A Para; DNA binding, winged-HTH, partition, biosynthetic protein; 2.80A {Salmonella enterica subsp} PDB: 3ezf_A

Probab=82.32  E-value=0.77  Score=38.03  Aligned_cols=62  Identities=18%  Similarity=0.228  Sum_probs=38.0

Q ss_pred             CceeEeecCCcccccHhHHhhhccccceEEEEEeccCCC-------CcchHHHHHHHHHcCCCe----EEEEEeC
Q psy9646         147 NRHYSHTDCPGHADYIKNMITGTSQMDGAILVVAATDGA-------MPQTREHLLLAKQIGVTN----IVVFINK  210 (211)
Q Consensus       147 ~~~~~~iDtPG~~~~~~~~~~~~~~~d~~~~vvd~~~~~-------~~~~~~~~~~~~~~~~~~----~i~~inK  210 (211)
                      ++.++++|||....  ..+..++..+|.+++++.+..--       ...-.+.++.++..+.+.    ++.++|+
T Consensus       247 ~yD~VIID~pP~~~--~~~~~al~~aD~vliv~~p~~~~~~~~~~~l~~l~~~~~~l~~~~~~~~l~giv~vl~~  319 (403)
T 3ez9_A          247 DYDFIFIDTGPHLD--PFLLNGLAASDLLLTPTPPAQVDFHSTLKYLTRLPEMLEQLEEEGVEPRLSASIGFMSK  319 (403)
T ss_dssp             GCSEEEEEECSSCS--HHHHHHHHHCSEEEEEECSSHHHHHHHHHHHHTHHHHHHHHHHTTCCCCCCEEEEEECC
T ss_pred             cCCEEEEECCCCcc--HHHHHHHHHCCEEEEEecCchhhHHHHHHHHHHHHHHHHHHHhcCCCCceeEEEEEEec
Confidence            46789999998654  34566777899999999753110       022333455555555332    3456776

>2qnr_A Septin-2, protein NEDD5; structural genomics consortium, SGC, mitosis, GDP, C cycle, cell division, GTP-binding, nucleotide-binding; HET: GDP; 2.60A {Homo sapiens} PDB: 2qa5_A* 3ftq_A*

Probab=81.49  E-value=1.4  Score=35.03  Aligned_cols=37  Identities=19%  Similarity=0.184  Sum_probs=23.6

Q ss_pred             ceEEEEEecc-CCCCcchHHHHHHHHHcCCCeEEEEEeCC
Q psy9646         173 DGAILVVAAT-DGAMPQTREHLLLAKQIGVTNIVVFINKF  211 (211)
Q Consensus       173 d~~~~vvd~~-~~~~~~~~~~~~~~~~~~~~~~i~~inK~  211 (211)
                      ++++++++.. .++.+.+.++++.+. .+++ +++++||.
T Consensus       128 ~~ll~ldePt~~~Ld~~~~~~l~~l~-~~~~-iilV~~K~  165 (301)
T 2qnr_A          128 HCCFYFISPFGHGLKPLDVAFMKAIH-NKVN-IVPVIAKA  165 (301)
T ss_dssp             CEEEEEECSSSSSCCHHHHHHHHHHT-TTSC-EEEEECCG
T ss_pred             hheeeeecCcccCCCHHHHHHHHHHH-hcCC-EEEEEEeC
Confidence            4566677654 357776665555553 3456 78899984

---

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	211
d2c78a3	204	c.37.1.8 (A:9-212) Elongation factor Tu (EF-Tu), N	2e-41
d1f60a3	239	c.37.1.8 (A:2-240) Elongation factor eEF-1alpha, N	7e-36
d1d2ea1	98	b.43.3.1 (A:251-348) Elongation factor Tu (EF-Tu),	3e-34
d1efca1	92	b.43.3.1 (A:205-296) Elongation factor Tu (EF-Tu),	6e-34
d1d2ea3	196	c.37.1.8 (A:55-250) Elongation factor Tu (EF-Tu),	4e-32
d2c78a1	100	b.43.3.1 (A:213-312) Elongation factor Tu (EF-Tu),	2e-31
d1wb1a1	92	b.43.3.1 (A:180-271) Elongation factor SelB, domai	4e-27
d1f60a1	94	b.43.3.1 (A:241-334) Elongation factor eEF-1alpha,	1e-26
d1jnya3	224	c.37.1.8 (A:4-227) Elongation factor eEF-1alpha, N	4e-26
d1jnya1	95	b.43.3.1 (A:228-322) Elongation factor eEF-1alpha,	1e-24
d1r5ba1	95	b.43.3.1 (A:460-554) Eukaryotic peptide chain rele	5e-22
d1kk1a1	121	b.43.3.1 (A:201-321) Initiation factor eIF2 gamma	2e-20
d2bv3a2	276	c.37.1.8 (A:7-282) Elongation factor G (EF-G), N-t	3e-19
d1xe1a_	91	b.43.3.1 (A:) Hypothetical protein PF0907 {Pyrococ	6e-19
d1s0ua1	118	b.43.3.1 (A:230-347) Initiation factor eIF2 gamma	7e-19
d1zunb3	222	c.37.1.8 (B:16-237) Sulfate adenylate transferase	3e-17
d2qn6a1	114	b.43.3.1 (A:207-320) Initiation factor eIF2 gamma	9e-17
d1zunb1	92	b.43.3.1 (B:238-329) Sulfate adenylate transferase	7e-15
d1n0ua2	341	c.37.1.8 (A:3-343) Elongation factor 2 (eEF-2), N-	1e-13
d1r5ba3	245	c.37.1.8 (A:215-459) Eukaryotic peptide chain rele	6e-13
d2qn6a3	205	c.37.1.8 (A:2-206) Initiation factor eIF2 gamma su	5e-08
d1g7sa2	128	b.43.3.1 (A:460-587) Initiation factor IF2/eIF5b,	1e-05
d2dy1a2	267	c.37.1.8 (A:8-274) Elongation factor G (EF-G), N-t	3e-05
d1g7sa4	227	c.37.1.8 (A:1-227) Initiation factor IF2/eIF5b, N-	0.002

>d2c78a3 c.37.1.8 (A:9-212) Elongation factor Tu (EF-Tu), N-terminal (G) domain {Thermus thermophilus [TaxId: 274]} Length = 204

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]

 Score =  137 bits (346), Expect = 2e-41
 Identities = 75/101 (74%), Positives = 84/101 (83%)

Query: 110 ADKKLAKVKQYADIDNAPEEKARGITINVAHVEYATENRHYSHTDCPGHADYIKNMITGT 169
           A+    +VK Y DID APEE+ARGITIN AHVEY T  RHYSH DCPGHADYIKNMITG 
Sbjct: 29  AENPNVEVKDYGDIDKAPEERARGITINTAHVEYETAKRHYSHVDCPGHADYIKNMITGA 88

Query: 170 SQMDGAILVVAATDGAMPQTREHLLLAKQIGVTNIVVFINK 210
           +QMDGAILVV+A DG MPQTREH+LLA+Q+GV  IVVF+NK
Sbjct: 89  AQMDGAILVVSAADGPMPQTREHILLARQVGVPYIVVFMNK 129

>d1f60a3 c.37.1.8 (A:2-240) Elongation factor eEF-1alpha, N-terminal (G) domain {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Length = 239

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]

 Score =  123 bits (311), Expect = 7e-36
 Identities = 46/118 (38%), Positives = 63/118 (53%), Gaps = 7/118 (5%)

Query: 100 RGLIMAKPVLADKKLAKVKQYADIDNAPEEKARGITINVAHVEYATENRHYSHTDCPGHA 159
           R +   +   A+      K    +D    E+ RGITI++A  ++ T     +  D PGH 
Sbjct: 36  RTIEKFEKEAAELGKGSFKYAWVLDKLKAERERGITIDIALWKFETPKYQVTVIDAPGHR 95

Query: 160 DYIKNMITGTSQMDGAILVVAATDGAM-------PQTREHLLLAKQIGVTNIVVFINK 210
           D+IKNMITGTSQ D AIL++A   G          QTREH LLA  +GV  ++V +NK
Sbjct: 96  DFIKNMITGTSQADCAILIIAGGVGEFEAGISKDGQTREHALLAFTLGVRQLIVAVNK 153

>d1d2ea1 b.43.3.1 (A:251-348) Elongation factor Tu (EF-Tu), domain 2 {Cow (Bos taurus), mitochondrial [TaxId: 9913]} Length = 98

class: All beta proteins
fold: Reductase/isomerase/elongation factor common domain
superfamily: Translation proteins
family: Elongation factors
domain: Elongation factor Tu (EF-Tu), domain 2
species: Cow (Bos taurus), mitochondrial [TaxId: 9913]

 Score =  115 bits (289), Expect = 3e-34
 Identities = 66/92 (71%), Positives = 78/92 (84%)

Query: 16  RDLDKPFYLPVEHTYSIPGRGTVVTGRLERGIVKKGMECEFTGYGRQFKTTVTGIEMFHK 75
           RDL+KPF LPVE  YSIPGRGTVVTG LERGI+KKG ECEF G+ +  +T VTGIEMFHK
Sbjct: 2   RDLEKPFLLPVESVYSIPGRGTVVTGTLERGILKKGDECEFLGHSKNIRTVVTGIEMFHK 61

Query: 76  ILDEAQAGDQLGALVKGMKRDEVNRGLIMAKP 107
            LD A+AGD LGALV+G+KR+++ RGL+MAKP
Sbjct: 62  SLDRAEAGDNLGALVRGLKREDLRRGLVMAKP 93

>d1efca1 b.43.3.1 (A:205-296) Elongation factor Tu (EF-Tu), domain 2 {Escherichia coli [TaxId: 562]} Length = 92

class: All beta proteins
fold: Reductase/isomerase/elongation factor common domain
superfamily: Translation proteins
family: Elongation factors
domain: Elongation factor Tu (EF-Tu), domain 2
species: Escherichia coli [TaxId: 562]

 Score =  114 bits (287), Expect = 6e-34
 Identities = 51/90 (56%), Positives = 69/90 (76%)

Query: 18  LDKPFYLPVEHTYSIPGRGTVVTGRLERGIVKKGMECEFTGYGRQFKTTVTGIEMFHKIL 77
           +DKPF LP+E  +SI GRGTVVTGR+ERGI+K G E E  G     K+T TG+EMF K+L
Sbjct: 2   IDKPFLLPIEDVFSISGRGTVVTGRVERGIIKVGEEVEIVGIKETQKSTCTGVEMFRKLL 61

Query: 78  DEAQAGDQLGALVKGMKRDEVNRGLIMAKP 107
           DE +AG+ +G L++G+KR+E+ RG ++AKP
Sbjct: 62  DEGRAGENVGVLLRGIKREEIERGQVLAKP 91

>d1d2ea3 c.37.1.8 (A:55-250) Elongation factor Tu (EF-Tu), N-terminal (G) domain {Cow (Bos taurus), mitochondrial [TaxId: 9913]} Length = 196

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]

 Score =  113 bits (283), Expect = 4e-32
 Identities = 75/103 (72%), Positives = 90/103 (87%)

Query: 108 VLADKKLAKVKQYADIDNAPEEKARGITINVAHVEYATENRHYSHTDCPGHADYIKNMIT 167
           +LA+   AK K+Y +IDNAPEE+ARGITIN AHVEY+T  RHY+HTDCPGHADY+KNMIT
Sbjct: 26  ILAEGGGAKFKKYEEIDNAPEERARGITINAAHVEYSTAARHYAHTDCPGHADYVKNMIT 85

Query: 168 GTSQMDGAILVVAATDGAMPQTREHLLLAKQIGVTNIVVFINK 210
           GT+ +DG ILVVAA DG MPQTREHLLLA+QIGV ++VV++NK
Sbjct: 86  GTAPLDGCILVVAANDGPMPQTREHLLLARQIGVEHVVVYVNK 128

>d2c78a1 b.43.3.1 (A:213-312) Elongation factor Tu (EF-Tu), domain 2 {Thermus thermophilus [TaxId: 274]} Length = 100

class: All beta proteins
fold: Reductase/isomerase/elongation factor common domain
superfamily: Translation proteins
family: Elongation factors
domain: Elongation factor Tu (EF-Tu), domain 2
species: Thermus thermophilus [TaxId: 274]

 Score =  108 bits (271), Expect = 2e-31
 Identities = 53/95 (55%), Positives = 67/95 (70%), Gaps = 1/95 (1%)

Query: 14  PVRDLDKPFYLPVEHTYSIPGRGTVVTGRLERGIVKKGMECEFTGYGRQF-KTTVTGIEM 72
           PVRD+DKPF +PVE  ++I GRGTV TGR+ERG VK G E E  G   +  KT VTG+EM
Sbjct: 1   PVRDVDKPFLMPVEDVFTITGRGTVATGRIERGKVKVGDEVEIVGLAPETRKTVVTGVEM 60

Query: 73  FHKILDEAQAGDQLGALVKGMKRDEVNRGLIMAKP 107
             K L E  AGD +G L++G+ R+EV RG ++AKP
Sbjct: 61  HRKTLQEGIAGDNVGVLLRGVSREEVERGQVLAKP 95

>d1wb1a1 b.43.3.1 (A:180-271) Elongation factor SelB, domains 2 and 4 {Methanococcus maripaludis [TaxId: 39152]} Length = 92

class: All beta proteins
fold: Reductase/isomerase/elongation factor common domain
superfamily: Translation proteins
family: Elongation factors
domain: Elongation factor SelB, domains 2 and 4
species: Methanococcus maripaludis [TaxId: 39152]

 Score = 97.3 bits (242), Expect = 4e-27
 Identities = 32/92 (34%), Positives = 53/92 (57%), Gaps = 2/92 (2%)

Query: 16  RDLDKPFYLPVEHTYSIPGRGTVVTGRLERGIVKKGMECEFTGYGRQFKTTVTGIEMFHK 75
           R+ +  F +P++H + I G GTVVTG + +GIVK G E +         T V  I+ F +
Sbjct: 1   RNTESYFKMPLDHAFPIKGAGTVVTGTINKGIVKVGDELKVLPIN--MSTKVRSIQYFKE 58

Query: 76  ILDEAQAGDQLGALVKGMKRDEVNRGLIMAKP 107
            + EA+AGD++G  ++G+   ++ RG I+   
Sbjct: 59  SVMEAKAGDRVGMAIQGVDAKQIYRGCILTSK 90

>d1f60a1 b.43.3.1 (A:241-334) Elongation factor eEF-1alpha, domain 2 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Length = 94

class: All beta proteins
fold: Reductase/isomerase/elongation factor common domain
superfamily: Translation proteins
family: Elongation factors
domain: Elongation factor eEF-1alpha, domain 2
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

 Score = 96.1 bits (239), Expect = 1e-26
 Identities = 34/89 (38%), Positives = 47/89 (52%), Gaps = 2/89 (2%)

Query: 19  DKPFYLPVEHTYSIPGRGTVVTGRLERGIVKKGMECEFTGYGRQFKTTVTGIEMFHKILD 78
           DKP  LP++  Y I G GTV  GR+E G++K GM   F   G    T V  +EM H+ L+
Sbjct: 1   DKPLRLPLQDVYKIGGIGTVPVGRVETGVIKPGMVVTFAPAGV--TTEVKSVEMHHEQLE 58

Query: 79  EAQAGDQLGALVKGMKRDEVNRGLIMAKP 107
           +   GD +G  VK +   E+ RG +    
Sbjct: 59  QGVPGDNVGFNVKNVSVKEIRRGNVCGDA 87

>d1jnya3 c.37.1.8 (A:4-227) Elongation factor eEF-1alpha, N-terminal (G) domain {Archaeon Sulfolobus solfataricus [TaxId: 2287]} Length = 224

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]

 Score = 98.4 bits (244), Expect = 4e-26
 Identities = 43/100 (43%), Positives = 62/100 (62%), Gaps = 7/100 (7%)

Query: 118 KQYADIDNAPEEKARGITINVAHVEYATENRHYSHTDCPGHADYIKNMITGTSQMDGAIL 177
           K    +D   EE+ RG+TIN+  + + T+   ++  D PGH D++KNMITG SQ D AIL
Sbjct: 51  KFAFLLDRLKEERERGVTINLTFMRFETKKYFFTIIDAPGHRDFVKNMITGASQADAAIL 110

Query: 178 VVAATDGA-------MPQTREHLLLAKQIGVTNIVVFINK 210
           VV+A  G          QTREH++LAK +G+  ++V +NK
Sbjct: 111 VVSAKKGEYEAGMSVEGQTREHIILAKTMGLDQLIVAVNK 150

>d1jnya1 b.43.3.1 (A:228-322) Elongation factor eEF-1alpha, domain 2 {Archaeon Sulfolobus solfataricus [TaxId: 2287]} Length = 95

class: All beta proteins
fold: Reductase/isomerase/elongation factor common domain
superfamily: Translation proteins
family: Elongation factors
domain: Elongation factor eEF-1alpha, domain 2
species: Archaeon Sulfolobus solfataricus [TaxId: 2287]

 Score = 90.8 bits (225), Expect = 1e-24
 Identities = 33/89 (37%), Positives = 53/89 (59%), Gaps = 2/89 (2%)

Query: 19  DKPFYLPVEHTYSIPGRGTVVTGRLERGIVKKGMECEFTGYGRQFKTTVTGIEMFHKILD 78
           DKP  +P++  YSI G GTV  GR+E G++K G +  F   G+     V  IE  H  +D
Sbjct: 3   DKPLRIPIQDVYSISGVGTVPVGRVESGVLKVGDKIVFMPAGKV--GEVRSIETHHTKMD 60

Query: 79  EAQAGDQLGALVKGMKRDEVNRGLIMAKP 107
           +A+ GD +G  V+G+++ ++ RG ++  P
Sbjct: 61  KAEPGDNIGFNVRGVEKKDIKRGDVVGHP 89

>d1r5ba1 b.43.3.1 (A:460-554) Eukaryotic peptide chain release factor ERF2, post-G domain {Fission yeast (Schizosaccharomyces pombe) [TaxId: 4896]} Length = 95

class: All beta proteins
fold: Reductase/isomerase/elongation factor common domain
superfamily: Translation proteins
family: Elongation factors
domain: Eukaryotic peptide chain release factor ERF2, post-G domain
species: Fission yeast (Schizosaccharomyces pombe) [TaxId: 4896]

 Score = 84.1 bits (208), Expect = 5e-22
 Identities = 21/92 (22%), Positives = 40/92 (43%), Gaps = 4/92 (4%)

Query: 16  RDLDKPFYLPVEHTYSIPGRGTVVTGRLERGIVKKGMECEFTGYGRQFKTTVTGIEMFHK 75
           R ++ PF +P+   Y     GT++ G++E G +KK          +  + T    +   +
Sbjct: 4   RKVNAPFIMPIASKYK--DLGTILEGKIEAGSIKKNSNVLVMPINQTLEVTAIY-DEADE 60

Query: 76  ILDEAQAGDQLGALVKGMKRDEVNRGLIMAKP 107
            +  +  GDQ+   V+G   D V  G ++   
Sbjct: 61  EISSSICGDQVRLRVRGDDSD-VQTGYVLTST 91

>d1kk1a1 b.43.3.1 (A:201-321) Initiation factor eIF2 gamma subunit, domain II {Archaeon Pyrococcus abyssi [TaxId: 29292]} Length = 121

class: All beta proteins
fold: Reductase/isomerase/elongation factor common domain
superfamily: Translation proteins
family: Elongation factors
domain: Initiation factor eIF2 gamma subunit, domain II
species: Archaeon Pyrococcus abyssi [TaxId: 29292]

 Score = 80.5 bits (198), Expect = 2e-20
 Identities = 23/115 (20%), Positives = 45/115 (39%), Gaps = 21/115 (18%)

Query: 14  PVRDLDKPFYLPVEHTYSIPG--------RGTVVTGRLERGIVKKGMECEFTGYGR---- 61
           P RD +KP  + V  ++ +           G V+ G + +G +K G E E          
Sbjct: 1   PKRDPNKPPKMLVLRSFDVNKPGTPPEKLVGGVLDGSIVQGKLKVGDEIEIRPGVPYEEH 60

Query: 62  ------QFKTTVTGIEMFHKILDEAQAGDQLGALVK---GMKRDEVNRGLIMAKP 107
                    T +  ++   + ++EA  G  +G   K    + + ++  G ++ KP
Sbjct: 61  GRIKYEPITTEIVSLQAGGQFVEEAYPGGLVGVGTKLDPYLTKGDLMAGNVVGKP 115

>d2bv3a2 c.37.1.8 (A:7-282) Elongation factor G (EF-G), N-terminal (G) domain {Thermus thermophilus [TaxId: 274]} Length = 276

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]

 Score = 80.9 bits (199), Expect = 3e-19
 Identities = 29/109 (26%), Positives = 47/109 (43%), Gaps = 1/109 (0%)

Query: 103 IMAKPVLADKKLAKVKQYADIDNAPEEKARGITINVAHVEYATENRHYSHTDCPGHADYI 162
           I+       K     +  A +D   +E+ RGITI  A      ++   +  D PGH D+ 
Sbjct: 26  ILYYTGRIHKIGEVHEGAATMDFMEQERERGITITAAVTTCFWKDHRINIIDAPGHVDFT 85

Query: 163 KNMITGTSQMDGAILVVAATDGAMPQTREHLLLAKQIGVTNIVVFINKF 211
             +      +DGAI+V  ++ G  PQ+      A++  V   + F NK 
Sbjct: 86  IEVERSMRVLDGAIVVFDSSQGVEPQSETVWRQAEKYKVP-RIAFANKM 133

>d1xe1a_ b.43.3.1 (A:) Hypothetical protein PF0907 {Pyrococcus furiosus [TaxId: 2261]} Length = 91

class: All beta proteins
fold: Reductase/isomerase/elongation factor common domain
superfamily: Translation proteins
family: Elongation factors
domain: Hypothetical protein PF0907
species: Pyrococcus furiosus [TaxId: 2261]

 Score = 75.6 bits (186), Expect = 6e-19
 Identities = 22/90 (24%), Positives = 42/90 (46%), Gaps = 7/90 (7%)

Query: 19  DKPFY-LPVEHTYSIPGRGTVVTGRLERGIVKKGMECEFTGYGRQFKTTVTGIEMFHKIL 77
            KP   + VE   +I G   V+ G +E G++  G + +           +  IE   + +
Sbjct: 6   KKPAGKVVVEEVVNIMG-KDVIIGTVESGMIGVGFKVKGPS----GIGGIVRIERNREKV 60

Query: 78  DEAQAGDQLGALVKGMKRDEVNRGLIMAKP 107
           + A AGD++G  ++G K  +V +G ++   
Sbjct: 61  EFAIAGDRIGISIEG-KIGKVKKGDVLEIY 89

>d1s0ua1 b.43.3.1 (A:230-347) Initiation factor eIF2 gamma subunit, domain II {Archaeon Methanococcus jannaschii [TaxId: 2190]} Length = 118

class: All beta proteins
fold: Reductase/isomerase/elongation factor common domain
superfamily: Translation proteins
family: Elongation factors
domain: Initiation factor eIF2 gamma subunit, domain II
species: Archaeon Methanococcus jannaschii [TaxId: 2190]

 Score = 76.6 bits (188), Expect = 7e-19
 Identities = 21/113 (18%), Positives = 40/113 (35%), Gaps = 21/113 (18%)

Query: 16  RDLDKPFYLPVEHTYSIPG--------RGTVVTGRLERGIVKKGMECEFTGYGRQ----- 62
           RD D    + V  ++ I          +G V+ G + +G+ K G E E     +      
Sbjct: 1   RDPDATPRMYVARSFDINKPGTEIKDLKGGVLGGAIIQGVFKVGDEIEIRPGIKVTEGNK 60

Query: 63  -----FKTTVTGIEMFHKILDEAQAGDQLGALVK---GMKRDEVNRGLIMAKP 107
                  T +  +   + IL +A  G  +G        + + +   G ++  P
Sbjct: 61  TFWKPLTTKIVSLAAGNTILRKAHPGGLIGVGTTLDPYLTKSDALTGSVVGLP 113

>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]} Length = 222

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]

 Score = 74.9 bits (183), Expect = 3e-17
 Identities = 47/150 (31%), Positives = 73/150 (48%), Gaps = 21/150 (14%)

Query: 64  KTTVTGIEMFHKILDEAQA--GDQLGALVKGMKRDEVNRGLIMAKPVLADKKLAKVKQYA 121
           K+T+ G     ++L +++    D L A+ +  K+              +      V    
Sbjct: 22  KSTLIG-----RLLHDSKMIYEDHLEAITRDSKK--------------SGTTGDDVDLAL 62

Query: 122 DIDNAPEEKARGITINVAHVEYATENRHYSHTDCPGHADYIKNMITGTSQMDGAILVVAA 181
            +D    E+ +GITI+VA+  ++T  R +   D PGH  Y +NM TG S  D AI++V A
Sbjct: 63  LVDGLQAEREQGITIDVAYRYFSTAKRKFIIADTPGHEQYTRNMATGASTCDLAIILVDA 122

Query: 182 TDGAMPQTREHLLLAKQIGVTNIVVFINKF 211
             G   QTR H  +A  +G+ +IVV INK 
Sbjct: 123 RYGVQTQTRRHSYIASLLGIKHIVVAINKM 152

>d2qn6a1 b.43.3.1 (A:207-320) Initiation factor eIF2 gamma subunit, domain II {Sulfolobus solfataricus [TaxId: 2287]} Length = 114

class: All beta proteins
fold: Reductase/isomerase/elongation factor common domain
superfamily: Translation proteins
family: Elongation factors
domain: Initiation factor eIF2 gamma subunit, domain II
species: Sulfolobus solfataricus [TaxId: 2287]

 Score = 70.8 bits (173), Expect = 9e-17
 Identities = 20/113 (17%), Positives = 40/113 (35%), Gaps = 21/113 (18%)

Query: 16  RDLDKPFYLPVEHTYSI--PG------RGTVVTGRLERGIVKKGMECEFTGYGR------ 61
           RDL +   + V  ++ +  PG      +G V+ G + +G+ K   E +     R      
Sbjct: 1   RDLSQKPVMLVIRSFDVNKPGTQFNELKGGVIGGSIIQGLFKVDQEIKVLPGLRVEKQGK 60

Query: 62  ----QFKTTVTGIEMFHKILDEAQAGDQLGALVK---GMKRDEVNRGLIMAKP 107
                  T ++ I    +   EA+ G  +         + + +   G I+   
Sbjct: 61  VSYEPIFTKISSIRFGDEEFKEAKPGGLVAIGTYLDPSLTKADNLLGSIITLA 113

>d1zunb1 b.43.3.1 (B:238-329) Sulfate adenylate transferase subunit cysN/C, EF-Tu domain 2-like domain {Pseudomonas syringae pv. tomato [TaxId: 323]} Length = 92

class: All beta proteins
fold: Reductase/isomerase/elongation factor common domain
superfamily: Translation proteins
family: Elongation factors
domain: Sulfate adenylate transferase subunit cysN/C, EF-Tu domain 2-like domain
species: Pseudomonas syringae pv. tomato [TaxId: 323]

 Score = 65.4 bits (159), Expect = 7e-15
 Identities = 19/87 (21%), Positives = 32/87 (36%), Gaps = 4/87 (4%)

Query: 21  PFYLPVEHTYSIPGRGTVVTGRLERGIVKKGMECEFTGYGRQFKTTVTGIEMFHKILDEA 80
               PV++            G L  GIV KG E      G    + V  I  F   L++A
Sbjct: 6   DLRFPVQYVNRPNLNFRGFAGTLASGIVHKGDEIVVLPSG--KSSRVKSIVTFEGELEQA 63

Query: 81  QAGDQLGALVKGMKRDEVNRGLIMAKP 107
             G  +   ++     +++RG ++   
Sbjct: 64  GPGQAVTLTMED--EIDISRGDLLVHA 88

>d1n0ua2 c.37.1.8 (A:3-343) Elongation factor 2 (eEF-2), N-terminal (G) domain {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Length = 341

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]

 Score = 65.9 bits (160), Expect = 1e-13
 Identities = 30/112 (26%), Positives = 46/112 (41%), Gaps = 17/112 (15%)

Query: 115 AKVKQYADIDNAPEEKARGITI--------------NVAHVEYATENRHY--SHTDCPGH 158
           AK  +    D   +E+ RGITI              +V  ++  T+   +  +  D PGH
Sbjct: 47  AKAGEARFTDTRKDEQERGITIKSTAISLYSEMSDEDVKEIKQKTDGNSFLINLIDSPGH 106

Query: 159 ADYIKNMITGTSQMDGAILVVAATDGAMPQTREHLLLAKQIGVTNIVVFINK 210
            D+   +       DGA++VV   +G   QT   L  A    +  + V INK
Sbjct: 107 VDFSSEVTAALRVTDGALVVVDTIEGVCVQTETVLRQALGERIKPV-VVINK 157

>d1r5ba3 c.37.1.8 (A:215-459) Eukaryotic peptide chain release factor ERF2, G domain {Fission yeast (Schizosaccharomyces pombe) [TaxId: 4896]} Length = 245

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]

 Score = 63.3 bits (153), Expect = 6e-13
 Identities = 39/99 (39%), Positives = 56/99 (56%), Gaps = 7/99 (7%)

Query: 120 YADIDNAPEEKARGITINVAHVEYATENRHYSHTDCPGHADYIKNMITGTSQMDGAILVV 179
              +D+  EE+ +G T+ V    + TE+R +S  D PGH  Y+ NMI G SQ D  +LV+
Sbjct: 74  SWALDSTSEEREKGKTVEVGRAYFETEHRRFSLLDAPGHKGYVTNMINGASQADIGVLVI 133

Query: 180 AATDGAMP-------QTREHLLLAKQIGVTNIVVFINKF 211
           +A  G          QTREH +LA+  G+ ++VV INK 
Sbjct: 134 SARRGEFEAGFERGGQTREHAVLARTQGINHLVVVINKM 172

>d2qn6a3 c.37.1.8 (A:2-206) Initiation factor eIF2 gamma subunit, N-terminal (G) domain {Sulfolobus solfataricus [TaxId: 2287]} Length = 205

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]

 Score = 49.2 bits (116), Expect = 5e-08
 Identities = 34/119 (28%), Positives = 49/119 (41%), Gaps = 16/119 (13%)

Query: 108 VLADKKLAKVKQYADIDNAPEEKARGITINVAH---------------VEYATENRHYSH 152
           +   K   ++K+   I     E   G+  +                   +     R  S 
Sbjct: 31  IWTSKHSEELKRGMTIKLGYAETNIGVCESCKKPEAYVTEPSCKSCGSDDEPKFLRRISF 90

Query: 153 TDCPGHADYIKNMITGTSQMDGAILVVA-ATDGAMPQTREHLLLAKQIGVTNIVVFINK 210
            D PGH   +  M++G + MDGAILVVA       PQTREH +    IGV N+++  NK
Sbjct: 91  IDAPGHEVLMATMLSGAALMDGAILVVAANEPFPQPQTREHFVALGIIGVKNLIIVQNK 149

>d1g7sa2 b.43.3.1 (A:460-587) Initiation factor IF2/eIF5b, domains 2 and 4 {Archaeon Methanobacterium thermoautotrophicum [TaxId: 145262]} Length = 128

class: All beta proteins
fold: Reductase/isomerase/elongation factor common domain
superfamily: Translation proteins
family: Elongation factors
domain: Initiation factor IF2/eIF5b, domains 2 and 4
species: Archaeon Methanobacterium thermoautotrophicum [TaxId: 145262]

 Score = 41.3 bits (97), Expect = 1e-05
 Identities = 9/71 (12%), Positives = 23/71 (32%), Gaps = 3/71 (4%)

Query: 22 FYLPVEHTYSIPGRGTVVTGRLERGIVKKGMECEFTGYGRQFKTTVTGIEMFHKILDEAQ 81
            L  +  +       +    +  G++++G              TV  ++   + L  A 
Sbjct: 7  IRLIPKLVFRQSK-PAIGGVEVLTGVIRQGYPLMNDDGET--VGTVESMQDKGENLKSAS 63

Query: 82 AGDQLGALVKG 92
           G ++   +K 
Sbjct: 64 RGQKVAMAIKD 74

>d2dy1a2 c.37.1.8 (A:8-274) Elongation factor G (EF-G), N-terminal (G) domain {Thermus thermophilus, EF-G-2 [TaxId: 274]} Length = 267

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]

 Score = 41.4 bits (96), Expect = 3e-05
 Identities = 21/102 (20%), Positives = 40/102 (39%), Gaps = 1/102 (0%)

Query: 110 ADKKLAKVKQYADI-DNAPEEKARGITINVAHVEYATENRHYSHTDCPGHADYIKNMITG 168
           A ++  +V++     D  PE K    T+                 D PG+ D++  +   
Sbjct: 28  AKERRGRVEEGTTTTDYTPEAKLHRTTVRTGVAPLLFRGHRVFLLDAPGYGDFVGEIRGA 87

Query: 169 TSQMDGAILVVAATDGAMPQTREHLLLAKQIGVTNIVVFINK 210
               D A++ V+A  G    T     +A+++G+  +VV    
Sbjct: 88  LEAADAALVAVSAEAGVQVGTERAWTVAERLGLPRMVVVTKL 129

>d1g7sa4 c.37.1.8 (A:1-227) Initiation factor IF2/eIF5b, N-terminal (G) domain {Archaeon Methanobacterium thermoautotrophicum [TaxId: 145262]} Length = 227

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]

 Score = 35.8 bits (81), Expect = 0.002
 Identities = 25/102 (24%), Positives = 38/102 (37%), Gaps = 2/102 (1%)

Query: 110 ADKKLAKVKQYADIDNAPEEKARGI-TINVAHVEYATENRHYSHTDCPGHADYIKNMITG 168
           A ++   + Q+      P +   GI    +               D PGH  +      G
Sbjct: 31  ASREAGGITQHIGATEIPMDVIEGICGDFLKKFSIRETLPGLFFIDTPGHEAFTTLRKRG 90

Query: 169 TSQMDGAILVVAATDGAMPQTREHLLLAKQIGVTNIVVFINK 210
            +  D AIL+V   +G  PQT+E L + +       VV  NK
Sbjct: 91  GALADLAILIVDINEGFKPQTQEALNILRMYRT-PFVVAANK 131

Homologous Domains Detected by HHsearch

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

ID	Length	Definition	Probability
Query	211
d1f60a1	94	Elongation factor eEF-1alpha, domain 2 {Baker's ye	99.94
d1efca1	92	Elongation factor Tu (EF-Tu), domain 2 {Escherichi	99.93
d1d2ea1	98	Elongation factor Tu (EF-Tu), domain 2 {Cow (Bos t	99.93
d2c78a1	100	Elongation factor Tu (EF-Tu), domain 2 {Thermus th	99.93
d1jnya1	95	Elongation factor eEF-1alpha, domain 2 {Archaeon S	99.92
d1wb1a1	92	Elongation factor SelB, domains 2 and 4 {Methanoco	99.91
d1kk1a1	121	Initiation factor eIF2 gamma subunit, domain II {A	99.9
d2c78a3	204	Elongation factor Tu (EF-Tu), N-terminal (G) domai	99.88
d1xe1a_	91	Hypothetical protein PF0907 {Pyrococcus furiosus [	99.88
d1r5ba1	95	Eukaryotic peptide chain release factor ERF2, post	99.88
d1zunb1	92	Sulfate adenylate transferase subunit cysN/C, EF-T	99.87
d1f60a3	239	Elongation factor eEF-1alpha, N-terminal (G) domai	99.87
d1d2ea3	196	Elongation factor Tu (EF-Tu), N-terminal (G) domai	99.87
d1s0ua1	118	Initiation factor eIF2 gamma subunit, domain II {A	99.86
d2bv3a2	276	Elongation factor G (EF-G), N-terminal (G) domain	99.81
d2dy1a2	267	Elongation factor G (EF-G), N-terminal (G) domain	99.8
d1zunb3	222	Sulfate adenylate transferase subunit cysN/C, EF-T	99.8
d2qn6a1	114	Initiation factor eIF2 gamma subunit, domain II {S	99.79
d1jnya3	224	Elongation factor eEF-1alpha, N-terminal (G) domai	99.79
d1n0ua2	341	Elongation factor 2 (eEF-2), N-terminal (G) domain	99.73
d1r5ba3	245	Eukaryotic peptide chain release factor ERF2, G do	99.73
d1g7sa4	227	Initiation factor IF2/eIF5b, N-terminal (G) domain	99.62
d1kk1a3	195	Initiation factor eIF2 gamma subunit, N-terminal (	99.58
d2qn6a3	205	Initiation factor eIF2 gamma subunit, N-terminal (	99.57
d1wb1a4	179	Elongation factor SelB, N-terminal domain {Methano	99.46
d1g7sa2	128	Initiation factor IF2/eIF5b, domains 2 and 4 {Arch	99.41
d2bv3a1	121	Elongation factor G (EF-G), domain II {Thermus the	99.27
d2dy1a1	103	Elongation factor G (EF-G), domain II {Thermus the	99.25
d1wf3a1	178	GTPase Era, N-terminal domain {Thermus thermophilu	99.01
d1n0ua1	138	Elongation factor 2 (eEF-2), domain II {Baker's ye	98.95
d1mkya2	186	Probable GTPase Der, N-terminal and middle domains	98.76
d1mkya1	171	Probable GTPase Der, N-terminal and middle domains	98.7
d2cxxa1	184	GTP-binding protein engB {Pyrococcus horikoshii [T	98.67
d1svia_	195	Probable GTPase EngB {Bacillus subtilis [TaxId: 14	98.44
d1xzpa2	160	TrmE GTPase domain {Thermotoga maritima [TaxId: 23	98.28
d2gj8a1	161	Probable tRNA modification GTPase TrmE (MnmE), G d	98.28
d1nrjb_	209	Signal recognition particle receptor beta-subunit	98.19
d3raba_	169	Rab3a {Rat (Rattus norvegicus) [TaxId: 10116]}	98.05
d1udxa2	180	Obg GTP-binding protein middle domain {Thermus the	98.03
d1d1na_	99	Initiation factor IF2/eIF5b, domains 2 and 4 {Baci	98.03
d2ew1a1	171	Rab30 {Human (Homo sapiens) [TaxId: 9606]}	98.02
d2fu5c1	173	Rab8a {Mouse (Mus musculus) [TaxId: 10090]}	98.02
d1zd9a1	164	ADP-ribosylation factor {Human (Homo sapiens), ARL	97.99
d2bcgy1	194	GTPase Ytp1 {Baker's yeast (Saccharomyces cerevisi	97.92
d2f9la1	175	Rab11b {Human (Homo sapiens) [TaxId: 9606]}	97.91
d1ksha_	165	ADP-ribosylation factor {Mouse (Mus musculus), ARL	97.9
d2bmea1	174	Rab4a {Human (Homo sapiens) [TaxId: 9606]}	97.89
d1z0fa1	166	Rab14 {Human (Homo sapiens) [TaxId: 9606]}	97.85
d2gjsa1	168	Rad {Human (Homo sapiens) [TaxId: 9606]}	97.85
d1x3sa1	177	Rab18 {Human (Homo sapiens) [TaxId: 9606]}	97.68
d1z2aa1	164	Rab23 {Mouse (Mus musculus) [TaxId: 10090]}	97.67
d1lnza2	185	Obg GTP-binding protein middle domain {Bacillus su	97.66
d1yzqa1	164	Rab6 {Human (Homo sapiens) [TaxId: 9606]}	97.6
d1g16a_	166	Rab-related protein Sec4 {Baker's yeast (Saccharom	97.58
d1e0sa_	173	ADP-ribosylation factor {Human (Homo sapiens), ARF	97.58
d1fzqa_	176	ADP-ribosylation factor {Mouse (Mus musculus), ARL	97.54
d2g6ba1	170	Rab26 {Human (Homo sapiens) [TaxId: 9606]}	97.54
d1ky3a_	175	Rab-related protein ypt7p {Baker's yeast (Saccharo	97.53
d1i2ma_	170	Ran {Human (Homo sapiens) [TaxId: 9606]}	97.52
d1moza_	182	ADP-ribosylation factor {Baker's yeast (Saccharomy	97.52
d2fh5b1	207	Signal recognition particle receptor beta-subunit	97.5
d1tq4a_	400	Interferon-inducible GTPase {Mouse (Mus musculus)	97.44
d1kmqa_	177	RhoA {Human (Homo sapiens) [TaxId: 9606]}	97.38
d1yrba1	244	ATP(GTP)-binding protein PAB0955 {Pyrococcus abyss	97.33
d2a5ja1	173	Rab2b {Human (Homo sapiens) [TaxId: 9606]}	97.33
d1vg8a_	184	Rab7 {Rat (Rattus norvegicus) [TaxId: 10116]}	97.32
d2f7sa1	186	Rab27b {Human (Homo sapiens) [TaxId: 9606]}	97.3
d1h65a_	257	Chloroplast protein translocon GTPase Toc34 {Garde	97.26
d1r2qa_	170	Rab5a {Human (Homo sapiens) [TaxId: 9606]}	97.25
d1xtqa1	167	GTP-binding protein RheB {Human (Homo sapiens) [Ta	97.19
d1u8za_	168	Ras-related protein RalA {Cotton-top tamarin (Sagu	97.16
d1x1ra1	169	Ras-related protein M-Ras (XRas) {Mouse (Mus muscu	97.14
d2atxa1	185	RhoQ {Human (Homo sapiens) [TaxId: 9606]}	97.12
d2fn4a1	173	r-Ras {Human (Homo sapiens) [TaxId: 9606]}	97.12
d2erya1	171	r-Ras2 {Human (Homo sapiens) [TaxId: 9606]}	97.08
d1z08a1	167	Rab21 {Human (Homo sapiens) [TaxId: 9606]}	97.07
d2ngra_	191	CDC42 {Human (Homo sapiens) [TaxId: 9606]}	97.04
d1wmsa_	174	Rab9a {Human (Homo sapiens) [TaxId: 9606]}	97.02
d2erxa1	171	di-Ras2 {Human (Homo sapiens) [TaxId: 9606]}	97.01
d1ek0a_	170	Ypt51 {Baker's yeast (Saccharomyces cerevisiae) [T	96.99
d1z0ja1	167	Rab-22a {Mouse (Mus musculus) [TaxId: 10090]}	96.94
d1c1ya_	167	Rap1A {Human (Homo sapiens) [TaxId: 9606]}	96.9
d1m7ba_	179	RhoE (RND3) {Mouse (Mus musculus) [TaxId: 10090]}	96.9
d1g7sa1	101	Initiation factor IF2/eIF5b, domains 2 and 4 {Arch	96.86
d1ctqa_	166	cH-p21 Ras protein {Human (Homo sapiens) [TaxId: 9	96.8
d1kaoa_	167	Rap2a {Human (Homo sapiens) [TaxId: 9606]}	96.8
d1mh1a_	183	Rac {Human (Homo sapiens) [TaxId: 9606]}	96.77
d1z06a1	165	Rab-33b {Mouse (Mus musculus) [TaxId: 10090]}	96.74
d1zcba2	200	Transducin (alpha subunit) {Mouse (Mus musculus) [	96.48
d2atva1	168	Ras-like estrogen-regulated growth inhibitor, RERG	96.4
d2g3ya1	172	GTP-binding protein GEM {Human (Homo sapiens) [Tax	95.9
d1egaa1	179	GTPase Era, N-terminal domain {Escherichia coli [T	95.64
d1r8sa_	160	ADP-ribosylation factor {Human (Homo sapiens), ARF	95.62
d2bmja1	175	Centaurin gamma 1, G domain {Human (Homo sapiens)	95.53
d1azta2	221	Transducin (alpha subunit) {Cow (Bos taurus) [TaxI	95.36
d2akab1	299	Dynamin G domain {Rat (Rattus norvegicus) [TaxId:	94.99
d1jwyb_	306	Dynamin G domain {Dictyostelium discoideum [TaxId:	94.35
d1upta_	169	ADP-ribosylation factor {Human (Homo sapiens), ARL	94.34
d2qtvb1	166	SAR1 {Baker's yeast (Saccharomyces cerevisiae) [Ta	94.2
d1g3qa_	237	Cell division regulator MinD {Archaeon Pyrococcus	93.83
d1zj6a1	177	ADP-ribosylation factor {Human (Homo sapiens), ARL	93.79
d1puia_	188	Probable GTPase EngB {Escherichia coli [TaxId: 562	93.73
d1svsa1	195	Transducin (alpha subunit) {Rat (Rattus norvegicus	92.92
d2bcjq2	200	Transducin (alpha subunit) {Mouse (Mus musculus) [	92.89
d1okkd2	207	GTPase domain of the signal recognition particle r	90.71
d1hyqa_	232	Cell division regulator MinD {Archaeon Archaeoglob	90.57
d2qy9a2	211	GTPase domain of the signal recognition particle r	90.08
d1vmaa2	213	GTPase domain of the signal recognition particle r	89.72
d1ls1a2	207	GTPase domain of the signal sequence recognition p	89.11
d1j8yf2	211	GTPase domain of the signal sequence recognition p	86.24
d1wxqa1	319	GTP-binding protein PH0525 {Pyrococcus horikoshii	86.15
d1f6ba_	186	SAR1 {Chinese hamster (Cricetulus griseus) [TaxId:	83.19

>d1f60a1 b.43.3.1 (A:241-334) Elongation factor eEF-1alpha, domain 2 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: All beta proteins
fold: Reductase/isomerase/elongation factor common domain
superfamily: Translation proteins
family: Elongation factors
domain: Elongation factor eEF-1alpha, domain 2
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=99.94  E-value=3.2e-27  Score=157.88  Aligned_cols=90  Identities=38%  Similarity=0.637  Sum_probs=85.7

Q ss_pred             CCCeeEEEeeEEeecCCcEEEEEEEEEEEEecCCEEEEeecCceeeEEEEEEEecceecceecccCceehhccCCCcccc
Q psy9646          19 DKPFYLPVEHTYSIPGRGTVVTGRLERGIVKKGMECEFTGYGRQFKTTVTGIEMFHKILDEAQAGDQLGALVKGMKRDEV   98 (211)
Q Consensus        19 ~~p~~~~v~~~~~~~~~G~v~~G~v~~G~i~~g~~v~i~p~~~~~~~~v~~i~~~~~~~~~a~~G~~v~~~l~~~~~~~v   98 (211)
                      |+||||||+++|++++.|++++|+|++|.+++||++.++|++.  +++|++|+++++++++|.+||+|+++|++.+.+++
T Consensus         1 dkP~rmpI~~vf~i~g~GtVvtG~v~~G~i~~Gd~v~i~P~~~--~~~VksI~~~~~~~~~a~aG~~v~l~l~~i~~~~i   78 (94)
T d1f60a1           1 DKPLRLPLQDVYKIGGIGTVPVGRVETGVIKPGMVVTFAPAGV--TTEVKSVEMHHEQLEQGVPGDNVGFNVKNVSVKEI   78 (94)
T ss_dssp             TSCCEEEEEEEEEETTTEEEEEEECCBSCBCTTCEEEEETTTE--EEEEEEEEETTEECSCBCTTCEEEEEESSCCTTTS
T ss_pred             CCCEEEEEEEEEEeCCeeEEEEEeeecccCCCCCEEEECcCCc--eEEEEEEEEcCcCcCEecCCCeEEEEEeCccHHhc
Confidence            6899999999999999999999999999999999999999975  89999999999999999999999999999999999


Q ss_pred             cccccccccchh
Q psy9646          99 NRGLIMAKPVLA  110 (211)
Q Consensus        99 ~~G~ii~~~~~~  110 (211)
                      +||++++++..+
T Consensus        79 ~rG~vl~~~~~~   90 (94)
T d1f60a1          79 RRGNVCGDAKND   90 (94)
T ss_dssp             CTTCEEEETTSS
T ss_pred             CCCCEEECCCCC
Confidence            999999976544

>d1efca1 b.43.3.1 (A:205-296) Elongation factor Tu (EF-Tu), domain 2 {Escherichia coli [TaxId: 562]}

class: All beta proteins
fold: Reductase/isomerase/elongation factor common domain
superfamily: Translation proteins
family: Elongation factors
domain: Elongation factor Tu (EF-Tu), domain 2
species: Escherichia coli [TaxId: 562]

Probab=99.93  E-value=1.1e-26  Score=154.61  Aligned_cols=90  Identities=57%  Similarity=1.029  Sum_probs=85.7

Q ss_pred             CCCCeeEEEeeEEeecCCcEEEEEEEEEEEEecCCEEEEeecCceeeEEEEEEEecceecceecccCceehhccCCCccc
Q psy9646          18 LDKPFYLPVEHTYSIPGRGTVVTGRLERGIVKKGMECEFTGYGRQFKTTVTGIEMFHKILDEAQAGDQLGALVKGMKRDE   97 (211)
Q Consensus        18 ~~~p~~~~v~~~~~~~~~G~v~~G~v~~G~i~~g~~v~i~p~~~~~~~~v~~i~~~~~~~~~a~~G~~v~~~l~~~~~~~   97 (211)
                      .|+||||||+++|++++.|++++|+|++|.+++||++.++|.++..+++|++|+++++++++|.|||+++++|++++.++
T Consensus         2 vd~P~rlpId~vf~i~G~GtVvtG~v~~G~i~~Gd~v~i~p~~~~~~~~vksi~~~~~~~~~a~aG~~v~l~L~gi~~~~   81 (92)
T d1efca1           2 IDKPFLLPIEDVFSISGRGTVVTGRVERGIIKVGEEVEIVGIKETQKSTCTGVEMFRKLLDEGRAGENVGVLLRGIKREE   81 (92)
T ss_dssp             GGSCCEEECCEEEECTTSCEEEEEECCBSEEETTCEEEEESSSSCEEEEEEEEEETTEEESEEETTCEEEEEETTCCGGG
T ss_pred             CCCCEEEEEEEEEEcCCeEEEEEEEeccCeEcCCCEEEEEcCCCCcEEEEEEEEECCcCccccCCCCEEEEEEcCCCHHH
Confidence            47899999999999999999999999999999999999999876668899999999999999999999999999999999


Q ss_pred             cccccccccc
Q psy9646          98 VNRGLIMAKP  107 (211)
Q Consensus        98 v~~G~ii~~~  107 (211)
                      ++||+++|++
T Consensus        82 i~rG~vl~~p   91 (92)
T d1efca1          82 IERGQVLAKP   91 (92)
T ss_dssp             CCTTCEEECT
T ss_pred             cCCccEEeCC
Confidence            9999999876

>d1d2ea1 b.43.3.1 (A:251-348) Elongation factor Tu (EF-Tu), domain 2 {Cow (Bos taurus), mitochondrial [TaxId: 9913]}

class: All beta proteins
fold: Reductase/isomerase/elongation factor common domain
superfamily: Translation proteins
family: Elongation factors
domain: Elongation factor Tu (EF-Tu), domain 2
species: Cow (Bos taurus), mitochondrial [TaxId: 9913]

Probab=99.93  E-value=2.5e-26  Score=154.89  Aligned_cols=95  Identities=69%  Similarity=1.151  Sum_probs=88.8

Q ss_pred             CCCCCCCeeEEEeeEEeecCCcEEEEEEEEEEEEecCCEEEEeecCceeeEEEEEEEecceecceecccCceehhccCCC
Q psy9646          15 VRDLDKPFYLPVEHTYSIPGRGTVVTGRLERGIVKKGMECEFTGYGRQFKTTVTGIEMFHKILDEAQAGDQLGALVKGMK   94 (211)
Q Consensus        15 ~~~~~~p~~~~v~~~~~~~~~G~v~~G~v~~G~i~~g~~v~i~p~~~~~~~~v~~i~~~~~~~~~a~~G~~v~~~l~~~~   94 (211)
                      .|+.++||||||+++|+++|.|+|++|++++|.+++||.+.+.|......++|++|+++++++++|.|||+|+++|++++
T Consensus         1 tR~~d~Pfr~pId~vf~i~G~GtVvtG~v~~G~i~~gd~v~~~~~~~~~~~~V~si~~~~~~~~~a~aG~~v~l~l~gi~   80 (98)
T d1d2ea1           1 TRDLEKPFLLPVESVYSIPGRGTVVTGTLERGILKKGDECEFLGHSKNIRTVVTGIEMFHKSLDRAEAGDNLGALVRGLK   80 (98)
T ss_dssp             CCCTTSCCEEECCEEEEETTTEEEEEEECCBSEEETTCEEEEEETTEEEEEEEEEEEETTEEESEEETTCEEEEEESSCC
T ss_pred             CCCCCCCEEEEEEEEEEeCCcEEEEecceeeeeEeCCCEEEEccCCCCeeEEEEEEEEeccEeccCCCCCEEEEEEcCCC
Confidence            47889999999999999999999999999999999999998888765567889999999999999999999999999999


Q ss_pred             cccccccccccccch
Q psy9646          95 RDEVNRGLIMAKPVL  109 (211)
Q Consensus        95 ~~~v~~G~ii~~~~~  109 (211)
                      .++++||++++++..
T Consensus        81 ~~~i~rG~vl~~p~~   95 (98)
T d1d2ea1          81 REDLRRGLVMAKPGS   95 (98)
T ss_dssp             GGGCCTTCEEESTTS
T ss_pred             HHHccCccEEeCCCC
Confidence            999999999998753

>d2c78a1 b.43.3.1 (A:213-312) Elongation factor Tu (EF-Tu), domain 2 {Thermus thermophilus [TaxId: 274]}

class: All beta proteins
fold: Reductase/isomerase/elongation factor common domain
superfamily: Translation proteins
family: Elongation factors
domain: Elongation factor Tu (EF-Tu), domain 2
species: Thermus thermophilus [TaxId: 274]

Probab=99.93  E-value=2.4e-26  Score=155.65  Aligned_cols=96  Identities=55%  Similarity=0.921  Sum_probs=88.8

Q ss_pred             CCCCCCCCeeEEEeeEEeecCCcEEEEEEEEEEEEecCCEEEEeecC-ceeeEEEEEEEecceecceecccCceehhccC
Q psy9646          14 PVRDLDKPFYLPVEHTYSIPGRGTVVTGRLERGIVKKGMECEFTGYG-RQFKTTVTGIEMFHKILDEAQAGDQLGALVKG   92 (211)
Q Consensus        14 p~~~~~~p~~~~v~~~~~~~~~G~v~~G~v~~G~i~~g~~v~i~p~~-~~~~~~v~~i~~~~~~~~~a~~G~~v~~~l~~   92 (211)
                      |+|+.++||||||+++|++++.|++++|+|++|.+++||.+.++|.. ....++|+||+++++++++|.|||+|+++|++
T Consensus         1 P~R~~~~p~r~~Id~vf~~~g~Gtvv~G~v~~G~i~~gd~v~i~~~~p~~~~~~V~sI~~~~~~~~~a~aG~~v~l~l~g   80 (100)
T d2c78a1           1 PVRDVDKPFLMPVEDVFTITGRGTVATGRIERGKVKVGDEVEIVGLAPETRKTVVTGVEMHRKTLQEGIAGDNVGVLLRG   80 (100)
T ss_dssp             CCCCCSSCCEEECCEEEEETTTEEEEEEECCBSEEETTCEEEEESSSSSCEEEEEEEEEETTEEESEEETTCEEEEEESS
T ss_pred             CcCCCCCCEEEEEEEEEEcCCcEEEEEEEEeccEEECCCEeEEEeecCCCcEEEEEEEEECCccccEEeCCCeEEEEEcC
Confidence            78999999999999999999999999999999999999999998432 23588999999999999999999999999999


Q ss_pred             CCcccccccccccccch
Q psy9646          93 MKRDEVNRGLIMAKPVL  109 (211)
Q Consensus        93 ~~~~~v~~G~ii~~~~~  109 (211)
                      ++.+++++|+++|++..
T Consensus        81 i~~~~i~rG~vl~~p~~   97 (100)
T d2c78a1          81 VSREEVERGQVLAKPGS   97 (100)
T ss_dssp             CCTTTCCTTCEEESTTS
T ss_pred             CCHHHccCcCEEECCCC
Confidence            99999999999998654

>d1jnya1 b.43.3.1 (A:228-322) Elongation factor eEF-1alpha, domain 2 {Archaeon Sulfolobus solfataricus [TaxId: 2287]}

class: All beta proteins
fold: Reductase/isomerase/elongation factor common domain
superfamily: Translation proteins
family: Elongation factors
domain: Elongation factor eEF-1alpha, domain 2
species: Archaeon Sulfolobus solfataricus [TaxId: 2287]

Probab=99.92  E-value=5.2e-26  Score=152.75  Aligned_cols=92  Identities=36%  Similarity=0.678  Sum_probs=87.2

Q ss_pred             CCCCeeEEEeeEEeecCCcEEEEEEEEEEEEecCCEEEEeecCceeeEEEEEEEecceecceecccCceehhccCCCccc
Q psy9646          18 LDKPFYLPVEHTYSIPGRGTVVTGRLERGIVKKGMECEFTGYGRQFKTTVTGIEMFHKILDEAQAGDQLGALVKGMKRDE   97 (211)
Q Consensus        18 ~~~p~~~~v~~~~~~~~~G~v~~G~v~~G~i~~g~~v~i~p~~~~~~~~v~~i~~~~~~~~~a~~G~~v~~~l~~~~~~~   97 (211)
                      .|+||||||+++|++++.|++++|+|++|.+++||++.++|++.  .++|++|+++++++++|.+||+++++|++.+..+
T Consensus         2 ~d~Plr~pI~~vf~~~g~G~vv~G~v~~G~i~~gd~v~i~P~~~--~~~VksI~~~~~~~~~a~aG~~v~l~l~~i~~~~   79 (95)
T d1jnya1           2 VDKPLRIPIQDVYSISGVGTVPVGRVESGVLKVGDKIVFMPAGK--VGEVRSIETHHTKMDKAEPGDNIGFNVRGVEKKD   79 (95)
T ss_dssp             GGSCCBEEEEEEEEETTTEEEEEEECCBSCEETTCEEEEETTTE--EEEEEEEEETTEEESEECTTCEEEEEEESSCGGG
T ss_pred             CCcCEEEEEEEEEEcCCceeEEEEEEeeccccCCCEEEEEeCCc--eEEEEEEEecCCccCEEeCCCcEEEEEEcCcHHh
Confidence            46899999999999999999999999999999999999999975  8999999999999999999999999999999999


Q ss_pred             ccccccccccchhh
Q psy9646          98 VNRGLIMAKPVLAD  111 (211)
Q Consensus        98 v~~G~ii~~~~~~~  111 (211)
                      ++||++++++..++
T Consensus        80 i~rG~vl~~~~~~p   93 (95)
T d1jnya1          80 IKRGDVVGHPNNPP   93 (95)
T ss_dssp             CCTTCEEECTTSCC
T ss_pred             cCCCCEEECCCccC
Confidence            99999999887654

>d1wb1a1 b.43.3.1 (A:180-271) Elongation factor SelB, domains 2 and 4 {Methanococcus maripaludis [TaxId: 39152]}

class: All beta proteins
fold: Reductase/isomerase/elongation factor common domain
superfamily: Translation proteins
family: Elongation factors
domain: Elongation factor SelB, domains 2 and 4
species: Methanococcus maripaludis [TaxId: 39152]

Probab=99.91  E-value=8.2e-27  Score=155.50  Aligned_cols=91  Identities=35%  Similarity=0.633  Sum_probs=86.9

Q ss_pred             CCCCCCeeEEEeeEEeecCCcEEEEEEEEEEEEecCCEEEEeecCceeeEEEEEEEecceecceecccCceehhccCCCc
Q psy9646          16 RDLDKPFYLPVEHTYSIPGRGTVVTGRLERGIVKKGMECEFTGYGRQFKTTVTGIEMFHKILDEAQAGDQLGALVKGMKR   95 (211)
Q Consensus        16 ~~~~~p~~~~v~~~~~~~~~G~v~~G~v~~G~i~~g~~v~i~p~~~~~~~~v~~i~~~~~~~~~a~~G~~v~~~l~~~~~   95 (211)
                      |+.++||||||+++|++++.|+|++|+|++|.+++||+|.++|+++  +++|++|+++++++++|.|||+|+++|++++.
T Consensus         1 R~~~~~fr~~I~~vf~i~g~G~VvtG~v~sG~i~~gd~v~i~P~~~--~~~VksI~~~~~~~~~a~aGd~v~l~L~gi~~   78 (92)
T d1wb1a1           1 RNTESYFKMPLDHAFPIKGAGTVVTGTINKGIVKVGDELKVLPINM--STKVRSIQYFKESVMEAKAGDRVGMAIQGVDA   78 (92)
T ss_dssp             CCSSSCCBCBCSCEECCSSCCCEECCCCCBSCCCSSEEECCTTTCC--CEEECCBCGGGSCBCCCCSSCCCCEECSSCCS
T ss_pred             CCCCCCEEEEEEEEEEeCCcEEEEEeEEeeceEecCCeEEEeccCC--ceEEEeeeEcCceeeEeCCCCEEEEEEcCCCH
Confidence            5789999999999999999999999999999999999999999975  89999999999999999999999999999999


Q ss_pred             ccccccccccccc
Q psy9646          96 DEVNRGLIMAKPV  108 (211)
Q Consensus        96 ~~v~~G~ii~~~~  108 (211)
                      ++++||++++++.
T Consensus        79 ~~i~rG~vl~~~~   91 (92)
T d1wb1a1          79 KQIYRGCILTSKD   91 (92)
T ss_dssp             SCCCSSCBCCCTT
T ss_pred             HHcCCcCEEeCCC
Confidence            9999999999764

>d1kk1a1 b.43.3.1 (A:201-321) Initiation factor eIF2 gamma subunit, domain II {Archaeon Pyrococcus abyssi [TaxId: 29292]}

class: All beta proteins
fold: Reductase/isomerase/elongation factor common domain
superfamily: Translation proteins
family: Elongation factors
domain: Initiation factor eIF2 gamma subunit, domain II
species: Archaeon Pyrococcus abyssi [TaxId: 29292]

Probab=99.90  E-value=1.1e-23  Score=146.70  Aligned_cols=98  Identities=24%  Similarity=0.356  Sum_probs=87.8

Q ss_pred             CCCCCCCCeeEEEeeEEeecCCcE--------EEEEEEEEEEEecCCEEEEeecCc----------eeeEEEEEEEecce
Q psy9646          14 PVRDLDKPFYLPVEHTYSIPGRGT--------VVTGRLERGIVKKGMECEFTGYGR----------QFKTTVTGIEMFHK   75 (211)
Q Consensus        14 p~~~~~~p~~~~v~~~~~~~~~G~--------v~~G~v~~G~i~~g~~v~i~p~~~----------~~~~~v~~i~~~~~   75 (211)
                      |+|+.++||||+|+++|.+++.|+        |++|+|++|.+++||+|.++|+++          +.+++|++|+++++
T Consensus         1 P~R~~~~p~r~~Idr~F~v~g~Gt~~~~~~G~VvtGtv~sG~ik~GD~v~i~P~~~~~~~~~~~~~~~~~~V~sI~~~~~   80 (121)
T d1kk1a1           1 PKRDPNKPPKMLVLRSFDVNKPGTPPEKLVGGVLDGSIVQGKLKVGDEIEIRPGVPYEEHGRIKYEPITTEIVSLQAGGQ   80 (121)
T ss_dssp             CCCCTTSCCEEEEEEEECCSCCC----CCCCCEEEEEEEESCEETTCEEEEEEEEEEEETTEEEEEEEEEEEEEEEETTE
T ss_pred             CCCCCCCCcEEEEEEEEEecCCCCccccCcceEEEeeecCCEEecCCEEEECCCCccccccceeceeeeeEEEEEEECCC
Confidence            678999999999999999977766        999999999999999999999863          23578999999999


Q ss_pred             ecceecccCceehhcc---CCCcccccccccccccchhh
Q psy9646          76 ILDEAQAGDQLGALVK---GMKRDEVNRGLIMAKPVLAD  111 (211)
Q Consensus        76 ~~~~a~~G~~v~~~l~---~~~~~~v~~G~ii~~~~~~~  111 (211)
                      ++++|.+||+|+++|+   +++..|+.+|++++.+...+
T Consensus        81 ~v~~A~~G~~Vgv~l~~d~~i~r~Dv~rG~Vl~~pg~lp  119 (121)
T d1kk1a1          81 FVEEAYPGGLVGVGTKLDPYLTKGDLMAGNVVGKPGKLP  119 (121)
T ss_dssp             EESEECSSSCEEEEESSCGGGTGGGTTTTCEEECTTCSC
T ss_pred             CcCEEeCCCeEEEEecccCCcchhHhcceeEEECCCCCC
Confidence            9999999999999998   78889999999999876543

>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=99.88  E-value=1.8e-23  Score=159.68  Aligned_cols=92  Identities=78%  Similarity=1.250  Sum_probs=87.8

Q ss_pred             ccccccchhhcccceEEeEeEEEeeeCCceeEeecCCcccccHhHHhhhccccceEEEEEeccCCCCcchHHHHHHHHHc
Q psy9646         120 YADIDNAPEEKARGITINVAHVEYATENRHYSHTDCPGHADYIKNMITGTSQMDGAILVVAATDGAMPQTREHLLLAKQI  199 (211)
Q Consensus       120 ~i~~~~~~~e~~rg~tv~~~~~~~~~~~~~~~~iDtPG~~~~~~~~~~~~~~~d~~~~vvd~~~~~~~~~~~~~~~~~~~  199 (211)
                      ...++..+.|+.||+|+++++..+++++++++|+|||||.+|.++|.+|++.+|++|+||||.+|++.||++|+.++...
T Consensus        39 ~~~~d~~~eE~~rgiTi~~~~~~~~~~~~~i~iiDtPGh~df~~~~~~~~~~aD~avlVvda~~Gv~~qt~~~~~~~~~~  118 (204)
T d2c78a3          39 YGDIDKAPEERARGITINTAHVEYETAKRHYSHVDCPGHADYIKNMITGAAQMDGAILVVSAADGPMPQTREHILLARQV  118 (204)
T ss_dssp             HHHHSCSHHHHHHTCCCSCEEEEEECSSCEEEEEECCCSGGGHHHHHHHHTTCSSEEEEEETTTCCCHHHHHHHHHHHHT
T ss_pred             hhhcccchHHhcCCeEEEeeEEEEEeCCeEEEEEeCCCchhhHHHHHHHHHHCCEEEEEEECCCCCcHHHHHHHHHHHHc
Confidence            33468889999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             CCCeEEEEEeCC
Q psy9646         200 GVTNIVVFINKF  211 (211)
Q Consensus       200 ~~~~~i~~inK~  211 (211)
                      |+|++|+++|||
T Consensus       119 gi~~iiv~iNK~  130 (204)
T d2c78a3         119 GVPYIVVFMNKV  130 (204)
T ss_dssp             TCCCEEEEEECG
T ss_pred             CCCeEEEEEEec
Confidence            999888899997

>d1xe1a_ b.43.3.1 (A:) Hypothetical protein PF0907 {Pyrococcus furiosus [TaxId: 2261]}

class: All beta proteins
fold: Reductase/isomerase/elongation factor common domain
superfamily: Translation proteins
family: Elongation factors
domain: Hypothetical protein PF0907
species: Pyrococcus furiosus [TaxId: 2261]

Probab=99.88  E-value=1.5e-22  Score=134.22  Aligned_cols=84  Identities=26%  Similarity=0.375  Sum_probs=77.0

Q ss_pred             CCCCe-eEEEeeEEeecCCcEEEEEEEEEEEEecCCEEEEeecCceeeEEEEEEEecceecceecccCceehhccCCCcc
Q psy9646          18 LDKPF-YLPVEHTYSIPGRGTVVTGRLERGIVKKGMECEFTGYGRQFKTTVTGIEMFHKILDEAQAGDQLGALVKGMKRD   96 (211)
Q Consensus        18 ~~~p~-~~~v~~~~~~~~~G~v~~G~v~~G~i~~g~~v~i~p~~~~~~~~v~~i~~~~~~~~~a~~G~~v~~~l~~~~~~   96 (211)
                      .++|+ ||||+++|+++| |++++|+|++|.+++||+|.+.|.    +++|++|+++++++++|.+||+|+++|++ +..
T Consensus         5 ~~kp~~R~~Id~vf~i~G-gtVvtGtV~sG~i~~Gd~v~~~p~----~~~VksIq~~~~~v~~a~~G~~v~l~L~~-~~~   78 (91)
T d1xe1a_           5 SKKPAGKVVVEEVVNIMG-KDVIIGTVESGMIGVGFKVKGPSG----IGGIVRIERNREKVEFAIAGDRIGISIEG-KIG   78 (91)
T ss_dssp             CSSCSEEEEEEEEEEETT-EEEEEEEEEEEEEETTCEEECSSC----EEEEEEEEETTEEESEEETTCEEEEEEES-CCC
T ss_pred             cCCCccEeeEEEEEEECC-cEEEEEEEeeCCcCCCCEEEECCc----cEEEEEEEEcceEhhhhhhcceeEEEEcC-CcC
Confidence            45676 999999999999 999999999999999999999885    57899999999999999999999999998 667


Q ss_pred             ccccccccccc
Q psy9646          97 EVNRGLIMAKP  107 (211)
Q Consensus        97 ~v~~G~ii~~~  107 (211)
                      +++||++++..
T Consensus        79 di~rGdvL~~~   89 (91)
T d1xe1a_          79 KVKKGDVLEIY   89 (91)
T ss_dssp             CCCTTCEEEEE
T ss_pred             CcCCCCEEEec
Confidence            89999998753

>d1r5ba1 b.43.3.1 (A:460-554) Eukaryotic peptide chain release factor ERF2, post-G domain {Fission yeast (Schizosaccharomyces pombe) [TaxId: 4896]}

class: All beta proteins
fold: Reductase/isomerase/elongation factor common domain
superfamily: Translation proteins
family: Elongation factors
domain: Eukaryotic peptide chain release factor ERF2, post-G domain
species: Fission yeast (Schizosaccharomyces pombe) [TaxId: 4896]

Probab=99.88  E-value=1.3e-23  Score=140.85  Aligned_cols=89  Identities=25%  Similarity=0.468  Sum_probs=80.7

Q ss_pred             CCCCCCeeEEEeeEEeecCCcEEEEEEEEEEEEecCCEEEEeecCceeeEEEEEEEe-cceecceecccCceehhccCCC
Q psy9646          16 RDLDKPFYLPVEHTYSIPGRGTVVTGRLERGIVKKGMECEFTGYGRQFKTTVTGIEM-FHKILDEAQAGDQLGALVKGMK   94 (211)
Q Consensus        16 ~~~~~p~~~~v~~~~~~~~~G~v~~G~v~~G~i~~g~~v~i~p~~~~~~~~v~~i~~-~~~~~~~a~~G~~v~~~l~~~~   94 (211)
                      |+.++||||||+++|+  +.|++++|||++|.+++||++.++|+++  .++|++|+. +++++++|.|||+|+++|++ +
T Consensus         4 R~~~~PlR~pV~d~~k--g~G~vv~G~v~sG~i~~gd~v~i~P~~~--~~~Vk~I~~~~~~~v~~a~aGd~V~l~l~~-~   78 (95)
T d1r5ba1           4 RKVNAPFIMPIASKYK--DLGTILEGKIEAGSIKKNSNVLVMPINQ--TLEVTAIYDEADEEISSSICGDQVRLRVRG-D   78 (95)
T ss_dssp             HHHTSCCEEECCEEEE--SSSEEEEEECCBSEEETTEEEEEETTTE--EEEEEEEECTTCCEESEEETTCEEEEEEES-C
T ss_pred             CCCCCCEEEEEEEEEc--CCCEEEEEEEeeCeEeCCCEEEEecCCC--EEEEEEEEEEccccccCcCCCCEEEEEEcC-c
Confidence            5678999999999996  8899999999999999999999999975  899999986 56789999999999999998 4


Q ss_pred             cccccccccccccch
Q psy9646          95 RDEVNRGLIMAKPVL  109 (211)
Q Consensus        95 ~~~v~~G~ii~~~~~  109 (211)
                      ..+++||+++|++..
T Consensus        79 ~~di~rG~vl~~~~~   93 (95)
T d1r5ba1          79 DSDVQTGYVLTSTKN   93 (95)
T ss_dssp             CTTCCTTCEEECSSS
T ss_pred             ccccCCCCEEEcCCC
Confidence            578999999998764

>d1zunb1 b.43.3.1 (B:238-329) Sulfate adenylate transferase subunit cysN/C, EF-Tu domain 2-like domain {Pseudomonas syringae pv. tomato [TaxId: 323]}

class: All beta proteins
fold: Reductase/isomerase/elongation factor common domain
superfamily: Translation proteins
family: Elongation factors
domain: Sulfate adenylate transferase subunit cysN/C, EF-Tu domain 2-like domain
species: Pseudomonas syringae pv. tomato [TaxId: 323]

Probab=99.87  E-value=8.7e-23  Score=135.51  Aligned_cols=88  Identities=22%  Similarity=0.265  Sum_probs=81.2

Q ss_pred             CCCeeEEEeeEEeecCCcEEEEEEEEEEEEecCCEEEEeecCceeeEEEEEEEecceecceecccCceehhccCCCcccc
Q psy9646          19 DKPFYLPVEHTYSIPGRGTVVTGRLERGIVKKGMECEFTGYGRQFKTTVTGIEMFHKILDEAQAGDQLGALVKGMKRDEV   98 (211)
Q Consensus        19 ~~p~~~~v~~~~~~~~~G~v~~G~v~~G~i~~g~~v~i~p~~~~~~~~v~~i~~~~~~~~~a~~G~~v~~~l~~~~~~~v   98 (211)
                      +.+|||||+++++.++.++.|+|+|++|.+++||+|.++|+++  .++|++|+++++++++|.+|++++++|+  +..++
T Consensus         4 ~~~fr~pVQ~V~r~~~~~r~~~G~v~sG~v~~Gd~v~i~Psg~--~~~Vk~I~~~~~~~~~a~~G~~v~l~L~--~~~di   79 (92)
T d1zunb1           4 YTDLRFPVQYVNRPNLNFRGFAGTLASGIVHKGDEIVVLPSGK--SSRVKSIVTFEGELEQAGPGQAVTLTME--DEIDI   79 (92)
T ss_dssp             SSSCEEECCEEECSSSSCCEEEEECCBSCEETTCEEEETTTCC--EEEEEEEEETTEEESEECTTCEEEEEES--SCCCC
T ss_pred             CCCeEEeEEEEEccCCCccEEEEEEcccEEecCCEEEECCCCc--eEEEeEEEEcCcccCEEcCCCEEEEEEc--Ccccc
Confidence            4589999999999887788899999999999999999999985  8999999999999999999999999999  46799


Q ss_pred             cccccccccchh
Q psy9646          99 NRGLIMAKPVLA  110 (211)
Q Consensus        99 ~~G~ii~~~~~~  110 (211)
                      .||++++++..+
T Consensus        80 ~RGdvl~~~~~~   91 (92)
T d1zunb1          80 SRGDLLVHADNV   91 (92)
T ss_dssp             CTTCEEEETTSC
T ss_pred             CCCCEEecCCCC
Confidence            999999987654

>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=99.87  E-value=4.1e-23  Score=161.13  Aligned_cols=97  Identities=45%  Similarity=0.634  Sum_probs=90.3

Q ss_pred             hhcccccccccchhhcccceEEeEeEEEeeeCCceeEeecCCcccccHhHHhhhccccceEEEEEeccCC-------CCc
Q psy9646         115 AKVKQYADIDNAPEEKARGITINVAHVEYATENRHYSHTDCPGHADYIKNMITGTSQMDGAILVVAATDG-------AMP  187 (211)
Q Consensus       115 ~~f~~~i~~~~~~~e~~rg~tv~~~~~~~~~~~~~~~~iDtPG~~~~~~~~~~~~~~~d~~~~vvd~~~~-------~~~  187 (211)
                      ..+...+.+|..+.|+.||+|+++++..+++++++++|+|||||.+|..+|.+|++.+|++|+||||.+|       +.+
T Consensus        51 ~~~~~~~~~D~~~~Er~rGiTi~~~~~~~~~~~~~i~iiDtPGH~df~~~~~~g~~~~D~ailvvda~~G~~e~g~~~~~  130 (239)
T d1f60a3          51 GSFKYAWVLDKLKAERERGITIDIALWKFETPKYQVTVIDAPGHRDFIKNMITGTSQADCAILIIAGGVGEFEAGISKDG  130 (239)
T ss_dssp             SCCCHHHHHHHHHHHHHTTCCCSCSCEEEECSSEEEEEEECCCCTTHHHHHHHSSSCCSEEEEEEECSHHHHHHHTCTTS
T ss_pred             CccceeeecccchhhhcceeccccceeEeccCCEEEEEEECCCcHHHHHHHHHHHHHhCEEEEEEECCCCccccccCchH
Confidence            3455556689999999999999999999999999999999999999999999999999999999999987       458


Q ss_pred             chHHHHHHHHHcCCCeEEEEEeCC
Q psy9646         188 QTREHLLLAKQIGVTNIVVFINKF  211 (211)
Q Consensus       188 ~~~~~~~~~~~~~~~~~i~~inK~  211 (211)
                      ||++|+.+++.+|+|++|+++|||
T Consensus       131 QT~eh~~~~~~~gv~~iiv~iNKm  154 (239)
T d1f60a3         131 QTREHALLAFTLGVRQLIVAVNKM  154 (239)
T ss_dssp             HHHHHHHHHHHTTCCEEEEEEECG
T ss_pred             hHHHHHHHHHHcCCCeEEEEEECC
Confidence            999999999999999999999997

>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=99.87  E-value=1.9e-22  Score=152.89  Aligned_cols=96  Identities=75%  Similarity=1.218  Sum_probs=89.7

Q ss_pred             hcccccccccchhhcccceEEeEeEEEeeeCCceeEeecCCcccccHhHHhhhccccceEEEEEeccCCCCcchHHHHHH
Q psy9646         116 KVKQYADIDNAPEEKARGITINVAHVEYATENRHYSHTDCPGHADYIKNMITGTSQMDGAILVVAATDGAMPQTREHLLL  195 (211)
Q Consensus       116 ~f~~~i~~~~~~~e~~rg~tv~~~~~~~~~~~~~~~~iDtPG~~~~~~~~~~~~~~~d~~~~vvd~~~~~~~~~~~~~~~  195 (211)
                      .+.....++..+.|+.||+|++.++..+.+.+++++|+|||||.+|++++.+|++.+|++++||||.+|+++||++|+.+
T Consensus        34 ~~~~~~~~~~~~~Er~rgiTi~~~~~~~~~~~~~~~~iDtPGh~~f~~~~~~~~~~aD~allVVda~~G~~~QT~~~~~~  113 (196)
T d1d2ea3          34 KFKKYEEIDNAPEERARGITINAAHVEYSTAARHYAHTDCPGHADYVKNMITGTAPLDGCILVVAANDGPMPQTREHLLL  113 (196)
T ss_dssp             CCCCHHHHHSCCEEEETTEEEECEEEEEECSSCEEEEEECSSHHHHHHHHHHTSSCCSEEEEEEETTTCSCHHHHHHHHH
T ss_pred             hhhhhhhcccchhhcCCCccCCcceEEEEeceeeEEeecCcchHHHHHHHHHHHhhcCeEEEEEEcCCCCchhHHHHHHH
Confidence            34444557888999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHcCCCeEEEEEeCC
Q psy9646         196 AKQIGVTNIVVFINKF  211 (211)
Q Consensus       196 ~~~~~~~~~i~~inK~  211 (211)
                      +..++++++|+++|||
T Consensus       114 a~~~~~~~iIv~iNK~  129 (196)
T d1d2ea3         114 ARQIGVEHVVVYVNKA  129 (196)
T ss_dssp             HHHTTCCCEEEEEECG
T ss_pred             HHHhcCCcEEEEEecc
Confidence            9999998899999996

>d1s0ua1 b.43.3.1 (A:230-347) Initiation factor eIF2 gamma subunit, domain II {Archaeon Methanococcus jannaschii [TaxId: 2190]}

class: All beta proteins
fold: Reductase/isomerase/elongation factor common domain
superfamily: Translation proteins
family: Elongation factors
domain: Initiation factor eIF2 gamma subunit, domain II
species: Archaeon Methanococcus jannaschii [TaxId: 2190]

Probab=99.86  E-value=3.3e-22  Score=138.48  Aligned_cols=94  Identities=23%  Similarity=0.337  Sum_probs=85.6

Q ss_pred             CCCCCCeeEEEeeEEeecCCcE--------EEEEEEEEEEEecCCEEEEeecCc----------eeeEEEEEEEecceec
Q psy9646          16 RDLDKPFYLPVEHTYSIPGRGT--------VVTGRLERGIVKKGMECEFTGYGR----------QFKTTVTGIEMFHKIL   77 (211)
Q Consensus        16 ~~~~~p~~~~v~~~~~~~~~G~--------v~~G~v~~G~i~~g~~v~i~p~~~----------~~~~~v~~i~~~~~~~   77 (211)
                      |+.++||+|+|+++|.+++.|+        |++|+|++|.+++||+|.++|+++          ..+++|++|+++++++
T Consensus         1 R~~~~p~~~~I~r~F~i~~~gt~~~~~~G~VvtGtv~sG~i~~GD~v~i~P~~~~~~~~~~~~~~~~t~V~sI~~~~~~v   80 (118)
T d1s0ua1           1 RDPDATPRMYVARSFDINKPGTEIKDLKGGVLGGAIIQGVFKVGDEIEIRPGIKVTEGNKTFWKPLTTKIVSLAAGNTIL   80 (118)
T ss_dssp             CCTTSCCEEEEEEEECCCCSSCCGGGCCCCEEEEEEEESCEETTCEEEEEEEEEECCTTCCEEEEEEEECCEEEETTEEE
T ss_pred             CCCCCCcEEEEEeEEcccCCCCccccccccEEEeeecccEEeeCCEEEECCCCcccccceeeeeeeeEEEEEEEECCccc
Confidence            5789999999999999988766        999999999999999999999863          2468999999999999


Q ss_pred             ceecccCceehhcc---CCCcccccccccccccch
Q psy9646          78 DEAQAGDQLGALVK---GMKRDEVNRGLIMAKPVL  109 (211)
Q Consensus        78 ~~a~~G~~v~~~l~---~~~~~~v~~G~ii~~~~~  109 (211)
                      ++|.|||+|+++|+   +++..|+.+|++++.+..
T Consensus        81 ~~A~aG~~V~i~l~~d~~i~r~Di~~G~Vl~~pg~  115 (118)
T d1s0ua1          81 RKAHPGGLIGVGTTLDPYLTKSDALTGSVVGLPGT  115 (118)
T ss_dssp             SEECSSSCEEEECSSCGGGTGGGTTTTCEEESTTC
T ss_pred             CEEeCCCEEEEEeccCCCccHHHheeeeEEeCCCC
Confidence            99999999999998   788999999999997654

>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=99.81  E-value=1.1e-20  Score=149.56  Aligned_cols=90  Identities=30%  Similarity=0.459  Sum_probs=77.4

Q ss_pred             cccccchhhcccceEEeEeEEEeeeCCceeEeecCCcccccHhHHhhhccccceEEEEEeccCCCCcchHHHHHHHHHcC
Q psy9646         121 ADIDNAPEEKARGITINVAHVEYATENRHYSHTDCPGHADYIKNMITGTSQMDGAILVVAATDGAMPQTREHLLLAKQIG  200 (211)
Q Consensus       121 i~~~~~~~e~~rg~tv~~~~~~~~~~~~~~~~iDtPG~~~~~~~~~~~~~~~d~~~~vvd~~~~~~~~~~~~~~~~~~~~  200 (211)
                      ..+|..+.|+.|++|+.++..++++++++++|+|||||.+|..++..|++.+|++|+||||.+|+..||+++|+++.+.+
T Consensus        44 ~~~D~~~~E~~r~~si~~~~~~~~~~~~~~n~iDtPG~~dF~~e~~~~l~~~D~avlVvda~~Gv~~~T~~~w~~a~~~~  123 (276)
T d2bv3a2          44 ATMDFMEQERERGITITAAVTTCFWKDHRINIIDAPGHVDFTIEVERSMRVLDGAIVVFDSSQGVEPQSETVWRQAEKYK  123 (276)
T ss_dssp             -----------CCCCCCCSEEEEEETTEEEEEECCCSSSSCSTTHHHHHHHCCEEEEEEETTTSSCHHHHHHHHHHHTTT
T ss_pred             eEEeccHHHHhcCCccccceeeeccCCeEEEEecCCchhhhHHHHHHHHHhhhheEEeccccCCcchhHHHHHHHHHHcC
Confidence            35899999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             CCeEEEEEeCC
Q psy9646         201 VTNIVVFINKF  211 (211)
Q Consensus       201 ~~~~i~~inK~  211 (211)
                      +| .|++||||
T Consensus       124 lP-~i~fINKm  133 (276)
T d2bv3a2         124 VP-RIAFANKM  133 (276)
T ss_dssp             CC-EEEEEECT
T ss_pred             CC-EEEEEecc
Confidence            99 66899997

>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=99.80  E-value=3.3e-20  Score=146.30  Aligned_cols=89  Identities=21%  Similarity=0.341  Sum_probs=86.0

Q ss_pred             ccccchhhcccceEEeEeEEEeeeCCceeEeecCCcccccHhHHhhhccccceEEEEEeccCCCCcchHHHHHHHHHcCC
Q psy9646         122 DIDNAPEEKARGITINVAHVEYATENRHYSHTDCPGHADYIKNMITGTSQMDGAILVVAATDGAMPQTREHLLLAKQIGV  201 (211)
Q Consensus       122 ~~~~~~~e~~rg~tv~~~~~~~~~~~~~~~~iDtPG~~~~~~~~~~~~~~~d~~~~vvd~~~~~~~~~~~~~~~~~~~~~  201 (211)
                      .+|..+.|+.|++|+.+++.++++++++++|+|||||.+|..++..|++.+|++++||||.+|+..|++++++++.+.++
T Consensus        41 ~~D~~~~E~~r~~ti~~~~~~~~~~~~~~n~iDtPGh~dF~~e~~~al~~~D~avlvvda~~Gv~~~t~~~~~~~~~~~~  120 (267)
T d2dy1a2          41 TTDYTPEAKLHRTTVRTGVAPLLFRGHRVFLLDAPGYGDFVGEIRGALEAADAALVAVSAEAGVQVGTERAWTVAERLGL  120 (267)
T ss_dssp             SSCCSHHHHHTTSCCSCEEEEEEETTEEEEEEECCCSGGGHHHHHHHHHHCSEEEEEEETTTCSCHHHHHHHHHHHHTTC
T ss_pred             cccchHHHHHhCCeEEeecccccccccceeEEccCchhhhhhhhhhhhcccCceEEEeeccCCccchhHHHHHhhhhccc
Confidence            47899999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             CeEEEEEeCC
Q psy9646         202 TNIVVFINKF  211 (211)
Q Consensus       202 ~~~i~~inK~  211 (211)
                      | .++++|||
T Consensus       121 p-~~i~iNk~  129 (267)
T d2dy1a2         121 P-RMVVVTKL  129 (267)
T ss_dssp             C-EEEEEECG
T ss_pred             c-cccccccc
Confidence            9 66899996

>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=99.80  E-value=3.9e-20  Score=142.53  Aligned_cols=95  Identities=41%  Similarity=0.597  Sum_probs=83.6

Q ss_pred             cccccccccchhhcccceEEeEeEEEeeeCCceeEeecCCcccccHhHHhhhccccceEEEEEeccCCCCcchHHHHHHH
Q psy9646         117 VKQYADIDNAPEEKARGITINVAHVEYATENRHYSHTDCPGHADYIKNMITGTSQMDGAILVVAATDGAMPQTREHLLLA  196 (211)
Q Consensus       117 f~~~i~~~~~~~e~~rg~tv~~~~~~~~~~~~~~~~iDtPG~~~~~~~~~~~~~~~d~~~~vvd~~~~~~~~~~~~~~~~  196 (211)
                      +...+.++..+.|..++.++..+...+++.+++++|+|||||++|+.+|.+|++.+|++++||||.+|+.+|+++|+.++
T Consensus        58 ~~~~~~~d~~~~e~~~g~ti~~~~~~~~~~~~~~~iiD~PGH~dfv~~~~~g~~~aD~ailVvda~~G~~~Qt~e~~~~~  137 (222)
T d1zunb3          58 VDLALLVDGLQAEREQGITIDVAYRYFSTAKRKFIIADTPGHEQYTRNMATGASTCDLAIILVDARYGVQTQTRRHSYIA  137 (222)
T ss_dssp             --CHHHHHHHHC-----CCCCCEEEEEECSSEEEEEEECCCSGGGHHHHHHHHTTCSEEEEEEETTTCSCHHHHHHHHHH
T ss_pred             eeeeeccccchhhhccCCCceeeEEEEeccceEEEEEeccchhhhhhhhccccccCceEEEEeccccCcccchHHHHHHH
Confidence            44445578889999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHcCCCeEEEEEeCC
Q psy9646         197 KQIGVTNIVVFINKF  211 (211)
Q Consensus       197 ~~~~~~~~i~~inK~  211 (211)
                      ...|+|++|+++|||
T Consensus       138 ~~~gv~~iiv~vNK~  152 (222)
T d1zunb3         138 SLLGIKHIVVAINKM  152 (222)
T ss_dssp             HHTTCCEEEEEEECT
T ss_pred             HHcCCCEEEEEEEcc
Confidence            999999999999997

>d2qn6a1 b.43.3.1 (A:207-320) Initiation factor eIF2 gamma subunit, domain II {Sulfolobus solfataricus [TaxId: 2287]}

class: All beta proteins
fold: Reductase/isomerase/elongation factor common domain
superfamily: Translation proteins
family: Elongation factors
domain: Initiation factor eIF2 gamma subunit, domain II
species: Sulfolobus solfataricus [TaxId: 2287]

Probab=99.79  E-value=1.6e-19  Score=124.10  Aligned_cols=90  Identities=21%  Similarity=0.280  Sum_probs=77.6

Q ss_pred             CCCCCCeeEEEeeEEeecCCcE--------EEEEEEEEEEEecCCEEEEeecCce----------eeEEEEEEEecceec
Q psy9646          16 RDLDKPFYLPVEHTYSIPGRGT--------VVTGRLERGIVKKGMECEFTGYGRQ----------FKTTVTGIEMFHKIL   77 (211)
Q Consensus        16 ~~~~~p~~~~v~~~~~~~~~G~--------v~~G~v~~G~i~~g~~v~i~p~~~~----------~~~~v~~i~~~~~~~   77 (211)
                      |+.++|++|+|.++|.+++.|+        |++|+|++|.+++||++.++|++..          .+++|++|+++++++
T Consensus         1 Rd~~~~p~~~V~R~F~vn~pgt~~~~~~G~VvtGtv~~G~ikvGD~i~i~P~~~~~~~~~~~~~~~~t~V~sI~~~~~~v   80 (114)
T d2qn6a1           1 RDLSQKPVMLVIRSFDVNKPGTQFNELKGGVIGGSIIQGLFKVDQEIKVLPGLRVEKQGKVSYEPIFTKISSIRFGDEEF   80 (114)
T ss_dssp             CCTTSCCEEEEEEEECCCCTTCBGGGCCCCEEEEEEEESCEETTCEEEEEEEEEEEETTEEEEEEEEEEEEEEEETTEEE
T ss_pred             CCCCCCceEEEeccccccCCCCCcccccceEEEEEEccccEEeCCEEEEcCCCccccCceeeeeecceEEEEEEECCccc
Confidence            5778999999999999987555        9999999999999999999998732          358999999999999


Q ss_pred             ceecccCceehhcc---CCCccccccccccc
Q psy9646          78 DEAQAGDQLGALVK---GMKRDEVNRGLIMA  105 (211)
Q Consensus        78 ~~a~~G~~v~~~l~---~~~~~~v~~G~ii~  105 (211)
                      ++|.||++|+++|+   +++..|+.+|++++
T Consensus        81 ~~A~aG~~V~i~l~~d~~isr~D~l~G~Vl~  111 (114)
T d2qn6a1          81 KEAKPGGLVAIGTYLDPSLTKADNLLGSIIT  111 (114)
T ss_dssp             SEECSSSCEEEEESSCHHHHGGGTTTTCEEE
T ss_pred             CEEeCCCEEEEEeccCCCcchhheeeeeEEe
Confidence            99999999999998   45556666666654

>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=99.79  E-value=2.9e-20  Score=143.68  Aligned_cols=95  Identities=45%  Similarity=0.730  Sum_probs=77.1

Q ss_pred             cccccccccchhhcccceEEeEeEEEeeeCCceeEeecCCcccccHhHHhhhccccceEEEEEeccCCC-------Ccch
Q psy9646         117 VKQYADIDNAPEEKARGITINVAHVEYATENRHYSHTDCPGHADYIKNMITGTSQMDGAILVVAATDGA-------MPQT  189 (211)
Q Consensus       117 f~~~i~~~~~~~e~~rg~tv~~~~~~~~~~~~~~~~iDtPG~~~~~~~~~~~~~~~d~~~~vvd~~~~~-------~~~~  189 (211)
                      +.....++..+.|..||+++......+++++++++|+|||||.+|..+|.+|++.+|++++||||.+|+       .+|+
T Consensus        50 ~~~~~~~d~~~~e~~rg~ti~~~~~~~~~~~~~i~iiDtPGH~df~~~~~~g~~~~D~allVVda~~G~~~~t~~~~~qt  129 (224)
T d1jnya3          50 EKFAFLLDRLKEERERGVTINLTFMRFETKKYFFTIIDAPGHRDFVKNMITGASQADAAILVVSAKKGEYEAGMSVEGQT  129 (224)
T ss_dssp             HHHHHHHHHHHHC-----------CEEECSSCEEEECCCSSSTTHHHHHHHTSSCCSEEEEEEECSTTHHHHHHSTTCHH
T ss_pred             ccccccccCchhhhcCCccccceEEEEecCCceeEEeeCCCcHHHHHHHHHHHHhhceEEEEEecccCcccccccccchh
Confidence            334445889999999999999999999999999999999999999999999999999999999999994       6899


Q ss_pred             HHHHHHHHHcCCCeEEEEEeCC
Q psy9646         190 REHLLLAKQIGVTNIVVFINKF  211 (211)
Q Consensus       190 ~~~~~~~~~~~~~~~i~~inK~  211 (211)
                      ++|+.+++.++++++|+++|||
T Consensus       130 ~e~l~~~~~~~~~~iIv~iNK~  151 (224)
T d1jnya3         130 REHIILAKTMGLDQLIVAVNKM  151 (224)
T ss_dssp             HHHHHHHHHTTCTTCEEEEECG
T ss_pred             HHHHHHHHHhCCCceEEEEEcc
Confidence            9999999999998898999996

>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=99.73  E-value=1.1e-18  Score=141.89  Aligned_cols=89  Identities=30%  Similarity=0.402  Sum_probs=72.1

Q ss_pred             ccccchhhcccceEEeEeEEEeee----------------CCceeEeecCCcccccHhHHhhhccccceEEEEEeccCCC
Q psy9646         122 DIDNAPEEKARGITINVAHVEYAT----------------ENRHYSHTDCPGHADYIKNMITGTSQMDGAILVVAATDGA  185 (211)
Q Consensus       122 ~~~~~~~e~~rg~tv~~~~~~~~~----------------~~~~~~~iDtPG~~~~~~~~~~~~~~~d~~~~vvd~~~~~  185 (211)
                      .+|..+.|+.||+|++.+..++.+                +.+.++++|||||.+|..++.+|++.+|+|++||||.+|+
T Consensus        54 ~~D~~~~E~eRgiTi~~~~~~l~~~~~~~~~~~~~~~~~~~~~~inliDtPGh~dF~~ev~~al~~~D~allVVda~eGv  133 (341)
T d1n0ua2          54 FTDTRKDEQERGITIKSTAISLYSEMSDEDVKEIKQKTDGNSFLINLIDSPGHVDFSSEVTAALRVTDGALVVVDTIEGV  133 (341)
T ss_dssp             -----------CCCBCCCEEEEEEECCHHHHHHCSSCCCSSEEEEEEECCCCCCSSCHHHHHHHHTCSEEEEEEETTTBS
T ss_pred             ccccchhHHhcCceEeCCEEEEEeccCcccccchhccccccceEEEEEcCCCcHHHHHHHHHHHhhcCceEEEEecccCc
Confidence            478999999999999998877744                3467999999999999999999999999999999999999


Q ss_pred             CcchHHHHHHHHHcCCCeEEEEEeCC
Q psy9646         186 MPQTREHLLLAKQIGVTNIVVFINKF  211 (211)
Q Consensus       186 ~~~~~~~~~~~~~~~~~~~i~~inK~  211 (211)
                      ..||+++++++...++| +|+++|||
T Consensus       134 ~~qT~~~~~~a~~~~~p-~i~viNKi  158 (341)
T d1n0ua2         134 CVQTETVLRQALGERIK-PVVVINKV  158 (341)
T ss_dssp             CHHHHHHHHHHHHTTCE-EEEEEECH
T ss_pred             chhHHHHHHHHHHcCCC-eEEEEECc
Confidence            99999999999999999 67899996

>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=99.73  E-value=1.6e-18  Score=135.34  Aligned_cols=95  Identities=41%  Similarity=0.648  Sum_probs=57.9

Q ss_pred             cccccccccchhhcccceEEeEeEEEeeeCCceeEeecCCcccccHhHHhhhccccceEEEEEeccCCC-------Ccch
Q psy9646         117 VKQYADIDNAPEEKARGITINVAHVEYATENRHYSHTDCPGHADYIKNMITGTSQMDGAILVVAATDGA-------MPQT  189 (211)
Q Consensus       117 f~~~i~~~~~~~e~~rg~tv~~~~~~~~~~~~~~~~iDtPG~~~~~~~~~~~~~~~d~~~~vvd~~~~~-------~~~~  189 (211)
                      +...+.++..+.|..|+.+++.....+.+.+++++|+|||||.+|..++.+|+..+|++++||||.+|+       .+|+
T Consensus        71 ~~~~~~~d~~~~e~~rg~ti~~~~~~~~~~~~~i~~iDtPGH~df~~~~~~g~~~aD~ailVVda~~G~~~~~~~~~~QT  150 (245)
T d1r5ba3          71 WYLSWALDSTSEEREKGKTVEVGRAYFETEHRRFSLLDAPGHKGYVTNMINGASQADIGVLVISARRGEFEAGFERGGQT  150 (245)
T ss_dssp             -----------------------CCEEECSSEEEEECCCCC-----------TTSCSEEEEEEECSTTHHHHTTSTTCCH
T ss_pred             chhhhhhhccccccccCccccccccccccccceeeeecccccccchhhhhhhhhhhcceeeEEEcCCCccCCccccccch
Confidence            444456788999999999999999999999999999999999999999999999999999999999986       4599


Q ss_pred             HHHHHHHHHcCCCeEEEEEeCC
Q psy9646         190 REHLLLAKQIGVTNIVVFINKF  211 (211)
Q Consensus       190 ~~~~~~~~~~~~~~~i~~inK~  211 (211)
                      ++|+.++..+++|++|+++|||
T Consensus       151 ~e~l~l~~~~~i~~iiv~iNKm  172 (245)
T d1r5ba3         151 REHAVLARTQGINHLVVVINKM  172 (245)
T ss_dssp             HHHHHHHHHTTCSSEEEEEECT
T ss_pred             HHHHHHHHHcCCCeEEEEEEcC
Confidence            9999999999999999999997

>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=99.62  E-value=1.1e-16  Score=123.56  Aligned_cols=68  Identities=29%  Similarity=0.346  Sum_probs=64.4

Q ss_pred             eeeCCceeEeecCCcccccHhHHhhhccccceEEEEEeccCCCCcchHHHHHHHHHcCCCeEEEEEeCC
Q psy9646         143 YATENRHYSHTDCPGHADYIKNMITGTSQMDGAILVVAATDGAMPQTREHLLLAKQIGVTNIVVFINKF  211 (211)
Q Consensus       143 ~~~~~~~~~~iDtPG~~~~~~~~~~~~~~~d~~~~vvd~~~~~~~~~~~~~~~~~~~~~~~~i~~inK~  211 (211)
                      +.+++.+++|+|||||.+|..++..++..+|++++|+||.+|+..++++++..+...++| +|+|+||+
T Consensus        65 ~~~~~~~~~~iDtPGh~~f~~~~~~~~~~~D~~ilVvda~~g~~~~~~~~~~~~~~~~~p-~iivlNK~  132 (227)
T d1g7sa4          65 IRETLPGLFFIDTPGHEAFTTLRKRGGALADLAILIVDINEGFKPQTQEALNILRMYRTP-FVVAANKI  132 (227)
T ss_dssp             GGGTCCEEEEECCCTTSCCTTSBCSSSBSCSEEEEEEETTTCCCHHHHHHHHHHHHTTCC-EEEEEECG
T ss_pred             ecccccccccccccceecccccchhcccccceEEEEEecccCcccchhHHHHHhhcCCCe-EEEEEECc
Confidence            456778999999999999999999999999999999999999999999999999999999 88999996

>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=99.58  E-value=1.2e-15  Score=114.89  Aligned_cols=64  Identities=48%  Similarity=0.756  Sum_probs=59.7

Q ss_pred             ceeEeecCCcccccHhHHhhhccccceEEEEEeccCCC-CcchHHHHHHHHHcCCCeEEEEEeCC
Q psy9646         148 RHYSHTDCPGHADYIKNMITGTSQMDGAILVVAATDGA-MPQTREHLLLAKQIGVTNIVVFINKF  211 (211)
Q Consensus       148 ~~~~~iDtPG~~~~~~~~~~~~~~~d~~~~vvd~~~~~-~~~~~~~~~~~~~~~~~~~i~~inK~  211 (211)
                      .+++|+|||||++|..++.+|++.+|++++|||+.+|. ..++++++..++.+++|++|+++||+
T Consensus        78 ~~~~~iDtPGh~~f~~~~~~~~~~~d~~ilvvda~~g~~~~~t~e~~~~~~~~~~~~iiv~inK~  142 (195)
T d1kk1a3          78 RRVSFIDAPGHEALMTTMLAGASLMDGAILVIAANEPCPRPQTREHLMALQIIGQKNIIIAQNKI  142 (195)
T ss_dssp             EEEEEEECSSHHHHHHHHHHCGGGCSEEEEEEETTSCSSCHHHHHHHHHHHHHTCCCEEEEEECG
T ss_pred             eeEeeeccchhhhhhHHhhcccccccccccccchhhhhhhhhhHHHHHHHHHhcCccceeeeecc
Confidence            56999999999999999999999999999999999997 56789999999999999888999996

>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=99.57  E-value=2e-15  Score=114.47  Aligned_cols=64  Identities=47%  Similarity=0.730  Sum_probs=60.3

Q ss_pred             ceeEeecCCcccccHhHHhhhccccceEEEEEeccCCC-CcchHHHHHHHHHcCCCeEEEEEeCC
Q psy9646         148 RHYSHTDCPGHADYIKNMITGTSQMDGAILVVAATDGA-MPQTREHLLLAKQIGVTNIVVFINKF  211 (211)
Q Consensus       148 ~~~~~iDtPG~~~~~~~~~~~~~~~d~~~~vvd~~~~~-~~~~~~~~~~~~~~~~~~~i~~inK~  211 (211)
                      ++++++|||||.+|.+++.+|+..+|++++||||.+|+ ..|+++++.++..+|++++|+++||+
T Consensus        86 r~~~iiD~PGH~df~~~~~~~~~~ad~ailvVda~~gi~~~~t~e~~~~~~~~~i~~iIV~vNK~  150 (205)
T d2qn6a3          86 RRISFIDAPGHEVLMATMLSGAALMDGAILVVAANEPFPQPQTREHFVALGIIGVKNLIIVQNKV  150 (205)
T ss_dssp             EEEEEEECSCHHHHHHHHHHTSSCCSEEEEEEETTSCSSCHHHHHHHHHHHHTTCCCEEEEEECG
T ss_pred             EEEEEeccchHHHHHhhhhcceeccccccccccccccccchhHHHHHHHHHHcCCceeeeccccC
Confidence            46899999999999999999999999999999999997 78899999999999998798999996

>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=99.46  E-value=6.2e-14  Score=103.81  Aligned_cols=88  Identities=36%  Similarity=0.631  Sum_probs=69.4

Q ss_pred             cccchhhcccceEEeEeEEEeeeCCceeEeecCCcccccHhHHhhhccccceEEEEEeccCCCCcchHHHHHHHHHcCCC
Q psy9646         123 IDNAPEEKARGITINVAHVEYATENRHYSHTDCPGHADYIKNMITGTSQMDGAILVVAATDGAMPQTREHLLLAKQIGVT  202 (211)
Q Consensus       123 ~~~~~~e~~rg~tv~~~~~~~~~~~~~~~~iDtPG~~~~~~~~~~~~~~~d~~~~vvd~~~~~~~~~~~~~~~~~~~~~~  202 (211)
                      .+..+.+..++++.......+...+..+.++|||||.+|.+++..++..+|++++++|+.+|+.+|+++++..+...++|
T Consensus        34 ~~~~~~~~~~g~~~~~~~~~~~~~~~~~~~~d~~g~~~~~~~~~~~l~~~d~~ilv~d~~~g~~~~~~~~~~~~~~~~~p  113 (179)
T d1wb1a4          34 HDKLPESQKRGITIDIGFSAFKLENYRITLVDAPGHADLIRAVVSAADIIDLALIVVDAKEGPKTQTGEHMLILDHFNIP  113 (179)
T ss_dssp             ----------------CCCEEEETTEEEEECCCSSHHHHHHHHHHHTTSCCEEEEEEETTTCSCHHHHHHHHHHHHTTCC
T ss_pred             cccccceeeeeeeccccccccccCCccccccccccccccccchhhhhhhccccccccccccccchhhhhhhhhhhhcCCc
Confidence            45667788899999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             eEEEEEeCC
Q psy9646         203 NIVVFINKF  211 (211)
Q Consensus       203 ~~i~~inK~  211 (211)
                       +++|+||+
T Consensus       114 -~iiv~NKi  121 (179)
T d1wb1a4         114 -IIVVITKS  121 (179)
T ss_dssp             -BCEEEECT
T ss_pred             -ceeccccc
Confidence             67899997

>d1g7sa2 b.43.3.1 (A:460-587) Initiation factor IF2/eIF5b, domains 2 and 4 {Archaeon Methanobacterium thermoautotrophicum [TaxId: 145262]}

class: All beta proteins
fold: Reductase/isomerase/elongation factor common domain
superfamily: Translation proteins
family: Elongation factors
domain: Initiation factor IF2/eIF5b, domains 2 and 4
species: Archaeon Methanobacterium thermoautotrophicum [TaxId: 145262]

Probab=99.41  E-value=7.2e-13  Score=92.30  Aligned_cols=83  Identities=12%  Similarity=0.112  Sum_probs=70.1

Q ss_pred             eeEEEeeEEeecCCcEEEEEEEEEEEEecCCEEEEeecCceeeEEEEEEEecceecceecccCceehhccCCCc-ccccc
Q psy9646          22 FYLPVEHTYSIPGRGTVVTGRLERGIVKKGMECEFTGYGRQFKTTVTGIEMFHKILDEAQAGDQLGALVKGMKR-DEVNR  100 (211)
Q Consensus        22 ~~~~v~~~~~~~~~G~v~~G~v~~G~i~~g~~v~i~p~~~~~~~~v~~i~~~~~~~~~a~~G~~v~~~l~~~~~-~~v~~  100 (211)
                      |++.-+++|+..+ ..+++|+|++|.+++|+++.+.|++.  .++|+||+.+++++++|.+|++|+++|.+... .++.+
T Consensus         7 ~~il~~~vFr~~~-p~ivgv~V~sG~ik~G~~l~~~p~~~--~g~VksIq~~~~~v~~A~~G~~Vai~I~g~~~gr~i~~   83 (128)
T d1g7sa2           7 IRLIPKLVFRQSK-PAIGGVEVLTGVIRQGYPLMNDDGET--VGTVESMQDKGENLKSASRGQKVAMAIKDAVYGKTIHE   83 (128)
T ss_dssp             EEEEEEEEEECSS-SEEEEEEEEEEEEETTCEEECTTSCE--EEEEEEEEETTEEESEEETTCCEEEEEETCCBTTTBCT
T ss_pred             EEEcCCcEecCCC-CeEEEEEEeeeeecCCCEEEECCCCc--eEEEEEEEECCccccEEcCCCEEEEEEcCcccCCCCCC
Confidence            4455588887543 34667799999999999999999864  89999999999999999999999999998664 36999


Q ss_pred             ccccccc
Q psy9646         101 GLIMAKP  107 (211)
Q Consensus       101 G~ii~~~  107 (211)
                      |+++++.
T Consensus        84 gD~L~s~   90 (128)
T d1g7sa2          84 GDTLYVD   90 (128)
T ss_dssp             TCEEEEC
T ss_pred             CCEEEEe
Confidence            9999854

>d2bv3a1 b.43.3.1 (A:283-403) Elongation factor G (EF-G), domain II {Thermus thermophilus [TaxId: 274]}

class: All beta proteins
fold: Reductase/isomerase/elongation factor common domain
superfamily: Translation proteins
family: Elongation factors
domain: Elongation factor G (EF-G), domain II
species: Thermus thermophilus [TaxId: 274]

Probab=99.27  E-value=9.8e-12  Score=85.78  Aligned_cols=87  Identities=21%  Similarity=0.158  Sum_probs=73.9

Q ss_pred             CCCCCeeEEEeeEEeecCCcEEEEEEEEEEEEecCCEEEEeecCceeeEEEEEEEecc----eecceecccCceehhccC
Q psy9646          17 DLDKPFYLPVEHTYSIPGRGTVVTGRLERGIVKKGMECEFTGYGRQFKTTVTGIEMFH----KILDEAQAGDQLGALVKG   92 (211)
Q Consensus        17 ~~~~p~~~~v~~~~~~~~~G~v~~G~v~~G~i~~g~~v~i~p~~~~~~~~v~~i~~~~----~~~~~a~~G~~v~~~l~~   92 (211)
                      +.++||++.|..+.+.++.|++..+||.+|+++.||++...-.+  .+.+|.++...+    .++++|.|||++++.   
T Consensus        22 d~~~p~~a~Vfk~~~d~~~G~i~~~RV~sG~l~~g~~v~~~~~~--~~~rv~~l~~~~g~~~~~v~~~~aGdI~~i~---   96 (121)
T d2bv3a1          22 DPNGPLAALAFKIMADPYVGRLTFIRVYSGTLTSGSYVYNTTKG--RKERVARLLRMHANHREEVEELKAGDLGAVV---   96 (121)
T ss_dssp             CTTSCCEEEEEEEEEETTTEEEEEEEEEESEEETTEEEEETTTT--EEEEECEEEEECSSCEEEESEEETTCEEEEE---
T ss_pred             CCCCCEEEEEEeeeecCCCCeEEeeeecccccCCCCEEEEccCC--CEEEEeeeeeeecccccEeeEeccccceEEe---
Confidence            45789999999999999999999999999999999999876655  367788886654    589999999999872   


Q ss_pred             CCcccccccccccccch
Q psy9646          93 MKRDEVNRGLIMAKPVL  109 (211)
Q Consensus        93 ~~~~~v~~G~ii~~~~~  109 (211)
                       +..++..|+++|....
T Consensus        97 -gl~~~~~GDTl~~~~~  112 (121)
T d2bv3a1          97 -GLKETITGDTLVGEDA  112 (121)
T ss_dssp             -SCSSCCTTCEEEETTS
T ss_pred             -ccCCceeCCEEecCCC
Confidence             4557899999997654

>d2dy1a1 b.43.3.1 (A:275-377) Elongation factor G (EF-G), domain II {Thermus thermophilus, EF-G-2 [TaxId: 274]}

class: All beta proteins
fold: Reductase/isomerase/elongation factor common domain
superfamily: Translation proteins
family: Elongation factors
domain: Elongation factor G (EF-G), domain II
species: Thermus thermophilus, EF-G-2 [TaxId: 274]

Probab=99.25  E-value=1.4e-12  Score=87.67  Aligned_cols=89  Identities=25%  Similarity=0.203  Sum_probs=71.0

Q ss_pred             CCCCCCCCeeEEEeeEEeecCCcEEEEEEEEEEEEecCCEEEEeecCceeeEEEEEEEecc----eecceecccCceehh
Q psy9646          14 PVRDLDKPFYLPVEHTYSIPGRGTVVTGRLERGIVKKGMECEFTGYGRQFKTTVTGIEMFH----KILDEAQAGDQLGAL   89 (211)
Q Consensus        14 p~~~~~~p~~~~v~~~~~~~~~G~v~~G~v~~G~i~~g~~v~i~p~~~~~~~~v~~i~~~~----~~~~~a~~G~~v~~~   89 (211)
                      |+++.|+||.+.|..+.+.++.|++..+||.+|+++.||+|.....    ..++..+...+    .+++++.+||++++ 
T Consensus         2 ~~~~~d~p~~a~Vfk~~~d~~~G~i~~~RV~sG~l~~g~~v~~~~~----~~~~~~~~~~~~~~~~~v~~~~aGdI~~v-   76 (103)
T d2dy1a1           2 TERFGDGPPLAKVFKVQVDPFMGQVAYLRLYRGRLKPGDSLQSEAG----QVRLPHLYVPMGKDLLEVEEAEAGFVLGV-   76 (103)
T ss_dssp             HHHHCSCSCEEEEEEEEEETTTEEEEEEEEEESEECTTEEEBCTTS----CEEESSEEEEETTEEEEESCEETTCEEEE-
T ss_pred             CCCCCCCCcEEEEEEEEecCCCCEEEEEEEeccccCCCCEEEEeec----ccccceeeeeecCcceecCEecCCCEEEE-
Confidence            4567899999999999999999999999999999999999875422    23344443332    58999999999986 


Q ss_pred             ccCCCcccccccccccccchh
Q psy9646          90 VKGMKRDEVNRGLIMAKPVLA  110 (211)
Q Consensus        90 l~~~~~~~v~~G~ii~~~~~~  110 (211)
                       .  +..+++.|++++....+
T Consensus        77 -~--g~~~~~iGDTl~~~~~p   94 (103)
T d2dy1a1          77 -P--KAEGLHRGMVLWQGEKP   94 (103)
T ss_dssp             -S--SCTTCCTTCEEESSSCC
T ss_pred             -e--CCCCCccCCEEcCCCCc
Confidence             3  45579999999986554

>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=99.01  E-value=3.4e-10  Score=82.87  Aligned_cols=80  Identities=16%  Similarity=0.168  Sum_probs=63.3

Q ss_pred             ccceEEeEeEEEeeeCCceeEeecCCcccc--------cHhHHhhhccccceEEEEEeccCCCCcchHHHHHHHHHc--C
Q psy9646         131 ARGITINVAHVEYATENRHYSHTDCPGHAD--------YIKNMITGTSQMDGAILVVAATDGAMPQTREHLLLAKQI--G  200 (211)
Q Consensus       131 ~rg~tv~~~~~~~~~~~~~~~~iDtPG~~~--------~~~~~~~~~~~~d~~~~vvd~~~~~~~~~~~~~~~~~~~--~  200 (211)
                      ..+.+...........+.++.++||||+..        +...+..++..+|++++|+|+.++...+++.+.+.++..  +
T Consensus        36 ~~~tt~~~~~~~~~~~~~~~~~~DtpG~~~~~~~~~~~~~~~~~~~~~~ad~il~v~D~~~~~~~~~~~i~~~l~~~~~~  115 (178)
T d1wf3a1          36 RPQTTRKRLRGILTEGRRQIVFVDTPGLHKPMDALGEFMDQEVYEALADVNAVVWVVDLRHPPTPEDELVARALKPLVGK  115 (178)
T ss_dssp             SSCCCCSCEEEEEEETTEEEEEEECCCCCCCCSHHHHHHHHHHHHHTSSCSEEEEEEETTSCCCHHHHHHHHHHGGGTTT
T ss_pred             cCCcccccccceeeeeeeeeeecccccccccccccchhcccccccccccccceeeeechhhhhcccccchhhheeccccc
Confidence            344555656666777889999999999743        456677889999999999999999888888887877654  4


Q ss_pred             CCeEEEEEeCC
Q psy9646         201 VTNIVVFINKF  211 (211)
Q Consensus       201 ~~~~i~~inK~  211 (211)
                      .| +|+|+||+
T Consensus       116 ~p-iilv~NK~  125 (178)
T d1wf3a1         116 VP-ILLVGNKL  125 (178)
T ss_dssp             SC-EEEEEECG
T ss_pred             hh-hhhhhccc
Confidence            56 88999996

>d1n0ua1 b.43.3.1 (A:344-481) Elongation factor 2 (eEF-2), domain II {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: All beta proteins
fold: Reductase/isomerase/elongation factor common domain
superfamily: Translation proteins
family: Elongation factors
domain: Elongation factor 2 (eEF-2), domain II
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=98.95  E-value=1.8e-09  Score=75.88  Aligned_cols=90  Identities=19%  Similarity=0.318  Sum_probs=70.7

Q ss_pred             CCCCCeeEEEeeEEeecCCcEE-EEEEEEEEEEecCCEEEEeecC-------ceeeEEEEEEEecc----eecceecccC
Q psy9646          17 DLDKPFYLPVEHTYSIPGRGTV-VTGRLERGIVKKGMECEFTGYG-------RQFKTTVTGIEMFH----KILDEAQAGD   84 (211)
Q Consensus        17 ~~~~p~~~~v~~~~~~~~~G~v-~~G~v~~G~i~~g~~v~i~p~~-------~~~~~~v~~i~~~~----~~~~~a~~G~   84 (211)
                      +.++||.|.|....+.++.|+. ..|||-+|+++.||+|.+...+       .....+|..|..+.    .++++|.|||
T Consensus        30 d~~~Pl~~~v~k~~~~~~~g~~~~~gRV~SGtl~~G~~v~vl~~~~~~~~~~~~~~~~i~~i~~~~g~~~~~v~~a~AGd  109 (138)
T d1n0ua1          30 DPKADLMLYVSKMVPTSDKGRFYAFGRVFAGTVKSGQKVRIQGPNYVPGKKDDLFIKAIQRVVLMMGRFVEPIDDCPAGN  109 (138)
T ss_dssp             CTTSSCEEEEEEEEEBSSTTCEEEEEEEEESEEETTCEEEEECTTCCSSSCTTEEEEECCEEEEEETTEEEEESEEETTC
T ss_pred             CCCCCEEEEEEeeccCCCCCEEEEEEEEEeceEcCCCEEEEecCCcccccccccceeeeeeeEEEecCceeeEeEEecCc
Confidence            5689999999999999999985 6799999999999999885321       12356788887665    6899999999


Q ss_pred             ceehhccCCCcccccccccccccch
Q psy9646          85 QLGALVKGMKRDEVNRGLIMAKPVL  109 (211)
Q Consensus        85 ~v~~~l~~~~~~~v~~G~ii~~~~~  109 (211)
                      +|++  .|++ ..+.+|+++++...
T Consensus       110 Ivai--~Gl~-~~i~k~~Tl~~~~~  131 (138)
T d1n0ua1         110 IIGL--VGID-QFLLKTGTLTTSET  131 (138)
T ss_dssp             EEEE--ESCT-TTCCSSEEEESCTT
T ss_pred             EEEE--eccc-cceeccceecCCCC
Confidence            9997  4443 22567888886543

>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=98.76  E-value=6.8e-09  Score=76.03  Aligned_cols=103  Identities=18%  Similarity=0.160  Sum_probs=70.8

Q ss_pred             chhhhhhhhcccccccccc-hhhcccceEEeEeEEEeeeCCceeEeecCCcccc------------cHhHHhhhccccce
Q psy9646         108 VLADKKLAKVKQYADIDNA-PEEKARGITINVAHVEYATENRHYSHTDCPGHAD------------YIKNMITGTSQMDG  174 (211)
Q Consensus       108 ~~~~~~~~~f~~~i~~~~~-~~e~~rg~tv~~~~~~~~~~~~~~~~iDtPG~~~------------~~~~~~~~~~~~d~  174 (211)
                      +.+..|++++..++.-... ......+.+.......+..++..+.++||||+..            +...+...+..+|+
T Consensus        15 G~~~~GKSTLin~l~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~d~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~dv   94 (186)
T d1mkya2          15 GRPNVGKSTLFNAILNKERALVSPIPGTTRDPVDDEVFIDGRKYVFVDTAGLRRKSRVEPRTVEKYSNYRVVDSIEKADV   94 (186)
T ss_dssp             CSTTSSHHHHHHHHHTSTTEEECCCC------CCEEEEETTEEEEESSCSCC-----------CCSCCHHHHHHHHHCSE
T ss_pred             CCCCCCHHHHHHHHHCCCcceeecccccccccceeeeccCCceeeeeccCCccccccccccccccchhHHHHHHHhcCCE
Confidence            4455566666544421111 1122223344444556777889999999999653            34667888899999


Q ss_pred             EEEEEeccCCCCcchHHHHHHHHHcCCCeEEEEEeCC
Q psy9646         175 AILVVAATDGAMPQTREHLLLAKQIGVTNIVVFINKF  211 (211)
Q Consensus       175 ~~~vvd~~~~~~~~~~~~~~~~~~~~~~~~i~~inK~  211 (211)
                      +++++|+..+...+..+++..+...+.| +|+++||+
T Consensus        95 ii~v~d~~~~~~~~~~~~~~~~~~~~~~-~i~v~nK~  130 (186)
T d1mkya2          95 VVIVLDATQGITRQDQRMAGLMERRGRA-SVVVFNKW  130 (186)
T ss_dssp             EEEEEETTTCCCHHHHHHHHHHHHTTCE-EEEEEECG
T ss_pred             EEEeecccccchhhHHHHHHHHHHcCCc-eeeeccch
Confidence            9999999999999999999999999988 77899995

>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=98.70  E-value=2.1e-08  Score=72.49  Aligned_cols=101  Identities=14%  Similarity=0.103  Sum_probs=68.8

Q ss_pred             hhhhhhhccccccccc-chhhcccceEEeEeEEEeeeCCceeEeecCCcccc---------cHhHHhhhccccceEEEEE
Q psy9646         110 ADKKLAKVKQYADIDN-APEEKARGITINVAHVEYATENRHYSHTDCPGHAD---------YIKNMITGTSQMDGAILVV  179 (211)
Q Consensus       110 ~~~~~~~f~~~i~~~~-~~~e~~rg~tv~~~~~~~~~~~~~~~~iDtPG~~~---------~~~~~~~~~~~~d~~~~vv  179 (211)
                      +..|++++...+.-.. .......+.+.......+.....++.+.||||...         +...+...+..+|++++++
T Consensus         9 ~n~GKSsLi~~L~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~d~~g~~~~~~~~~~~~~~~~~~~~~~~ad~i~~~~   88 (171)
T d1mkya1           9 PNVGKSTLFNKLVKKKKAIVEDEEGVTRDPVQDTVEWYGKTFKLVDTCGVFDNPQDIISQKMKEVTLNMIREADLVLFVV   88 (171)
T ss_dssp             TTSSHHHHHHHHHC--------------CCSEEEEEETTEEEEEEECTTTTSSGGGCCCHHHHHHHHHHHTTCSEEEEEE
T ss_pred             CCCCHHHHHHHHhCCCcceecccCceeeccccccccccccccccccccceeeeeccccccccccccccccccCcEEEEee
Confidence            3445555544432111 12233445566666677788888999999999432         3456677788999999999


Q ss_pred             eccCCCCcchHHHHHHHHHcCCCeEEEEEeCC
Q psy9646         180 AATDGAMPQTREHLLLAKQIGVTNIVVFINKF  211 (211)
Q Consensus       180 d~~~~~~~~~~~~~~~~~~~~~~~~i~~inK~  211 (211)
                      |+.++...++++++..++..++| +|+|+||+
T Consensus        89 ~~~~~~~~~~~~~~~~l~~~~~p-viiv~NK~  119 (171)
T d1mkya1          89 DGKRGITKEDESLADFLRKSTVD-TILVANKA  119 (171)
T ss_dssp             ETTTCCCHHHHHHHHHHHHHTCC-EEEEEESC
T ss_pred             ccccccccccccccccccccccc-ccccchhh
Confidence            99999999999999999999998 77999996

>d2cxxa1 c.37.1.8 (A:2-185) GTP-binding protein engB {Pyrococcus horikoshii [TaxId: 53953]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: GTP-binding protein engB
species: Pyrococcus horikoshii [TaxId: 53953]

Probab=98.67  E-value=1.3e-08  Score=74.27  Aligned_cols=62  Identities=23%  Similarity=0.435  Sum_probs=49.6

Q ss_pred             eeEeecCCccc---------------ccHhHHhhhccccceEEEEEecc-----------CCCCcchHHHHHHHHHcCCC
Q psy9646         149 HYSHTDCPGHA---------------DYIKNMITGTSQMDGAILVVAAT-----------DGAMPQTREHLLLAKQIGVT  202 (211)
Q Consensus       149 ~~~~iDtPG~~---------------~~~~~~~~~~~~~d~~~~vvd~~-----------~~~~~~~~~~~~~~~~~~~~  202 (211)
                      .+.++||||+.               .+...+..+...+|++++|+|+.           .+...++.++++.+...++|
T Consensus        44 ~~~ivDtpG~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~d~~~~vvD~~~~~~~~~~~~~~~~~~~d~~~~~~l~~~~~p  123 (184)
T d2cxxa1          44 NHKIIDMPGFGFMMGLPKEVQERIKDEIVHFIEDNAKNIDVAVLVVDGKAAPEIIKRWEKRGEIPIDVEFYQFLRELDIP  123 (184)
T ss_dssp             TEEEEECCCBSCCTTSCHHHHHHHHHHHHHHHHHHGGGCCEEEEEEETTHHHHHHHHHHHTTCCCHHHHHHHHHHHTTCC
T ss_pred             cceecccCCceeccccccccccccchhhhhhhhhcccccchheeeeeccccchhhhhhhhccccHHHHHHHHHHHHcCCC
Confidence            46789999962               12344566778899999999985           56778888899999999998


Q ss_pred             eEEEEEeCC
Q psy9646         203 NIVVFINKF  211 (211)
Q Consensus       203 ~~i~~inK~  211 (211)
                       +|+|+||+
T Consensus       124 -~iiv~NK~  131 (184)
T d2cxxa1         124 -TIVAVNKL  131 (184)
T ss_dssp             -EEEEEECG
T ss_pred             -EEEEEeee
Confidence             88999996

>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=98.44  E-value=2.3e-07  Score=68.27  Aligned_cols=64  Identities=19%  Similarity=0.320  Sum_probs=53.0

Q ss_pred             CceeEeecCCcc-------------cccHhHHhhhccccceEEEEEeccCCCCcchHHHHHHHHHcCCCeEEEEEeCC
Q psy9646         147 NRHYSHTDCPGH-------------ADYIKNMITGTSQMDGAILVVAATDGAMPQTREHLLLAKQIGVTNIVVFINKF  211 (211)
Q Consensus       147 ~~~~~~iDtPG~-------------~~~~~~~~~~~~~~d~~~~vvd~~~~~~~~~~~~~~~~~~~~~~~~i~~inK~  211 (211)
                      ...+.++|+||.             ..+......+...+|++++++|+.+++..++.++++.++..++| +++|+||+
T Consensus        68 ~~~~~~~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~vi~viD~~~~~~~~~~~~~~~l~~~~~p-iivv~NK~  144 (195)
T d1svia_          68 NDELHFVDVPGYGFAKVSKSEREAWGRMIETYITTREELKAVVQIVDLRHAPSNDDVQMYEFLKYYGIP-VIVIATKA  144 (195)
T ss_dssp             TTTEEEEECCCBCCCSSCHHHHHHHHHHHHHHHHHCTTEEEEEEEEETTSCCCHHHHHHHHHHHHTTCC-EEEEEECG
T ss_pred             cccceEEEEEeeccccccccccchhhhHHhhhhccccchhhhhhhhhccccccccccccccccccccCc-ceechhhc
Confidence            345667778773             23456677888889999999999999999999999999999998 88999995

>d1xzpa2 c.37.1.8 (A:212-371) TrmE GTPase domain {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: TrmE GTPase domain
species: Thermotoga maritima [TaxId: 2336]

Probab=98.28  E-value=8.1e-07  Score=62.87  Aligned_cols=99  Identities=17%  Similarity=0.122  Sum_probs=65.6

Q ss_pred             hhhhhhhcccccccc-cchhhcccceEEeEeEEEeeeCCceeEeecCCcccc---------cHhHHhhhccccceEEEEE
Q psy9646         110 ADKKLAKVKQYADID-NAPEEKARGITINVAHVEYATENRHYSHTDCPGHAD---------YIKNMITGTSQMDGAILVV  179 (211)
Q Consensus       110 ~~~~~~~f~~~i~~~-~~~~e~~rg~tv~~~~~~~~~~~~~~~~iDtPG~~~---------~~~~~~~~~~~~d~~~~vv  179 (211)
                      +..|++++..++.-. ........+.+.......+...+.++.+.||||+..         .....+.++..+|++++|+
T Consensus         9 ~n~GKSSLin~l~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Dt~G~~~~~~~~~~~~~~~~~~~~~~~ad~ii~v~   88 (160)
T d1xzpa2           9 PNVGKSTLLNRLLNEDRAIVTDIPGTTRDVISEEIVIRGILFRIVDTAGVRSETNDLVERLGIERTLQEIEKADIVLFVL   88 (160)
T ss_dssp             HHHHTCHHHHHHHHHTBCCCCCSSCCSSCSCCEEEEETTEEEEEEESSCCCSSCCTTCCCCCHHHHHHHHHHCSEEEEEE
T ss_pred             CCCCHHHHHHHHhCCCceeeeccccccccceeEEEEeCCeeEEeccccccccCCccHHHHHHHHHHHHHHHhCCEEEEEE
Confidence            455666655443211 111222334444455566777889999999999532         2466777889999999999


Q ss_pred             eccCCCCcchHHHHHHHHHcCCCeEEEEEeCC
Q psy9646         180 AATDGAMPQTREHLLLAKQIGVTNIVVFINKF  211 (211)
Q Consensus       180 d~~~~~~~~~~~~~~~~~~~~~~~~i~~inK~  211 (211)
                      |+.++...+...+...+  ...+ +++++||+
T Consensus        89 d~~~~~~~~~~~~~~~~--~~~~-~i~~~~k~  117 (160)
T d1xzpa2          89 DASSPLDEEDRKILERI--KNKR-YLVVINKV  117 (160)
T ss_dssp             ETTSCCCHHHHHHHHHH--TTSS-EEEEEEEC
T ss_pred             eCCCCcchhhhhhhhhc--cccc-ceeeeeec
Confidence            99999887777665544  3444 77899985

>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=98.28  E-value=9e-07  Score=62.71  Aligned_cols=78  Identities=19%  Similarity=0.170  Sum_probs=55.5

Q ss_pred             ceEEeEeEEEeeeCCceeEeecCCcccc--------cHhHHhhhccccceEEEEEeccCCCCcchHHHHH-HHHH--cCC
Q psy9646         133 GITINVAHVEYATENRHYSHTDCPGHAD--------YIKNMITGTSQMDGAILVVAATDGAMPQTREHLL-LAKQ--IGV  201 (211)
Q Consensus       133 g~tv~~~~~~~~~~~~~~~~iDtPG~~~--------~~~~~~~~~~~~d~~~~vvd~~~~~~~~~~~~~~-~~~~--~~~  201 (211)
                      +.+.......+...+.++.++||||..+        .+..+..+...+|++++++|+..........++. ..+.  .+.
T Consensus        34 ~~~~~~~~~~~~~~~~~~~~~d~~g~~~~~~~~~~~~~~~~~~~~~~~d~~i~~~d~~~~~~~~~~~~~~~~~~~~~~~~  113 (161)
T d2gj8a1          34 GTTRDVLREHIHIDGMPLHIIDTAGLREASDEVERIGIERAWQEIEQADRVLFMVDGTTTDAVDPAEIWPEFIARLPAKL  113 (161)
T ss_dssp             TCCCSCEEEEEEETTEEEEEEECCCCSCCSSHHHHHHHHHHHHHHHTCSEEEEEEETTTCCCCSHHHHCHHHHHHSCTTC
T ss_pred             ccccceEeeeeeccCceeeeccccccccccccchhHHHHHHHHHHHhccccceeeccccccchhhhhhhhhhhhhccccc
Confidence            4444445566777888999999999654        2355667788999999999998776655555433 3333  256


Q ss_pred             CeEEEEEeCC
Q psy9646         202 TNIVVFINKF  211 (211)
Q Consensus       202 ~~~i~~inK~  211 (211)
                      | +|+|+||+
T Consensus       114 ~-iilv~NK~  122 (161)
T d2gj8a1         114 P-ITVVRNKA  122 (161)
T ss_dssp             C-EEEEEECH
T ss_pred             c-eeeccchh
Confidence            7 88999995

>d1nrjb_ c.37.1.8 (B:) Signal recognition particle receptor beta-subunit {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Signal recognition particle receptor beta-subunit
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=98.19  E-value=8.4e-07  Score=65.51  Aligned_cols=97  Identities=15%  Similarity=0.132  Sum_probs=63.5

Q ss_pred             hhhhhhhcccccccccchhhcccceEEeEeEEEeeeCCceeEeecCCccccc----HhHHhhhccccceEEEEEeccCCC
Q psy9646         110 ADKKLAKVKQYADIDNAPEEKARGITINVAHVEYATENRHYSHTDCPGHADY----IKNMITGTSQMDGAILVVAATDGA  185 (211)
Q Consensus       110 ~~~~~~~f~~~i~~~~~~~e~~rg~tv~~~~~~~~~~~~~~~~iDtPG~~~~----~~~~~~~~~~~d~~~~vvd~~~~~  185 (211)
                      +..|++++..++.-.    +...+++.......+...+..+.+.|||||+.+    ......+...+|.+++++|+....
T Consensus        12 ~n~GKTSLln~l~~~----~~~~~tt~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~~~~~~~~i~~vd~~~~~   87 (209)
T d1nrjb_          12 QNSGKTSLLTLLTTD----SVRPTVVSQEPLSAADYDGSGVTLVDFPGHVKLRYKLSDYLKTRAKFVKGLIFMVDSTVDP   87 (209)
T ss_dssp             TTSSHHHHHHHHHHS----SCCCBCCCSSCEEETTGGGSSCEEEECCCCGGGTHHHHHHHHHHGGGEEEEEEEEETTSCT
T ss_pred             CCCCHHHHHHHHhCC----CCCCeEEecceEEEEEeCCeEEEEEecccccchhhHHHHHHHHHhhhccccceEEEEeccc
Confidence            445566655444321    122345555556667778889999999999864    456667778889999999987655


Q ss_pred             Ccc--h-------HHHHHHHHHcCCCeEEEEEeCC
Q psy9646         186 MPQ--T-------REHLLLAKQIGVTNIVVFINKF  211 (211)
Q Consensus       186 ~~~--~-------~~~~~~~~~~~~~~~i~~inK~  211 (211)
                      ...  .       ...++.+...++| +++++||+
T Consensus        88 ~~~~~~~~~l~~~~~~~~~~~~~~~p-iiiv~NK~  121 (209)
T d1nrjb_          88 KKLTTTAEFLVDILSITESSCENGID-ILIACNKS  121 (209)
T ss_dssp             TCCHHHHHHHHHHHHHHHHHSTTCCC-EEEEEECT
T ss_pred             ccHHHHHHHHHHHHHHHHHHHhccCC-eEEEEEee
Confidence            432  2       2223344446778 88899996

>d3raba_ c.37.1.8 (A:) Rab3a {Rat (Rattus norvegicus) [TaxId: 10116]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab3a
species: Rat (Rattus norvegicus) [TaxId: 10116]

Probab=98.05  E-value=3.9e-06  Score=60.02  Aligned_cols=102  Identities=14%  Similarity=0.042  Sum_probs=58.6

Q ss_pred             hhhhhhhcccccccccchhhccc--ceEEeEeEEEeeeCCceeEeecCCcccccHhHHhhhccccceEEEEEeccCCCCc
Q psy9646         110 ADKKLAKVKQYADIDNAPEEKAR--GITINVAHVEYATENRHYSHTDCPGHADYIKNMITGTSQMDGAILVVAATDGAMP  187 (211)
Q Consensus       110 ~~~~~~~f~~~i~~~~~~~e~~r--g~tv~~~~~~~~~~~~~~~~iDtPG~~~~~~~~~~~~~~~d~~~~vvd~~~~~~~  187 (211)
                      +..|++++..++.......+...  +.+..............+.+.||||+++|.......++.+|++++|.|......-
T Consensus        14 ~~vGKTsLi~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~wDt~G~e~~~~~~~~~~~~ad~~ilv~d~~~~~s~   93 (169)
T d3raba_          14 SSVGKTSFLFRYADDSFTPAFVSTVGIDFKVKTIYRNDKRIKLQIWDTAGQERYRTITTAYYRGAMGFILMYDITNEESF   93 (169)
T ss_dssp             TTSSHHHHHHHHHHSCCCSSCCCCCSEEEEEEEEEETTEEEEEEEEEECCSGGGHHHHHTTTTTCCEEEEEEETTCHHHH
T ss_pred             CCcCHHHHHHHHHcCCCCcccccccccceeeEEEEeecceEEEEEEECCCchhhHHHHHHHHhcCCEEEEEEECccchhh
Confidence            34455555544432322222222  2333333333333345688999999999987777789999999999998764322


Q ss_pred             -chHHHHHHHHH--cCCCeEEEEEeCC
Q psy9646         188 -QTREHLLLAKQ--IGVTNIVVFINKF  211 (211)
Q Consensus       188 -~~~~~~~~~~~--~~~~~~i~~inK~  211 (211)
                       ....++.....  ...++++++.||.
T Consensus        94 ~~~~~~~~~~~~~~~~~~~iivv~nK~  120 (169)
T d3raba_          94 NAVQDWSTQIKTYSWDNAQVLLVGNKC  120 (169)
T ss_dssp             HTHHHHHHHHHHHCCSCCEEEEEEECT
T ss_pred             hhhhhhhhhhhcccCCcceEEEEEeec
Confidence             22223333332  2233377788995

>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=98.03  E-value=4.9e-06  Score=60.02  Aligned_cols=66  Identities=15%  Similarity=0.189  Sum_probs=45.2

Q ss_pred             eCCceeEeecCCccc-------ccHhHHhhhccccceEEEEEeccCCCCcchHHHHHHH-----HHcCCCeEEEEEeCC
Q psy9646         145 TENRHYSHTDCPGHA-------DYIKNMITGTSQMDGAILVVAATDGAMPQTREHLLLA-----KQIGVTNIVVFINKF  211 (211)
Q Consensus       145 ~~~~~~~~iDtPG~~-------~~~~~~~~~~~~~d~~~~vvd~~~~~~~~~~~~~~~~-----~~~~~~~~i~~inK~  211 (211)
                      ..+.++.++||||+.       .+...+...+..+|++++++|+..............+     ...+.| +|+|+||+
T Consensus        46 ~~~~~~~~~DtpG~~~~~~~~~~~~~~~l~~~~~~~~~~~~~d~~~~~~~~~~~~~~~~~~~~~~~~~~p-~iiv~NK~  123 (180)
T d1udxa2          46 SEEERFTLADIPGIIEGASEGKGLGLEFLRHIARTRVLLYVLDAADEPLKTLETLRKEVGAYDPALLRRP-SLVALNKV  123 (180)
T ss_dssp             SSSCEEEEEECCCCCCCGGGSCCSCHHHHHHHTSSSEEEEEEETTSCHHHHHHHHHHHHHHHCHHHHHSC-EEEEEECC
T ss_pred             cCCCeEEEcCCCeeecCchHHHHHHHHHHHHHHhhhhhhhhcccccccccchhhhhhhhhccccccchhh-hhhhhhhh
Confidence            356789999999943       3456678888999999999998665433322222222     223567 88999996

>d1d1na_ b.43.3.1 (A:) Initiation factor IF2/eIF5b, domains 2 and 4 {Bacillus stearothermophilus [TaxId: 1422]}

class: All beta proteins
fold: Reductase/isomerase/elongation factor common domain
superfamily: Translation proteins
family: Elongation factors
domain: Initiation factor IF2/eIF5b, domains 2 and 4
species: Bacillus stearothermophilus [TaxId: 1422]

Probab=98.03  E-value=1.3e-06  Score=56.88  Aligned_cols=81  Identities=14%  Similarity=0.341  Sum_probs=70.8

Q ss_pred             eEEEeeEEeecCCcEEEEEEEEEEEEecCCEEEEeecCc-eeeEEEEEEEecceecceecccCceehhccCCCccccccc
Q psy9646          23 YLPVEHTYSIPGRGTVVTGRLERGIVKKGMECEFTGYGR-QFKTTVTGIEMFHKILDEAQAGDQLGALVKGMKRDEVNRG  101 (211)
Q Consensus        23 ~~~v~~~~~~~~~G~v~~G~v~~G~i~~g~~v~i~p~~~-~~~~~v~~i~~~~~~~~~a~~G~~v~~~l~~~~~~~v~~G  101 (211)
                      ..-|..+|+....|.+..++|.+|.++.+..+.++-.++ -...+|.|+....+++.++..|.-+++.+.+.  .++..|
T Consensus         8 ~A~V~~vF~~~k~~~iAGc~V~~G~i~~~~~vrv~R~~~~I~~G~i~sLk~~K~~V~eV~~G~ECGi~l~~~--~d~~~G   85 (99)
T d1d1na_           8 QAEVRQTFKVSKVGTIAGCYVTDGKITRDSKVRLIRQGIVVYEGEIDSLKRYKDDVREVAQGYECGLTIKNF--NDIKEG   85 (99)
T ss_dssp             EEEECCCCCCSSSCCCEEEEECSSBCCSSSEEEEECSSSEEEEEECSEEECSSSCCSCCBTTCEEEEECTTC--SSCSSC
T ss_pred             EEEEEEEEEcCCCcEEEEEEEEeCeEccCCceEEecCCEEEEEeEEeeecccccccCEecCCeEEEEEecCc--cCCCCC
Confidence            456778888888899999999999999999999987765 23678999999999999999999999999854  589999


Q ss_pred             cccc
Q psy9646         102 LIMA  105 (211)
Q Consensus       102 ~ii~  105 (211)
                      |++-
T Consensus        86 D~ie   89 (99)
T d1d1na_          86 DVIE   89 (99)
T ss_dssp             SEEE
T ss_pred             CEEE
Confidence            9884

>d2ew1a1 c.37.1.8 (A:4-174) Rab30 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab30
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.02  E-value=6.1e-06  Score=59.03  Aligned_cols=101  Identities=15%  Similarity=0.023  Sum_probs=62.7

Q ss_pred             hhhhhhhcccccccccchhhcccceEEeEeEEEeeeCC--ceeEeecCCcccccHhHHhhhccccceEEEEEeccCCCC-
Q psy9646         110 ADKKLAKVKQYADIDNAPEEKARGITINVAHVEYATEN--RHYSHTDCPGHADYIKNMITGTSQMDGAILVVAATDGAM-  186 (211)
Q Consensus       110 ~~~~~~~f~~~i~~~~~~~e~~rg~tv~~~~~~~~~~~--~~~~~iDtPG~~~~~~~~~~~~~~~d~~~~vvd~~~~~~-  186 (211)
                      +..|++++..++.....+.+.....+.+.....+...+  ..+.+.||||++.|.......++.+|++++|.|...... 
T Consensus        14 ~~vGKTsLi~~l~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~l~i~Dt~G~e~~~~~~~~~~~~~~~~i~v~d~~~~~s~   93 (171)
T d2ew1a1          14 AGVGKTCLVRRFTQGLFPPGQGATIGVDFMIKTVEINGEKVKLQIWDTAGQERFRSITQSYYRSANALILTYDITCEESF   93 (171)
T ss_dssp             TTSSHHHHHHHHHHSSCCTTCCCCCSEEEEEEEEEETTEEEEEEEEEECCSGGGHHHHGGGSTTCSEEEEEEETTCHHHH
T ss_pred             CCcCHHHHHHHHHhCCCCCcccccccceEEEEEEEECCEEEEEEEEECCCchhhHHHHHHHHhccceEEEeeecccchhh
Confidence            34555665554433333333344444444444444444  457789999999998777788899999999999765432 


Q ss_pred             cchHHHHHHHHHc---CCCeEEEEEeCC
Q psy9646         187 PQTREHLLLAKQI---GVTNIVVFINKF  211 (211)
Q Consensus       187 ~~~~~~~~~~~~~---~~~~~i~~inK~  211 (211)
                      ....+++..+.+.   +.| ++++.||+
T Consensus        94 ~~~~~~~~~i~~~~~~~~~-~ilvgnK~  120 (171)
T d2ew1a1          94 RCLPEWLREIEQYASNKVI-TVLVGNKI  120 (171)
T ss_dssp             HTHHHHHHHHHHHSCTTCE-EEEEEECG
T ss_pred             hhhhhhhhhhccccccccc-EEEEEeec
Confidence            2334444544332   344 77889995

>d2fu5c1 c.37.1.8 (C:3-175) Rab8a {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab8a
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=98.02  E-value=1.4e-06  Score=62.64  Aligned_cols=101  Identities=14%  Similarity=0.020  Sum_probs=43.6

Q ss_pred             hhhhhhhcccccccccchhhcccceEEeEeEEEeeeCC--ceeEeecCCcccccHhHHhhhccccceEEEEEeccCCCCc
Q psy9646         110 ADKKLAKVKQYADIDNAPEEKARGITINVAHVEYATEN--RHYSHTDCPGHADYIKNMITGTSQMDGAILVVAATDGAMP  187 (211)
Q Consensus       110 ~~~~~~~f~~~i~~~~~~~e~~rg~tv~~~~~~~~~~~--~~~~~iDtPG~~~~~~~~~~~~~~~d~~~~vvd~~~~~~~  187 (211)
                      +..|++++..++.....+.+.......+.....++.++  ..+.+.||||++.|.......++.+|++++|+|+.+...-
T Consensus        15 ~~vGKTsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~G~e~~~~~~~~~~~~~~~~i~v~d~~~~~s~   94 (173)
T d2fu5c1          15 SGVGKTCVLFRFSEDAFNSTFISTIGIDFKIRTIELDGKRIKLQIWDTAGQERFRTITTAYYRGAMGIMLVYDITNEKSF   94 (173)
T ss_dssp             CCC----------------CHHHHHCEEEEEEEEEETTEEEEEEEEEC---------CCTTTTTCSEEEEEEETTCHHHH
T ss_pred             CCcCHHHHHHHHHhCCCCCccCccccceEEEEEEEECCEEEEEEEEECCCchhhHHHHHHhccCCCEEEEEEECCChhhH
Confidence            34555665544433332222223333333334444444  4567799999999988777788999999999998664321


Q ss_pred             c-hHHHHHHHH---HcCCCeEEEEEeCC
Q psy9646         188 Q-TREHLLLAK---QIGVTNIVVFINKF  211 (211)
Q Consensus       188 ~-~~~~~~~~~---~~~~~~~i~~inK~  211 (211)
                      . ...+++.+.   ..+.| ++++.||.
T Consensus        95 ~~~~~~~~~~~~~~~~~~~-iilv~~k~  121 (173)
T d2fu5c1          95 DNIRNWIRNIEEHASADVE-KMILGNKC  121 (173)
T ss_dssp             HHHHHHHHHHHHHSCTTCE-EEEEEEC-
T ss_pred             HHHHHHHHHhhhhccCCce-EEEEEecc
Confidence            1 122223332   23345 77889984

>d1zd9a1 c.37.1.8 (A:18-181) ADP-ribosylation factor {Human (Homo sapiens), ARL8A [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Human (Homo sapiens), ARL8A [TaxId: 9606]

Probab=97.99  E-value=2.6e-06  Score=60.64  Aligned_cols=76  Identities=16%  Similarity=0.136  Sum_probs=54.4

Q ss_pred             EEeEeEEEeeeCCceeEeecCCcccccHhHHhhhccccceEEEEEeccCCCC-cchHHHHHHHH----HcCCCeEEEEEe
Q psy9646         135 TINVAHVEYATENRHYSHTDCPGHADYIKNMITGTSQMDGAILVVAATDGAM-PQTREHLLLAK----QIGVTNIVVFIN  209 (211)
Q Consensus       135 tv~~~~~~~~~~~~~~~~iDtPG~~~~~~~~~~~~~~~d~~~~vvd~~~~~~-~~~~~~~~~~~----~~~~~~~i~~in  209 (211)
                      |+...+..+..++..+.+.|+||+..|.......+..+|++++++|+.+... ......+..+.    ..++| ++++.|
T Consensus        34 T~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~p-i~lv~n  112 (164)
T d1zd9a1          34 TVGFNMRKITKGNVTIKLWDIGGQPRFRSMWERYCRGVSAIVYMVDAADQEKIEASKNELHNLLDKPQLQGIP-VLVLGN  112 (164)
T ss_dssp             CCSEEEEEEEETTEEEEEEEECCSHHHHTTHHHHHTTCSEEEEEEETTCGGGHHHHHHHHHHHHTCGGGTTCC-EEEEEE
T ss_pred             cceeeeeeeeeeeEEEEEeeccccccccccccccccccchhhcccccccccccchhhhhhhhhhhhhcccCCc-EEEEEe
Confidence            3444555667788899999999999998888888999999999999865422 22233333232    23567 888999


Q ss_pred             CC
Q psy9646         210 KF  211 (211)
Q Consensus       210 K~  211 (211)
                      |.
T Consensus       113 K~  114 (164)
T d1zd9a1         113 KR  114 (164)
T ss_dssp             CT
T ss_pred             cc
Confidence            95

>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=97.92  E-value=4e-06  Score=61.45  Aligned_cols=101  Identities=14%  Similarity=0.059  Sum_probs=59.1

Q ss_pred             hhhhhhhcccccccccchhhcccc--eEEeEeEEEeeeCCceeEeecCCcccccHhHHhhhccccceEEEEEeccCCCCc
Q psy9646         110 ADKKLAKVKQYADIDNAPEEKARG--ITINVAHVEYATENRHYSHTDCPGHADYIKNMITGTSQMDGAILVVAATDGAMP  187 (211)
Q Consensus       110 ~~~~~~~f~~~i~~~~~~~e~~rg--~tv~~~~~~~~~~~~~~~~iDtPG~~~~~~~~~~~~~~~d~~~~vvd~~~~~~~  187 (211)
                      +..|++++..++.......+....  .+.......+......+.+.||||+++|.......++.+|++++|+|......-
T Consensus        15 ~~vGKTsli~~l~~~~~~~~~~~t~~~~~~~~~i~~~~~~~~l~i~Dt~G~e~~~~~~~~~~~~a~~~i~v~d~t~~~s~   94 (194)
T d2bcgy1          15 SGVGKSCLLLRFSDDTYTNDYISTIGVDFKIKTVELDGKTVKLQIWDTAGQERFRTITSSYYRGSHGIIIVYDVTDQESF   94 (194)
T ss_dssp             TTSSHHHHHHHHHHCCCCTTCCCSSCCCEEEEEEEETTEEEEEEEECCTTTTTTTCCCGGGGTTCSEEEEEEETTCHHHH
T ss_pred             CCcCHHHHHHHHhhCCCCCCcCCccceeEEEEEEEEeeEEEEEEEEECCCchhhHHHHHHHhccCCEEEEEEeCcchhhh
Confidence            445666665544433333333222  222222233333445678899999999876666778899999999998654332


Q ss_pred             ch-HHHHHHHHH---cCCCeEEEEEeCC
Q psy9646         188 QT-REHLLLAKQ---IGVTNIVVFINKF  211 (211)
Q Consensus       188 ~~-~~~~~~~~~---~~~~~~i~~inK~  211 (211)
                      +. ...+..+..   ..+| ++++.||+
T Consensus        95 ~~~~~~~~~~~~~~~~~~~-iilv~nK~  121 (194)
T d2bcgy1          95 NGVKMWLQEIDRYATSTVL-KLLVGNKC  121 (194)
T ss_dssp             HHHHHHHHHHHHHSCTTCE-EEEEEECT
T ss_pred             hhHhhhhhhhhhcccCCce-EEEEEecc
Confidence            22 223232322   2345 78899984

>d2f9la1 c.37.1.8 (A:8-182) Rab11b {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab11b
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.91  E-value=6.2e-06  Score=59.26  Aligned_cols=101  Identities=14%  Similarity=0.070  Sum_probs=62.5

Q ss_pred             hhhhhhhcccccccccchhhcccceEEeEeEEEeeeCC--ceeEeecCCcccccHhHHhhhccccceEEEEEeccCCCC-
Q psy9646         110 ADKKLAKVKQYADIDNAPEEKARGITINVAHVEYATEN--RHYSHTDCPGHADYIKNMITGTSQMDGAILVVAATDGAM-  186 (211)
Q Consensus       110 ~~~~~~~f~~~i~~~~~~~e~~rg~tv~~~~~~~~~~~--~~~~~iDtPG~~~~~~~~~~~~~~~d~~~~vvd~~~~~~-  186 (211)
                      +..|++++..++.......+.....+.......+...+  ..+.+.||||+++|.......+..+|++++|.|..+... 
T Consensus        13 ~~vGKTsLi~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~d~~g~e~~~~~~~~~~~~~~~~i~v~d~~~~~S~   92 (175)
T d2f9la1          13 SGVGKSNLLSRFTRNEFNLESKSTIGVEFATRSIQVDGKTIKAQIWDTAGQERYRRITSAYYRGAVGALLVYDIAKHLTY   92 (175)
T ss_dssp             TTSSHHHHHHHHHHSCCCC---CCCSCEEEEEEEEETTEEEEEEEEECSSGGGTTCCCHHHHTTCSEEEEEEETTCHHHH
T ss_pred             CCcCHHHHHHHHHhCCCCCcccccccceeeeEEEEECCEEEEEEecccCCcHHHHHHHHHHhhccCeEEEEEECCCcccc
Confidence            34556666554433333333333333344444444444  467899999999988877788899999999999875432 


Q ss_pred             cchHHHHHHHHHc---CCCeEEEEEeCC
Q psy9646         187 PQTREHLLLAKQI---GVTNIVVFINKF  211 (211)
Q Consensus       187 ~~~~~~~~~~~~~---~~~~~i~~inK~  211 (211)
                      ....+++..+...   ++| +++|.||+
T Consensus        93 ~~~~~~~~~i~~~~~~~~p-iilvgnK~  119 (175)
T d2f9la1          93 ENVERWLKELRDHADSNIV-IMLVGNKS  119 (175)
T ss_dssp             HTHHHHHHHHHHHSCTTCE-EEEEEECT
T ss_pred             hhHHHHHHHHHHhcCCCCc-EEEEEeee
Confidence            3334444444443   356 88889996

>d1ksha_ c.37.1.8 (A:) ADP-ribosylation factor {Mouse (Mus musculus), ARL2 [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Mouse (Mus musculus), ARL2 [TaxId: 10090]

Probab=97.90  E-value=4.5e-06  Score=59.26  Aligned_cols=75  Identities=19%  Similarity=0.171  Sum_probs=53.7

Q ss_pred             EeEeEEEeeeCCceeEeecCCcccccHhHHhhhccccceEEEEEeccCCCC-cchHHHHHHHH----HcCCCeEEEEEeC
Q psy9646         136 INVAHVEYATENRHYSHTDCPGHADYIKNMITGTSQMDGAILVVAATDGAM-PQTREHLLLAK----QIGVTNIVVFINK  210 (211)
Q Consensus       136 v~~~~~~~~~~~~~~~~iDtPG~~~~~~~~~~~~~~~d~~~~vvd~~~~~~-~~~~~~~~~~~----~~~~~~~i~~inK  210 (211)
                      .......+..++..+.+.||||+..+.......+..+|++++++|+.+... ......+..+.    ..+.| ++++.||
T Consensus        34 ~~~~~~~~~~~~~~~~~~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~d~~~~~~~~~~~~~~~~~~~~~~~p-~iiv~nK  112 (165)
T d1ksha_          34 LGFNIKTLEHRGFKLNIWDVGGQKSLRSYWRNYFESTDGLIWVVDSADRQRMQDCQRELQSLLVEERLAGAT-LLIFANK  112 (165)
T ss_dssp             SSEEEEEEEETTEEEEEEEECCSHHHHTTGGGGCTTCSEEEEEEETTCGGGHHHHHHHHHHHHTCGGGTTCE-EEEEEEC
T ss_pred             EeeeeeeccccccceeeeecCcchhhhhHHHhhhhhhhcceeeeecccchhHHHHHHhhhhhhhhcccCCCc-eEEEEec
Confidence            334455667788899999999999888777888899999999999865433 22233333332    24566 8889999


Q ss_pred             C
Q psy9646         211 F  211 (211)
Q Consensus       211 ~  211 (211)
                      +
T Consensus       113 ~  113 (165)
T d1ksha_         113 Q  113 (165)
T ss_dssp             T
T ss_pred             c
Confidence            5

>d2bmea1 c.37.1.8 (A:6-179) Rab4a {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab4a
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.89  E-value=9.7e-06  Score=58.06  Aligned_cols=101  Identities=14%  Similarity=0.053  Sum_probs=60.6

Q ss_pred             hhhhhhhcccccccccchhhcccceEEeEeEEEeee--CCceeEeecCCcccccHhHHhhhccccceEEEEEeccCCCCc
Q psy9646         110 ADKKLAKVKQYADIDNAPEEKARGITINVAHVEYAT--ENRHYSHTDCPGHADYIKNMITGTSQMDGAILVVAATDGAMP  187 (211)
Q Consensus       110 ~~~~~~~f~~~i~~~~~~~e~~rg~tv~~~~~~~~~--~~~~~~~iDtPG~~~~~~~~~~~~~~~d~~~~vvd~~~~~~~  187 (211)
                      +..|++++..++.......+..+..........+..  ....+.+.||||+++|........+.+|++++|.|......-
T Consensus        14 ~~vGKTsll~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~   93 (174)
T d2bmea1          14 AGTGKSCLLHQFIEKKFKDDSNHTIGVEFGSKIINVGGKYVKLQIWDTAGQERFRSVTRSYYRGAAGALLVYDITSRETY   93 (174)
T ss_dssp             TTSSHHHHHHHHHHSSCCTTCCCCSEEEEEEEEEEETTEEEEEEEEEECCSGGGHHHHHTTSTTCSEEEEEEETTCHHHH
T ss_pred             CCcCHHHHHHHHHhCCCCcccccccccceeeEEEEecCcceeEEEEECCCchhhhhhHHHHhhhCCEEEEEEecccchhH
Confidence            445566655544333333332322233333333333  334577899999999998888889999999999998755332


Q ss_pred             c-hHHHHHHHHH---cCCCeEEEEEeCC
Q psy9646         188 Q-TREHLLLAKQ---IGVTNIVVFINKF  211 (211)
Q Consensus       188 ~-~~~~~~~~~~---~~~~~~i~~inK~  211 (211)
                      . ....+..+..   .++| ++++.||+
T Consensus        94 ~~~~~~~~~~~~~~~~~~p-iivv~nK~  120 (174)
T d2bmea1          94 NALTNWLTDARMLASQNIV-IILCGNKK  120 (174)
T ss_dssp             HTHHHHHHHHHHHSCTTCE-EEEEEECG
T ss_pred             HHHhhhhcccccccCCceE-EEEEEecc
Confidence            2 2223333322   2455 88999995

>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=97.85  E-value=1e-05  Score=57.50  Aligned_cols=102  Identities=13%  Similarity=0.031  Sum_probs=61.6

Q ss_pred             hhhhhhhcccccccccchhhcccceEEeEeEEEeeeCC--ceeEeecCCcccccHhHHhhhccccceEEEEEeccCCCCc
Q psy9646         110 ADKKLAKVKQYADIDNAPEEKARGITINVAHVEYATEN--RHYSHTDCPGHADYIKNMITGTSQMDGAILVVAATDGAMP  187 (211)
Q Consensus       110 ~~~~~~~f~~~i~~~~~~~e~~rg~tv~~~~~~~~~~~--~~~~~iDtPG~~~~~~~~~~~~~~~d~~~~vvd~~~~~~~  187 (211)
                      +..|++++..++.......+.....+.+.....+..++  ..+.+.||||+++|.......++.+|++++|.|..+...-
T Consensus        13 ~~vGKTsli~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~i~D~~g~~~~~~~~~~~~~~~d~~ilv~d~~~~~s~   92 (166)
T d1z0fa1          13 MGVGKSCLLHQFTEKKFMADCPHTIGVEFGTRIIEVSGQKIKLQIWDTAGQERFRAVTRSYYRGAAGALMVYDITRRSTY   92 (166)
T ss_dssp             TTSSHHHHHHHHHHSCCCSSCTTSCCCCEEEEEEEETTEEEEEEEEECTTGGGTCHHHHHHHHTCSEEEEEEETTCHHHH
T ss_pred             CCcCHHHHHHHHHhCCCCCcccccccccceeEEEEECCEEEEEEEeccCCchhHHHHHHHHhcCCcEEEEEeccCchHHH
Confidence            44566666554433333333333333333334444444  4678899999999987777888899999999998654322


Q ss_pred             -chHHHHHHHHHcC--CCeEEEEEeCC
Q psy9646         188 -QTREHLLLAKQIG--VTNIVVFINKF  211 (211)
Q Consensus       188 -~~~~~~~~~~~~~--~~~~i~~inK~  211 (211)
                       ....++..++...  .++++++.||+
T Consensus        93 ~~~~~~~~~~~~~~~~~~~iilvgnK~  119 (166)
T d1z0fa1          93 NHLSSWLTDARNLTNPNTVIILIGNKA  119 (166)
T ss_dssp             HTHHHHHHHHHHHSCTTCEEEEEEECT
T ss_pred             HHHHHHHHHHHhhccccceEEEEcccc
Confidence             2233444444322  33477888985

>d2gjsa1 c.37.1.8 (A:91-258) Rad {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rad
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.85  E-value=4.8e-06  Score=59.50  Aligned_cols=65  Identities=17%  Similarity=-0.007  Sum_probs=38.8

Q ss_pred             CCceeEeecCCcccccHhHHhhhccccceEEEEEeccCCCCcc-hHHHHHHHHH----cCCCeEEEEEeCC
Q psy9646         146 ENRHYSHTDCPGHADYIKNMITGTSQMDGAILVVAATDGAMPQ-TREHLLLAKQ----IGVTNIVVFINKF  211 (211)
Q Consensus       146 ~~~~~~~iDtPG~~~~~~~~~~~~~~~d~~~~vvd~~~~~~~~-~~~~~~~~~~----~~~~~~i~~inK~  211 (211)
                      ....+.+.||||+++|......-+..+|++++|.|......-. ...++..+..    ..+| ++++.||+
T Consensus        46 ~~~~l~i~D~~g~e~~~~~~~~~~~~~d~~ilv~d~t~~~s~~~~~~~~~~i~~~~~~~~~p-iilvgnK~  115 (168)
T d2gjsa1          46 EEASLMVYDIWEQDGGRWLPGHCMAMGDAYVIVYSVTDKGSFEKASELRVQLRRARQTDDVP-IILVGNKS  115 (168)
T ss_dssp             EEEEEEEEECC-------CHHHHHTSCSEEEEEEETTCHHHHHHHHHHHHHHHHHCC--CCC-EEEEEECT
T ss_pred             cccceeeeecccccccceecccchhhhhhhceeccccccccccccccccchhhcccccccce-EEEeeccc
Confidence            3356788999999998777777788999999999986543322 2223333322    2356 88899996

>d1x3sa1 c.37.1.8 (A:2-178) Rab18 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab18
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.68  E-value=3.1e-05  Score=55.54  Aligned_cols=102  Identities=14%  Similarity=0.029  Sum_probs=61.0

Q ss_pred             hhhhhhhcccccccccchhhcccceEEeEeEEEeee--CCceeEeecCCcccccHhHHhhhccccceEEEEEeccCCCC-
Q psy9646         110 ADKKLAKVKQYADIDNAPEEKARGITINVAHVEYAT--ENRHYSHTDCPGHADYIKNMITGTSQMDGAILVVAATDGAM-  186 (211)
Q Consensus       110 ~~~~~~~f~~~i~~~~~~~e~~rg~tv~~~~~~~~~--~~~~~~~iDtPG~~~~~~~~~~~~~~~d~~~~vvd~~~~~~-  186 (211)
                      +..|++++..++.......+.....+.......+..  ....+.+.||||++++.......+..+|++++|+|...... 
T Consensus        16 ~~vGKTsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~~~ii~v~d~~~~~s~   95 (177)
T d1x3sa1          16 SGVGKSSLLLRFTDDTFDPELAATIGVDFKVKTISVDGNKAKLAIWDTAGQERFRTLTPSYYRGAQGVILVYDVTRRDTF   95 (177)
T ss_dssp             TTSSHHHHHHHHHHSCCCTTCCCCCSEEEEEEEEEETTEEEEEEEEEECSSGGGCCSHHHHHTTCCEEEEEEETTCHHHH
T ss_pred             CCcCHHHHHHHHHhCCCCCccccceeecceeEEEEEeccccEEEEEECCCchhhHHHHHHHHhcCCEEEEEEECCCcccc
Confidence            445666665554433433444444434333333443  34568899999999887767777889999999999765432 


Q ss_pred             cchHHHHHHHHHc---CCCeEEEEEeCC
Q psy9646         187 PQTREHLLLAKQI---GVTNIVVFINKF  211 (211)
Q Consensus       187 ~~~~~~~~~~~~~---~~~~~i~~inK~  211 (211)
                      .....++..+.+.   ..++++++.||.
T Consensus        96 ~~~~~~~~~i~~~~~~~~~~i~~~~nk~  123 (177)
T d1x3sa1          96 VKLDNWLNELETYCTRNDIVNMLVGNKI  123 (177)
T ss_dssp             HTHHHHHHHHTTCCSCSCCEEEEEEECT
T ss_pred             ccchhhhhhhcccccccceeeEEEeecc
Confidence            2223344444331   223367889984

>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=97.67  E-value=2.3e-05  Score=55.44  Aligned_cols=63  Identities=13%  Similarity=0.034  Sum_probs=45.4

Q ss_pred             ceeEeecCCcccccHhHHhhhccccceEEEEEeccCCCCc-chHHHHHHHHH--cCCCeEEEEEeCC
Q psy9646         148 RHYSHTDCPGHADYIKNMITGTSQMDGAILVVAATDGAMP-QTREHLLLAKQ--IGVTNIVVFINKF  211 (211)
Q Consensus       148 ~~~~~iDtPG~~~~~~~~~~~~~~~d~~~~vvd~~~~~~~-~~~~~~~~~~~--~~~~~~i~~inK~  211 (211)
                      ..+.+.||||++++.......++.+|++++|.|..+...- .-..++..+.+  .++| +|+|.||+
T Consensus        51 ~~~~i~d~~g~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~-iilVgnK~  116 (164)
T d1z2aa1          51 VRLMLWDTAGQEEFDAITKAYYRGAQACVLVFSTTDRESFEAISSWREKVVAEVGDIP-TALVQNKI  116 (164)
T ss_dssp             EEEEEECCTTGGGTTCCCHHHHTTCCEEEEEEETTCHHHHHTHHHHHHHHHHHHCSCC-EEEEEECG
T ss_pred             eeeeeeccCCccchhhhhhhhhccCceEEEEEeccchhhhhhcccccccccccCCCce-EEEeeccC
Confidence            5678899999999887777778999999999998754432 22223333332  3666 88899995

>d1lnza2 c.37.1.8 (A:158-342) Obg GTP-binding protein middle domain {Bacillus subtilis [TaxId: 1423]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Obg GTP-binding protein middle domain
species: Bacillus subtilis [TaxId: 1423]

Probab=97.66  E-value=2.3e-05  Score=56.55  Aligned_cols=78  Identities=13%  Similarity=0.101  Sum_probs=45.0

Q ss_pred             ceEEeEeEEEeee-CCceeEeecCCcccc-------cHhHHhhhccccceEEEEEeccCCCC--cchHHHHH--HHHH--
Q psy9646         133 GITINVAHVEYAT-ENRHYSHTDCPGHAD-------YIKNMITGTSQMDGAILVVAATDGAM--PQTREHLL--LAKQ--  198 (211)
Q Consensus       133 g~tv~~~~~~~~~-~~~~~~~iDtPG~~~-------~~~~~~~~~~~~d~~~~vvd~~~~~~--~~~~~~~~--~~~~--  198 (211)
                      +.|.+.....+.. .+.++.++||||+.+       +....+..+..+|.++++++......  ........  ....  
T Consensus        33 ~~T~~~~~~~~~~~~~~~~~~~DtpG~~~~~~~~~~~~~~~l~~~~~~~~i~~~v~~~~~~~~~~~~~~~~~~~~~~~~~  112 (185)
T d1lnza2          33 FTTLVPNLGMVETDDGRSFVMADLPGLIEGAHQGVGLGHQFLRHIERTRVIVHVIDMSGLEGRDPYDDYLTINQELSEYN  112 (185)
T ss_dssp             SSCCCCCEEEEECSSSCEEEEEEHHHHHHHTTCTTTTHHHHHHHHHHCCEEEEEEESSCSSCCCHHHHHHHHHHHHHHSC
T ss_pred             CceEeeeeceeEecCCcEEEEecCCCcccCchHHHHHHHHHHHHHHHhhhhhheeeecccccchhhhhhhhhhhccchhh
Confidence            3444444444444 346799999999632       34556677788898888887653322  21111111  1111  


Q ss_pred             ---cCCCeEEEEEeCC
Q psy9646         199 ---IGVTNIVVFINKF  211 (211)
Q Consensus       199 ---~~~~~~i~~inK~  211 (211)
                         .++| +|+++||+
T Consensus       113 ~~~~~kp-~ivv~NK~  127 (185)
T d1lnza2         113 LRLTERP-QIIVANKM  127 (185)
T ss_dssp             SSTTTSC-BCBEEECT
T ss_pred             hhccCCc-chhhcccc
Confidence               2456 67899996

>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=97.60  E-value=7.4e-05  Score=52.64  Aligned_cols=101  Identities=15%  Similarity=0.051  Sum_probs=63.2

Q ss_pred             hhhhhhhcccccccccchhhcccceEEeEeEEEeeeC--CceeEeecCCcccccHhHHhhhccccceEEEEEeccCCCC-
Q psy9646         110 ADKKLAKVKQYADIDNAPEEKARGITINVAHVEYATE--NRHYSHTDCPGHADYIKNMITGTSQMDGAILVVAATDGAM-  186 (211)
Q Consensus       110 ~~~~~~~f~~~i~~~~~~~e~~rg~tv~~~~~~~~~~--~~~~~~iDtPG~~~~~~~~~~~~~~~d~~~~vvd~~~~~~-  186 (211)
                      +..|++++..++.......+.............+...  ...+.+.||||++++......-+..+|+++++.|...... 
T Consensus         9 ~~vGKTsLi~r~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~d~~g~~~~~~~~~~~~~~~~~~ilv~d~~~~~s~   88 (164)
T d1yzqa1           9 QSVGKTSLITRFMYDSFDNTYQATIGIDFLSKTMYLEDRTIRLQLWDTAGQERFRSLIPSYIRDSAAAVVVYDITNVNSF   88 (164)
T ss_dssp             TTSSHHHHHHHHHHSCCCSSCCCCCSEEEEEEEEECSSCEEEEEEEEECCSGGGGGGHHHHHTTCSEEEEEEETTCHHHH
T ss_pred             CCcCHHHHHHHHHhCCCCCccccceeeeccceeeccCCCceeeeecccCCcchhccchHHHhhccceEEEeeccccccch
Confidence            3445666655443333333333333334333344433  3567899999999998888888999999999999866543 


Q ss_pred             cchHHHHHHHHH---cCCCeEEEEEeCC
Q psy9646         187 PQTREHLLLAKQ---IGVTNIVVFINKF  211 (211)
Q Consensus       187 ~~~~~~~~~~~~---~~~~~~i~~inK~  211 (211)
                      ...+.++.....   .+.| ++++.||+
T Consensus        89 ~~i~~~~~~~~~~~~~~~~-iilvgnK~  115 (164)
T d1yzqa1          89 QQTTKWIDDVRTERGSDVI-IMLVGNKT  115 (164)
T ss_dssp             HTHHHHHHHHHHHHTTSSE-EEEEEECT
T ss_pred             hhhHhhHHHHHHhcCCCce-EEEEeccc
Confidence            222334444332   3455 88899995

>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=97.58  E-value=2.9e-05  Score=54.99  Aligned_cols=101  Identities=13%  Similarity=-0.007  Sum_probs=54.7

Q ss_pred             hhhhhhhcccccccccchhhcccceEEeEeEEEeeeCC--ceeEeecCCcccccHhHHhhhccccceEEEEEeccCCCCc
Q psy9646         110 ADKKLAKVKQYADIDNAPEEKARGITINVAHVEYATEN--RHYSHTDCPGHADYIKNMITGTSQMDGAILVVAATDGAMP  187 (211)
Q Consensus       110 ~~~~~~~f~~~i~~~~~~~e~~rg~tv~~~~~~~~~~~--~~~~~iDtPG~~~~~~~~~~~~~~~d~~~~vvd~~~~~~~  187 (211)
                      +..|++++..++.....+.+.......+.....+..++  ..+.+.||||++.|.......++.+|++++|+|..+.-.-
T Consensus        11 ~~vGKTSli~~l~~~~~~~~~~~t~~~~~~~~~i~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~   90 (166)
T d1g16a_          11 SGVGKSCLLVRFVEDKFNPSFITTIGIDFKIKTVDINGKKVKLQIWDTAGQERFRTITTAYYRGAMGIILVYDITDERTF   90 (166)
T ss_dssp             TTSSHHHHHHHHHHCCCCC-------CCEEEEEEESSSCEEEEEEECCTTGGGTSCCCHHHHTTEEEEEEEEETTCHHHH
T ss_pred             CCcCHHHHHHHHHhCCCCCccCCccceeEEEEEEEECCEEEEEEEEECCCchhhHHHHHHHHhcCCEEEEEEECCCccCH
Confidence            44566666554443333333333333333333444444  4567899999998876666778999999999998765332


Q ss_pred             chHH-HHHHH--HHcCCCeEEEEEeC
Q psy9646         188 QTRE-HLLLA--KQIGVTNIVVFINK  210 (211)
Q Consensus       188 ~~~~-~~~~~--~~~~~~~~i~~inK  210 (211)
                      +... .....  ......+++++.||
T Consensus        91 ~~~~~~~~~~~~~~~~~~~~i~~~~k  116 (166)
T d1g16a_          91 TNIKQWFKTVNEHANDEAQLLLVGNK  116 (166)
T ss_dssp             HTHHHHHHHHHHHSCTTCEEEEEEEC
T ss_pred             HHHHhhhhhhhccccCcceeeeecch
Confidence            2222 11112  22223336667776

>d1e0sa_ c.37.1.8 (A:) ADP-ribosylation factor {Human (Homo sapiens), ARF6 [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Human (Homo sapiens), ARF6 [TaxId: 9606]

Probab=97.58  E-value=0.00011  Score=52.32  Aligned_cols=99  Identities=16%  Similarity=0.114  Sum_probs=61.2

Q ss_pred             hhhhhhhhcccccccccchhhcccceEEeEeEEEeeeCCceeEeecCCcccccHhHHhhhccccceEEEEEeccCCCCc-
Q psy9646         109 LADKKLAKVKQYADIDNAPEEKARGITINVAHVEYATENRHYSHTDCPGHADYIKNMITGTSQMDGAILVVAATDGAMP-  187 (211)
Q Consensus       109 ~~~~~~~~f~~~i~~~~~~~e~~rg~tv~~~~~~~~~~~~~~~~iDtPG~~~~~~~~~~~~~~~d~~~~vvd~~~~~~~-  187 (211)
                      .+..|++++..++.....+.   ...|..............+.+.|+||+..+-.....-+..+|++++++|+.....- 
T Consensus        20 ~~~vGKTSli~rl~~~~~~~---~~~t~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~~~ii~v~D~s~~~~~~   96 (173)
T d1e0sa_          20 LDAAGKTTILYKLKLGQSVT---TIPTVGFNVETVTYKNVKFNVWDVGGQDKIRPLWRHYYTGTQGLIFVVDCADRDRID   96 (173)
T ss_dssp             ETTSSHHHHHHHTTCCCCEE---EEEETTEEEEEEEETTEEEEEEEESCCGGGHHHHGGGTTTCCEEEEEEETTCGGGHH
T ss_pred             CCCCCHHHHHHHHhcCCCCC---ccceeeeeEEEeeccceeeEEecCCCcchhhhHHHhhhcccceEEEEEecccchhHH
Confidence            34556666655443222111   11222333444556777899999999999988888899999999999998653321 


Q ss_pred             chHHHHHHHHH----cCCCeEEEEEeCC
Q psy9646         188 QTREHLLLAKQ----IGVTNIVVFINKF  211 (211)
Q Consensus       188 ~~~~~~~~~~~----~~~~~~i~~inK~  211 (211)
                      ...+.+.....    ...| ++++.||+
T Consensus        97 ~~~~~l~~~~~~~~~~~~p-iiiv~NK~  123 (173)
T d1e0sa_          97 EARQELHRIINDREMRDAI-ILIFANKQ  123 (173)
T ss_dssp             HHHHHHHHHHTSGGGTTCE-EEEEEECT
T ss_pred             HHHHHHHHHhhhcccccce-eeeeeecc
Confidence            12222222211    2455 88999995

>d1fzqa_ c.37.1.8 (A:) ADP-ribosylation factor {Mouse (Mus musculus), ARL3 [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Mouse (Mus musculus), ARL3 [TaxId: 10090]

Probab=97.54  E-value=6.6e-05  Score=53.44  Aligned_cols=71  Identities=18%  Similarity=0.100  Sum_probs=51.3

Q ss_pred             EEEeeeCCceeEeecCCcccccHhHHhhhccccceEEEEEeccCCCCcc-hHHHHHHH----HHcCCCeEEEEEeCC
Q psy9646         140 HVEYATENRHYSHTDCPGHADYIKNMITGTSQMDGAILVVAATDGAMPQ-TREHLLLA----KQIGVTNIVVFINKF  211 (211)
Q Consensus       140 ~~~~~~~~~~~~~iDtPG~~~~~~~~~~~~~~~d~~~~vvd~~~~~~~~-~~~~~~~~----~~~~~~~~i~~inK~  211 (211)
                      ...+...+..+.+.|+||++.|.......+..+|++++++|+.+...-+ ....+...    ...++| ++++.||+
T Consensus        52 ~~~i~~~~~~~~i~d~~g~~~~~~~~~~~~~~~~~ii~v~d~~d~~s~~~~~~~~~~~~~~~~~~~~p-illv~nK~  127 (176)
T d1fzqa_          52 IKSVQSQGFKLNVWDIGGQRKIRPYWRSYFENTDILIYVIDSADRKRFEETGQELTELLEEEKLSCVP-VLIFANKQ  127 (176)
T ss_dssp             EEEEEETTEEEEEEECSSCGGGHHHHHHHHTTCSEEEEEEETTCGGGHHHHHHHHHHHTTCGGGTTCC-EEEEEECT
T ss_pred             EEEeccCCeeEeEeeccccccchhHHHHHhhccceeEEeeccccccchhhhhhhhhhhhhhhccCCCe-EEEEEEec
Confidence            3445567788999999999999888888899999999999987653322 22222222    223567 88899995

>d2g6ba1 c.37.1.8 (A:58-227) Rab26 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab26
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.54  E-value=4e-05  Score=54.51  Aligned_cols=70  Identities=11%  Similarity=0.061  Sum_probs=39.1

Q ss_pred             EeeeCC--ceeEeecCCcccccHhHHhhhccccceEEEEEeccCCCCc-chHHHHHHH-HHcC-CCeEEEEEeCC
Q psy9646         142 EYATEN--RHYSHTDCPGHADYIKNMITGTSQMDGAILVVAATDGAMP-QTREHLLLA-KQIG-VTNIVVFINKF  211 (211)
Q Consensus       142 ~~~~~~--~~~~~iDtPG~~~~~~~~~~~~~~~d~~~~vvd~~~~~~~-~~~~~~~~~-~~~~-~~~~i~~inK~  211 (211)
                      .+...+  ..+.|.||||++++......-...+|++++|.|......- ....++... .... ..+++++.||+
T Consensus        48 ~~~~~~~~~~l~i~Dt~G~e~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~iilv~~k~  122 (170)
T d2g6ba1          48 VLDVDGVKVKLQMWDTAGQERFRSVTHAYYRDAHALLLLYDVTNKASFDNIQAWLTEIHEYAQHDVALMLLGNKV  122 (170)
T ss_dssp             EEEETTEEEEEEEEECCCC--------CCGGGCSEEEEEEETTCHHHHHTHHHHHHHHHHHSCTTCEEEEEEECC
T ss_pred             EEEecCcEEEEEEEECCCchhhHHHHHHhhcCCceeEEEecCCcccchhhhhhhhhhhhhccCCCceEEEEEeee
Confidence            344444  4678999999999977777778899999999998654422 222233322 2222 23377788884

>d1ky3a_ c.37.1.8 (A:) Rab-related protein ypt7p {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab-related protein ypt7p
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=97.53  E-value=5e-05  Score=54.09  Aligned_cols=63  Identities=14%  Similarity=0.058  Sum_probs=37.5

Q ss_pred             ceeEeecCCcccccHhHHhhhccccceEEEEEeccCCCC-cchHHHHHHHHH-------cCCCeEEEEEeCC
Q psy9646         148 RHYSHTDCPGHADYIKNMITGTSQMDGAILVVAATDGAM-PQTREHLLLAKQ-------IGVTNIVVFINKF  211 (211)
Q Consensus       148 ~~~~~iDtPG~~~~~~~~~~~~~~~d~~~~vvd~~~~~~-~~~~~~~~~~~~-------~~~~~~i~~inK~  211 (211)
                      ..+.+.||||++++..........+|+++++.|...... .....++..+..       .++| ++++.||+
T Consensus        52 ~~~~~~d~~g~~~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~~~~~~~i~~~~~~~~~~~~p-iilv~nK~  122 (175)
T d1ky3a_          52 ATMQVWDTAGQERFQSLGVAFYRGADCCVLVYDVTNASSFENIKSWRDEFLVHANVNSPETFP-FVILGNKI  122 (175)
T ss_dssp             EEEEEECCC----------CCSTTCCEEEEEEETTCHHHHHTHHHHHHHHHHHHCCSCTTTCC-EEEEEECT
T ss_pred             ccceeeccCCchhhhhHHHHHhhccceEEEEeecccccccchhhhcchhhhhhhhhcccccCc-EEEEeccc
Confidence            457789999999998888888999999999999865543 223333333322       2567 88999996

>d1i2ma_ c.37.1.8 (A:) Ran {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Ran
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.52  E-value=8.8e-05  Score=52.76  Aligned_cols=65  Identities=15%  Similarity=0.017  Sum_probs=46.4

Q ss_pred             CCceeEeecCCcccccHhHHhhhccccceEEEEEeccCCCC-cchHHHHHHHH--HcCCCeEEEEEeCC
Q psy9646         146 ENRHYSHTDCPGHADYIKNMITGTSQMDGAILVVAATDGAM-PQTREHLLLAK--QIGVTNIVVFINKF  211 (211)
Q Consensus       146 ~~~~~~~iDtPG~~~~~~~~~~~~~~~d~~~~vvd~~~~~~-~~~~~~~~~~~--~~~~~~~i~~inK~  211 (211)
                      ....+.+.||||...+......-+..+|++++|.|...... .....++....  ..++| ++++.||+
T Consensus        50 ~~~~l~i~D~~g~~~~~~~~~~~~~~~~~~ilv~d~~~~~Sf~~~~~~~~~~~~~~~~~p-iilvgnK~  117 (170)
T d1i2ma_          50 GPIKFNVWDTAGQEKFGGLRDGYYIQAQCAIIMFDVTSRVTYKNVPNWHRDLVRVCENIP-IVLCGNKV  117 (170)
T ss_dssp             CCEEEEEEECTTHHHHSSCGGGGTTTCCEEEEEEETTSGGGGTTHHHHHHHHHHHHCSCC-EEEEEECC
T ss_pred             ccccccccccccccccceecchhcccccchhhccccccccccchhHHHHHHHhhccCCCc-eeeecchh
Confidence            34568899999998887777777889999999999876543 22233333332  23577 88999996

>d1moza_ c.37.1.8 (A:) ADP-ribosylation factor {Baker's yeast (Saccharomyces cerevisiae), ARL1 [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Baker's yeast (Saccharomyces cerevisiae), ARL1 [TaxId: 4932]

Probab=97.52  E-value=3.5e-05  Score=55.38  Aligned_cols=71  Identities=20%  Similarity=0.166  Sum_probs=47.0

Q ss_pred             EEEeeeCCceeEeecCCcccccHhHHhhhccccceEEEEEeccCCCCcc-hHHHHHHH-HH---cCCCeEEEEEeCC
Q psy9646         140 HVEYATENRHYSHTDCPGHADYIKNMITGTSQMDGAILVVAATDGAMPQ-TREHLLLA-KQ---IGVTNIVVFINKF  211 (211)
Q Consensus       140 ~~~~~~~~~~~~~iDtPG~~~~~~~~~~~~~~~d~~~~vvd~~~~~~~~-~~~~~~~~-~~---~~~~~~i~~inK~  211 (211)
                      .......+..+.+.|+||+..|......-...+|++++++|+.+..... ....+... ..   .+.| ++++.||+
T Consensus        53 ~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~d~~s~~~~~~~l~~~~~~~~~~~~p-iliv~NK~  128 (182)
T d1moza_          53 VETLSYKNLKLNVWDLGGQTSIRPYWRCYYADTAAVIFVVDSTDKDRMSTASKELHLMLQEEELQDAA-LLVFANKQ  128 (182)
T ss_dssp             EEEEEETTEEEEEEEEC----CCTTGGGTTTTEEEEEEEEETTCTTTHHHHHHHHHHHTTSSTTSSCE-EEEEEECT
T ss_pred             EEEEeeCCEEEEEEecccccccchhHHhhhccceeEEEEeeecccccchhHHHHHHHHHHhhccCCcc-eEEEEEee
Confidence            3455567788999999999988777777788999999999987665432 23333332 21   2455 88899995

>d2fh5b1 c.37.1.8 (B:63-269) Signal recognition particle receptor beta-subunit {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Signal recognition particle receptor beta-subunit
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=97.50  E-value=5.9e-05  Score=55.31  Aligned_cols=66  Identities=14%  Similarity=0.127  Sum_probs=42.3

Q ss_pred             CCceeEeecCCcccccHhHHh-hhccccceEEEEEeccCCCC---cchHHHHHHHHH----cCCCeEEEEEeCC
Q psy9646         146 ENRHYSHTDCPGHADYIKNMI-TGTSQMDGAILVVAATDGAM---PQTREHLLLAKQ----IGVTNIVVFINKF  211 (211)
Q Consensus       146 ~~~~~~~iDtPG~~~~~~~~~-~~~~~~d~~~~vvd~~~~~~---~~~~~~~~~~~~----~~~~~~i~~inK~  211 (211)
                      ....+.+.|+||++.+....+ .-...+|.+++|+|+.....   ...+.+...+..    .+.+++++++||+
T Consensus        45 ~~~~~~~~d~~g~~~~~~~~~~~~~~~~~~~i~v~D~~d~~~~~~~~~~~l~~~l~~~~~~~~~~pilvv~NK~  118 (207)
T d2fh5b1          45 RGNSLTLIDLPGHESLRFQLLDRFKSSARAVVFVVDSAAFQREVKDVAEFLYQVLIDSMALKNSPSLLIACNKQ  118 (207)
T ss_dssp             TCCEEEEEECCCCHHHHHHHHHHHGGGEEEEEEEEETTTHHHHHHHHHHHHHHHHHHHHTSTTCCEEEEEEECT
T ss_pred             eeeeeeeeeccccccccchhhhhhhhhccccceEEEcccccccHHHHHHHHHHHHHhHHHhhcCCcEEEEEECc
Confidence            456788999999998865544 44578999999999865432   111222233221    1223488889996

>d1tq4a_ c.37.1.8 (A:) Interferon-inducible GTPase {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Interferon-inducible GTPase
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=97.44  E-value=0.00011  Score=59.71  Aligned_cols=63  Identities=11%  Similarity=-0.031  Sum_probs=46.6

Q ss_pred             CCceeEeecCCcccccH---hH--HhhhccccceEEEEEeccCCCCcchHHHHHHHHHcCCCeEEEEEeCC
Q psy9646         146 ENRHYSHTDCPGHADYI---KN--MITGTSQMDGAILVVAATDGAMPQTREHLLLAKQIGVTNIVVFINKF  211 (211)
Q Consensus       146 ~~~~~~~iDtPG~~~~~---~~--~~~~~~~~d~~~~vvd~~~~~~~~~~~~~~~~~~~~~~~~i~~inK~  211 (211)
                      ...++.|+||||.....   ++  ....+..+|+.+++.|  .....++.++++.++..+.| +++|+||+
T Consensus       105 ~~~~~~l~DtPG~~~~~~~~~~~~~~~~~~~~d~~l~~~~--~~~~~~d~~l~~~l~~~~k~-~~~V~nK~  172 (400)
T d1tq4a_         105 NIPNVVFWDLPGIGSTNFPPDTYLEKMKFYEYDFFIIISA--TRFKKNDIDIAKAISMMKKE-FYFVRTKV  172 (400)
T ss_dssp             SCTTEEEEECCCGGGSSCCHHHHHHHTTGGGCSEEEEEES--SCCCHHHHHHHHHHHHTTCE-EEEEECCH
T ss_pred             CCCeEEEEeCCCcccccccHHHHHHHhhhhcceEEEEecC--CCCCHHHHHHHHHHHHcCCC-EEEEEeCc
Confidence            44579999999965421   11  2334567787777766  46778888999999999988 88999995

>d1kmqa_ c.37.1.8 (A:) RhoA {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: RhoA
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.38  E-value=9.2e-05  Score=52.88  Aligned_cols=65  Identities=15%  Similarity=0.099  Sum_probs=45.8

Q ss_pred             CCceeEeecCCcccccHhHHhhhccccceEEEEEeccCCCCcc--hHHHHHHHHH--cCCCeEEEEEeCC
Q psy9646         146 ENRHYSHTDCPGHADYIKNMITGTSQMDGAILVVAATDGAMPQ--TREHLLLAKQ--IGVTNIVVFINKF  211 (211)
Q Consensus       146 ~~~~~~~iDtPG~~~~~~~~~~~~~~~d~~~~vvd~~~~~~~~--~~~~~~~~~~--~~~~~~i~~inK~  211 (211)
                      ....+.+.||||++.|......-+..+|++++|.|......-+  ...+......  .++| ++++.||+
T Consensus        48 ~~~~l~i~D~~g~~~~~~~~~~~~~~~~~~ilv~d~~~~~Sf~~~~~~~~~~~~~~~~~~p-iilvgnK~  116 (177)
T d1kmqa_          48 KQVELALWDTAGLEDYDRLRPLSYPDTDVILMCFSIDSPDSLENIPEKWTPEVKHFCPNVP-IILVGNKK  116 (177)
T ss_dssp             EEEEEEEEEECCSGGGTTTGGGGCTTCSEEEEEEETTCHHHHHHHHHTHHHHHHHHSTTSC-EEEEEECG
T ss_pred             cceeeeccccCccchhcccchhhcccchhhhhhcccchhHHHHHHHHHHHHHHHHhCCCCc-eEEeeecc
Confidence            3346889999999999888878889999999999986543211  1122233332  3577 88899995

>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=97.33  E-value=9e-05  Score=55.33  Aligned_cols=63  Identities=16%  Similarity=0.175  Sum_probs=46.7

Q ss_pred             ceeEeecCCcccccHhHHhhhcc-----ccceEEEEEeccCCCCcchHHHHHHH-----HHcCCCeEEEEEeCC
Q psy9646         148 RHYSHTDCPGHADYIKNMITGTS-----QMDGAILVVAATDGAMPQTREHLLLA-----KQIGVTNIVVFINKF  211 (211)
Q Consensus       148 ~~~~~iDtPG~~~~~~~~~~~~~-----~~d~~~~vvd~~~~~~~~~~~~~~~~-----~~~~~~~~i~~inK~  211 (211)
                      ..+.++|+|||.++...+..+..     ..+.+++++|+..+..++......+.     ...+.| .++++||+
T Consensus        95 ~~~~~id~~g~~~~~~~~~~~~~~~~~~~~~~~v~vvd~~~~~~~~~~~~~~l~~~~~~~~~~~~-~ivvinK~  167 (244)
T d1yrba1          95 NDYVLIDTPGQMETFLFHEFGVRLMENLPYPLVVYISDPEILKKPNDYCFVRFFALLIDLRLGAT-TIPALNKV  167 (244)
T ss_dssp             CSEEEEECCSSHHHHHHSHHHHHHHHTSSSCEEEEEECGGGCCSHHHHHHHHHHHHHHHHHHTSC-EEEEECCG
T ss_pred             cceeeeccccchhHHHHHHHHHHHHhhccCceEEEEeccccccCchhHhhHHHHHHHHHHHhCCC-ceeeeecc
Confidence            45889999999988665555443     34589999999999988876654433     346778 67899996

>d2a5ja1 c.37.1.8 (A:9-181) Rab2b {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab2b
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.33  E-value=0.0001  Score=52.47  Aligned_cols=64  Identities=20%  Similarity=0.136  Sum_probs=46.2

Q ss_pred             CceeEeecCCcccccHhHHhhhccccceEEEEEeccCCCC-cchHHHHHHHHH---cCCCeEEEEEeCC
Q psy9646         147 NRHYSHTDCPGHADYIKNMITGTSQMDGAILVVAATDGAM-PQTREHLLLAKQ---IGVTNIVVFINKF  211 (211)
Q Consensus       147 ~~~~~~iDtPG~~~~~~~~~~~~~~~d~~~~vvd~~~~~~-~~~~~~~~~~~~---~~~~~~i~~inK~  211 (211)
                      ...+.+.|++|++.+..........+|++++|.|...... ..-..++..+.+   .++| ++++.||+
T Consensus        51 ~~~~~i~d~~g~~~~~~~~~~~~~~~d~~ilv~d~~~~~sf~~~~~~~~~~~~~~~~~~p-iilv~nK~  118 (173)
T d2a5ja1          51 QIKLQIWDTAGQESFRSITRSYYRGAAGALLVYDITRRETFNHLTSWLEDARQHSSSNMV-IMLIGNKS  118 (173)
T ss_dssp             EEEEEEECCTTGGGTSCCCHHHHTTCSEEEEEEETTCHHHHHTHHHHHHHHHHHSCTTCE-EEEEEECT
T ss_pred             EEEEEeecccCccchhhHHHHHhhccCEEEEEEeecChHHHHhHHHHHHHHHHhCCCCCe-EEEEecCC
Confidence            3568899999999988777788889999999999765432 223334444433   3455 88899996

>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=97.32  E-value=0.00013  Score=52.35  Aligned_cols=65  Identities=15%  Similarity=-0.001  Sum_probs=45.6

Q ss_pred             CCceeEeecCCcccccHhHHhhhccccceEEEEEeccCCCC-cchHHHHHHHHH-------cCCCeEEEEEeCC
Q psy9646         146 ENRHYSHTDCPGHADYIKNMITGTSQMDGAILVVAATDGAM-PQTREHLLLAKQ-------IGVTNIVVFINKF  211 (211)
Q Consensus       146 ~~~~~~~iDtPG~~~~~~~~~~~~~~~d~~~~vvd~~~~~~-~~~~~~~~~~~~-------~~~~~~i~~inK~  211 (211)
                      ....+.+.||||+.++.......+..+|++++++|...... .....++.....       .++| +++|.||+
T Consensus        49 ~~~~~~~~d~~g~~~~~~~~~~~~~~~~~~i~~~d~~~~~~~~~~~~~~~~i~~~~~~~~~~~ip-~ilv~nK~  121 (184)
T d1vg8a_          49 RLVTMQIWDTAGQERFQSLGVAFYRGADCCVLVFDVTAPNTFKTLDSWRDEFLIQASPRDPENFP-FVVLGNKI  121 (184)
T ss_dssp             CEEEEEEEEECSSGGGSCSCCGGGTTCSEEEEEEETTCHHHHHTHHHHHHHHHHHHCCSSGGGSC-EEEEEECT
T ss_pred             ceEEEEeeecCCcccccccccccccCccEEEEeecccchhhhhcchhhHHHHHHHhccccccCCC-EEEEEEee
Confidence            34568889999999888888888899999999999865332 112223322222       2467 78999995

>d2f7sa1 c.37.1.8 (A:5-190) Rab27b {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab27b
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.30  E-value=9.2e-05  Score=53.29  Aligned_cols=62  Identities=18%  Similarity=0.054  Sum_probs=42.1

Q ss_pred             ceeEeecCCcccccHhHHhhhccccceEEEEEeccCCCCcchHHHHHHHHH------cCCCeEEEEEeCC
Q psy9646         148 RHYSHTDCPGHADYIKNMITGTSQMDGAILVVAATDGAMPQTREHLLLAKQ------IGVTNIVVFINKF  211 (211)
Q Consensus       148 ~~~~~iDtPG~~~~~~~~~~~~~~~d~~~~vvd~~~~~~~~~~~~~~~~~~------~~~~~~i~~inK~  211 (211)
                      ..+.+.||||+++|.......+..+|++++|.|......-+  .+..+...      ...++++++.||+
T Consensus        64 ~~~~i~dt~G~e~~~~~~~~~~~~~~~~i~v~d~~~~~s~~--~~~~~~~~~~~~~~~~~~~iilv~nK~  131 (186)
T d2f7sa1          64 VHLQLWDTAGQERFRSLTTAFFRDAMGFLLMFDLTSQQSFL--NVRNWMSQLQANAYCENPDIVLIGNKA  131 (186)
T ss_dssp             EEEEEEEEESHHHHHHHHHHHHTTCCEEEEEEETTCHHHHH--HHHHHHHTCCCCCTTTCCEEEEEEECT
T ss_pred             EEeccccCCcchhhHHHHHHHHhcCCEEEEEEeccccccce--eeeeccchhhhhccCCCceEEEEeeec
Confidence            46889999999999877777789999999999975532211  12222211      1224477899995

>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=97.26  E-value=0.00035  Score=53.17  Aligned_cols=79  Identities=10%  Similarity=0.003  Sum_probs=50.7

Q ss_pred             ceEEeEeEEEeeeCCceeEeecCCcccc-------cHhHHhh--hccccceEEEEEeccCC-CCcchHHHHHHHHHc-C-
Q psy9646         133 GITINVAHVEYATENRHYSHTDCPGHAD-------YIKNMIT--GTSQMDGAILVVAATDG-AMPQTREHLLLAKQI-G-  200 (211)
Q Consensus       133 g~tv~~~~~~~~~~~~~~~~iDtPG~~~-------~~~~~~~--~~~~~d~~~~vvd~~~~-~~~~~~~~~~~~~~~-~-  200 (211)
                      +.|.......+...+.++.|+||||..+       ....+..  .....|+++||++.... ....+...++.+... | 
T Consensus        65 ~~T~~~~~~~~~~~g~~i~viDTPGl~~~~~~~~~~~~~i~~~~~~~~~~~il~v~~~~~~r~~~~~~~~l~~l~~~fg~  144 (257)
T d1h65a_          65 SEGPRPVMVSRSRAGFTLNIIDTPGLIEGGYINDMALNIIKSFLLDKTIDVLLYVDRLDAYRVDNLDKLVAKAITDSFGK  144 (257)
T ss_dssp             CCCSSCEEEEEEETTEEEEEEECCCSEETTEECHHHHHHHHHHTTTCEECEEEEEEESSCCCCCHHHHHHHHHHHHHHCG
T ss_pred             CcceeEEEEEEEeccEEEEEEeeecccCCcchHHHHHHHHHHHHhcCCCCeEEEEEECCCCCCCHHHHHHHHHHHHHcch
Confidence            4555555666777889999999999653       2222222  22456888999887654 556666665555432 2 


Q ss_pred             --CCeEEEEEeCC
Q psy9646         201 --VTNIVVFINKF  211 (211)
Q Consensus       201 --~~~~i~~inK~  211 (211)
                        .+++|+++||+
T Consensus       145 ~~~~~~ivv~t~~  157 (257)
T d1h65a_         145 GIWNKAIVALTHA  157 (257)
T ss_dssp             GGGGGEEEEEECC
T ss_pred             hhhhCEEEEEECc
Confidence              23478899985

>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=97.25  E-value=0.00036  Score=49.29  Aligned_cols=101  Identities=12%  Similarity=0.015  Sum_probs=58.6

Q ss_pred             hhhhhhhcccccccccchhhcccceEEeEeEEEeee--CCceeEeecCCcccccHhHHhhhccccceEEEEEeccCCCC-
Q psy9646         110 ADKKLAKVKQYADIDNAPEEKARGITINVAHVEYAT--ENRHYSHTDCPGHADYIKNMITGTSQMDGAILVVAATDGAM-  186 (211)
Q Consensus       110 ~~~~~~~f~~~i~~~~~~~e~~rg~tv~~~~~~~~~--~~~~~~~iDtPG~~~~~~~~~~~~~~~d~~~~vvd~~~~~~-  186 (211)
                      +..|++++..++.....+.+................  ....+.+.||||++.|......-+..+|+++++.|...... 
T Consensus        15 ~~vGKTsLi~~l~~~~f~~~~~~t~~~~~~~~~~~~~~~~~~~~~~d~~g~~~~~~~~~~~~~~~~~~ilv~d~~~~~s~   94 (170)
T d1r2qa_          15 SAVGKSSLVLRFVKGQFHEFQESTIGAAFLTQTVCLDDTTVKFEIWDTAGQERYHSLAPMYYRGAQAAIVVYDITNEESF   94 (170)
T ss_dssp             TTSSHHHHHHHHHHSCCCTTCCCCSSEEEEEEEEEETTEEEEEEEEEECCSGGGGGGHHHHHTTCSEEEEEEETTCHHHH
T ss_pred             CCcCHHHHHHHHHhCCCCcccccccccccccceeeccceEEEEEeccCCCchhhhhhHHHHhhCcceEEEEeccchhhHH
Confidence            344555555544333322222222222222223333  33557789999999998777777899999999999765432 


Q ss_pred             cchHHHHHHHHH---cCCCeEEEEEeCC
Q psy9646         187 PQTREHLLLAKQ---IGVTNIVVFINKF  211 (211)
Q Consensus       187 ~~~~~~~~~~~~---~~~~~~i~~inK~  211 (211)
                      .+....+....+   .++| ++++.||+
T Consensus        95 ~~~~~~~~~~~~~~~~~~~-iilvgnK~  121 (170)
T d1r2qa_          95 ARAKNWVKELQRQASPNIV-IALSGNKA  121 (170)
T ss_dssp             HHHHHHHHHHHHHSCTTCE-EEEEEECG
T ss_pred             HHHHHHhhhhhhccCCCce-EEeecccc
Confidence            223334344333   2455 77889995

>d1xtqa1 c.37.1.8 (A:3-169) GTP-binding protein RheB {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: GTP-binding protein RheB
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.19  E-value=0.00012  Score=51.72  Aligned_cols=64  Identities=20%  Similarity=0.160  Sum_probs=44.0

Q ss_pred             CceeEeecCCcccccHhHHhhhccccceEEEEEeccCCCCcch-HHHHHHH----HHcCCCeEEEEEeCC
Q psy9646         147 NRHYSHTDCPGHADYIKNMITGTSQMDGAILVVAATDGAMPQT-REHLLLA----KQIGVTNIVVFINKF  211 (211)
Q Consensus       147 ~~~~~~iDtPG~~~~~~~~~~~~~~~d~~~~vvd~~~~~~~~~-~~~~~~~----~~~~~~~~i~~inK~  211 (211)
                      ...+.+.||||...|......-...+|++++|.|......-.. ..++..+    ...++| ++++.||+
T Consensus        51 ~~~l~i~d~~g~~~~~~~~~~~~~~~d~~ilv~d~~~~~s~~~~~~~~~~i~~~~~~~~~p-iilvgnK~  119 (167)
T d1xtqa1          51 EYHLQLVDTAGQDEYSIFPQTYSIDINGYILVYSVTSIKSFEVIKVIHGKLLDMVGKVQIP-IMLVGNKK  119 (167)
T ss_dssp             EEEEEEEECCCCCTTCCCCGGGTSSCCEEEEEEETTCHHHHHHHHHHHHHHHHHHCSSCCC-EEEEEECT
T ss_pred             EEEeeecccccccccccccchhhhhhhhhhhhcccchhhhhhhhhhhhhhhhhcccccccc-eeeecccc
Confidence            3567789999998886666677789999999999865543222 2222222    234567 88899995

>d1u8za_ c.37.1.8 (A:) Ras-related protein RalA {Cotton-top tamarin (Saguinus oedipus) [TaxId: 9490]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Ras-related protein RalA
species: Cotton-top tamarin (Saguinus oedipus) [TaxId: 9490]

Probab=97.16  E-value=0.00023  Score=50.40  Aligned_cols=64  Identities=17%  Similarity=0.070  Sum_probs=42.4

Q ss_pred             CceeEeecCCcccccHhHHhhhccccceEEEEEeccCCCCcc-hHHHHHHHHH----cCCCeEEEEEeCC
Q psy9646         147 NRHYSHTDCPGHADYIKNMITGTSQMDGAILVVAATDGAMPQ-TREHLLLAKQ----IGVTNIVVFINKF  211 (211)
Q Consensus       147 ~~~~~~iDtPG~~~~~~~~~~~~~~~d~~~~vvd~~~~~~~~-~~~~~~~~~~----~~~~~~i~~inK~  211 (211)
                      ...+.+.|+||+.++......-+..+|++++|.|......-. ...++..+.+    .++| +++|.||+
T Consensus        51 ~~~l~i~d~~g~~~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~~~~~~~i~~~~~~~~~p-iiivgnK~  119 (168)
T d1u8za_          51 EVQIDILDTAGQEDYAAIRDNYFRSGEGFLCVFSITEMESFAATADFREQILRVKEDENVP-FLLVGNKS  119 (168)
T ss_dssp             EEEEEEEECCC---CHHHHHHHHHHCSEEEEEEETTCHHHHHHHHHHHHHHHHHHCCTTSC-EEEEEECG
T ss_pred             cccccccccccccchhhhhhhcccccceeEEEeeccchhhhhhHHHHHHHHHHhhCCCCCc-EEEEeccc
Confidence            356778999999998877777788999999999986543322 2223333322    3567 88899995

>d1x1ra1 c.37.1.8 (A:10-178) Ras-related protein M-Ras (XRas) {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Ras-related protein M-Ras (XRas)
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=97.14  E-value=0.00015  Score=51.38  Aligned_cols=64  Identities=17%  Similarity=0.174  Sum_probs=44.8

Q ss_pred             CceeEeecCCcccccHhHHhhhccccceEEEEEeccCCCC-cchHHHHHHH----HHcCCCeEEEEEeCC
Q psy9646         147 NRHYSHTDCPGHADYIKNMITGTSQMDGAILVVAATDGAM-PQTREHLLLA----KQIGVTNIVVFINKF  211 (211)
Q Consensus       147 ~~~~~~iDtPG~~~~~~~~~~~~~~~d~~~~vvd~~~~~~-~~~~~~~~~~----~~~~~~~~i~~inK~  211 (211)
                      ...+.+.|++|++.+......-+..+|++++|.|..+.-. ..-..++...    ...++| +|++.||+
T Consensus        51 ~~~~~i~d~~g~~~~~~~~~~~~~~~~~~llv~d~~d~~Sf~~~~~~~~~i~~~~~~~~~p-~ilvgnK~  119 (169)
T d1x1ra1          51 WAILDVLDTAGQEEFSAMREQYMRTGDGFLIVYSVTDKASFEHVDRFHQLILRVKDRESFP-MILVANKV  119 (169)
T ss_dssp             EEEEEEEECCSCGGGCSSHHHHHHHCSEEEEEEETTCHHHHHTHHHHHHHHHHHHTSSCCC-EEEEEECT
T ss_pred             cccccccccccccccccchhhhhhhccEEEEecccccchhhhccchhhHHHHhhccccCcc-EEEEeccc
Confidence            3567799999999987776677789999999999875432 2222333332    223567 78899995

>d2atxa1 c.37.1.8 (A:9-193) RhoQ {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: RhoQ
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.12  E-value=0.00024  Score=51.11  Aligned_cols=63  Identities=16%  Similarity=0.112  Sum_probs=44.8

Q ss_pred             ceeEeecCCcccccHhHHhhhccccceEEEEEeccCCCCcc-h-HHHHHHHHH--cCCCeEEEEEeCC
Q psy9646         148 RHYSHTDCPGHADYIKNMITGTSQMDGAILVVAATDGAMPQ-T-REHLLLAKQ--IGVTNIVVFINKF  211 (211)
Q Consensus       148 ~~~~~iDtPG~~~~~~~~~~~~~~~d~~~~vvd~~~~~~~~-~-~~~~~~~~~--~~~~~~i~~inK~  211 (211)
                      ..+.+.||||++.|.......+..+|++++|.|..+...-+ . ..+....+.  .++| +++|.||+
T Consensus        57 ~~l~i~D~~g~e~~~~~~~~~~~~a~~~ilv~d~t~~~Sf~~~~~~~~~~~~~~~~~~~-~ilvgnK~  123 (185)
T d2atxa1          57 YLLGLYDTAGQEDYDRLRPLSYPMTDVFLICFSVVNPASFQNVKEEWVPELKEYAPNVP-FLLIGTQI  123 (185)
T ss_dssp             EEEEEECCCCSSSSTTTGGGGCTTCSEEEEEEETTCHHHHHHHHHTHHHHHHHHSTTCC-EEEEEECT
T ss_pred             EEeecccccccchhhhhhhhcccccceeeeccccchHHHHHHHHHHHHHHHHhcCCCCC-eeEeeecc
Confidence            55779999999998877778889999999999986543211 1 123333332  3566 78899995

>d2fn4a1 c.37.1.8 (A:24-196) r-Ras {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: r-Ras
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.12  E-value=0.00015  Score=51.60  Aligned_cols=63  Identities=16%  Similarity=0.078  Sum_probs=44.5

Q ss_pred             ceeEeecCCcccccHhHHhhhccccceEEEEEeccCCCCcc-hHHHHHHHH----HcCCCeEEEEEeCC
Q psy9646         148 RHYSHTDCPGHADYIKNMITGTSQMDGAILVVAATDGAMPQ-TREHLLLAK----QIGVTNIVVFINKF  211 (211)
Q Consensus       148 ~~~~~iDtPG~~~~~~~~~~~~~~~d~~~~vvd~~~~~~~~-~~~~~~~~~----~~~~~~~i~~inK~  211 (211)
                      ..+.+.||+|+.++......-+..+|++++|.|......-. -..++..+.    ..++| +++|.||+
T Consensus        54 ~~l~~~d~~g~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~p-~ilvgnK~  121 (173)
T d2fn4a1          54 ARLDILDTAGQEEFGAMREQYMRAGHGFLLVFAINDRQSFNEVGKLFTQILRVKDRDDFP-VVLVGNKA  121 (173)
T ss_dssp             EEEEEEECCCTTTTSCCHHHHHHHCSEEEEEEETTCHHHHHHHHHHHHHHHHHHTSSCCC-EEEEEECG
T ss_pred             eeeeccccccccccccccchhhccceeeeeecccccccccchhhhhhHHHHHHhccCCCc-eEEEEEee
Confidence            45778999999998877777788999999999987553221 222333222    23566 78899995

>d2erya1 c.37.1.8 (A:10-180) r-Ras2 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: r-Ras2
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.08  E-value=0.00024  Score=50.29  Aligned_cols=63  Identities=14%  Similarity=0.115  Sum_probs=40.5

Q ss_pred             ceeEeecCCcccccHhHHhhhccccceEEEEEeccCCCC-cchHHHHHH----HHHcCCCeEEEEEeCC
Q psy9646         148 RHYSHTDCPGHADYIKNMITGTSQMDGAILVVAATDGAM-PQTREHLLL----AKQIGVTNIVVFINKF  211 (211)
Q Consensus       148 ~~~~~iDtPG~~~~~~~~~~~~~~~d~~~~vvd~~~~~~-~~~~~~~~~----~~~~~~~~~i~~inK~  211 (211)
                      ..+.+.||||+.++.......+..+|++++|.|...... ..-..++..    ......| +|++.||+
T Consensus        53 ~~~~~~d~~g~~~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~p-~ilvgnK~  120 (171)
T d2erya1          53 ARLDILDTAGQEEFGAMREQYMRTGEGFLLVFSVTDRGSFEEIYKFQRQILRVKDRDEFP-MILIGNKA  120 (171)
T ss_dssp             EEEEEEECC----CCHHHHHHHHHCSEEEEEEETTCHHHHHTHHHHHHHHHHHHTSSCCS-EEEEEECT
T ss_pred             cccccccccccccccccccccccccceEEEeeccccccchhhHHHHhHHHHhhcccCCCC-EEEEEecc
Confidence            468899999999998888888899999999999765432 112222222    2223456 77889995

>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=97.07  E-value=0.00029  Score=49.68  Aligned_cols=64  Identities=19%  Similarity=0.137  Sum_probs=38.6

Q ss_pred             CceeEeecCCcccccHhHHhhhccccceEEEEEeccCCCCcch-HHHHHHHH---HcCCCeEEEEEeCC
Q psy9646         147 NRHYSHTDCPGHADYIKNMITGTSQMDGAILVVAATDGAMPQT-REHLLLAK---QIGVTNIVVFINKF  211 (211)
Q Consensus       147 ~~~~~~iDtPG~~~~~~~~~~~~~~~d~~~~vvd~~~~~~~~~-~~~~~~~~---~~~~~~~i~~inK~  211 (211)
                      ...+.+.||+|..++.......+..+|++++|.|......-+. ...++...   ....| ++++.||+
T Consensus        51 ~~~~~~~d~~g~~~~~~~~~~~~~~~~~~i~v~d~~~~~Sf~~~~~~~~~~~~~~~~~~~-~ilvgnK~  118 (167)
T d1z08a1          51 RVNLAIWDTAGQERFHALGPIYYRDSNGAILVYDITDEDSFQKVKNWVKELRKMLGNEIC-LCIVGNKI  118 (167)
T ss_dssp             EEEEEEEECCCC-------CCSSTTCSEEEEEEETTCHHHHHHHHHHHHHHHHHHGGGSE-EEEEEECG
T ss_pred             cceeeeeccCCcceecccchhhccCCceeEEEEeCCchhHHHhhhhhhhhcccccccccc-eeeecccc
Confidence            4678899999999887777778899999999999865533111 22332222   23444 77888995

>d2ngra_ c.37.1.8 (A:) CDC42 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: CDC42
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.04  E-value=0.00034  Score=50.48  Aligned_cols=63  Identities=10%  Similarity=0.067  Sum_probs=45.1

Q ss_pred             ceeEeecCCcccccHhHHhhhccccceEEEEEeccCCCCcch-H-HHHHHHHH--cCCCeEEEEEeCC
Q psy9646         148 RHYSHTDCPGHADYIKNMITGTSQMDGAILVVAATDGAMPQT-R-EHLLLAKQ--IGVTNIVVFINKF  211 (211)
Q Consensus       148 ~~~~~iDtPG~~~~~~~~~~~~~~~d~~~~vvd~~~~~~~~~-~-~~~~~~~~--~~~~~~i~~inK~  211 (211)
                      ..+.+.||||+++|.......+..+|++++|.|......-+. . .+......  .+.| ++++.||+
T Consensus        51 ~~l~i~D~~g~~~~~~~~~~~~~~~~~~ilv~d~~~~~Sf~~~~~~~~~~~~~~~~~~~-i~lvgnK~  117 (191)
T d2ngra_          51 YTLGLFDTAGQEDYDRLRPLSYPQTDVFLVCFSVVSPSSFENVKEKWVPEITHHCPKTP-FLLVGTQI  117 (191)
T ss_dssp             EEEEEEEECCSGGGTTTGGGGCTTCSEEEEEEETTCHHHHHHHHHTHHHHHHHHCTTCC-EEEEEECG
T ss_pred             eeeeccccccchhhhhhhhhcccccceeecccccchHHHHHHHHHHHHHHHhhcCCCCc-eEEEeccc
Confidence            468889999999998888888899999999999865532111 1 12333322  3566 88899995

>d1wmsa_ c.37.1.8 (A:) Rab9a {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab9a
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.02  E-value=0.0013  Score=46.46  Aligned_cols=63  Identities=13%  Similarity=0.003  Sum_probs=45.1

Q ss_pred             ceeEeecCCcccccHhHHhhhccccceEEEEEeccCCCCc-chHHHHHHHHH-------cCCCeEEEEEeCC
Q psy9646         148 RHYSHTDCPGHADYIKNMITGTSQMDGAILVVAATDGAMP-QTREHLLLAKQ-------IGVTNIVVFINKF  211 (211)
Q Consensus       148 ~~~~~iDtPG~~~~~~~~~~~~~~~d~~~~vvd~~~~~~~-~~~~~~~~~~~-------~~~~~~i~~inK~  211 (211)
                      ..+.+.|+||..++.......+..+|+++++.|......- ....+.+.+..       .++| +++|.||+
T Consensus        55 ~~~~i~d~~g~~~~~~~~~~~~~~~~~~i~~~d~~~~~s~~~~~~~~~~i~~~~~~~~~~~~p-iilVgnK~  125 (174)
T d1wmsa_          55 VTMQIWDTAGQERFRSLRTPFYRGSDCCLLTFSVDDSQSFQNLSNWKKEFIYYADVKEPESFP-FVILGNKI  125 (174)
T ss_dssp             EEEEEEECCCCGGGHHHHGGGGTTCSEEEEEEETTCHHHHHTHHHHHHHHHHHHTCSCTTTSC-EEEEEECT
T ss_pred             eeEeeecccCcceehhhhhhhhhccceEEEEEeeecccccchhhhHHHHHHHHhccccCCCce-EEEecccc
Confidence            5567899999999988888999999999999998654321 12222222222       2567 88999995

>d2erxa1 c.37.1.8 (A:6-176) di-Ras2 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: di-Ras2
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.01  E-value=0.00047  Score=48.62  Aligned_cols=63  Identities=17%  Similarity=0.077  Sum_probs=44.2

Q ss_pred             ceeEeecCCcccccHhHHhhhccccceEEEEEeccCCCC-cchHHHHHHHH-----HcCCCeEEEEEeCC
Q psy9646         148 RHYSHTDCPGHADYIKNMITGTSQMDGAILVVAATDGAM-PQTREHLLLAK-----QIGVTNIVVFINKF  211 (211)
Q Consensus       148 ~~~~~iDtPG~~~~~~~~~~~~~~~d~~~~vvd~~~~~~-~~~~~~~~~~~-----~~~~~~~i~~inK~  211 (211)
                      ..+.+.||+|.+.|......-...+|++++|.|...... .....++..+.     ..++| +++|.||+
T Consensus        50 ~~l~~~d~~g~~~~~~~~~~~~~~a~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~p-iilVgnK~  118 (171)
T d2erxa1          50 CTLQITDTTGSHQFPAMQRLSISKGHAFILVYSITSRQSLEELKPIYEQICEIKGDVESIP-IMLVGNKC  118 (171)
T ss_dssp             EEEEEEECCSCSSCHHHHHHHHHHCSEEEEEEETTCHHHHHTTHHHHHHHHHHHC---CCC-EEEEEECG
T ss_pred             ceeccccccccccccccccccccceeEEEEEeecccccchhcccchhhhhhhhhccCCCCc-EEEEeecc
Confidence            356779999999998888888899999999999865322 22233333322     23466 78899995

>d1ek0a_ c.37.1.8 (A:) Ypt51 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Ypt51
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=96.99  E-value=0.00084  Score=47.23  Aligned_cols=66  Identities=14%  Similarity=0.054  Sum_probs=45.3

Q ss_pred             CCceeEeecCCcccccHhHHhhhccccceEEEEEeccCCCCcc-hHHHHHHHHH--cCCCeEEEEEeCC
Q psy9646         146 ENRHYSHTDCPGHADYIKNMITGTSQMDGAILVVAATDGAMPQ-TREHLLLAKQ--IGVTNIVVFINKF  211 (211)
Q Consensus       146 ~~~~~~~iDtPG~~~~~~~~~~~~~~~d~~~~vvd~~~~~~~~-~~~~~~~~~~--~~~~~~i~~inK~  211 (211)
                      ....+.+.||+|++.+.......+..+|+++++.|......-. ...+++....  ...++++++.||+
T Consensus        50 ~~~~l~i~d~~g~~~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~~v~nk~  118 (170)
T d1ek0a_          50 HTVKFEIWDTAGQERFASLAPMYYRNAQAALVVYDVTKPQSFIKARHWVKELHEQASKDIIIALVGNKI  118 (170)
T ss_dssp             EEEEEEEEEECCSGGGGGGHHHHHTTCSEEEEEEETTCHHHHHHHHHHHHHHHHHSCTTCEEEEEEECG
T ss_pred             ccccccccccCCchhHHHHHHHHHhccceEEEEEeCCcccchhhhhhhhhhhccccccccceeeeeccc
Confidence            3357889999999999888888899999999999987643222 2223222222  2334477889984

>d1z0ja1 c.37.1.8 (A:2-168) Rab-22a {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab-22a
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=96.94  E-value=0.00056  Score=48.09  Aligned_cols=63  Identities=14%  Similarity=0.066  Sum_probs=42.9

Q ss_pred             ceeEeecCCcccccHhHHhhhccccceEEEEEeccCCCCcc-hHHHHHHHHH---cCCCeEEEEEeCC
Q psy9646         148 RHYSHTDCPGHADYIKNMITGTSQMDGAILVVAATDGAMPQ-TREHLLLAKQ---IGVTNIVVFINKF  211 (211)
Q Consensus       148 ~~~~~iDtPG~~~~~~~~~~~~~~~d~~~~vvd~~~~~~~~-~~~~~~~~~~---~~~~~~i~~inK~  211 (211)
                      ..+.+.||+|++.+.......+..+|+++++.|......-. -+.++.....   ...| +++|.||+
T Consensus        53 ~~~~i~d~~g~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~-iilvgnK~  119 (167)
T d1z0ja1          53 HKFLIWDTAGLERFRALAPMYYRGSAAAIIVYDITKEETFSTLKNWVRELRQHGPPSIV-VAIAGNKC  119 (167)
T ss_dssp             EEEEEEEECCSGGGGGGTHHHHTTCSEEEEEEETTCHHHHHHHHHHHHHHHHHSCTTSE-EEEEEECT
T ss_pred             cceeeeecCCchhhhHHHHHHHhhccceEEEeeechhhhhhhHHHhhhhhhhccCCcce-EEEecccc
Confidence            44668999999998877778889999999999975433211 1222222222   3344 88899995

>d1c1ya_ c.37.1.8 (A:) Rap1A {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rap1A
species: Human (Homo sapiens) [TaxId: 9606]

Probab=96.90  E-value=0.00068  Score=47.62  Aligned_cols=65  Identities=14%  Similarity=0.058  Sum_probs=46.6

Q ss_pred             CCceeEeecCCcccccHhHHhhhccccceEEEEEeccCCCC-cchHHHHHHHHH----cCCCeEEEEEeCC
Q psy9646         146 ENRHYSHTDCPGHADYIKNMITGTSQMDGAILVVAATDGAM-PQTREHLLLAKQ----IGVTNIVVFINKF  211 (211)
Q Consensus       146 ~~~~~~~iDtPG~~~~~~~~~~~~~~~d~~~~vvd~~~~~~-~~~~~~~~~~~~----~~~~~~i~~inK~  211 (211)
                      ....+.+.|++|+..+......-+..+|+++++.|...... .....++..+.+    .++| +|++.||+
T Consensus        49 ~~~~~~~~d~~g~~~~~~~~~~~~~~~~~~ilv~d~~~~~sf~~~~~~~~~~~~~~~~~~~p-~ilvgnK~  118 (167)
T d1c1ya_          49 QQCMLEILDTAGTEQFTAMRDLYMKNGQGFALVYSITAQSTFNDLQDLREQILRVKDTEDVP-MILVGNKC  118 (167)
T ss_dssp             CEEEEEEEEECSSCSSTTHHHHHHHHCSEEEEEEETTCHHHHHTHHHHHHHHHHHHCCSCCC-EEEEEECT
T ss_pred             eEEEeccccccCcccccccccccccccceeEEeeeccchhhhHhHHHHHHHHHHhcCCCCCe-EEEEEEec
Confidence            34568889999999988777778889999999999876533 222334443322    2456 78999995

>d1m7ba_ c.37.1.8 (A:) RhoE (RND3) {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: RhoE (RND3)
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=96.90  E-value=0.00053  Score=48.99  Aligned_cols=64  Identities=9%  Similarity=-0.018  Sum_probs=44.1

Q ss_pred             CceeEeecCCcccccHhHHhhhccccceEEEEEeccCCCCcc-hHH-HHHHHHH--cCCCeEEEEEeCC
Q psy9646         147 NRHYSHTDCPGHADYIKNMITGTSQMDGAILVVAATDGAMPQ-TRE-HLLLAKQ--IGVTNIVVFINKF  211 (211)
Q Consensus       147 ~~~~~~iDtPG~~~~~~~~~~~~~~~d~~~~vvd~~~~~~~~-~~~-~~~~~~~--~~~~~~i~~inK~  211 (211)
                      ...+.+.|++|++.+......-+..+|++++|.|..+...-+ ... +...+..  .+.| +|+|.||+
T Consensus        49 ~~~~~i~D~~g~~~~~~~~~~~~~~~~~~ilv~d~~~~~Sf~~~~~~~~~~~~~~~~~~~-iilVgnK~  116 (179)
T d1m7ba_          49 RIELSLWDTSGSPYYDNVRPLSYPDSDAVLICFDISRPETLDSVLKKWKGEIQEFCPNTK-MLLVGCKS  116 (179)
T ss_dssp             EEEEEEEEECCSGGGTTTGGGGCTTCSEEEEEEETTCHHHHHHHHHTHHHHHHHHCTTCE-EEEEEECG
T ss_pred             EEeeccccccccccccccccchhhhhhhhheeeecccCCCHHHHHHHHHHHHhccCCcce-EEEEEecc
Confidence            355778999999988777777789999999999986554211 122 2222222  3555 88999995

>d1g7sa1 b.43.3.1 (A:228-328) Initiation factor IF2/eIF5b, domains 2 and 4 {Archaeon Methanobacterium thermoautotrophicum [TaxId: 145262]}

class: All beta proteins
fold: Reductase/isomerase/elongation factor common domain
superfamily: Translation proteins
family: Elongation factors
domain: Initiation factor IF2/eIF5b, domains 2 and 4
species: Archaeon Methanobacterium thermoautotrophicum [TaxId: 145262]

Probab=96.86  E-value=0.0062  Score=39.04  Aligned_cols=74  Identities=16%  Similarity=0.190  Sum_probs=58.0

Q ss_pred             CCCeeEEEeeEEeecCCcEEEEEEEEEEEEecCCEEEEeecCceeeEEEEEEEe-----------c-ceecceecccCce
Q psy9646          19 DKPFYLPVEHTYSIPGRGTVVTGRLERGIVKKGMECEFTGYGRQFKTTVTGIEM-----------F-HKILDEAQAGDQL   86 (211)
Q Consensus        19 ~~p~~~~v~~~~~~~~~G~v~~G~v~~G~i~~g~~v~i~p~~~~~~~~v~~i~~-----------~-~~~~~~a~~G~~v   86 (211)
                      |+|.+=.|-++...++.|.+.+--|.+|++++||.+.+........++|+++..           . .+.+++|.|..-|
T Consensus         2 d~~a~G~VlEs~~dkg~G~~atviv~~GtLk~GD~iv~g~~~G~i~~~iraLl~p~pl~emr~~~~~~~~vke~~aa~gV   81 (101)
T d1g7sa1           2 DSPARGTILEVKEETGLGMTIDAVIYDGILRKDDTIAMMTSKDVISTRIRSLLKPRPLEEMRESRKKFQKVDEVVAAAGI   81 (101)
T ss_dssp             TSBCEEEEEEEEEETTEEEEEEEEEEESEEETTCEEEEEBSSSEEEEECCEEEEECCCC----CCCSEEECSEEESSEEE
T ss_pred             CCCcEEEEEEEEEcCCCCeeEEEEEEcCEEccCCEEEEecCcCCEEEEeecccCCcchhhhhccccCCeECcEEeCCCce
Confidence            567777888888899999999999999999999999997665456777887753           1 1577888887777


Q ss_pred             ehhccC
Q psy9646          87 GALVKG   92 (211)
Q Consensus        87 ~~~l~~   92 (211)
                      -+.-.+
T Consensus        82 kI~a~g   87 (101)
T d1g7sa1          82 KIVAPG   87 (101)
T ss_dssp             EEECSS
T ss_pred             EEEcCC
Confidence            664343

>d1ctqa_ c.37.1.8 (A:) cH-p21 Ras protein {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: cH-p21 Ras protein
species: Human (Homo sapiens) [TaxId: 9606]

Probab=96.80  E-value=0.0013  Score=46.01  Aligned_cols=63  Identities=17%  Similarity=0.093  Sum_probs=45.6

Q ss_pred             ceeEeecCCcccccHhHHhhhccccceEEEEEeccCCCC-cchHHHHHHHHH----cCCCeEEEEEeCC
Q psy9646         148 RHYSHTDCPGHADYIKNMITGTSQMDGAILVVAATDGAM-PQTREHLLLAKQ----IGVTNIVVFINKF  211 (211)
Q Consensus       148 ~~~~~iDtPG~~~~~~~~~~~~~~~d~~~~vvd~~~~~~-~~~~~~~~~~~~----~~~~~~i~~inK~  211 (211)
                      ..+.+.|+||...+.......+..+|++++|.|...... .....++..+.+    .++| ++++.||+
T Consensus        51 ~~l~~~d~~~~~~~~~~~~~~~~~~~~~iiv~d~~~~~s~~~~~~~~~~i~~~~~~~~~p-iilv~nK~  118 (166)
T d1ctqa_          51 CLLDILDTAGQEEYSAMRDQYMRTGEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVP-MVLVGNKC  118 (166)
T ss_dssp             EEEEEEEECCCGGGHHHHHHHHHHCSEEEEEEETTCHHHHHTHHHHHHHHHHHHTCSSCC-EEEEEECT
T ss_pred             eeeeeeeccCccccccchhhhhhcccccceeecccccccHHHHHHHHHHHHHhcCCCCCe-EEEEeccc
Confidence            457789999999998888888899999999999865432 222333343332    3466 88999995

>d1kaoa_ c.37.1.8 (A:) Rap2a {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rap2a
species: Human (Homo sapiens) [TaxId: 9606]

Probab=96.80  E-value=0.00057  Score=48.00  Aligned_cols=63  Identities=14%  Similarity=0.044  Sum_probs=44.8

Q ss_pred             ceeEeecCCcccccHhHHhhhccccceEEEEEeccCCCCc-chHHHHHHHHH----cCCCeEEEEEeCC
Q psy9646         148 RHYSHTDCPGHADYIKNMITGTSQMDGAILVVAATDGAMP-QTREHLLLAKQ----IGVTNIVVFINKF  211 (211)
Q Consensus       148 ~~~~~iDtPG~~~~~~~~~~~~~~~d~~~~vvd~~~~~~~-~~~~~~~~~~~----~~~~~~i~~inK~  211 (211)
                      ..+.+.|++|...+......-...+|+++++.|......- ....++..+..    .++| +++|.||+
T Consensus        51 ~~l~~~d~~g~~~~~~~~~~~~~~a~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~p-iilvgnK~  118 (167)
T d1kaoa_          51 SVLEILDTAGTEQFASMRDLYIKNGQGFILVYSLVNQQSFQDIKPMRDQIIRVKRYEKVP-VILVGNKV  118 (167)
T ss_dssp             EEEEEEECCCTTCCHHHHHHHHHHCSEEEEEEETTCHHHHHHHHHHHHHHHHHTTTSCCC-EEEEEECG
T ss_pred             EeeccccCCCccccccchHHHhhcccceeeeeeecchhhhhhhhchhhhhhhhccCCCCC-EEEEEEcc
Confidence            4577899999999988888888999999999998644321 12223222222    3466 88999995

>d1mh1a_ c.37.1.8 (A:) Rac {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rac
species: Human (Homo sapiens) [TaxId: 9606]

Probab=96.77  E-value=0.00072  Score=48.28  Aligned_cols=65  Identities=15%  Similarity=0.151  Sum_probs=45.4

Q ss_pred             CCceeEeecCCcccccHhHHhhhccccceEEEEEeccCCCCcch-H-HHHHHHHH--cCCCeEEEEEeCC
Q psy9646         146 ENRHYSHTDCPGHADYIKNMITGTSQMDGAILVVAATDGAMPQT-R-EHLLLAKQ--IGVTNIVVFINKF  211 (211)
Q Consensus       146 ~~~~~~~iDtPG~~~~~~~~~~~~~~~d~~~~vvd~~~~~~~~~-~-~~~~~~~~--~~~~~~i~~inK~  211 (211)
                      ....+.+.|++|++.|.......+..+|++++|.|......-+. . .+......  .++| +++|.||+
T Consensus        51 ~~~~~~~~d~~g~~~~~~~~~~~~~~~~~~ilv~d~~~~~sf~~i~~~~~~~~~~~~~~~p-iilvgnK~  119 (183)
T d1mh1a_          51 KPVNLGLWDTAGQEDYDRLRPLSYPQTDVSLICFSLVSPASFENVRAKWYPEVRHHCPNTP-IILVGTKL  119 (183)
T ss_dssp             EEEEEEEECCCCSGGGTTTGGGGCTTCSEEEEEEETTCHHHHHHHHHTHHHHHHHHSTTSC-EEEEEECH
T ss_pred             cceEEEeecccccccchhhhhhcccccceeeeeeccchHHHHHHHHHHHHHHHHHhCCCCc-EEEEeecc
Confidence            33557789999999998888888899999999999865432111 1 12232222  3467 88999994

>d1z06a1 c.37.1.8 (A:32-196) Rab-33b {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab-33b
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=96.74  E-value=0.0012  Score=46.00  Aligned_cols=70  Identities=19%  Similarity=0.175  Sum_probs=46.1

Q ss_pred             EEeeeCCceeEeecCCcccccHhHHh-hhccccceEEEEEeccCCCC-cchHHHHHHHHH----cCCCeEEEEEeCC
Q psy9646         141 VEYATENRHYSHTDCPGHADYIKNMI-TGTSQMDGAILVVAATDGAM-PQTREHLLLAKQ----IGVTNIVVFINKF  211 (211)
Q Consensus       141 ~~~~~~~~~~~~iDtPG~~~~~~~~~-~~~~~~d~~~~vvd~~~~~~-~~~~~~~~~~~~----~~~~~~i~~inK~  211 (211)
                      ..+......+.+.|++|...+..... .-+..+|++++|.|...... ..-..++..+.+    .++| ++++.||+
T Consensus        44 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~d~~ilv~d~~~~~s~~~~~~~~~~i~~~~~~~~~p-i~lvgnK~  119 (165)
T d1z06a1          44 VDIDGERIKIQLWDTAGQERFRKSMVQHYYRNVHAVVFVYDMTNMASFHSLPAWIEECKQHLLANDIP-RILVGNKC  119 (165)
T ss_dssp             EEETTEEEEEEEEECCCSHHHHTTTHHHHHTTCCEEEEEEETTCHHHHHTHHHHHHHHHHHCCCSCCC-EEEEEECT
T ss_pred             eeeeccceEEEEEeccCchhhccccceeeecCCCceEEEEEeehhhhhhhhhhhhHHHHhhccCCCCe-EEEEeccc
Confidence            33444556788999999887665433 35689999999999865543 222334433333    2566 88999995

>d1zcba2 c.37.1.8 (A:47-75,A:202-372) Transducin (alpha subunit) {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Transducin (alpha subunit)
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=96.48  E-value=0.0024  Score=45.73  Aligned_cols=76  Identities=17%  Similarity=0.249  Sum_probs=47.7

Q ss_pred             EEeEeEEEeeeCCceeEeecCCcccccHhHHhhhccccceEEEEEeccCCCCc--------chHHHH---HH-H---HHc
Q psy9646         135 TINVAHVEYATENRHYSHTDCPGHADYIKNMITGTSQMDGAILVVAATDGAMP--------QTREHL---LL-A---KQI  199 (211)
Q Consensus       135 tv~~~~~~~~~~~~~~~~iDtPG~~~~~~~~~~~~~~~d~~~~vvd~~~~~~~--------~~~~~~---~~-~---~~~  199 (211)
                      |+......+..+...+.+.|++|++.+..........+++++++.|......-        ...+..   .. +   ...
T Consensus        31 TiG~~~~~~~~~~~~~~~~D~~gq~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~  110 (200)
T d1zcba2          31 TKGIHEYDFEIKNVPFKMVDVGGQRSERKRWFECFDSVTSILFLVSSSEFDQVLMEDRQTNRLTESLNIFETIVNNRVFS  110 (200)
T ss_dssp             CSSEEEEEEEETTEEEEEEEECC-------CTTSCTTCCEEEEEEETTCTTCEETTEEEEEHHHHHHHHHHHHHTCGGGT
T ss_pred             eeeeEEEEEeeeeeeeeeecccceeeecccccccccccceeEEEEEcCCcceeeeecccchhhhHHHHHHHHHhhChhhc
Confidence            44445566778888999999999999888888888999999999998765431        111121   11 1   123


Q ss_pred             CCCeEEEEEeCC
Q psy9646         200 GVTNIVVFINKF  211 (211)
Q Consensus       200 ~~~~~i~~inK~  211 (211)
                      ++| ++++.||+
T Consensus       111 ~~p-iilv~NK~  121 (200)
T d1zcba2         111 NVS-IILFLNKT  121 (200)
T ss_dssp             TSE-EEEEEECH
T ss_pred             Cce-EEEEeccc
Confidence            566 88999994

>d2atva1 c.37.1.8 (A:5-172) Ras-like estrogen-regulated growth inhibitor, RERG {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Ras-like estrogen-regulated growth inhibitor, RERG
species: Human (Homo sapiens) [TaxId: 9606]

Probab=96.40  E-value=0.0018  Score=45.39  Aligned_cols=62  Identities=24%  Similarity=0.149  Sum_probs=40.6

Q ss_pred             ceeEeecCCcccccHhHHhhhccccceEEEEEeccCCCCcch-HHH---HHHHHH-cCCCeEEEEEeCC
Q psy9646         148 RHYSHTDCPGHADYIKNMITGTSQMDGAILVVAATDGAMPQT-REH---LLLAKQ-IGVTNIVVFINKF  211 (211)
Q Consensus       148 ~~~~~iDtPG~~~~~~~~~~~~~~~d~~~~vvd~~~~~~~~~-~~~---~~~~~~-~~~~~~i~~inK~  211 (211)
                      ..+.+.||||...+. ....-...+|++++|.|......-.. ...   ...... .+.| ++++.||+
T Consensus        50 ~~l~i~D~~g~~~~~-~~~~~~~~~~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~p-iilvgnK~  116 (168)
T d2atva1          50 VSMEILDTAGQEDTI-QREGHMRWGEGFVLVYDITDRGSFEEVLPLKNILDEIKKPKNVT-LILVGNKA  116 (168)
T ss_dssp             EEEEEEECCCCCCCH-HHHHHHHHCSEEEEEEETTCHHHHHTHHHHHHHHHHHHTTSCCC-EEEEEECG
T ss_pred             eEEEEeecccccccc-cchhhhcccccceeecccCCccchhhhhhhcccccccccccCcc-eeeeccch
Confidence            467889999998774 34455678999999999875433221 111   122222 3466 88999995

>d2g3ya1 c.37.1.8 (A:73-244) GTP-binding protein GEM {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: GTP-binding protein GEM
species: Human (Homo sapiens) [TaxId: 9606]

Probab=95.90  E-value=0.0041  Score=43.70  Aligned_cols=60  Identities=18%  Similarity=0.180  Sum_probs=37.0

Q ss_pred             eeEeecC---CcccccHhHHhhhccccceEEEEEeccCCCCc-chHHHHHHHHH----cCCCeEEEEEeCC
Q psy9646         149 HYSHTDC---PGHADYIKNMITGTSQMDGAILVVAATDGAMP-QTREHLLLAKQ----IGVTNIVVFINKF  211 (211)
Q Consensus       149 ~~~~iDt---PG~~~~~~~~~~~~~~~d~~~~vvd~~~~~~~-~~~~~~~~~~~----~~~~~~i~~inK~  211 (211)
                      .+.++|+   +|+++|+.  ...+..+|++++|.|......- ....++..+..    .++| +++|.||+
T Consensus        54 ~~~~~d~~~~~g~e~~~~--~~~~~~~~~~ilvfd~t~~~s~~~~~~~~~~i~~~~~~~~~p-iilvgnK~  121 (172)
T d2g3ya1          54 TIILLDMWENKGENEWLH--DHCMQVGDAYLIVYSITDRASFEKASELRIQLRRARQTEDIP-IILVGNKS  121 (172)
T ss_dssp             EEEEECCTTTTHHHHHHH--HCCCCCCSEEEEEEETTCHHHHHHHHHHHHHHHTSGGGTTSC-EEEEEECT
T ss_pred             eeeeeccccccccccccc--cccccccceeeeeecccccchhhhhhhhhhhhhhccccCCce-EEEEeccc
Confidence            4556665   56777743  3457899999999998654321 12223333332    2566 88999996

>d1egaa1 c.37.1.8 (A:4-182) GTPase Era, N-terminal domain {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: GTPase Era, N-terminal domain
species: Escherichia coli [TaxId: 562]

Probab=95.64  E-value=0.0075  Score=42.18  Aligned_cols=69  Identities=17%  Similarity=0.112  Sum_probs=44.1

Q ss_pred             EEeeeCCceeEeecCCccccc---------HhHHhhhccccceEEEEEeccCCCCcchHHHHHHHHHcCCCeEEEEEeCC
Q psy9646         141 VEYATENRHYSHTDCPGHADY---------IKNMITGTSQMDGAILVVAATDGAMPQTREHLLLAKQIGVTNIVVFINKF  211 (211)
Q Consensus       141 ~~~~~~~~~~~~iDtPG~~~~---------~~~~~~~~~~~d~~~~vvd~~~~~~~~~~~~~~~~~~~~~~~~i~~inK~  211 (211)
                      ........++..+|+||....         ..........+|+++++.|+. +...+...+...+.....| .++++||+
T Consensus        46 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~d~~-~~~~~~~~~~~~l~~~~~~-~i~v~~k~  123 (179)
T d1egaa1          46 GIHTEGAYQAIYVDTPGLHMEEKRAINRLMNKAASSSIGDVELVIFVVEGT-RWTPDDEMVLNKLREGKAP-VILAVNKV  123 (179)
T ss_dssp             EEEEETTEEEEEESSSSCCHHHHHHHHHHHTCCTTSCCCCEEEEEEEEETT-CCCHHHHHHHHHHHSSSSC-EEEEEEST
T ss_pred             eeeecCCceeEeecCCCceecchhhhhhhhhhccccchhhcceeEEEEecC-ccchhHHHHHHHhhhccCc-eeeeeeee
Confidence            334446667788899885432         122223345678888888875 4455555666666666777 67889985

>d1r8sa_ c.37.1.8 (A:) ADP-ribosylation factor {Human (Homo sapiens), ARF1 [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Human (Homo sapiens), ARF1 [TaxId: 9606]

Probab=95.62  E-value=0.0091  Score=40.62  Aligned_cols=71  Identities=21%  Similarity=0.193  Sum_probs=47.9

Q ss_pred             EEeeeCCceeEeecCCcccccHhHHhhhccccceEEEEEeccCCCCcch-HHHHHHHHH---cCCCeEEEEEeCC
Q psy9646         141 VEYATENRHYSHTDCPGHADYIKNMITGTSQMDGAILVVAATDGAMPQT-REHLLLAKQ---IGVTNIVVFINKF  211 (211)
Q Consensus       141 ~~~~~~~~~~~~iDtPG~~~~~~~~~~~~~~~d~~~~vvd~~~~~~~~~-~~~~~~~~~---~~~~~~i~~inK~  211 (211)
                      .........+.+.|+||...+......-...+|+++++.|......... ...+..+..   ...++++++.||.
T Consensus        37 ~~~~~~~~~~~~~d~~g~~~~~~~~~~~~~~~~~~i~~~d~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~v~~k~  111 (160)
T d1r8sa_          37 ETVEYKNISFTVWDVGGQDKIRPLWRHYFQNTQGLIFVVDSNDRERVNEAREELMRMLAEDELRDAVLLVFANKQ  111 (160)
T ss_dssp             EEEECSSCEEEEEECCCCGGGHHHHHHHTTTCSEEEEEEETTCGGGHHHHHHHHHHHHTCGGGTTCEEEEEEECT
T ss_pred             EEEeeeeEEEEEecCCCcccchhhhhhhhccceeEEEEEEecChHHHHHHHHHHHHHHHhhcccCceEEEEeecc
Confidence            3455667789999999999988888888899999999999865432221 122222211   2233477888884

>d2bmja1 c.37.1.8 (A:66-240) Centaurin gamma 1, G domain {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Centaurin gamma 1, G domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=95.53  E-value=0.009  Score=42.13  Aligned_cols=58  Identities=14%  Similarity=0.033  Sum_probs=35.5

Q ss_pred             CceeEeecCCcccccHhHHhhhccccceEEEEEeccCCCCcc-hHHHHHHHHH------cCCCeEEEEEeC
Q psy9646         147 NRHYSHTDCPGHADYIKNMITGTSQMDGAILVVAATDGAMPQ-TREHLLLAKQ------IGVTNIVVFINK  210 (211)
Q Consensus       147 ~~~~~~iDtPG~~~~~~~~~~~~~~~d~~~~vvd~~~~~~~~-~~~~~~~~~~------~~~~~~i~~inK  210 (211)
                      ...+.+.||+|+..+.     -++.+|++++|.|......-+ -..+.+.+..      ..+| +++|.||
T Consensus        51 ~~~l~i~Dt~g~~~~~-----~~~~ad~~ilVfd~~~~~Sf~~~~~~~~~i~~~~~~~~~~~p-i~lV~~k  115 (175)
T d2bmja1          51 THLVLIREEAGAPDAK-----FSGWADAVIFVFSLEDENSFQAVSRLHGQLSSLRGEGRGGLA-LALVGTQ  115 (175)
T ss_dssp             EEEEEEEECSSCCCHH-----HHHHCSEEEEEEETTCHHHHHHHHHHHHHHHHHCC--CCCCE-EEEEEEC
T ss_pred             EEEEEEeecccccccc-----cccccceeEEEeecccchhhhhhHHHHHHHHHHhhcccCCcc-EEEEeee
Confidence            3557788999987653     245689999999986543211 1222333321      2344 7788887

>d1azta2 c.37.1.8 (A:35-65,A:202-391) Transducin (alpha subunit) {Cow (Bos taurus) [TaxId: 9913]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Transducin (alpha subunit)
species: Cow (Bos taurus) [TaxId: 9913]

Probab=95.36  E-value=0.032  Score=40.67  Aligned_cols=44  Identities=18%  Similarity=0.336  Sum_probs=36.5

Q ss_pred             EEEeeeCCceeEeecCCcccccHhHHhhhccccceEEEEEeccC
Q psy9646         140 HVEYATENRHYSHTDCPGHADYIKNMITGTSQMDGAILVVAATD  183 (211)
Q Consensus       140 ~~~~~~~~~~~~~iDtPG~~~~~~~~~~~~~~~d~~~~vvd~~~  183 (211)
                      ...+..++..+.+.|+.|++.+-..-......++++++++|...
T Consensus        39 ~~~~~~~~~~~~~~D~~Gq~~~r~~w~~~~~~~~~ii~v~d~s~   82 (221)
T d1azta2          39 ETKFQVDKVNFHMFDVGGQRDERRKWIQCFNDVTAIIFVVASSS   82 (221)
T ss_dssp             EEEEEETTEEEEEEECCCSTTTTTGGGGGCTTCSEEEEEEETTG
T ss_pred             EEEEEECcEEEEEEecCccceeccchhhhcccccceEEEEEccc
Confidence            34466678889999999999887777778899999999999763

>d2akab1 c.37.1.8 (B:6-304) Dynamin G 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: G proteins
domain: Dynamin G domain
species: Rat (Rattus norvegicus) [TaxId: 10116]

Probab=94.99  E-value=0.02  Score=43.69  Aligned_cols=63  Identities=14%  Similarity=0.117  Sum_probs=37.5

Q ss_pred             ceeEeecCCcccc--------cH-----hHHhhhccccc-eEEEEEeccCCCCcch-HHHHHHHHHcCCCeEEEEEeCC
Q psy9646         148 RHYSHTDCPGHAD--------YI-----KNMITGTSQMD-GAILVVAATDGAMPQT-REHLLLAKQIGVTNIVVFINKF  211 (211)
Q Consensus       148 ~~~~~iDtPG~~~--------~~-----~~~~~~~~~~d-~~~~vvd~~~~~~~~~-~~~~~~~~~~~~~~~i~~inK~  211 (211)
                      ..+.|+||||...        ..     ..+..-+...| +++++.++...+..+. ..+++.+...+.+ .++|+||+
T Consensus       125 ~~l~liD~PG~~~~~~~~~~~~~~~~i~~~~~~y~~~~~~~il~v~~a~~~~~~~~~~~~~~~~~~~~~r-~i~Vltk~  202 (299)
T d2akab1         125 LNLTLVDLPGMTKVPVGDQPPDIEFQIRDMLMQFVTKENCLILAVSPANSDLANSDALKIAKEVDPQGQR-TIGVITKL  202 (299)
T ss_dssp             CSEEEEECCCBCSSCCSSSCTTHHHHHHHHHHHHHTSTTEEEEEEEESSSCGGGCHHHHHHHHHCTTCSS-EEEEEECG
T ss_pred             CCeeEEccCCccccccCCcchhHHHHHHHHHHHHhcCccceeeeecccccchhhhHHHHHHHHhCcCCCc-eeeEEecc
Confidence            4589999999531        11     22222234455 5666777766655443 3455555555555 77899995

>d1jwyb_ c.37.1.8 (B:) Dynamin G domain {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: G proteins
domain: Dynamin G domain
species: Dictyostelium discoideum [TaxId: 44689]

Probab=94.35  E-value=0.037  Score=42.26  Aligned_cols=63  Identities=16%  Similarity=0.188  Sum_probs=36.8

Q ss_pred             ceeEeecCCccccc------------H-hHHhhhccccceEEE-EEeccCCCCc-chHHHHHHHHHcCCCeEEEEEeCC
Q psy9646         148 RHYSHTDCPGHADY------------I-KNMITGTSQMDGAIL-VVAATDGAMP-QTREHLLLAKQIGVTNIVVFINKF  211 (211)
Q Consensus       148 ~~~~~iDtPG~~~~------------~-~~~~~~~~~~d~~~~-vvd~~~~~~~-~~~~~~~~~~~~~~~~~i~~inK~  211 (211)
                      ..+.++||||....            . ..+..=+..+|.+++ ++++...+.. ....+++.+...+.+ +++|+||+
T Consensus       131 ~~l~iiDtPG~~~~~~~~~~~~~~~~~~~~~~~yi~~~~~~il~v~~~~~~~~~~~~~~~~~~~~~~~~r-~i~Vitk~  208 (306)
T d1jwyb_         131 VNLTLVDLPGITKVPVGDQPTDIEQQIRRMVMAYIKKQNAIIVAVTPANTDLANSDALQLAKEVDPEGKR-TIGVITKL  208 (306)
T ss_dssp             CSEEEEECCCCC---------CSHHHHHHHHHHHHHSTTEEEEEEEESSSCSTTCSHHHHHHHHCSSCSS-EEEEEECT
T ss_pred             CCceEecCCCccccccCCcchhHHHHHHHHHHHHHhCCCceeEEeecccccccccHHHHHHHHhCcCCCe-EEEEEecc
Confidence            46899999995321            1 122223456776544 5566555543 344565655544545 78999996

>d1upta_ c.37.1.8 (A:) ADP-ribosylation factor {Human (Homo sapiens), ARL1 [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Human (Homo sapiens), ARL1 [TaxId: 9606]

Probab=94.34  E-value=0.12  Score=34.78  Aligned_cols=74  Identities=20%  Similarity=0.142  Sum_probs=52.0

Q ss_pred             EeEEEeeeCCceeEeecCCcccccHhHHhhhccccceEEEEEeccCCCCcchHHH-HHHH---HHcCCCeEEEEEeCC
Q psy9646         138 VAHVEYATENRHYSHTDCPGHADYIKNMITGTSQMDGAILVVAATDGAMPQTREH-LLLA---KQIGVTNIVVFINKF  211 (211)
Q Consensus       138 ~~~~~~~~~~~~~~~iDtPG~~~~~~~~~~~~~~~d~~~~vvd~~~~~~~~~~~~-~~~~---~~~~~~~~i~~inK~  211 (211)
                      .....+...+..+.+.|+||+..+..........++++++++|............ +...   .....++++++.||.
T Consensus        39 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~iv~nk~  116 (169)
T d1upta_          39 FNVETVTYKNLKFQVWDLGGLTSIRPYWRCYYSNTDAVIYVVDSCDRDRIGISKSELVAMLEEEELRKAILVVFANKQ  116 (169)
T ss_dssp             EEEEEEEETTEEEEEEEECCCGGGGGGGGGGCTTCSEEEEEEETTCCTTHHHHHHHHHHHHTCGGGTTCEEEEEEECT
T ss_pred             eeeeeeccCceEEEEeeccccccccccchhhhhhhhhhhhhhhhhhcchhhhccchhhhhhhhhccccceEEEEEeec
Confidence            4445566778899999999999988888888899999999999875554333221 1221   123344577889985

>d2qtvb1 c.37.1.8 (B:24-189) SAR1 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: SAR1
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=94.20  E-value=0.051  Score=36.54  Aligned_cols=73  Identities=21%  Similarity=0.196  Sum_probs=49.9

Q ss_pred             EeEEEeeeCCceeEeecCCcccccHhHHhhhccccceEEEEEeccCCCCcchHH-HHHHH----HHcCCCeEEEEEeCC
Q psy9646         138 VAHVEYATENRHYSHTDCPGHADYIKNMITGTSQMDGAILVVAATDGAMPQTRE-HLLLA----KQIGVTNIVVFINKF  211 (211)
Q Consensus       138 ~~~~~~~~~~~~~~~iDtPG~~~~~~~~~~~~~~~d~~~~vvd~~~~~~~~~~~-~~~~~----~~~~~~~~i~~inK~  211 (211)
                      .........+.+..+.|++|+..+..........+++.++++|..+........ .+...    .....| ++++.||.
T Consensus        34 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~d~~~~~~~~~~~~~~~~~~~~~~~~~~~-i~i~~~k~  111 (166)
T d2qtvb1          34 PTSEELAIGNIKFTTFDLGGHIQARRLWKDYFPEVNGIVFLVDAADPERFDEARVELDALFNIAELKDVP-FVILGNKI  111 (166)
T ss_dssp             CEEEEECCTTCCEEEEECCCSGGGGGGGGGGCTTCSEEEEEEETTCGGGHHHHHHHHHHHHTCTTTTTCC-EEEEEECT
T ss_pred             EeEEEeccCCeeEEEEeeccchhhhhhHhhhhhheeeeeeeccccchhhhhhhhHHHHhhhhhhccCCce-EEEEeccc
Confidence            334455667788999999999988888888888999999999987544322211 22222    224455 77888884

>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=93.83  E-value=0.02  Score=41.65  Aligned_cols=62  Identities=16%  Similarity=0.270  Sum_probs=46.1

Q ss_pred             CceeEeecCCcccccHhHHhhhccccceEEEEEeccCCCCcchHHHHHHHHHcCCCeEEEEEeC
Q psy9646         147 NRHYSHTDCPGHADYIKNMITGTSQMDGAILVVAATDGAMPQTREHLLLAKQIGVTNIVVFINK  210 (211)
Q Consensus       147 ~~~~~~iDtPG~~~~~~~~~~~~~~~d~~~~vvd~~~~~~~~~~~~~~~~~~~~~~~~i~~inK  210 (211)
                      .+.++++|+|+..  ...+..++..+|.+++++.....-..+..+.++.+++.++|.+=+++||
T Consensus       111 ~~d~IiiD~~~~~--~~~~~~~l~~aD~viiv~~~~~~s~~~~~~~~~~~~~~~~~~~giv~N~  172 (237)
T d1g3qa_         111 KFDFILIDCPAGL--QLDAMSAMLSGEEALLVTNPEISCLTDTMKVGIVLKKAGLAILGFVLNR  172 (237)
T ss_dssp             GCSEEEEECCSSS--SHHHHHHHTTCSEEEEEECSCHHHHHHHHHHHHHHHHTTCEEEEEEEEE
T ss_pred             cCCEEEEcccccc--cccchhhhhhhhcccccccccceecchhhHHHHHHhhhhhhhhhhhhcc
Confidence            4568999999864  3456667888999999998754334566777888888998843367887

>d1zj6a1 c.37.1.8 (A:2-178) ADP-ribosylation factor {Human (Homo sapiens), ARL5A [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Human (Homo sapiens), ARL5A [TaxId: 9606]

Probab=93.79  E-value=0.062  Score=36.98  Aligned_cols=70  Identities=21%  Similarity=0.170  Sum_probs=44.0

Q ss_pred             EEeeeCCceeEeecCCcccccHhHHhhhccccceEEEEEeccCCCCcchH-HHHHHHH----HcCCCeEEEEEeCC
Q psy9646         141 VEYATENRHYSHTDCPGHADYIKNMITGTSQMDGAILVVAATDGAMPQTR-EHLLLAK----QIGVTNIVVFINKF  211 (211)
Q Consensus       141 ~~~~~~~~~~~~iDtPG~~~~~~~~~~~~~~~d~~~~vvd~~~~~~~~~~-~~~~~~~----~~~~~~~i~~inK~  211 (211)
                      ..+...+.++.+.|++|+..+-.........++++++++|..+....... .....+.    ..+.| ++++.||+
T Consensus        52 ~~~~~~~~~~~~~d~~~~~~~~~~~~~~~~~~~~~i~v~d~~d~~~~~~~~~~~~~~~~~~~~~~~p-~iiv~nK~  126 (177)
T d1zj6a1          52 EEIVINNTRFLMWDIGGQESLRSSWNTYYTNTEFVIVVVDSTDRERISVTREELYKMLAHEDLRKAG-LLIFANKQ  126 (177)
T ss_dssp             EEEEETTEEEEEEECCC----CGGGHHHHTTCCEEEEEEETTCTTTHHHHHHHHHHHHTSGGGTTCE-EEEEEECT
T ss_pred             EEEeecceEEEEeccccccccccchhhhhccceeeeeecccccccchhhhhhhhhhhhhcccccceE-EEEEEEcc
Confidence            34445678899999999887766666677889999999998755432221 1222221    23455 78899995

>d1puia_ c.37.1.8 (A:) Probable GTPase EngB {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Probable GTPase EngB
species: Escherichia coli [TaxId: 562]

Probab=93.73  E-value=0.17  Score=34.73  Aligned_cols=46  Identities=9%  Similarity=0.228  Sum_probs=36.1

Q ss_pred             HhhhccccceEEEEEeccCCCCcchHHHHHHHHHcCCCeEEEEEeCC
Q psy9646         165 MITGTSQMDGAILVVAATDGAMPQTREHLLLAKQIGVTNIVVFINKF  211 (211)
Q Consensus       165 ~~~~~~~~d~~~~vvd~~~~~~~~~~~~~~~~~~~~~~~~i~~inK~  211 (211)
                      .......++.++.+.++..+...+....+......+.+ +++++||+
T Consensus        92 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~v~~k~  137 (188)
T d1puia_          92 YLEKRQSLQGLVVLMDIRHPLKDLDQQMIEWAVDSNIA-VLVLLTKA  137 (188)
T ss_dssp             HHHHCTTEEEEEEEEETTSCCCHHHHHHHHHHHHTTCC-EEEEEECG
T ss_pred             hhhhhhheeEEEEeecccccchhHHHHHHHHhhhcccc-ccchhhhh
Confidence            44445566788888888888888888888888888877 77889985

>d1svsa1 c.37.1.8 (A:32-60,A:182-347) Transducin (alpha subunit) {Rat (Rattus norvegicus) [TaxId: 10116]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Transducin (alpha subunit)
species: Rat (Rattus norvegicus) [TaxId: 10116]

Probab=92.92  E-value=0.31  Score=33.59  Aligned_cols=44  Identities=20%  Similarity=0.295  Sum_probs=37.4

Q ss_pred             EEEeeeCCceeEeecCCcccccHhHHhhhccccceEEEEEeccC
Q psy9646         140 HVEYATENRHYSHTDCPGHADYIKNMITGTSQMDGAILVVAATD  183 (211)
Q Consensus       140 ~~~~~~~~~~~~~iDtPG~~~~~~~~~~~~~~~d~~~~vvd~~~  183 (211)
                      ...+......+.+.||.|++.+......-...+|+++++.|...
T Consensus        34 ~~~~~~~~~~~~i~D~~Gq~~~~~~~~~~~~~~~~~i~v~d~~~   77 (195)
T d1svsa1          34 ETHFTFKDLHFKMFDVGGQRSERKKWIHCFEGVTAIIFCVALSD   77 (195)
T ss_dssp             EEEEEETTEEEEEEEECCSGGGGGGGGGGCTTCSEEEEEEEGGG
T ss_pred             EEEEEeeeeeeeeeccccccccccchhhcccCCceeeeEEeecc
Confidence            34566778889999999999998888888899999999999753

>d2bcjq2 c.37.1.8 (Q:38-66,Q:184-354) Transducin (alpha subunit) {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Transducin (alpha subunit)
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=92.89  E-value=0.074  Score=37.21  Aligned_cols=47  Identities=11%  Similarity=0.197  Sum_probs=39.1

Q ss_pred             EeEEEeeeCCceeEeecCCcccccHhHHhhhccccceEEEEEeccCC
Q psy9646         138 VAHVEYATENRHYSHTDCPGHADYIKNMITGTSQMDGAILVVAATDG  184 (211)
Q Consensus       138 ~~~~~~~~~~~~~~~iDtPG~~~~~~~~~~~~~~~d~~~~vvd~~~~  184 (211)
                      .....+......+.+.|++|++.+......-...++.+++++|....
T Consensus        35 ~~~~~~~~~~~~~~~~d~~g~~~~~~~~~~~~~~~~~~i~~~~~~~~   81 (200)
T d2bcjq2          35 IIEYPFDLQSVIFRMVDVGGQRSERRKWIHCFENVTSIMFLVALSEY   81 (200)
T ss_dssp             CEEEEEECSSCEEEEEECCCSTTGGGGGGGGCSSCSEEEEEEEGGGG
T ss_pred             EEEEEEeccceeeeeccccccccccccccccccccceeeEeeeccch
Confidence            34455666778899999999999988888888999999999998654

>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=90.71  E-value=0.24  Score=35.59  Aligned_cols=63  Identities=14%  Similarity=0.268  Sum_probs=38.6

Q ss_pred             CCceeEeecCCcccc----cHhHH---hhhc-----cccceEEEEEeccCCCCcchHHHHHHHHHcCCCeEEEEEeCC
Q psy9646         146 ENRHYSHTDCPGHAD----YIKNM---ITGT-----SQMDGAILVVAATDGAMPQTREHLLLAKQIGVTNIVVFINKF  211 (211)
Q Consensus       146 ~~~~~~~iDtPG~~~----~~~~~---~~~~-----~~~d~~~~vvd~~~~~~~~~~~~~~~~~~~~~~~~i~~inK~  211 (211)
                      .++.++||||||...    +++++   ....     ...+-.+||+||..+.. ...+....-...++..+  +++|+
T Consensus        87 ~~~d~ilIDTaGr~~~d~~l~~el~~~~~~~~~~~~~~p~~~~LVl~a~~~~~-~~~~~~~~~~~~~~~~l--I~TKl  161 (207)
T d1okkd2          87 RGYDLLFVDTAGRLHTKHNLMEELKKVKRAIAKADPEEPKEVWLVLDAVTGQN-GLEQAKKFHEAVGLTGV--IVTKL  161 (207)
T ss_dssp             HTCSEEEECCCCCCTTCHHHHHHHHHHHHHHHHHCTTCCSEEEEEEETTBCTH-HHHHHHHHHHHHCCSEE--EEECT
T ss_pred             CCCCEEEcCccccchhhHHHHHHHHHHHHHhhhcccCCCceEEEEeecccCch-HHHHHHHhhhccCCceE--EEecc
Confidence            356789999999432    22222   2221     23467899999987753 33445555666787754  56774

>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=90.57  E-value=0.075  Score=38.36  Aligned_cols=62  Identities=15%  Similarity=0.285  Sum_probs=42.0

Q ss_pred             CceeEeecCCcccccHhHHhhhccccceEEEEEeccCCCCcchHHHHHHHHHcCCCeEEEEEeC
Q psy9646         147 NRHYSHTDCPGHADYIKNMITGTSQMDGAILVVAATDGAMPQTREHLLLAKQIGVTNIVVFINK  210 (211)
Q Consensus       147 ~~~~~~iDtPG~~~~~~~~~~~~~~~d~~~~vvd~~~~~~~~~~~~~~~~~~~~~~~~i~~inK  210 (211)
                      .+-++++|+|+...  ..+...+..+|.+++++.....-.....+.+..+++.+.+.+=+++||
T Consensus       109 ~~D~viiD~~~~~~--~~~~~~l~~ad~v~~v~~~~~~~~~~~~~~~~~~~~~~~~~~~iv~N~  170 (232)
T d1hyqa_         109 STDILLLDAPAGLE--RSAVIAIAAAQELLLVVNPEISSITDGLKTKIVAERLGTKVLGVVVNR  170 (232)
T ss_dssp             TCSEEEEECCSSSS--HHHHHHHHHSSEEEEEECSSHHHHHHHHHHHHHHHHHTCEEEEEEEEE
T ss_pred             ccceeeeccccccc--chhHHHhhhhheeeeeccccccchhhhhhhhhhhhhcccccccccccc
Confidence            45689999999753  345556778999999988643222334446677778888754467887

>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=90.08  E-value=0.32  Score=35.04  Aligned_cols=63  Identities=17%  Similarity=0.307  Sum_probs=37.9

Q ss_pred             CCceeEeecCCcccc----cHhH---Hhhhcc-----ccceEEEEEeccCCCCcchHHHHHHHHHcCCCeEEEEEeCC
Q psy9646         146 ENRHYSHTDCPGHAD----YIKN---MITGTS-----QMDGAILVVAATDGAMPQTREHLLLAKQIGVTNIVVFINKF  211 (211)
Q Consensus       146 ~~~~~~~iDtPG~~~----~~~~---~~~~~~-----~~d~~~~vvd~~~~~~~~~~~~~~~~~~~~~~~~i~~inK~  211 (211)
                      .++.++||||||...    .+++   ....+.     ..+-.++|+|+..+.... .+....-...++..+  +++|+
T Consensus        90 ~~~d~ilIDTaGr~~~d~~~~~el~~l~~~~~~~~~~~p~~~~LVl~a~~~~~~~-~~~~~~~~~~~~~~l--IlTKl  164 (211)
T d2qy9a2          90 RNIDVLIADTAGRLQNKSHLMEELKKIVRVMKKLDVEAPHEVMLTIDASTGQNAV-SQAKLFHEAVGLTGI--TLTKL  164 (211)
T ss_dssp             TTCSEEEECCCCCGGGHHHHHHHHHHHHHHHTTTCTTCCSEEEEEEEGGGTHHHH-HHHHHHHHHSCCCEE--EEECC
T ss_pred             cCCCEEEeccCCCccccHHHHHHHHHHHHHHhhhcccCcceeeeehhcccCcchH-HHHhhhhhccCCceE--EEeec
Confidence            456789999999432    2222   223332     246889999997774332 334455566787754  46774

>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=89.72  E-value=0.16  Score=36.74  Aligned_cols=63  Identities=22%  Similarity=0.290  Sum_probs=36.8

Q ss_pred             CCceeEeecCCcccccHhH-------Hhhhcc-----ccceEEEEEeccCCCCcchHHHHHHHHHcCCCeEEEEEeCC
Q psy9646         146 ENRHYSHTDCPGHADYIKN-------MITGTS-----QMDGAILVVAATDGAMPQTREHLLLAKQIGVTNIVVFINKF  211 (211)
Q Consensus       146 ~~~~~~~iDtPG~~~~~~~-------~~~~~~-----~~d~~~~vvd~~~~~~~~~~~~~~~~~~~~~~~~i~~inK~  211 (211)
                      .++.+++|||||...+..+       ......     ..+-.+||+||..+... -.+....-...++..+  +++|+
T Consensus        92 ~~~d~ilIDTaGr~~~d~~~~~el~~~~~~~~~~~~~~p~~~~LVl~a~~~~~~-~~~~~~~~~~~~~~~l--I~TKl  166 (213)
T d1vmaa2          92 RNKDVVIIDTAGRLHTKKNLMEELRKVHRVVKKKIPDAPHETLLVIDATTGQNG-LVQAKIFKEAVNVTGI--ILTKL  166 (213)
T ss_dssp             TTCSEEEEEECCCCSCHHHHHHHHHHHHHHGGGTCTTCCSEEEEEEEGGGHHHH-HHHHHHHHHHSCCCEE--EEECG
T ss_pred             cCCCEEEEeccccccchHHHHHHHHHHHhhhhhccccccceeEEeeccccCcch-hhhhhhhccccCCceE--EEecc
Confidence            3567999999994433222       222221     13678999999766422 2334455566777744  46774

>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=89.11  E-value=0.27  Score=35.36  Aligned_cols=63  Identities=21%  Similarity=0.317  Sum_probs=36.9

Q ss_pred             CCceeEeecCCccccc----HhHHh--hhccccceEEEEEeccCCCCcchHHHHHHHHHcCCCeEEEEEeCC
Q psy9646         146 ENRHYSHTDCPGHADY----IKNMI--TGTSQMDGAILVVAATDGAMPQTREHLLLAKQIGVTNIVVFINKF  211 (211)
Q Consensus       146 ~~~~~~~iDtPG~~~~----~~~~~--~~~~~~d~~~~vvd~~~~~~~~~~~~~~~~~~~~~~~~i~~inK~  211 (211)
                      .++.++|+||||....    +.++.  ......|-.++|+|+..+.... .......+..++..+  +++|+
T Consensus        91 ~~~d~vlIDTaGr~~~d~~~~~el~~~~~~~~~~~~llv~~a~~~~~~~-~~~~~f~~~~~~~~~--I~TKl  159 (207)
T d1ls1a2          91 EARDLILVDTAGRLQIDEPLMGELARLKEVLGPDEVLLVLDAMTGQEAL-SVARAFDEKVGVTGL--VLTKL  159 (207)
T ss_dssp             HTCCEEEEECCCCSSCCHHHHHHHHHHHHHHCCSEEEEEEEGGGTHHHH-HHHHHHHHHTCCCEE--EEECG
T ss_pred             ccCcceeecccccchhhhhhHHHHHHHHhhcCCceEEEEeccccchhHH-HHHHHHHhhCCCCee--EEeec
Confidence            4567999999994322    22221  2223568899999997664322 223233445777754  46774

>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=86.24  E-value=0.7  Score=33.14  Aligned_cols=63  Identities=22%  Similarity=0.275  Sum_probs=38.2

Q ss_pred             CCceeEeecCCccccc------HhHH--hhhccccceEEEEEeccCCCCcchHHHHHHHHHcCCCeEEEEEeCC
Q psy9646         146 ENRHYSHTDCPGHADY------IKNM--ITGTSQMDGAILVVAATDGAMPQTREHLLLAKQIGVTNIVVFINKF  211 (211)
Q Consensus       146 ~~~~~~~iDtPG~~~~------~~~~--~~~~~~~d~~~~vvd~~~~~~~~~~~~~~~~~~~~~~~~i~~inK~  211 (211)
                      .++.++||||||...+      +.++  +......+-.++|+++..+.... ..........++..+  +++|+
T Consensus        93 ~~~d~IlIDTaGr~~~~~~~~~~~el~~~~~~~~~~~~~LVl~a~~~~~~~-~~~~~~~~~~~~~~l--I~TKl  163 (211)
T d1j8yf2          93 EKMEIIIVDTAGRHGYGEEAALLEEMKNIYEAIKPDEVTLVIDASIGQKAY-DLASKFNQASKIGTI--IITKM  163 (211)
T ss_dssp             TTCSEEEEECCCSCCTTCHHHHHHHHHHHHHHHCCSEEEEEEEGGGGGGHH-HHHHHHHHHCTTEEE--EEECT
T ss_pred             cCCceEEEecCCcCccchhhHHHHHHHHHHhhcCCceEEEEEecccCcchH-HHHhhhhcccCcceE--EEecc
Confidence            4568999999995322      2222  12223457789999998775432 334455556676643  47874

>d1wxqa1 c.37.1.8 (A:1-319) GTP-binding protein PH0525 {Pyrococcus horikoshii [TaxId: 53953]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: GTP-binding protein PH0525
species: Pyrococcus horikoshii [TaxId: 53953]

Probab=86.15  E-value=0.14  Score=39.10  Aligned_cols=37  Identities=19%  Similarity=0.111  Sum_probs=24.9

Q ss_pred             CceeEeecCCcccc-------cHhHHhhhccccceEEEEEeccC
Q psy9646         147 NRHYSHTDCPGHAD-------YIKNMITGTSQMDGAILVVAATD  183 (211)
Q Consensus       147 ~~~~~~iDtPG~~~-------~~~~~~~~~~~~d~~~~vvd~~~  183 (211)
                      ..++.++|+||...       +..++...++.+|+++.|||+..
T Consensus        70 ~~~i~~~D~pGli~ga~~g~~~~~~~l~~i~~~d~ii~VVd~~~  113 (319)
T d1wxqa1          70 LIPVKMVDVAGLVPGAHEGRGLGNKFLDDLRMASALIHVVDATG  113 (319)
T ss_dssp             EEEEEEEECC---------------CCCSSTTCSEEEEEEETTC
T ss_pred             cccEEEEECCCcccchhcccchHHHHHHhhccceEEEEEecccc
Confidence            35789999999533       45667778899999999999863

>d1f6ba_ c.37.1.8 (A:) SAR1 {Chinese hamster (Cricetulus griseus) [TaxId: 10029]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: SAR1
species: Chinese hamster (Cricetulus griseus) [TaxId: 10029]

Probab=83.19  E-value=1.4  Score=29.59  Aligned_cols=69  Identities=19%  Similarity=0.245  Sum_probs=43.9

Q ss_pred             EeeeCCceeEeecCCcccccHhHHhhhccccceEEEEEeccCCCCc-chHHHHHHHH----HcCCCeEEEEEeCC
Q psy9646         142 EYATENRHYSHTDCPGHADYIKNMITGTSQMDGAILVVAATDGAMP-QTREHLLLAK----QIGVTNIVVFINKF  211 (211)
Q Consensus       142 ~~~~~~~~~~~iDtPG~~~~~~~~~~~~~~~d~~~~vvd~~~~~~~-~~~~~~~~~~----~~~~~~~i~~inK~  211 (211)
                      .....+..+.+.|++|+..+...........+.+++++|....... .....+..+.    ..++| ++++.||.
T Consensus        51 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~d~~d~~~~~~~~~~~~~~~~~~~~~~~~-~li~~~K~  124 (186)
T d1f6ba_          51 ELTIAGMTFTTFDLGGHIQARRVWKNYLPAINGIVFLVDCADHERLLESKEELDSLMTDETIANVP-ILILGNKI  124 (186)
T ss_dssp             EEEETTEEEEEEEECC----CCGGGGGGGGCSEEEEEEETTCGGGHHHHHHHHHHHHTCGGGTTSC-EEEEEECT
T ss_pred             EEEecccccccccccchhhhhhHHhhhhcccceeeeeeeccCccchHHHHHHHHHhhcccccCCCc-eEEEEecc
Confidence            4455677889999999998888788888899999999997654322 1222222221    24567 77889984