RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy5597
(204 letters)
>gnl|CDD|233244 TIGR01040, V-ATPase_V1_B, V-type (H+)-ATPase V1, B subunit. This
models eukaryotic vacuolar (H+)-ATPase that is
responsible for acidifying cellular compartments. This
enzyme shares extensive sequence similarity with
archaeal ATP synthase [Transport and binding proteins,
Cations and iron carrying compounds].
Length = 466
Score = 156 bits (395), Expect = 2e-45
Identities = 62/68 (91%), Positives = 65/68 (95%)
Query: 80 ICEFTGDILRTPVSEDMLGRVFNGSGKPIDKGPPILAEDYLDIEGQPINPYSRTYPQEMI 139
CEFTGDILRTPVSEDMLGRVFNGSGKPIDKGPP+LAEDYLDI GQPINPY+R YP+EMI
Sbjct: 66 TCEFTGDILRTPVSEDMLGRVFNGSGKPIDKGPPVLAEDYLDINGQPINPYARIYPEEMI 125
Query: 140 QTGISAID 147
QTGISAID
Sbjct: 126 QTGISAID 133
Score = 136 bits (343), Expect = 6e-38
Identities = 54/60 (90%), Positives = 54/60 (90%)
Query: 2 PGKSVLDDSEDNFAIVFAAMGVNMETARFFKQDFEENGSMENVCLFLNLANDPTIERIIT 61
P K V D EDNFAIVFAAMGVNMETARFFKQDFEENGSME VCLFLNLANDPTIERIIT
Sbjct: 171 PTKDVHDGHEDNFAIVFAAMGVNMETARFFKQDFEENGSMERVCLFLNLANDPTIERIIT 230
Score = 108 bits (271), Expect = 1e-27
Identities = 45/55 (81%), Positives = 49/55 (89%)
Query: 147 DKILLQVFEGTSGIDAKNTVCEFTGDILRTPVSEDMLGRVFNGSGKPIDKAVRLL 201
+K ++QVFEGTSGIDAK T CEFTGDILRTPVSEDMLGRVFNGSGKPIDK +L
Sbjct: 47 NKAVVQVFEGTSGIDAKKTTCEFTGDILRTPVSEDMLGRVFNGSGKPIDKGPPVL 101
>gnl|CDD|238555 cd01135, V_A-ATPase_B, V/A-type ATP synthase (non-catalytic)
subunit B. These ATPases couple ATP hydrolysis to the
build up of a H+ gradient, but V-type ATPases do not
catalyze the reverse reaction. The Vacuolar (V-type)
ATPase is found in the membranes of vacuoles, the golgi
apparatus and in other coated vesicles in eukaryotes.
Archaea have a protein which is similar in sequence to
V-ATPases, but functions like an F-ATPase (called
A-ATPase). A similar protein is also found in a few
bacteria. This subfamily consists of the non-catalytic
beta subunit.
Length = 276
Score = 125 bits (316), Expect = 2e-35
Identities = 48/61 (78%), Positives = 53/61 (86%)
Query: 87 ILRTPVSEDMLGRVFNGSGKPIDKGPPILAEDYLDIEGQPINPYSRTYPQEMIQTGISAI 146
L+ PVSEDMLGR+FNGSGKPID GP ILAE+YLDI G PINP +R YP+EMIQTGISAI
Sbjct: 1 TLKVPVSEDMLGRIFNGSGKPIDGGPEILAEEYLDINGPPINPVARIYPEEMIQTGISAI 60
Query: 147 D 147
D
Sbjct: 61 D 61
Score = 104 bits (261), Expect = 2e-27
Identities = 40/55 (72%), Positives = 46/55 (83%)
Query: 7 LDDSEDNFAIVFAAMGVNMETARFFKQDFEENGSMENVCLFLNLANDPTIERIIT 61
+ E+NFA+VFAAMG+ ME ARFFK DFEE G++E V LFLNLANDPTIERIIT
Sbjct: 95 VVGEEENFAVVFAAMGITMEDARFFKDDFEETGALERVVLFLNLANDPTIERIIT 149
Score = 50.7 bits (122), Expect = 8e-08
Identities = 19/24 (79%), Positives = 21/24 (87%)
Query: 173 ILRTPVSEDMLGRVFNGSGKPIDK 196
L+ PVSEDMLGR+FNGSGKPID
Sbjct: 1 TLKVPVSEDMLGRIFNGSGKPIDG 24
>gnl|CDD|235251 PRK04196, PRK04196, V-type ATP synthase subunit B; Provisional.
Length = 460
Score = 128 bits (323), Expect = 5e-35
Identities = 44/66 (66%), Positives = 52/66 (78%)
Query: 82 EFTGDILRTPVSEDMLGRVFNGSGKPIDKGPPILAEDYLDIEGQPINPYSRTYPQEMIQT 141
FTG+ L+ PVSEDMLGR+F+G G+PID GP I+ E LDI G PINP +R YP+E IQT
Sbjct: 70 RFTGEPLKLPVSEDMLGRIFDGLGRPIDGGPEIIPEKRLDINGAPINPVAREYPEEFIQT 129
Query: 142 GISAID 147
GISAID
Sbjct: 130 GISAID 135
Score = 92.2 bits (230), Expect = 5e-22
Identities = 32/53 (60%), Positives = 41/53 (77%)
Query: 9 DSEDNFAIVFAAMGVNMETARFFKQDFEENGSMENVCLFLNLANDPTIERIIT 61
E+NFA+VFAAMG+ E A FF +DFEE G++E +FLNLA+DP IERI+T
Sbjct: 171 GEEENFAVVFAAMGITFEEANFFMEDFEETGALERSVVFLNLADDPAIERILT 223
Score = 84.9 bits (211), Expect = 2e-19
Identities = 31/49 (63%), Positives = 41/49 (83%)
Query: 147 DKILLQVFEGTSGIDAKNTVCEFTGDILRTPVSEDMLGRVFNGSGKPID 195
DK ++QVFEGT+G+D K+T FTG+ L+ PVSEDMLGR+F+G G+PID
Sbjct: 49 DKAVVQVFEGTTGLDLKDTKVRFTGEPLKLPVSEDMLGRIFDGLGRPID 97
>gnl|CDD|224078 COG1156, NtpB, Archaeal/vacuolar-type H+-ATPase subunit B [Energy
production and conversion].
Length = 463
Score = 125 bits (317), Expect = 3e-34
Identities = 48/66 (72%), Positives = 55/66 (83%)
Query: 82 EFTGDILRTPVSEDMLGRVFNGSGKPIDKGPPILAEDYLDIEGQPINPYSRTYPQEMIQT 141
FTG+ L+ PVSED+LGR+FNGSGKPID GP I+ ED LDI G PINPY+R YP+E IQT
Sbjct: 73 RFTGETLKIPVSEDLLGRIFNGSGKPIDGGPEIVPEDRLDINGAPINPYARIYPEEFIQT 132
Query: 142 GISAID 147
GISAID
Sbjct: 133 GISAID 138
Score = 91.6 bits (228), Expect = 8e-22
Identities = 31/55 (56%), Positives = 41/55 (74%)
Query: 7 LDDSEDNFAIVFAAMGVNMETARFFKQDFEENGSMENVCLFLNLANDPTIERIIT 61
+D E+ FA+VFAAMG+ E A FF +FEE G+++ LFLNLA+DP +ERIIT
Sbjct: 172 VDGEEEEFAVVFAAMGITHEEALFFMDEFEETGALDRAVLFLNLADDPAVERIIT 226
Score = 83.5 bits (207), Expect = 6e-19
Identities = 34/50 (68%), Positives = 41/50 (82%)
Query: 147 DKILLQVFEGTSGIDAKNTVCEFTGDILRTPVSEDMLGRVFNGSGKPIDK 196
DK ++QVFEGTSG+D K T FTG+ L+ PVSED+LGR+FNGSGKPID
Sbjct: 52 DKAVVQVFEGTSGLDTKGTTVRFTGETLKIPVSEDLLGRIFNGSGKPIDG 101
>gnl|CDD|200071 TIGR01041, ATP_syn_B_arch, ATP synthase archaeal, B subunit.
Archaeal ATP synthase shares extensive sequence
similarity with eukaryotic and prokaryotic V-type
(H+)-ATPases [Energy metabolism, ATP-proton motive force
interconversion].
Length = 458
Score = 111 bits (280), Expect = 5e-29
Identities = 44/65 (67%), Positives = 53/65 (81%)
Query: 83 FTGDILRTPVSEDMLGRVFNGSGKPIDKGPPILAEDYLDIEGQPINPYSRTYPQEMIQTG 142
FTG+ L+ PVSEDMLGR+ NGSG+PID GP I+ ++ DI G PINPY+R YP+E IQTG
Sbjct: 69 FTGETLKLPVSEDMLGRILNGSGEPIDGGPEIVPDERRDINGAPINPYAREYPEEFIQTG 128
Query: 143 ISAID 147
ISAID
Sbjct: 129 ISAID 133
Score = 77.9 bits (192), Expect = 6e-17
Identities = 30/52 (57%), Positives = 39/52 (75%)
Query: 10 SEDNFAIVFAAMGVNMETARFFKQDFEENGSMENVCLFLNLANDPTIERIIT 61
E FA+VFAAMG+ E A FF +DFEE G++E +FLNLA+DP +ERI+T
Sbjct: 170 EESEFAVVFAAMGITYEEANFFMKDFEETGALERAVVFLNLADDPAVERIVT 221
Score = 75.2 bits (185), Expect = 5e-16
Identities = 30/52 (57%), Positives = 39/52 (75%)
Query: 144 SAIDKILLQVFEGTSGIDAKNTVCEFTGDILRTPVSEDMLGRVFNGSGKPID 195
S+ ++QVFEGT+G+D T FTG+ L+ PVSEDMLGR+ NGSG+PID
Sbjct: 44 SSEGIAVVQVFEGTTGLDPTGTKVRFTGETLKLPVSEDMLGRILNGSGEPID 95
>gnl|CDD|224079 COG1157, FliI, Flagellar biosynthesis/type III secretory pathway
ATPase [Cell motility and secretion / Intracellular
trafficking and secretion].
Length = 441
Score = 73.4 bits (181), Expect = 2e-15
Identities = 27/73 (36%), Positives = 39/73 (53%), Gaps = 1/73 (1%)
Query: 84 TGDILRTPVSEDMLGRVFNGSGKPIDKGPPILAEDYLDIEGQPINPYSRTYPQEMIQTGI 143
TG L PV + +LGRV +G G+P+D G + ++ P NP R +E + TG+
Sbjct: 92 TGRPLSVPVGDALLGRVLDGLGRPLDGGGLPDGTERRPLDAPPPNPLKRRPIEEPLDTGV 151
Query: 144 SAIDKILLQVFEG 156
AID LL +G
Sbjct: 152 RAID-GLLTCGKG 163
Score = 47.6 bits (114), Expect = 1e-06
Identities = 18/49 (36%), Positives = 28/49 (57%), Gaps = 1/49 (2%)
Query: 147 DKILLQVFEGTSGIDAKNTVCEFTGDILRTPVSEDMLGRVFNGSGKPID 195
+++LL FE G+ + TG L PV + +LGRV +G G+P+D
Sbjct: 70 ERVLLMPFEPVEGV-SPGAEVVPTGRPLSVPVGDALLGRVLDGLGRPLD 117
>gnl|CDD|179373 PRK02118, PRK02118, V-type ATP synthase subunit B; Provisional.
Length = 436
Score = 72.0 bits (177), Expect = 7e-15
Identities = 33/65 (50%), Positives = 42/65 (64%), Gaps = 1/65 (1%)
Query: 83 FTGDILRTPVSEDMLGRVFNGSGKPIDKGPPILAEDYLDIEGQPINPYSRTYPQEMIQTG 142
F G ++ SE +LGR FNGSGKPID G P L + ++I G +NP R P+EMI+TG
Sbjct: 69 FLGRPMQVTYSESLLGRRFNGSGKPIDGG-PELEGEPIEIGGPSVNPVKRIVPREMIRTG 127
Query: 143 ISAID 147
I ID
Sbjct: 128 IPMID 132
Score = 57.0 bits (138), Expect = 8e-10
Identities = 27/49 (55%), Positives = 32/49 (65%), Gaps = 1/49 (2%)
Query: 147 DKILLQVFEGTSGIDAKNTVCEFTGDILRTPVSEDMLGRVFNGSGKPID 195
DK+ LQVF GT GI + V F G ++ SE +LGR FNGSGKPID
Sbjct: 48 DKVTLQVFGGTRGISTGDEV-VFLGRPMQVTYSESLLGRRFNGSGKPID 95
Score = 44.6 bits (106), Expect = 1e-05
Identities = 14/45 (31%), Positives = 27/45 (60%)
Query: 16 IVFAAMGVNMETARFFKQDFEENGSMENVCLFLNLANDPTIERII 60
I+ MG+ + FFK FE G+++ +F++ A+DP +E ++
Sbjct: 169 IILGGMGLTFDDYLFFKDTFENAGALDRTVMFIHTASDPPVECLL 213
>gnl|CDD|213817 TIGR03496, FliI_clade1, flagellar protein export ATPase FliI.
Members of this protein family are the FliI protein of
bacterial flagellum systems. This protein acts to drive
protein export for flagellar biosynthesis. The most
closely related family is the YscN family of bacterial
type III secretion systems. This model represents one
(of three) segment of the FliI family tree. These have
been modeled separately in order to exclude the type III
secretion ATPases more effectively [Cellular processes,
Chemotaxis and motility].
Length = 411
Score = 69.0 bits (170), Expect = 6e-14
Identities = 27/73 (36%), Positives = 39/73 (53%), Gaps = 1/73 (1%)
Query: 84 TGDILRTPVSEDMLGRVFNGSGKPIDKGPPILAEDYLDIEGQPINPYSRTYPQEMIQTGI 143
LR PV + +LGRV +G G+P+D P+ A + + + PINP R E + G+
Sbjct: 66 LEGPLRLPVGDSLLGRVIDGLGRPLDGKGPLDAGERVPLYAPPINPLKRAPIDEPLDVGV 125
Query: 144 SAIDKILLQVFEG 156
AI+ LL V G
Sbjct: 126 RAIN-GLLTVGRG 137
Score = 40.9 bits (97), Expect = 2e-04
Identities = 18/49 (36%), Positives = 26/49 (53%), Gaps = 1/49 (2%)
Query: 147 DKILLQVFEGTSGIDAKNTVCEFTGDILRTPVSEDMLGRVFNGSGKPID 195
D++LL E G+ V LR PV + +LGRV +G G+P+D
Sbjct: 44 DRVLLMPLEDVEGLRPGARV-FPLEGPLRLPVGDSLLGRVIDGLGRPLD 91
>gnl|CDD|168181 PRK05688, fliI, flagellum-specific ATP synthase; Validated.
Length = 451
Score = 61.3 bits (149), Expect = 3e-11
Identities = 29/79 (36%), Positives = 45/79 (56%), Gaps = 7/79 (8%)
Query: 86 DILRTPVSEDMLGRVFNGSGKPIDKGPPILAEDYLDIEGQPINPYSRTYPQEMIQTGISA 145
D R P+ MLGRV +G+G+ +D P+ AED++ ++G INP +R E + GI +
Sbjct: 99 DTGRLPMGMSMLGRVLDGAGRALDGKGPMKAEDWVPMDGPTINPLNRHPISEPLDVGIRS 158
Query: 146 IDKIL-------LQVFEGT 157
I+ +L L +F GT
Sbjct: 159 INGLLTVGRGQRLGLFAGT 177
Score = 33.2 bits (76), Expect = 0.071
Identities = 11/24 (45%), Positives = 16/24 (66%)
Query: 172 DILRTPVSEDMLGRVFNGSGKPID 195
D R P+ MLGRV +G+G+ +D
Sbjct: 99 DTGRLPMGMSMLGRVLDGAGRALD 122
>gnl|CDD|211826 TIGR03497, FliI_clade2, flagellar protein export ATPase FliI.
Members of this protein family are the FliI protein of
bacterial flagellum systems. This protein acts to drive
protein export for flagellar biosynthesis. The most
closely related family is the YscN family of bacterial
type III secretion systems. This model represents one
(of three) segment of the FliI family tree. These have
been modeled separately in order to exclude the type III
secretion ATPases more effectively [Cellular processes,
Chemotaxis and motility].
Length = 413
Score = 60.8 bits (148), Expect = 4e-11
Identities = 30/75 (40%), Positives = 44/75 (58%), Gaps = 3/75 (4%)
Query: 77 GSFICEFTGDILRTPVSEDMLGRVFNGSGKPID-KGPPILAEDYLDIEGQPINPYSRTYP 135
GS + TG L V + +LGRV +G G+P+D +GP I E Y ++ P NP R
Sbjct: 60 GSLV-IATGRPLAIKVGKGLLGRVLDGLGRPLDGEGPIIGEEPY-PLDNPPPNPLKRPRI 117
Query: 136 QEMIQTGISAIDKIL 150
++ ++TGI AID +L
Sbjct: 118 RDPLETGIKAIDGLL 132
Score = 38.4 bits (90), Expect = 0.001
Identities = 16/50 (32%), Positives = 25/50 (50%), Gaps = 1/50 (2%)
Query: 147 DKILLQVFEGTSGIDAKNTVCEFTGDILRTPVSEDMLGRVFNGSGKPIDK 196
+ +LL GI ++ TG L V + +LGRV +G G+P+D
Sbjct: 44 ENVLLMPLGEVEGI-GPGSLVIATGRPLAIKVGKGLLGRVLDGLGRPLDG 92
>gnl|CDD|183615 PRK12597, PRK12597, F0F1 ATP synthase subunit beta; Provisional.
Length = 461
Score = 60.6 bits (148), Expect = 5e-11
Identities = 25/65 (38%), Positives = 37/65 (56%), Gaps = 2/65 (3%)
Query: 84 TGDILRTPVSEDMLGRVFNGSGKPIDKGPPILAEDYLDIEGQPINPYSRTYPQ-EMIQTG 142
TG + PV E +LGR+ + G+P+D GPP+ AE+ I I P + E+++TG
Sbjct: 72 TGGPIEVPVGEAVLGRLLDVLGEPLDGGPPLPAEERRPIH-STIPPLAEQDTSTEILETG 130
Query: 143 ISAID 147
I ID
Sbjct: 131 IKVID 135
Score = 37.5 bits (88), Expect = 0.003
Identities = 17/48 (35%), Positives = 25/48 (52%), Gaps = 4/48 (8%)
Query: 149 ILLQVFEGTSGIDAKNTVCEFTGDILRTPVSEDMLGRVFNGSGKPIDK 196
I L TSG+ A+ TG + PV E +LGR+ + G+P+D
Sbjct: 55 IALG---STSGL-ARGDEVRNTGGPIEVPVGEAVLGRLLDVLGEPLDG 98
>gnl|CDD|236448 PRK09281, PRK09281, F0F1 ATP synthase subunit alpha; Validated.
Length = 502
Score = 57.4 bits (140), Expect = 6e-10
Identities = 31/73 (42%), Positives = 39/73 (53%), Gaps = 18/73 (24%)
Query: 84 TGDILRTPVSEDMLGRVFNGSGKPID-KGPPILAEDYLDIE----G----QPINPYSRTY 134
TG IL PV E +LGRV N G+PID KG PI A + +E G + ++
Sbjct: 91 TGRILEVPVGEALLGRVVNPLGQPIDGKG-PIEATETRPVERKAPGVIDRKSVH------ 143
Query: 135 PQEMIQTGISAID 147
E +QTGI AID
Sbjct: 144 --EPLQTGIKAID 154
Score = 42.0 bits (100), Expect = 1e-04
Identities = 16/26 (61%), Positives = 18/26 (69%)
Query: 170 TGDILRTPVSEDMLGRVFNGSGKPID 195
TG IL PV E +LGRV N G+PID
Sbjct: 91 TGRILEVPVGEALLGRVVNPLGQPID 116
>gnl|CDD|223134 COG0056, AtpA, F0F1-type ATP synthase, alpha subunit [Energy
production and conversion].
Length = 504
Score = 57.2 bits (139), Expect = 6e-10
Identities = 28/64 (43%), Positives = 34/64 (53%)
Query: 84 TGDILRTPVSEDMLGRVFNGSGKPIDKGPPILAEDYLDIEGQPINPYSRTYPQEMIQTGI 143
TG IL PV E++LGRV + G PID PI A +E + R E +QTGI
Sbjct: 91 TGRILEVPVGEELLGRVVDALGNPIDGKGPIDATKTRPVEKKAPGVMDRKSVNEPLQTGI 150
Query: 144 SAID 147
AID
Sbjct: 151 KAID 154
Score = 40.3 bits (95), Expect = 3e-04
Identities = 15/27 (55%), Positives = 18/27 (66%)
Query: 170 TGDILRTPVSEDMLGRVFNGSGKPIDK 196
TG IL PV E++LGRV + G PID
Sbjct: 91 TGRILEVPVGEELLGRVVDALGNPIDG 117
>gnl|CDD|233918 TIGR02546, III_secr_ATP, type III secretion apparatus
H+-transporting two-sector ATPase. [Protein fate,
Protein and peptide secretion and trafficking, Cellular
processes, Pathogenesis].
Length = 422
Score = 56.9 bits (138), Expect = 8e-10
Identities = 23/69 (33%), Positives = 35/69 (50%), Gaps = 2/69 (2%)
Query: 84 TGDILRTPVSEDMLGRVFNGSGKPIDKGPPI--LAEDYLDIEGQPINPYSRTYPQEMIQT 141
TG L V E +LGRV +G G+P+D + + ++ P P SR + + T
Sbjct: 72 TGRPLSIRVGEALLGRVLDGFGRPLDGKGELPAGEIETRPLDADPPPPMSRQPIDQPLPT 131
Query: 142 GISAIDKIL 150
G+ AID +L
Sbjct: 132 GVRAIDGLL 140
Score = 40.8 bits (96), Expect = 2e-04
Identities = 18/49 (36%), Positives = 25/49 (51%), Gaps = 1/49 (2%)
Query: 147 DKILLQVFEGTSGIDAKNTVCEFTGDILRTPVSEDMLGRVFNGSGKPID 195
D+ LL GI + + TG L V E +LGRV +G G+P+D
Sbjct: 50 DEALLSPLGELHGI-SPGSEVIPTGRPLSIRVGEALLGRVLDGFGRPLD 97
>gnl|CDD|238556 cd01136, ATPase_flagellum-secretory_path_III, Flagellum-specific
ATPase/type III secretory pathway virulence-related
protein. This group of ATPases are responsible for the
export of flagellum and virulence-related proteins. The
bacterial flagellar motor is similar to the F0F1-ATPase,
in that they both are proton driven rotary molecular
devices. However, the main function of the bacterial
flagellar motor is to rotate the flagellar filament for
cell motility. Intracellular pathogens such as
Salmonella and Chlamydia also have proteins which are
similar to the flagellar-specific ATPase, but function
in the secretion of virulence-related proteins via the
type III secretory pathway.
Length = 326
Score = 56.9 bits (138), Expect = 8e-10
Identities = 23/63 (36%), Positives = 34/63 (53%)
Query: 88 LRTPVSEDMLGRVFNGSGKPIDKGPPILAEDYLDIEGQPINPYSRTYPQEMIQTGISAID 147
L PV + +LGRV + G+P+D P+ E + P NP R E++ TG+ AID
Sbjct: 2 LSVPVGDALLGRVLDAFGEPLDGKGPLGKEVRYPLLRTPPNPLKRRPIDEVLPTGVRAID 61
Query: 148 KIL 150
+L
Sbjct: 62 GLL 64
Score = 33.4 bits (77), Expect = 0.057
Identities = 10/23 (43%), Positives = 15/23 (65%)
Query: 174 LRTPVSEDMLGRVFNGSGKPIDK 196
L PV + +LGRV + G+P+D
Sbjct: 2 LSVPVGDALLGRVLDAFGEPLDG 24
>gnl|CDD|233211 TIGR00962, atpA, proton translocating ATP synthase, F1 alpha
subunit. The sequences of ATP synthase F1 alpha and
beta subunits are related and both contain a
nucleotide-binding site for ATP and ADP. They have a
common amino terminal domain but vary at the C-terminus.
The beta chain has catalytic activity, while the alpha
chain is a regulatory subunit. The alpha-subunit
contains a highly conserved adenine-specific
noncatalytic nucleotide-binding domain. The conserved
amino acid sequence is Gly-X-X-X-X-Gly-Lys. Proton
translocating ATP synthase F1, alpha subunit is
homologous to proton translocating ATP synthase
archaeal/vacuolar(V1), B subunit [Energy metabolism,
ATP-proton motive force interconversion].
Length = 501
Score = 56.6 bits (137), Expect = 1e-09
Identities = 27/64 (42%), Positives = 36/64 (56%)
Query: 84 TGDILRTPVSEDMLGRVFNGSGKPIDKGPPILAEDYLDIEGQPINPYSRTYPQEMIQTGI 143
TG IL PV + +LGRV N G+PID PI ++++ +E R E +QTGI
Sbjct: 90 TGRILEVPVGDGLLGRVVNALGEPIDGKGPIDSDEFSPVEKIAPGVIERKSVHEPLQTGI 149
Query: 144 SAID 147
AID
Sbjct: 150 KAID 153
Score = 39.3 bits (92), Expect = 7e-04
Identities = 15/26 (57%), Positives = 18/26 (69%)
Query: 170 TGDILRTPVSEDMLGRVFNGSGKPID 195
TG IL PV + +LGRV N G+PID
Sbjct: 90 TGRILEVPVGDGLLGRVVNALGEPID 115
>gnl|CDD|236447 PRK09280, PRK09280, F0F1 ATP synthase subunit beta; Validated.
Length = 463
Score = 56.3 bits (137), Expect = 1e-09
Identities = 28/76 (36%), Positives = 41/76 (53%), Gaps = 1/76 (1%)
Query: 72 DGNNRGSFICEFTGDILRTPVSEDMLGRVFNGSGKPIDKGPPILAEDYLDIEGQPINPYS 131
DG RG + TG + PV + LGR+FN G+PID+ PI AE+ I + +
Sbjct: 62 DGLVRGMEV-IDTGAPISVPVGKATLGRIFNVLGEPIDEKGPIGAEERWPIHRKAPSFEE 120
Query: 132 RTYPQEMIQTGISAID 147
+ E+++TGI ID
Sbjct: 121 LSTKTEILETGIKVID 136
Score = 36.3 bits (85), Expect = 0.008
Identities = 13/28 (46%), Positives = 18/28 (64%)
Query: 170 TGDILRTPVSEDMLGRVFNGSGKPIDKA 197
TG + PV + LGR+FN G+PID+
Sbjct: 73 TGAPISVPVGKATLGRIFNVLGEPIDEK 100
>gnl|CDD|180762 PRK06936, PRK06936, type III secretion system ATPase; Provisional.
Length = 439
Score = 56.3 bits (136), Expect = 2e-09
Identities = 21/67 (31%), Positives = 32/67 (47%)
Query: 84 TGDILRTPVSEDMLGRVFNGSGKPIDKGPPILAEDYLDIEGQPINPYSRTYPQEMIQTGI 143
TG + + V E +LGRV +G G+P D G P + + P SR + + G+
Sbjct: 91 TGTMHQVGVGEHLLGRVLDGLGQPFDGGHPPEPAAWYPVYADAPAPMSRRLIETPLSLGV 150
Query: 144 SAIDKIL 150
ID +L
Sbjct: 151 RVIDGLL 157
Score = 37.0 bits (86), Expect = 0.004
Identities = 16/37 (43%), Positives = 22/37 (59%), Gaps = 1/37 (2%)
Query: 159 GIDAKNTVCEFTGDILRTPVSEDMLGRVFNGSGKPID 195
GI + NT TG + + V E +LGRV +G G+P D
Sbjct: 81 GISS-NTEVSPTGTMHQVGVGEHLLGRVLDGLGQPFD 116
>gnl|CDD|233237 TIGR01026, fliI_yscN, ATPase FliI/YscN family. This family of
ATPases demonstrates extensive homology with ATP
synthase F1, beta subunit. It is a mixture of members
with two different protein functions. The first group is
exemplified by Salmonella typhimurium FliI protein. It
is needed for flagellar assembly, its ATPase activity is
required for flagellation, and it may be involved in a
specialized protein export pathway that proceeds without
signal peptide cleavage. The second group of proteins
function in the export of virulence proteins;
exemplified by Yersinia sp. YscN protein an ATPase
involved in the type III secretory pathway for the
antihost Yops proteins [Energy metabolism, ATP-proton
motive force interconversion].
Length = 440
Score = 55.8 bits (135), Expect = 2e-09
Identities = 37/121 (30%), Positives = 61/121 (50%), Gaps = 11/121 (9%)
Query: 38 NGSMENVCLFLNLANDPTIE-RIITFQAKYFSI--YND--GNNRGSFICEFTGDILRTPV 92
S+ ++CL ++ + ++ F ++ + Y + G GS TG+ L V
Sbjct: 41 QASVGDLCLIERRGSEGRLVAEVVGFNGEFVFLMPYEEVEGVRPGS-KVLATGEGLSIKV 99
Query: 93 SEDMLGRVFNGSGKPIDKGPPILAEDYLDIEG---QPINPYSRTYPQEMIQTGISAIDKI 149
+ +LGRV +G GKPID L D ++ EG PINP R +E++ TG+ +ID +
Sbjct: 100 GDGLLGRVLDGLGKPIDGKGKFL--DNVETEGLITAPINPLKRAPIREILSTGVRSIDGL 157
Query: 150 L 150
L
Sbjct: 158 L 158
Score = 47.0 bits (112), Expect = 2e-06
Identities = 18/49 (36%), Positives = 27/49 (55%), Gaps = 1/49 (2%)
Query: 147 DKILLQVFEGTSGIDAKNTVCEFTGDILRTPVSEDMLGRVFNGSGKPID 195
+ + L +E G+ + V TG+ L V + +LGRV +G GKPID
Sbjct: 69 EFVFLMPYEEVEGVRPGSKV-LATGEGLSIKVGDGLLGRVLDGLGKPID 116
>gnl|CDD|180712 PRK06820, PRK06820, type III secretion system ATPase; Validated.
Length = 440
Score = 55.6 bits (134), Expect = 2e-09
Identities = 25/62 (40%), Positives = 38/62 (61%), Gaps = 1/62 (1%)
Query: 89 RTPVSEDMLGRVFNGSGKPIDKGPPILAEDYLDIEGQPINPYSRTYPQEMIQTGISAIDK 148
+ V D+ GR+ +G G PID GPP L + +++ P +P +R ++M+ TGI AID
Sbjct: 98 QVQVGADLAGRILDGLGAPIDGGPP-LTGQWRELDCPPPSPLTRQPIEQMLTTGIRAIDG 156
Query: 149 IL 150
IL
Sbjct: 157 IL 158
Score = 35.6 bits (82), Expect = 0.012
Identities = 15/49 (30%), Positives = 23/49 (46%), Gaps = 1/49 (2%)
Query: 147 DKILLQVFEGTSGIDAKNTVCEFTGDILRTPVSEDMLGRVFNGSGKPID 195
+ LL F + G+ V G + + V D+ GR+ +G G PID
Sbjct: 71 EMALLSPFASSDGLRCGQWV-TPLGHMHQVQVGADLAGRILDGLGAPID 118
>gnl|CDD|238553 cd01133, F1-ATPase_beta, F1 ATP synthase beta subunit,
nucleotide-binding domain. The F-ATPase is found in
bacterial plasma membranes, mitochondrial inner
membranes and in chloroplast thylakoid membranes. It has
also been found in the archaea Methanosarcina barkeri.
It uses a proton gradient to drive ATP synthesis and
hydrolyzes ATP to build the proton gradient. The
extrinisic membrane domain, F1, is composed of alpha,
beta, gamma, delta and epsilon subunits with a
stoichiometry of 3:3:1:1:1. The beta subunit of ATP
synthase is catalytic.
Length = 274
Score = 53.8 bits (130), Expect = 8e-09
Identities = 20/60 (33%), Positives = 32/60 (53%)
Query: 88 LRTPVSEDMLGRVFNGSGKPIDKGPPILAEDYLDIEGQPINPYSRTYPQEMIQTGISAID 147
+ PV + LGR+FN G+PID+ PI + I + ++ E+++TGI ID
Sbjct: 2 ISVPVGPETLGRIFNVLGEPIDERGPIKTKKTWPIHREAPEFVEQSTKTEILETGIKVID 61
Score = 31.8 bits (73), Expect = 0.16
Identities = 11/23 (47%), Positives = 16/23 (69%)
Query: 174 LRTPVSEDMLGRVFNGSGKPIDK 196
+ PV + LGR+FN G+PID+
Sbjct: 2 ISVPVGPETLGRIFNVLGEPIDE 24
>gnl|CDD|238552 cd01132, F1_ATPase_alpha, F1 ATP synthase alpha, central domain.
The F-ATPase is found in bacterial plasma membranes,
mitochondrial inner membranes and in chloroplast
thylakoid membranes. It has also been found in the
archaea Methanosarcina barkeri. It uses a proton
gradient to drive ATP synthesis and hydrolyzes ATP to
build the proton gradient. The extrinisic membrane
domain, F1, is composed of alpha, beta, gamma, delta and
epsilon subunits with a stoichiometry of 3:3:1:1:1. The
alpha subunit of the F1 ATP synthase can bind
nucleotides, but is non-catalytic.
Length = 274
Score = 52.6 bits (127), Expect = 2e-08
Identities = 25/61 (40%), Positives = 31/61 (50%)
Query: 87 ILRTPVSEDMLGRVFNGSGKPIDKGPPILAEDYLDIEGQPINPYSRTYPQEMIQTGISAI 146
I PV E +LGRV + G PID PI ++ IE + R E +QTGI AI
Sbjct: 1 IADVPVGEALLGRVVDALGNPIDGKGPIETKERRPIESKAPGIIPRKSVNEPLQTGIKAI 60
Query: 147 D 147
D
Sbjct: 61 D 61
Score = 34.9 bits (81), Expect = 0.016
Identities = 12/23 (52%), Positives = 14/23 (60%)
Query: 173 ILRTPVSEDMLGRVFNGSGKPID 195
I PV E +LGRV + G PID
Sbjct: 1 IADVPVGEALLGRVVDALGNPID 23
>gnl|CDD|102061 PRK05922, PRK05922, type III secretion system ATPase; Validated.
Length = 434
Score = 53.0 bits (127), Expect = 2e-08
Identities = 22/60 (36%), Positives = 31/60 (51%)
Query: 91 PVSEDMLGRVFNGSGKPIDKGPPILAEDYLDIEGQPINPYSRTYPQEMIQTGISAIDKIL 150
+S+ +LGRV +G G P+D + + P +P SR QE+ TGI AID L
Sbjct: 93 HLSDHLLGRVLDGFGNPLDGKEQLPKTHLKPLFSSPPSPMSRQPIQEIFPTGIKAIDAFL 152
Score = 29.1 bits (65), Expect = 1.7
Identities = 9/20 (45%), Positives = 14/20 (70%)
Query: 177 PVSEDMLGRVFNGSGKPIDK 196
+S+ +LGRV +G G P+D
Sbjct: 93 HLSDHLLGRVLDGFGNPLDG 112
>gnl|CDD|176999 CHL00059, atpA, ATP synthase CF1 alpha subunit.
Length = 485
Score = 53.0 bits (128), Expect = 2e-08
Identities = 29/64 (45%), Positives = 33/64 (51%)
Query: 84 TGDILRTPVSEDMLGRVFNGSGKPIDKGPPILAEDYLDIEGQPINPYSRTYPQEMIQTGI 143
TG I + PVSE LGRV N KPID I A + IE SR E +QTG+
Sbjct: 70 TGKIAQIPVSEAYLGRVVNALAKPIDGKGEISASESRLIESPAPGIISRRSVYEPLQTGL 129
Query: 144 SAID 147
AID
Sbjct: 130 IAID 133
Score = 39.2 bits (92), Expect = 8e-04
Identities = 16/26 (61%), Positives = 17/26 (65%)
Query: 170 TGDILRTPVSEDMLGRVFNGSGKPID 195
TG I + PVSE LGRV N KPID
Sbjct: 70 TGKIAQIPVSEAYLGRVVNALAKPID 95
>gnl|CDD|181599 PRK08972, fliI, flagellum-specific ATP synthase; Validated.
Length = 444
Score = 52.4 bits (126), Expect = 3e-08
Identities = 23/60 (38%), Positives = 31/60 (51%)
Query: 91 PVSEDMLGRVFNGSGKPIDKGPPILAEDYLDIEGQPINPYSRTYPQEMIQTGISAIDKIL 150
PV +LGRV +G G P+D PI + PINP SR E + G+ AI+ +L
Sbjct: 98 PVGMSLLGRVIDGVGNPLDGLGPIYTDQRASRHSPPINPLSRRPITEPLDVGVRAINAML 157
Score = 30.8 bits (70), Expect = 0.46
Identities = 10/19 (52%), Positives = 13/19 (68%)
Query: 177 PVSEDMLGRVFNGSGKPID 195
PV +LGRV +G G P+D
Sbjct: 98 PVGMSLLGRVIDGVGNPLD 116
>gnl|CDD|181439 PRK08472, fliI, flagellum-specific ATP synthase; Validated.
Length = 434
Score = 52.4 bits (126), Expect = 3e-08
Identities = 30/85 (35%), Positives = 41/85 (48%), Gaps = 9/85 (10%)
Query: 88 LRTPVSEDMLGRVFNGSGKPIDKGPPILAEDYLDIEGQPINPYSRTYPQEMIQTGISAID 147
L PV ++LGRV + G+PID I E Y I PI R E+ G+ +ID
Sbjct: 90 LNIPVGRNLLGRVVDPLGRPIDGKGAIDYERYAPIMKAPIAAMKRGLIDEVFSVGVKSID 149
Query: 148 KIL-------LQVFEGTSGIDAKNT 165
+L L +F G SG+ K+T
Sbjct: 150 GLLTCGKGQKLGIFAG-SGVG-KST 172
Score = 31.2 bits (71), Expect = 0.32
Identities = 11/23 (47%), Positives = 15/23 (65%)
Query: 174 LRTPVSEDMLGRVFNGSGKPIDK 196
L PV ++LGRV + G+PID
Sbjct: 90 LNIPVGRNLLGRVVDPLGRPIDG 112
>gnl|CDD|169656 PRK09099, PRK09099, type III secretion system ATPase; Provisional.
Length = 441
Score = 50.9 bits (122), Expect = 9e-08
Identities = 22/63 (34%), Positives = 35/63 (55%)
Query: 85 GDILRTPVSEDMLGRVFNGSGKPIDKGPPILAEDYLDIEGQPINPYSRTYPQEMIQTGIS 144
G L PV +LGRV +G G+PID G P+ ++ + + P +P SR + + TG+
Sbjct: 93 GRPLSVPVGPALLGRVIDGLGEPIDGGGPLDCDELVPVIAAPPDPMSRRMVEAPLPTGVR 152
Query: 145 AID 147
+D
Sbjct: 153 IVD 155
Score = 29.4 bits (66), Expect = 1.3
Identities = 19/49 (38%), Positives = 23/49 (46%), Gaps = 1/49 (2%)
Query: 147 DKILLQVFEGTSGIDAKNTVCEFTGDILRTPVSEDMLGRVFNGSGKPID 195
D LL F G+ V G L PV +LGRV +G G+PID
Sbjct: 70 DVALLSPFGELGGLSRGTRVIGL-GRPLSVPVGPALLGRVIDGLGEPID 117
>gnl|CDD|215651 pfam00006, ATP-synt_ab, ATP synthase alpha/beta family,
nucleotide-binding domain. This family includes the ATP
synthase alpha and beta subunits, the ATP synthase
associated with flagella and the termination factor Rho.
Length = 213
Score = 48.6 bits (117), Expect = 3e-07
Identities = 14/75 (18%), Positives = 32/75 (42%), Gaps = 10/75 (13%)
Query: 3 GKSVL-----DDSEDNFAIVFAAMGVNMETARFFKQDFEENGSMENVCLFLNLANDPTIE 57
GK+VL +++ + V+ +G F ++ G+++ + +++P E
Sbjct: 27 GKTVLLGMIARNAKADVVEVYVLIGERGREVAEFIEELLGEGALKRTVVVAATSDEPPAE 86
Query: 58 RIITFQ-----AKYF 67
R + A+YF
Sbjct: 87 RYLAPYTALTIAEYF 101
>gnl|CDD|183987 PRK13343, PRK13343, F0F1 ATP synthase subunit alpha; Provisional.
Length = 502
Score = 49.5 bits (119), Expect = 3e-07
Identities = 24/66 (36%), Positives = 35/66 (53%), Gaps = 4/66 (6%)
Query: 84 TGDILRTPVSEDMLGRVFNGSGKPIDKGPPILAEDYLDIEGQ--PINPYSRTYPQEMIQT 141
TG +L PV + +LGRV + G+P+D G P+ A +E I R + E +QT
Sbjct: 91 TGRVLEVPVGDGLLGRVIDPLGRPLDGGGPLQATARRPLERPAPAI--IERDFVTEPLQT 148
Query: 142 GISAID 147
GI +D
Sbjct: 149 GIKVVD 154
Score = 38.0 bits (89), Expect = 0.002
Identities = 16/39 (41%), Positives = 23/39 (58%), Gaps = 1/39 (2%)
Query: 157 TSGIDAKNTVCEFTGDILRTPVSEDMLGRVFNGSGKPID 195
T+ I A V TG +L PV + +LGRV + G+P+D
Sbjct: 79 TADILAGTEV-RRTGRVLEVPVGDGLLGRVIDPLGRPLD 116
>gnl|CDD|163293 TIGR03498, FliI_clade3, flagellar protein export ATPase FliI.
Members of this protein family are the FliI protein of
bacterial flagellum systems. This protein acts to drive
protein export for flagellar biosynthesis. The most
closely related family is the YscN family of bacterial
type III secretion systems. This model represents one
(of three) segment of the FliI family tree. These have
been modeled separately in order to exclude the type III
secretion ATPases more effectively.
Length = 418
Score = 48.5 bits (116), Expect = 7e-07
Identities = 26/82 (31%), Positives = 33/82 (40%), Gaps = 9/82 (10%)
Query: 87 ILRTPVSEDMLGRVFNGSGKPIDKGPPILA-EDYLDIEGQPINPYSRTYPQEMIQTGISA 145
L LGRV N G+PID P+ E + P SR E + TG+
Sbjct: 71 PLAVRPHPSWLGRVINALGEPIDGKGPLPQGERRYPLRASPPPAMSRARVGEPLDTGVRV 130
Query: 146 IDKIL-------LQVFEGTSGI 160
ID L L +F G SG+
Sbjct: 131 IDTFLPLCRGQRLGIFAG-SGV 151
Score = 35.7 bits (83), Expect = 0.011
Identities = 20/64 (31%), Positives = 27/64 (42%), Gaps = 4/64 (6%)
Query: 132 RTYPQEMIQTGISAIDKILLQVFEGTSGIDAKNTVCEFTGDILRTPVSEDMLGRVFNGSG 191
R E++ G + D++LL FE G+ V L LGRV N G
Sbjct: 34 RPVLAEVV--GFNG-DRVLLMPFEPLEGVGLGCAV-FAREGPLAVRPHPSWLGRVINALG 89
Query: 192 KPID 195
+PID
Sbjct: 90 EPID 93
>gnl|CDD|223133 COG0055, AtpD, F0F1-type ATP synthase, beta subunit [Energy
production and conversion].
Length = 468
Score = 48.0 bits (115), Expect = 9e-07
Identities = 29/78 (37%), Positives = 41/78 (52%), Gaps = 3/78 (3%)
Query: 72 DGNNRGSFICEFTGDILRTPVSEDMLGRVFNGSGKPIDKGPPILAED--YLDIEGQPINP 129
DG RG + TG + PV + LGR+FN G+PID+ PI AED I + +
Sbjct: 63 DGLVRGLEV-IDTGKPISVPVGKGTLGRIFNVLGEPIDEKGPIKAEDFEKWPIHRKAPSF 121
Query: 130 YSRTYPQEMIQTGISAID 147
+ E+++TGI ID
Sbjct: 122 EELSTKTEILETGIKVID 139
Score = 33.7 bits (78), Expect = 0.046
Identities = 15/41 (36%), Positives = 21/41 (51%), Gaps = 1/41 (2%)
Query: 155 EGTSGIDAKNTVCEFTGDILRTPVSEDMLGRVFNGSGKPID 195
T G+ + TG + PV + LGR+FN G+PID
Sbjct: 60 GSTDGL-VRGLEVIDTGKPISVPVGKGTLGRIFNVLGEPID 99
>gnl|CDD|211621 TIGR01039, atpD, ATP synthase, F1 beta subunit. The sequences of
ATP synthase F1 alpha and beta subunits are related and
both contain a nucleotide-binding site for ATP and ADP.
They have a common amino terminal domain but vary at the
C-terminus. The beta chain has catalytic activity, while
the alpha chain is a regulatory subunit. Proton
translocating ATP synthase, F1 beta subunit is
homologous to proton translocating ATP synthase
archaeal/vacuolar(V1), A subunit [Energy metabolism,
ATP-proton motive force interconversion].
Length = 461
Score = 47.8 bits (114), Expect = 1e-06
Identities = 27/76 (35%), Positives = 43/76 (56%), Gaps = 1/76 (1%)
Query: 72 DGNNRGSFICEFTGDILRTPVSEDMLGRVFNGSGKPIDKGPPILAEDYLDIEGQPINPYS 131
DG RG + TG + PV ++ LGR+FN G+PID+ PI A++ I + +
Sbjct: 61 DGLVRGLEV-IDTGAPISVPVGKETLGRIFNVLGEPIDEKGPIPAKERWPIHRKAPSFEE 119
Query: 132 RTYPQEMIQTGISAID 147
++ E+++TGI ID
Sbjct: 120 QSTKVEILETGIKVID 135
Score = 34.3 bits (79), Expect = 0.029
Identities = 15/40 (37%), Positives = 22/40 (55%), Gaps = 1/40 (2%)
Query: 156 GTSGIDAKNTVCEFTGDILRTPVSEDMLGRVFNGSGKPID 195
T G+ + TG + PV ++ LGR+FN G+PID
Sbjct: 59 STDGL-VRGLEVIDTGAPISVPVGKETLGRIFNVLGEPID 97
>gnl|CDD|181182 PRK07960, fliI, flagellum-specific ATP synthase; Validated.
Length = 455
Score = 47.5 bits (113), Expect = 1e-06
Identities = 22/62 (35%), Positives = 35/62 (56%)
Query: 89 RTPVSEDMLGRVFNGSGKPIDKGPPILAEDYLDIEGQPINPYSRTYPQEMIQTGISAIDK 148
+ P+ +LGRV +GSGKP+D P + + P NP RT + ++ TG+ AI+
Sbjct: 109 QLPLGPALLGRVLDGSGKPLDGLPAPDTGETGALITPPFNPLQRTPIEHVLDTGVRAINA 168
Query: 149 IL 150
+L
Sbjct: 169 LL 170
Score = 30.1 bits (68), Expect = 0.74
Identities = 11/21 (52%), Positives = 16/21 (76%)
Query: 175 RTPVSEDMLGRVFNGSGKPID 195
+ P+ +LGRV +GSGKP+D
Sbjct: 109 QLPLGPALLGRVLDGSGKPLD 129
>gnl|CDD|132348 TIGR03305, alt_F1F0_F1_bet, alternate F1F0 ATPase, F1 subunit beta.
A small number of taxonomically diverse prokaryotic
species have what appears to be a second ATP synthase,
in addition to the normal F1F0 ATPase in bacteria and
A1A0 ATPase in archaea. These enzymes use ion gradients
to synthesize ATP, and in principle may run in either
direction. This model represents the F1 beta subunit of
this apparent second ATP synthase.
Length = 449
Score = 46.7 bits (111), Expect = 2e-06
Identities = 20/64 (31%), Positives = 32/64 (50%)
Query: 84 TGDILRTPVSEDMLGRVFNGSGKPIDKGPPILAEDYLDIEGQPINPYSRTYPQEMIQTGI 143
+G L+ PV + L R+F+ G ID+ P ++ + P R+ E+ +TGI
Sbjct: 67 SGGPLKAPVGKPTLSRMFDVFGNTIDRREPPKDVEWRSVHQAPPTLTRRSSKSEVFETGI 126
Query: 144 SAID 147
AID
Sbjct: 127 KAID 130
Score = 32.1 bits (73), Expect = 0.20
Identities = 11/35 (31%), Positives = 18/35 (51%)
Query: 162 AKNTVCEFTGDILRTPVSEDMLGRVFNGSGKPIDK 196
A+ +G L+ PV + L R+F+ G ID+
Sbjct: 59 ARGMPVRDSGGPLKAPVGKPTLSRMFDVFGNTIDR 93
>gnl|CDD|180526 PRK06315, PRK06315, type III secretion system ATPase; Provisional.
Length = 442
Score = 46.1 bits (109), Expect = 4e-06
Identities = 25/70 (35%), Positives = 35/70 (50%), Gaps = 3/70 (4%)
Query: 84 TGDILRTPVSEDMLGRVFNGSGKPID---KGPPILAEDYLDIEGQPINPYSRTYPQEMIQ 140
TG L +LGRV NG G+PID KGP ++ I P +P R + ++
Sbjct: 90 TGLPLHIRAGNGLLGRVLNGLGEPIDTETKGPLENVDETYPIFRAPPDPLHRAKLRTILS 149
Query: 141 TGISAIDKIL 150
TG+ ID +L
Sbjct: 150 TGVRCIDGML 159
Score = 29.9 bits (67), Expect = 1.0
Identities = 16/53 (30%), Positives = 24/53 (45%), Gaps = 1/53 (1%)
Query: 147 DKILLQVFEGTSGIDAKNTVCEFTGDILRTPVSEDMLGRVFNGSGKPIDKAVR 199
+ + L +G+ + V TG L +LGRV NG G+PID +
Sbjct: 68 NFVFLSPLGELTGVSPSSEVIP-TGLPLHIRAGNGLLGRVLNGLGEPIDTETK 119
>gnl|CDD|132367 TIGR03324, alt_F1F0_F1_al, alternate F1F0 ATPase, F1 subunit alpha.
A small number of taxonomically diverse prokaryotic
species, including Methanosarcina barkeri, have what
appears to be a second ATP synthase, in addition to the
normal F1F0 ATPase in bacteria and A1A0 ATPase in
archaea. These enzymes use ion gradients to synthesize
ATP, and in principle may run in either direction. This
model represents the F1 alpha subunit of this apparent
second ATP synthase.
Length = 497
Score = 43.2 bits (102), Expect = 4e-05
Identities = 24/68 (35%), Positives = 38/68 (55%), Gaps = 2/68 (2%)
Query: 84 TGDILRTPVSEDMLGRVFNGSGKPIDKGPPILAEDYLDIEGQPINPYSRTYP-QEMIQTG 142
TG ++ PV + +LGRV + G+P+D G P+ + L IE +P P P +QTG
Sbjct: 91 TGRVMDVPVGDGLLGRVVDPLGRPLDGGGPLASSPRLPIE-RPAPPIMDRAPVTVPLQTG 149
Query: 143 ISAIDKIL 150
+ ID ++
Sbjct: 150 LKVIDALI 157
Score = 33.2 bits (76), Expect = 0.083
Identities = 11/26 (42%), Positives = 18/26 (69%)
Query: 170 TGDILRTPVSEDMLGRVFNGSGKPID 195
TG ++ PV + +LGRV + G+P+D
Sbjct: 91 TGRVMDVPVGDGLLGRVVDPLGRPLD 116
>gnl|CDD|136438 PRK07594, PRK07594, type III secretion system ATPase SsaN;
Validated.
Length = 433
Score = 41.9 bits (98), Expect = 9e-05
Identities = 21/62 (33%), Positives = 32/62 (51%), Gaps = 1/62 (1%)
Query: 89 RTPVSEDMLGRVFNGSGKPIDKGPPILAEDYLDIEGQPINPYSRTYPQEMIQTGISAIDK 148
+ PV E +LGRV +G G+P+D G + + D + P R + + TGI AID
Sbjct: 90 QVPVGEALLGRVIDGFGRPLD-GRELPDVCWKDYDAMPPPAMVRQPITQPLMTGIRAIDS 148
Query: 149 IL 150
+
Sbjct: 149 VA 150
Score = 32.6 bits (74), Expect = 0.12
Identities = 18/49 (36%), Positives = 24/49 (48%), Gaps = 1/49 (2%)
Query: 147 DKILLQVFEGTSGIDAKNTVCEFTGDILRTPVSEDMLGRVFNGSGKPID 195
K LL F T G+ V + PV E +LGRV +G G+P+D
Sbjct: 63 SKALLSPFTSTIGLHCGQQVMALRRR-HQVPVGEALLGRVIDGFGRPLD 110
>gnl|CDD|181092 PRK07721, fliI, flagellum-specific ATP synthase; Validated.
Length = 438
Score = 41.2 bits (97), Expect = 1e-04
Identities = 20/71 (28%), Positives = 34/71 (47%)
Query: 80 ICEFTGDILRTPVSEDMLGRVFNGSGKPIDKGPPILAEDYLDIEGQPINPYSRTYPQEMI 139
+ E TG L V ++G+V + G+P+D + + P NP R +E +
Sbjct: 83 LVEATGKPLEVKVGSGLIGQVLDALGEPLDGSALPKGLAPVSTDQDPPNPLKRPPIREPM 142
Query: 140 QTGISAIDKIL 150
+ G+ AID +L
Sbjct: 143 EVGVRAIDSLL 153
Score = 31.6 bits (72), Expect = 0.28
Identities = 14/49 (28%), Positives = 25/49 (51%), Gaps = 1/49 (2%)
Query: 147 DKILLQVFEGTSGIDAKNTVCEFTGDILRTPVSEDMLGRVFNGSGKPID 195
+ +LL + + I A + E TG L V ++G+V + G+P+D
Sbjct: 65 EHVLLMPYTEVAEI-APGCLVEATGKPLEVKVGSGLIGQVLDALGEPLD 112
>gnl|CDD|180696 PRK06793, fliI, flagellum-specific ATP synthase; Validated.
Length = 432
Score = 37.3 bits (86), Expect = 0.003
Identities = 14/60 (23%), Positives = 33/60 (55%)
Query: 91 PVSEDMLGRVFNGSGKPIDKGPPILAEDYLDIEGQPINPYSRTYPQEMIQTGISAIDKIL 150
P +LG+V + +G+ +++ + + ++ PI+ + R ++ +TGI +ID +L
Sbjct: 92 PRGNHLLGKVLSANGEVLNEEAENIPLQKIKLDAPPIHAFEREEITDVFETGIKSIDSML 151
>gnl|CDD|180875 PRK07196, fliI, flagellum-specific ATP synthase; Validated.
Length = 434
Score = 36.8 bits (85), Expect = 0.005
Identities = 21/72 (29%), Positives = 35/72 (48%), Gaps = 3/72 (4%)
Query: 79 FICEFTGDILRTPVSEDMLGRVFNGSGKPIDKGPPILAEDYLDIEGQPINPYSRTYPQEM 138
F E G++L + + LGRV NG G+P+D + L + I+P R
Sbjct: 82 FPSEQDGELL---IGDSWLGRVINGLGEPLDGKGQLGGSTPLQQQLPQIHPLQRRAVDTP 138
Query: 139 IQTGISAIDKIL 150
+ G++AI+ +L
Sbjct: 139 LDVGVNAINGLL 150
>gnl|CDD|236166 PRK08149, PRK08149, ATP synthase SpaL; Validated.
Length = 428
Score = 36.1 bits (84), Expect = 0.009
Identities = 25/87 (28%), Positives = 40/87 (45%), Gaps = 11/87 (12%)
Query: 73 GNNRGSFICEF----TGDILRTPVSEDMLGRVFNGSGKPIDK-GPPILAE---DYLDIEG 124
GN +G + TG L V E +LG V + +GK +++ P + I+
Sbjct: 62 GNAQG-LSRQVVLKPTGKPLSVWVGEALLGAVLDPTGKIVERFDAPPTVGPISEERVIDV 120
Query: 125 QPINPYSRTYP-QEMIQTGISAIDKIL 150
P Y+ P +E + TG+ AID +L
Sbjct: 121 APP-SYAERRPIREPLITGVRAIDGLL 146
>gnl|CDD|214349 CHL00060, atpB, ATP synthase CF1 beta subunit.
Length = 494
Score = 35.8 bits (83), Expect = 0.013
Identities = 25/81 (30%), Positives = 37/81 (45%), Gaps = 11/81 (13%)
Query: 72 DGNNRGSFICEFTGDILRTPVSEDMLGRVFNGSGKPIDKGPPILAEDYLDIEGQPINPYS 131
DG RG + + TG L PV LGR+FN G+P+D P+ PI+ +
Sbjct: 79 DGLMRGMEVID-TGAPLSVPVGGATLGRIFNVLGEPVDNLGPVDTR-----TTSPIHRSA 132
Query: 132 RTYPQ-----EMIQTGISAID 147
+ Q + +TGI +D
Sbjct: 133 PAFIQLDTKLSIFETGIKVVD 153
Score = 31.2 bits (71), Expect = 0.41
Identities = 13/26 (50%), Positives = 16/26 (61%)
Query: 170 TGDILRTPVSEDMLGRVFNGSGKPID 195
TG L PV LGR+FN G+P+D
Sbjct: 90 TGAPLSVPVGGATLGRIFNVLGEPVD 115
>gnl|CDD|236351 PRK08927, fliI, flagellum-specific ATP synthase; Validated.
Length = 442
Score = 35.0 bits (81), Expect = 0.021
Identities = 26/93 (27%), Positives = 38/93 (40%), Gaps = 17/93 (18%)
Query: 92 VSEDMLGRVFNGSGKPID-KGPPILAEDYLDIEGQPINPYSRTYPQEMIQTGISAIDKIL 150
S LGRV N G+PID KGP + P +SR E + G+ A++ L
Sbjct: 94 PSRAWLGRVVNALGEPIDGKGPLPQGPVPYPLRAPPPPAHSRARVGEPLDLGVRALNTFL 153
Query: 151 -------LQVFEGTSGID--------AKNTVCE 168
+ +F G SG+ A+N +
Sbjct: 154 TCCRGQRMGIFAG-SGVGKSVLLSMLARNADAD 185
Score = 26.9 bits (60), Expect = 9.4
Identities = 10/18 (55%), Positives = 11/18 (61%)
Query: 178 VSEDMLGRVFNGSGKPID 195
S LGRV N G+PID
Sbjct: 94 PSRAWLGRVVNALGEPID 111
>gnl|CDD|235666 PRK06002, fliI, flagellum-specific ATP synthase; Validated.
Length = 450
Score = 33.8 bits (78), Expect = 0.044
Identities = 16/51 (31%), Positives = 24/51 (47%), Gaps = 1/51 (1%)
Query: 98 GRVFNGSGKPID-KGPPILAEDYLDIEGQPINPYSRTYPQEMIQTGISAID 147
GRV N G+PID GP + I+ +R + ++TG+ ID
Sbjct: 107 GRVINALGEPIDGLGPLAPGTRPMSIDATAPPAMTRARVETGLRTGVRVID 157
>gnl|CDD|224077 COG1155, NtpA, Archaeal/vacuolar-type H+-ATPase subunit A [Energy
production and conversion].
Length = 588
Score = 32.2 bits (74), Expect = 0.15
Identities = 15/50 (30%), Positives = 27/50 (54%), Gaps = 1/50 (2%)
Query: 147 DKILLQVFEGTSGIDAKNTVCEFTGDILRTPVSEDMLGRVFNGSGKPIDK 196
++ +QV+E T+GI V E TG L + +L +++G +P+D
Sbjct: 44 NRATIQVYEDTAGIRPGEKV-ENTGRPLSVELGPGLLKSIYDGIQRPLDV 92
>gnl|CDD|235248 PRK04192, PRK04192, V-type ATP synthase subunit A; Provisional.
Length = 586
Score = 32.4 bits (75), Expect = 0.15
Identities = 22/54 (40%), Positives = 33/54 (61%), Gaps = 9/54 (16%)
Query: 147 DKILLQVFEGTSGIDAKNTVCEFTGDILRTPVSED----MLGRVFNGSGKPIDK 196
DK +QV+E TSGI V EFTG+ P+S + +LG +F+G +P+D+
Sbjct: 46 DKATIQVYEETSGIKPGEPV-EFTGE----PLSVELGPGLLGSIFDGIQRPLDE 94
>gnl|CDD|130115 TIGR01043, ATP_syn_A_arch, ATP synthase archaeal, A subunit.
Archaeal ATP synthase shares extensive sequence
similarity with eukaryotic and prokaryotic V-type
(H+)-ATPases [Energy metabolism, ATP-proton motive force
interconversion].
Length = 578
Score = 32.0 bits (73), Expect = 0.17
Identities = 18/50 (36%), Positives = 27/50 (54%), Gaps = 1/50 (2%)
Query: 147 DKILLQVFEGTSGIDAKNTVCEFTGDILRTPVSEDMLGRVFNGSGKPIDK 196
DK +QV+E TSGI V TG L + +LG +++G +P+D
Sbjct: 43 DKAFIQVYEETSGIKPGEPV-VGTGAPLSVELGPGLLGSIYDGVQRPLDV 91
>gnl|CDD|217261 pfam02874, ATP-synt_ab_N, ATP synthase alpha/beta family,
beta-barrel domain. This family includes the ATP
synthase alpha and beta subunits the ATP synthase
associated with flagella.
Length = 69
Score = 29.4 bits (67), Expect = 0.22
Identities = 8/25 (32%), Positives = 13/25 (52%), Gaps = 1/25 (4%)
Query: 147 DKILLQVFEGTSGIDAKNTVCEFTG 171
DK+ + V GT G+ + + TG
Sbjct: 46 DKVRVVVMGGTDGLS-RGDEVKRTG 69
>gnl|CDD|222897 PHA02593, 62, clamp loader small subunit; Provisional.
Length = 191
Score = 30.1 bits (68), Expect = 0.57
Identities = 10/39 (25%), Positives = 20/39 (51%), Gaps = 2/39 (5%)
Query: 8 DDSEDNF--AIVFAAMGVNMETARFFKQDFEENGSMENV 44
+DSE+ ++ A VN + AR + ++ G + +V
Sbjct: 120 EDSEEKLIIKLLAKAYSVNTDDAREYLDILKKKGKLPDV 158
>gnl|CDD|184183 PRK13615, PRK13615, lipoprotein LpqB; Provisional.
Length = 557
Score = 29.6 bits (66), Expect = 1.3
Identities = 10/42 (23%), Positives = 17/42 (40%)
Query: 104 SGKPIDKGPPILAEDYLDIEGQPINPYSRTYPQEMIQTGISA 145
P+ +G P D + QP P + P ++I + A
Sbjct: 22 DSGPVSEGDPATVTDESGVSYQPDGPQAGDGPDDVIAGFVDA 63
>gnl|CDD|238540 cd01120, RecA-like_NTPases, RecA-like NTPases. This family
includes the NTP binding domain of F1 and V1 H+ATPases,
DnaB and related helicases as well as bacterial RecA
and related eukaryotic and archaeal recombinases. This
group also includes bacterial conjugation proteins and
related DNA transfer proteins involved in type II and
type IV secretion.
Length = 165
Score = 28.6 bits (64), Expect = 1.4
Identities = 8/44 (18%), Positives = 19/44 (43%)
Query: 16 IVFAAMGVNMETARFFKQDFEENGSMENVCLFLNLANDPTIERI 59
+V+ + +E G+++N+ + A+DP R+
Sbjct: 30 VVYVDIEEEIEELTERLIGESLKGALDNLIIVFATADDPAAARL 73
>gnl|CDD|241333 cd13179, RanBD_RanBP1, Ran-binding domain. RanBP1 interacts
specifically with GTP-charged Ran. RanBP1 does not
activate GTPase activity of Ran, but does markedly
increase GTP hydrolysis by the RanGTPase-activating
protein (RanGAP1). In both mammalian cells and in yeast,
RanBP1 acts as a negative regulator of Regulator of
chromosome condensation 1 (RCC1) by inhibiting
RCC1-stimulated guanine nucleotide release from Ran. In
addition to Ran, RanBP1 has been shown to interact with
Exportin-1 and Importin subunit beta-1 which docks the
NPC at the cytoplasmic side of the nuclear pore complex.
RabBP1 contains a single RanBD. The RanBD is present in
RanBD1, RanBD2, RanBD3, Nuc2, and Nuc50. Most of these
proteins have a single RanBD, with the exception of
RanBD2 which has 4 RanBDs. Ran is a Ras-like nuclear
small GTPase, which regulates receptor-mediated
transport between the nucleus and the cytoplasm. RanGTP
hydrolysis is stimulated by RanGAP together with the
Ran-binding domain containing acessory proteins RanBP1
and RanBP2. These accessory proteins stabilize the
active GTP-bound form of Ran. The Ran-binding domain is
found in multiple copies in Nuclear pore complex
proteins. RabBD shares structural similarity to the PH
domain, but lacks detectable sequence similarity.
Length = 126
Score = 28.4 bits (64), Expect = 1.5
Identities = 14/39 (35%), Positives = 16/39 (41%), Gaps = 10/39 (25%)
Query: 5 SVLDDSEDN------FAIVFAAMGVNMETARFFKQDFEE 37
+ D D AI FA N E A+ FK FEE
Sbjct: 89 NTPADFADEEPKPELLAIRFA----NAENAQKFKTKFEE 123
>gnl|CDD|182084 PRK09800, PRK09800, putative hypoxanthine oxidase; Provisional.
Length = 956
Score = 29.0 bits (65), Expect = 1.9
Identities = 15/51 (29%), Positives = 26/51 (50%), Gaps = 3/51 (5%)
Query: 90 TPVSEDM-LGRVFNGSGKPIDKGPPILAEDYLDIEGQPINPYSRTYPQEMI 139
TPV+ ++ LG+++ + + I G + E D EG P+ R+Y I
Sbjct: 841 TPVNPELALGQIYGATLRAI--GHSMSEEIIYDAEGHPLTRDLRSYGAPKI 889
>gnl|CDD|203931 pfam08398, Parvo_coat_N, Parvovirus coat protein VP1. This is the
N-terminal region of the Parvovirus VP1 coat protein.
Also see Parvovirus coat protein VP2 (pfam00740).
Length = 64
Score = 26.6 bits (59), Expect = 2.3
Identities = 10/37 (27%), Positives = 12/37 (32%), Gaps = 9/37 (24%)
Query: 103 GSGKPIDKGPPILAED---------YLDIEGQPINPY 130
G G +D G P+ D Y NPY
Sbjct: 8 GPGNSLDNGEPVNPADAAAREHDFAYDQQLKAGDNPY 44
>gnl|CDD|238151 cd00247, Endostatin-like, Endostatin-like domain; the angiogenesis
inhibitor endostatin is a C-terminal fragment of
collagen XV/XVIII, a proteoglycan/collagen found in
vessel walls and basement membranes; this domain has a
compact globular fold similar to that of C-type lectins;
endostatin XVIII is monomeric and contains a
heparin-binding epitope and zinc binding sites while
endostatin XV is trimeric and contains neither of these
sites; the generation of endostatin or endostatin-like
collagen XV/XVIII fragments is catalyzed by proteolytic
enzymes within the protease-sensitive hinge region of
the C-terminal domain; endostatin inhibits endothelial
cell migration in vitro and appears to be highly
effective in murine in vivo studies.
Length = 171
Score = 27.7 bits (62), Expect = 2.8
Identities = 13/43 (30%), Positives = 21/43 (48%), Gaps = 6/43 (13%)
Query: 100 VFNGSGKPIDKGPPILAEDYLDIEGQPINPYSRTYPQEMIQTG 142
+F+GSG + G I + D D+ P +PQ+M+ G
Sbjct: 80 LFSGSGGQFNPGARIYSFDGRDVLTDP------AWPQKMVWHG 116
>gnl|CDD|184795 PRK14698, PRK14698, V-type ATP synthase subunit A; Provisional.
Length = 1017
Score = 28.4 bits (63), Expect = 3.5
Identities = 15/49 (30%), Positives = 28/49 (57%), Gaps = 1/49 (2%)
Query: 147 DKILLQVFEGTSGIDAKNTVCEFTGDILRTPVSEDMLGRVFNGSGKPID 195
DK ++QV+E T+G+ V E TG L + +L +++G +P++
Sbjct: 46 DKAVIQVYEETAGLKPGEPV-EGTGSSLSVELGPGLLTSIYDGIQRPLE 93
>gnl|CDD|219053 pfam06482, Endostatin, Collagenase NC10 and Endostatin. NC10
stands for Non-helical region 10 and is taken from human
COL15A1. A mutation in this region in human COL18A1 is
associated with an increased risk of prostrate cancer.
This domain is cleaved from the precursor and forms
endostatin. Endostatin is a key tumour suppressor and
has been used highly successfully to treat cancer. It is
a potent angiogenesis inhibitor. Endostatin also binds a
zinc ion near the N-terminus; this is likely to be of
structural rather than functional importance according
to.
Length = 291
Score = 27.8 bits (62), Expect = 3.9
Identities = 13/46 (28%), Positives = 22/46 (47%), Gaps = 6/46 (13%)
Query: 100 VFNGSGKPIDKGPPILAEDYLDIEGQPINPYSRTYPQEMIQTGISA 145
+F+GSG ++ G I + D D+ P +PQ+M+ G
Sbjct: 193 LFSGSGGQLNPGARIYSFDGRDVLTDP------AWPQKMVWHGSDP 232
>gnl|CDD|140212 PTZ00185, PTZ00185, ATPase alpha subunit; Provisional.
Length = 574
Score = 27.3 bits (60), Expect = 5.9
Identities = 22/75 (29%), Positives = 33/75 (44%), Gaps = 9/75 (12%)
Query: 84 TGDILRTPVSEDMLGRVFNGSGKPIDKGPPILAEDYLDIE--------GQPINPYSRTYP 135
TG +L PV +LG+V N G + G + L+ E G P N SR+
Sbjct: 111 TGKLLYIPVGAGVLGKVVNPLGHEVPVGLLTRSRALLESEQTLGKVDAGAP-NIVSRSPV 169
Query: 136 QEMIQTGISAIDKIL 150
+ TG A+D ++
Sbjct: 170 NYNLLTGFKAVDTMI 184
>gnl|CDD|233312 TIGR01209, TIGR01209, RNA ligase, Pab1020 family. Members of this
family are found, so far, in a single copy per genome
and largely in thermophiles, of which only Aquifex
aeolicus is bacterial rather than archaeal. PSI-BLAST
converges after a single iteration to the whole of this
family and reveals no convincing similarity to any other
protein. The member protein Pab1020 has been
characterized as an RNA ligase with circularization
activity [Transcription, RNA processing].
Length = 374
Score = 27.4 bits (61), Expect = 5.9
Identities = 19/85 (22%), Positives = 31/85 (36%), Gaps = 29/85 (34%)
Query: 58 RIITFQAKYFSIYNDGNNRGSFICEFTGDILRTPVSEDMLGRVFNGSGKPIDKGPPILAE 117
RI+ + +++ RG FIC FT + L + + +
Sbjct: 93 RIVKYGGNVYAL-----TRGGFICPFTTERLPDLIDLEFF-------------------D 128
Query: 118 DYLD--IEGQ---PINPYSRTYPQE 137
D D + G+ P NPY+ Y E
Sbjct: 129 DNPDLVLCGEMAGPENPYTPEYYPE 153
>gnl|CDD|218769 pfam05833, FbpA, Fibronectin-binding protein A N-terminus (FbpA).
This family consists of the N-terminal region of the
prokaryotic fibronectin-binding protein. Fibronectin
binding is considered to be an important virulence
factor in streptococcal infections. Fibronectin is a
dimeric glycoprotein that is present in a soluble form
in plasma and extracellular fluids; it is also present
in a fibrillar form on cell surfaces. Both the soluble
and cellular forms of fibronectin may be incorporated
into the extracellular tissue matrix. While fibronectin
has critical roles in eukaryotic cellular processes,
such as adhesion, migration and differentiation, it is
also a substrate for the attachment of bacteria. The
binding of pathogenic Streptococcus pyogenes and
Staphylococcus aureus to epithelial cells via
fibronectin facilitates their internalisation and
systemic spread within the host.
Length = 447
Score = 27.2 bits (61), Expect = 6.4
Identities = 16/59 (27%), Positives = 25/59 (42%), Gaps = 4/59 (6%)
Query: 125 QPINPYSRTYPQEM---IQTGISAIDKILLQVFEGTSGIDAKNTVCEFTGDILRTPVSE 180
+NP +E + + K L+Q F+G S + A+ +C G TPV E
Sbjct: 163 DKLNPLEIEEFEEFKERLSLPEGDLVKALVQAFQGLSPLLAEE-LCYRAGLDKETPVEE 220
>gnl|CDD|219583 pfam07799, DUF1643, Protein of unknown function (DUF1643). The
members of this family are all sequences found within
hypothetical proteins expressed by various bacterial
species. The region concerned is approximately 150
residues long.
Length = 136
Score = 26.4 bits (59), Expect = 7.0
Identities = 6/11 (54%), Positives = 8/11 (72%)
Query: 52 NDPTIERIITF 62
+DPT+ R I F
Sbjct: 30 DDPTVRRCIRF 40
>gnl|CDD|130649 TIGR01588, citE, citrate lyase, beta subunit. This is a model of
the beta subunit of the holoenzyme citrate lyase (EC
4.1.3.6) composed of alpha (EC 2.8.3.10), beta (EC
4.1.3.34), and acyl carrier protein subunits in a
stoichiometric relationship of 6:6:6. Citrate lyase is
an enzyme which converts citrate to oxaloacetate. In
bacteria, this reaction is involved in citrate
fermentation. The beta subunit catalyzes the reaction
(3S)-citryl-CoA = acetyl-CoA + oxaloacetate. The seed
contains an experimentally characterized member from
Leuconostoc mesenteroides. The model covers a wide range
of Gram positive bacteria. For Gram negative bacteria,
it appears that only gamma proteobacteria hit this
model. The model is quite robust with queries scoring
either quite well or quite poorly against the model.
There are currently no hits in-between the noise cutoff
and trusted cutoff [Energy metabolism, Fermentation].
Length = 288
Score = 26.7 bits (59), Expect = 8.2
Identities = 17/61 (27%), Positives = 30/61 (49%), Gaps = 8/61 (13%)
Query: 64 AKYFSIYNDGNNRGSFICE--------FTGDILRTPVSEDMLGRVFNGSGKPIDKGPPIL 115
A + ++Y+D NN F+ E F G L P +++ +V+ + K IDK ++
Sbjct: 188 AAFDTVYSDVNNEEGFLAEAQLIKQLGFDGKSLINPRQIELVHKVYAPTEKEIDKAIEVI 247
Query: 116 A 116
A
Sbjct: 248 A 248
Database: CDD.v3.10
Posted date: Mar 20, 2013 7:55 AM
Number of letters in database: 10,937,602
Number of sequences in database: 44,354
Lambda K H
0.320 0.140 0.414
Gapped
Lambda K H
0.267 0.0791 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 10,836,809
Number of extensions: 1041206
Number of successful extensions: 860
Number of sequences better than 10.0: 1
Number of HSP's gapped: 840
Number of HSP's successfully gapped: 113
Length of query: 204
Length of database: 10,937,602
Length adjustment: 92
Effective length of query: 112
Effective length of database: 6,857,034
Effective search space: 767987808
Effective search space used: 767987808
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 57 (25.6 bits)