RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy5598
(128 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 = 199 bits (509), Expect = 2e-63
Identities = 82/96 (85%), Positives = 88/96 (91%)
Query: 27 TYKTVSGVNGPLVILDEVKFPKYAEIVQLRLNDGSYRAGQVLEVSGSKAVVQVFEGTSGI 86
Y+TVSGVNGPLVILD VKFP++AEIV L L DG+ R+GQVLEVSG+KAVVQVFEGTSGI
Sbjct: 1 EYRTVSGVNGPLVILDNVKFPRFAEIVNLTLPDGTVRSGQVLEVSGNKAVVQVFEGTSGI 60
Query: 87 DAKNTVCEFTGDILRTPVSEDMLGRVFNGSGKPIDK 122
DAK T CEFTGDILRTPVSEDMLGRVFNGSGKPIDK
Sbjct: 61 DAKKTTCEFTGDILRTPVSEDMLGRVFNGSGKPIDK 96
>gnl|CDD|224078 COG1156, NtpB, Archaeal/vacuolar-type H+-ATPase subunit B [Energy
production and conversion].
Length = 463
Score = 145 bits (367), Expect = 1e-42
Identities = 57/99 (57%), Positives = 71/99 (71%)
Query: 24 PRITYKTVSGVNGPLVILDEVKFPKYAEIVQLRLNDGSYRAGQVLEVSGSKAVVQVFEGT 83
Y T+S + GPL+I++ V+ Y E+V++ DG R GQVLEV G KAVVQVFEGT
Sbjct: 3 MVKEYTTISEIKGPLIIVEGVEGASYGELVEIETPDGEVRRGQVLEVRGDKAVVQVFEGT 62
Query: 84 SGIDAKNTVCEFTGDILRTPVSEDMLGRVFNGSGKPIDK 122
SG+D K T FTG+ L+ PVSED+LGR+FNGSGKPID
Sbjct: 63 SGLDTKGTTVRFTGETLKIPVSEDLLGRIFNGSGKPIDG 101
>gnl|CDD|235251 PRK04196, PRK04196, V-type ATP synthase subunit B; Provisional.
Length = 460
Score = 140 bits (356), Expect = 6e-41
Identities = 55/97 (56%), Positives = 72/97 (74%)
Query: 25 RITYKTVSGVNGPLVILDEVKFPKYAEIVQLRLNDGSYRAGQVLEVSGSKAVVQVFEGTS 84
Y+TVS + GPL+ ++ V+ Y EIV++ L +G R GQVLEVS KAVVQVFEGT+
Sbjct: 1 LKEYRTVSEIKGPLLFVEGVEGVAYGEIVEIELPNGEKRRGQVLEVSEDKAVVQVFEGTT 60
Query: 85 GIDAKNTVCEFTGDILRTPVSEDMLGRVFNGSGKPID 121
G+D K+T FTG+ L+ PVSEDMLGR+F+G G+PID
Sbjct: 61 GLDLKDTKVRFTGEPLKLPVSEDMLGRIFDGLGRPID 97
>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 = 121 bits (305), Expect = 1e-33
Identities = 51/94 (54%), Positives = 66/94 (70%)
Query: 28 YKTVSGVNGPLVILDEVKFPKYAEIVQLRLNDGSYRAGQVLEVSGSKAVVQVFEGTSGID 87
Y T++ + GPLV ++ V+ Y EIV++ DG R GQVL+ S AVVQVFEGT+G+D
Sbjct: 2 YSTITEIAGPLVFVEGVEPVAYNEIVEIETPDGEKRRGQVLDSSEGIAVVQVFEGTTGLD 61
Query: 88 AKNTVCEFTGDILRTPVSEDMLGRVFNGSGKPID 121
T FTG+ L+ PVSEDMLGR+ NGSG+PID
Sbjct: 62 PTGTKVRFTGETLKLPVSEDMLGRILNGSGEPID 95
>gnl|CDD|179373 PRK02118, PRK02118, V-type ATP synthase subunit B; Provisional.
Length = 436
Score = 68.1 bits (167), Expect = 2e-14
Identities = 36/97 (37%), Positives = 53/97 (54%), Gaps = 3/97 (3%)
Query: 25 RITYKTVSGVNGPLVILDEVKFPKYAEIVQLRLNDGSYRAGQVLEVSGSKAVVQVFEGTS 84
+ Y ++ + G ++ + E + Y E+ + DGS QV+ + G K +QVF GT
Sbjct: 2 QKIYTKITDITGNVITV-EAEGVGYGELATVERKDGS-SLAQVIRLDGDKVTLQVFGGTR 59
Query: 85 GIDAKNTVCEFTGDILRTPVSEDMLGRVFNGSGKPID 121
GI + V F G ++ SE +LGR FNGSGKPID
Sbjct: 60 GISTGDEV-VFLGRPMQVTYSESLLGRRFNGSGKPID 95
>gnl|CDD|224079 COG1157, FliI, Flagellar biosynthesis/type III secretory pathway
ATPase [Cell motility and secretion / Intracellular
trafficking and secretion].
Length = 441
Score = 56.5 bits (137), Expect = 2e-10
Identities = 25/105 (23%), Positives = 47/105 (44%), Gaps = 8/105 (7%)
Query: 20 YISQPRITYKTVSGVNGPLVILDEVKFPKYA--EIVQLRLNDGSYRA-GQVLEVSGSKAV 76
+ + V G L+ E P+ E+ ++ + GS + +V+ + + +
Sbjct: 18 NTDPYKRRGRLTR-VTGLLL---EAVGPQARIGELCKIERSRGSEKVLAEVVGFNEERVL 73
Query: 77 VQVFEGTSGIDAKNTVCEFTGDILRTPVSEDMLGRVFNGSGKPID 121
+ FE G+ + TG L PV + +LGRV +G G+P+D
Sbjct: 74 LMPFEPVEGV-SPGAEVVPTGRPLSVPVGDALLGRVLDGLGRPLD 117
>gnl|CDD|235248 PRK04192, PRK04192, V-type ATP synthase subunit A; Provisional.
Length = 586
Score = 55.6 bits (135), Expect = 4e-10
Identities = 32/100 (32%), Positives = 55/100 (55%), Gaps = 18/100 (18%)
Query: 30 TVSGVNGPLVILDEVKFPKYAEIVQ---LRLNDGSYRAGQVLEVSGSKAVVQVFEGTSGI 86
+ V+GPLV+ + + + E+V+ L G+++ + G KA +QV+E TSGI
Sbjct: 6 KIVRVSGPLVVAEGMGGARMYEVVRVGEEGL------IGEIIRIEGDKATIQVYEETSGI 59
Query: 87 DAKNTVCEFTGDILRTPVSED----MLGRVFNGSGKPIDK 122
V EFTG+ P+S + +LG +F+G +P+D+
Sbjct: 60 KPGEPV-EFTGE----PLSVELGPGLLGSIFDGIQRPLDE 94
>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 = 51.9 bits (125), Expect = 5e-09
Identities = 19/24 (79%), Positives = 21/24 (87%)
Query: 99 ILRTPVSEDMLGRVFNGSGKPIDK 122
L+ PVSEDMLGR+FNGSGKPID
Sbjct: 1 TLKVPVSEDMLGRIFNGSGKPIDG 24
>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 = 50.9 bits (123), Expect = 2e-08
Identities = 25/94 (26%), Positives = 42/94 (44%), Gaps = 6/94 (6%)
Query: 30 TVSGVNGPLVILDEVKFPKYA--EIVQLRLNDGSYRAGQVLEVSGSKAVVQVFEGTSGID 87
V+ V G LV+ E + ++ +DG +V+ G + ++ E G+
Sbjct: 2 RVTRVVG-LVL--EAVGLRAPVGSRCEIESSDGDPIEAEVVGFRGDRVLLMPLEDVEGLR 58
Query: 88 AKNTVCEFTGDILRTPVSEDMLGRVFNGSGKPID 121
V LR PV + +LGRV +G G+P+D
Sbjct: 59 PGARV-FPLEGPLRLPVGDSLLGRVIDGLGRPLD 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 = 46.4 bits (111), Expect = 5e-08
Identities = 18/70 (25%), Positives = 29/70 (41%), Gaps = 4/70 (5%)
Query: 31 VSGVNGPLVILDEVKFPKYAEIVQLR---LNDGSYRAGQVLEVSGSKAVVQVFEGTSGID 87
+ V GP+V ++ L + G+ G+VL + G K V V GT G+
Sbjct: 1 IVQVIGPVVDVEFGIGRLPGLYNALEVELVEFGNGLLGEVLNLGGDKVRVVVMGGTDGLS 60
Query: 88 AKNTVCEFTG 97
+ + TG
Sbjct: 61 -RGDEVKRTG 69
>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 = 48.6 bits (116), Expect = 1e-07
Identities = 30/89 (33%), Positives = 51/89 (57%), Gaps = 4/89 (4%)
Query: 34 VNGPLVILDEVKFPKYAEIVQLRLNDGSYRAGQVLEVSGSKAVVQVFEGTSGIDAKNTVC 93
V+GPLV+ D +K + E+V++ +G G+++ + G KA +QV+E TSGI V
Sbjct: 7 VSGPLVVADGMKGAQMYEVVKVG-EEG--LIGEIIRIEGDKAFIQVYEETSGIKPGEPV- 62
Query: 94 EFTGDILRTPVSEDMLGRVFNGSGKPIDK 122
TG L + +LG +++G +P+D
Sbjct: 63 VGTGAPLSVELGPGLLGSIYDGVQRPLDV 91
>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 = 48.5 bits (116), Expect = 1e-07
Identities = 22/69 (31%), Positives = 37/69 (53%), Gaps = 2/69 (2%)
Query: 53 VQLRLNDGSYRAGQVLEVSGSKAVVQVFEGTSGIDAKNTVCEFTGDILRTPVSEDMLGRV 112
++ R ++G A +V+ +G + +E G+ + V TG+ L V + +LGRV
Sbjct: 50 IERRGSEGRLVA-EVVGFNGEFVFLMPYEEVEGVRPGSKV-LATGEGLSIKVGDGLLGRV 107
Query: 113 FNGSGKPID 121
+G GKPID
Sbjct: 108 LDGLGKPID 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 = 48.1 bits (115), Expect = 2e-07
Identities = 23/93 (24%), Positives = 38/93 (40%), Gaps = 2/93 (2%)
Query: 30 TVSGVNGPLV-ILDEVKFPKYAEIVQLRLNDGSYRAGQVLEVSGSKAVVQVFEGTSGIDA 88
V+ V G L+ + + + + +R DG +V+ +G + ++ FE G+
Sbjct: 2 RVTAVTGLLIEVRGLSRAVRLGDRCAIRARDGRPVLAEVVGFNGDRVLLMPFEPLEGVGL 61
Query: 89 KNTVCEFTGDILRTPVSEDMLGRVFNGSGKPID 121
V L LGRV N G+PID
Sbjct: 62 GCAV-FAREGPLAVRPHPSWLGRVINALGEPID 93
>gnl|CDD|224077 COG1155, NtpA, Archaeal/vacuolar-type H+-ATPase subunit A [Energy
production and conversion].
Length = 588
Score = 47.7 bits (114), Expect = 2e-07
Identities = 24/95 (25%), Positives = 52/95 (54%), Gaps = 10/95 (10%)
Query: 31 VSGVNGPLVILDEVKFPKYAEIV---QLRLNDGSYRAGQVLEVSGSKAVVQVFEGTSGID 87
+ ++GP+V+ + ++ K ++V ++ L G+++ + G++A +QV+E T+GI
Sbjct: 5 IIRISGPVVVAEGMEGAKMYDVVKVGEMGL------IGEIIRIEGNRATIQVYEDTAGIR 58
Query: 88 AKNTVCEFTGDILRTPVSEDMLGRVFNGSGKPIDK 122
V E TG L + +L +++G +P+D
Sbjct: 59 PGEKV-ENTGRPLSVELGPGLLKSIYDGIQRPLDV 92
>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 = 46.5 bits (111), Expect = 5e-07
Identities = 27/93 (29%), Positives = 45/93 (48%), Gaps = 6/93 (6%)
Query: 31 VSGVNGPLVILDEVKFPKYA--EIVQLRLNDGSYRAGQVLEVSGSKAVVQVFEGTSGIDA 88
V+ V+G L+ + P E+ +R D S +V+ +G +A++ GI +
Sbjct: 9 VTEVSGTLL---KAVLPGARVGELCLIRRRDPSQLLAEVVGFTGDEALLSPLGELHGI-S 64
Query: 89 KNTVCEFTGDILRTPVSEDMLGRVFNGSGKPID 121
+ TG L V E +LGRV +G G+P+D
Sbjct: 65 PGSEVIPTGRPLSIRVGEALLGRVLDGFGRPLD 97
>gnl|CDD|184795 PRK14698, PRK14698, V-type ATP synthase subunit A; Provisional.
Length = 1017
Score = 45.8 bits (108), Expect = 1e-06
Identities = 30/88 (34%), Positives = 50/88 (56%), Gaps = 4/88 (4%)
Query: 34 VNGPLVILDEVKFPKYAEIVQLRLNDGSYRAGQVLEVSGSKAVVQVFEGTSGIDAKNTVC 93
V GPLVI D +K K E+V R+ + G+++ + G KAV+QV+E T+G+ V
Sbjct: 10 VTGPLVIADGMKGAKMYEVV--RVGELGL-IGEIIRLEGDKAVIQVYEETAGLKPGEPV- 65
Query: 94 EFTGDILRTPVSEDMLGRVFNGSGKPID 121
E TG L + +L +++G +P++
Sbjct: 66 EGTGSSLSVELGPGLLTSIYDGIQRPLE 93
>gnl|CDD|223134 COG0056, AtpA, F0F1-type ATP synthase, alpha subunit [Energy
production and conversion].
Length = 504
Score = 42.6 bits (101), Expect = 1e-05
Identities = 23/73 (31%), Positives = 33/73 (45%), Gaps = 12/73 (16%)
Query: 61 SYRAGQVLEVSGS-KAVVQ----------VFEGTSGIDAKNTVCEFTGDILRTPVSEDML 109
+ AG+++E G K + + S I + V TG IL PV E++L
Sbjct: 46 NVMAGELVEFPGGVKGMALNLEEDSVGAVILGDYSDIKEGDEVKR-TGRILEVPVGEELL 104
Query: 110 GRVFNGSGKPIDK 122
GRV + G PID
Sbjct: 105 GRVVDALGNPIDG 117
>gnl|CDD|183615 PRK12597, PRK12597, F0F1 ATP synthase subunit beta; Provisional.
Length = 461
Score = 41.8 bits (99), Expect = 3e-05
Identities = 25/102 (24%), Positives = 45/102 (44%), Gaps = 17/102 (16%)
Query: 30 TVSGVNGPLVILDEVKF-----PKYAEIVQLRLNDGSYRAGQVLEVSG--SKAVVQ--VF 80
+ + G +V +V+F P + + + + G +LEV + V+
Sbjct: 5 RIIKIRGDVV---DVEFEEGALPPINQALTVHDDGGPT----LLEVKQHLDETTVRAIAL 57
Query: 81 EGTSGIDAKNTVCEFTGDILRTPVSEDMLGRVFNGSGKPIDK 122
TSG+ A+ TG + PV E +LGR+ + G+P+D
Sbjct: 58 GSTSGL-ARGDEVRNTGGPIEVPVGEAVLGRLLDVLGEPLDG 98
>gnl|CDD|236448 PRK09281, PRK09281, F0F1 ATP synthase subunit alpha; Validated.
Length = 502
Score = 41.2 bits (98), Expect = 3e-05
Identities = 16/26 (61%), Positives = 18/26 (69%)
Query: 96 TGDILRTPVSEDMLGRVFNGSGKPID 121
TG IL PV E +LGRV N G+PID
Sbjct: 91 TGRILEVPVGEALLGRVVNPLGQPID 116
>gnl|CDD|183987 PRK13343, PRK13343, F0F1 ATP synthase subunit alpha; Provisional.
Length = 502
Score = 39.1 bits (92), Expect = 2e-04
Identities = 28/91 (30%), Positives = 40/91 (43%), Gaps = 15/91 (16%)
Query: 31 VSGVNGPLVILDEVKFPKYAEIVQLRLNDGSYRAGQVLEVSGSKAVVQVFEGTSGIDAKN 90
VSG+ P LDE+ LR GS G + + + T+ I A
Sbjct: 41 VSGL--PDAALDEL----------LRFEGGSR--GFAFNLEEELVGAVLLDDTADILAGT 86
Query: 91 TVCEFTGDILRTPVSEDMLGRVFNGSGKPID 121
V TG +L PV + +LGRV + G+P+D
Sbjct: 87 EV-RRTGRVLEVPVGDGLLGRVIDPLGRPLD 116
>gnl|CDD|233245 TIGR01042, V-ATPase_V1_A, V-type (H+)-ATPase V1, A 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 = 591
Score = 39.3 bits (92), Expect = 2e-04
Identities = 32/102 (31%), Positives = 56/102 (54%), Gaps = 20/102 (19%)
Query: 27 TYKTVSGVNGPLVILDEVKFPKYAEIVQLRLNDGSYR-AGQVLEVSGSKAVVQVFEGTSG 85
Y + V+GP+V+ + + E+V++ G G+++ + G KA +QV+E TSG
Sbjct: 1 EYGYIYKVSGPVVVAENMAGAAMYELVRV----GHDELVGEIIRLEGDKATIQVYEETSG 56
Query: 86 IDAKNTVCEFTGD-ILRT--PVSEDM----LGRVFNGSGKPI 120
+ TV GD +LRT P+S ++ LG +F+G +P+
Sbjct: 57 L----TV----GDPVLRTGKPLSVELGPGILGNIFDGIQRPL 90
>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 = 38.9 bits (91), Expect = 3e-04
Identities = 15/26 (57%), Positives = 18/26 (69%)
Query: 96 TGDILRTPVSEDMLGRVFNGSGKPID 121
TG IL PV + +LGRV N G+PID
Sbjct: 90 TGRILEVPVGDGLLGRVVNALGEPID 115
>gnl|CDD|176999 CHL00059, atpA, ATP synthase CF1 alpha subunit.
Length = 485
Score = 38.8 bits (91), Expect = 3e-04
Identities = 16/26 (61%), Positives = 17/26 (65%)
Query: 96 TGDILRTPVSEDMLGRVFNGSGKPID 121
TG I + PVSE LGRV N KPID
Sbjct: 70 TGKIAQIPVSEAYLGRVVNALAKPID 95
>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 = 37.7 bits (88), Expect = 6e-04
Identities = 23/94 (24%), Positives = 39/94 (41%), Gaps = 2/94 (2%)
Query: 30 TVSGVNGPLVILDEVKFPKYAEIVQLRLNDGSYRAGQVLEVSGSKAVVQVFEGTSGIDAK 89
V+ V G L I + K E+ + G +V+ ++ GI
Sbjct: 2 KVTRVIG-LTIESKGPKAKIGELCSILTKGGKPVLAEVVGFKEENVLLMPLGEVEGI-GP 59
Query: 90 NTVCEFTGDILRTPVSEDMLGRVFNGSGKPIDKD 123
++ TG L V + +LGRV +G G+P+D +
Sbjct: 60 GSLVIATGRPLAIKVGKGLLGRVLDGLGRPLDGE 93
>gnl|CDD|223133 COG0055, AtpD, F0F1-type ATP synthase, beta subunit [Energy
production and conversion].
Length = 468
Score = 36.8 bits (86), Expect = 0.001
Identities = 32/100 (32%), Positives = 49/100 (49%), Gaps = 13/100 (13%)
Query: 30 TVSGVNGPLVILDEVKFPKYAEIVQ----LRLNDGSYRAGQVLEVSG--SKAVVQ--VFE 81
V V GP+V +V+FP+ E+ + L + +G+ VLEV+ VV+
Sbjct: 5 KVVQVIGPVV---DVEFPEEDELPEIYNALEVQNGNQGT-LVLEVAQHLGDNVVRTIAMG 60
Query: 82 GTSGIDAKNTVCEFTGDILRTPVSEDMLGRVFNGSGKPID 121
T G+ + TG + PV + LGR+FN G+PID
Sbjct: 61 STDGL-VRGLEVIDTGKPISVPVGKGTLGRIFNVLGEPID 99
>gnl|CDD|180712 PRK06820, PRK06820, type III secretion system ATPase; Validated.
Length = 440
Score = 36.7 bits (85), Expect = 0.002
Identities = 15/58 (25%), Positives = 27/58 (46%), Gaps = 1/58 (1%)
Query: 66 QVLEVSGSKAVVQVFEGTSGIDAKNTVCEFTGDILRTPVSEDMLGRVFNGSGKPIDKD 123
+V+ + A++ F + G+ V G + + V D+ GR+ +G G PID
Sbjct: 64 EVVSIEQEMALLSPFASSDGLRCGQWV-TPLGHMHQVQVGADLAGRILDGLGAPIDGG 120
>gnl|CDD|180762 PRK06936, PRK06936, type III secretion system ATPase; Provisional.
Length = 439
Score = 36.3 bits (84), Expect = 0.002
Identities = 12/26 (46%), Positives = 17/26 (65%)
Query: 96 TGDILRTPVSEDMLGRVFNGSGKPID 121
TG + + V E +LGRV +G G+P D
Sbjct: 91 TGTMHQVGVGEHLLGRVLDGLGQPFD 116
>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 = 36.2 bits (84), Expect = 0.002
Identities = 28/100 (28%), Positives = 43/100 (43%), Gaps = 8/100 (8%)
Query: 27 TYKTVSGVNGPLVILDEVKFPKYA--EIVQLRLNDGSYRAGQVLEVS---GSKAVVQVFE 81
T V V GP+V +V+F + I + LEV+ G V +
Sbjct: 1 TKGKVVQVIGPVV---DVEFEQGELPRIYNALKVQNRAESELTLEVAQHLGDDTVRTIAM 57
Query: 82 GTSGIDAKNTVCEFTGDILRTPVSEDMLGRVFNGSGKPID 121
G++ + TG + PV ++ LGR+FN G+PID
Sbjct: 58 GSTDGLVRGLEVIDTGAPISVPVGKETLGRIFNVLGEPID 97
>gnl|CDD|236447 PRK09280, PRK09280, F0F1 ATP synthase subunit beta; Validated.
Length = 463
Score = 35.9 bits (84), Expect = 0.003
Identities = 13/26 (50%), Positives = 17/26 (65%)
Query: 96 TGDILRTPVSEDMLGRVFNGSGKPID 121
TG + PV + LGR+FN G+PID
Sbjct: 73 TGAPISVPVGKATLGRIFNVLGEPID 98
>gnl|CDD|181439 PRK08472, fliI, flagellum-specific ATP synthase; Validated.
Length = 434
Score = 35.4 bits (82), Expect = 0.004
Identities = 20/77 (25%), Positives = 35/77 (45%), Gaps = 2/77 (2%)
Query: 47 PKYAEIVQLRLNDGSYRA-GQVLEVSGSKAVVQVFEGTSGIDAKNTVCEFTGDILRTPVS 105
P +IV++ +D G V+ + + + F G + V + + L PV
Sbjct: 37 PSVGDIVKIESSDNGKECLGMVVVIEKEQFGISPFSFIEGFKIGDKV-FISKEGLNIPVG 95
Query: 106 EDMLGRVFNGSGKPIDK 122
++LGRV + G+PID
Sbjct: 96 RNLLGRVVDPLGRPIDG 112
>gnl|CDD|236351 PRK08927, fliI, flagellum-specific ATP synthase; Validated.
Length = 442
Score = 35.7 bits (83), Expect = 0.004
Identities = 28/102 (27%), Positives = 39/102 (38%), Gaps = 8/102 (7%)
Query: 24 PRITYKTVSGVNGPLVILDEVKFPKYAEIVQLRLN----DGSYRAGQVLEVSGSKAVVQV 79
+ Y V V G LV EV P +A V R+ G +V+ G +A++
Sbjct: 14 TLVIYGRVVAVRGLLV---EVAGPIHALSVGARIVVETRGGRPVPCEVVGFRGDRALLMP 70
Query: 80 FEGTSGIDAKNTVCEFTGDILRTPVSEDMLGRVFNGSGKPID 121
F G+ + S LGRV N G+PID
Sbjct: 71 FGPLEGV-RRGCRAVIANAAAAVRPSRAWLGRVVNALGEPID 111
>gnl|CDD|136438 PRK07594, PRK07594, type III secretion system ATPase SsaN;
Validated.
Length = 433
Score = 35.3 bits (81), Expect = 0.004
Identities = 20/56 (35%), Positives = 32/56 (57%), Gaps = 1/56 (1%)
Query: 66 QVLEVSGSKAVVQVFEGTSGIDAKNTVCEFTGDILRTPVSEDMLGRVFNGSGKPID 121
+V+ ++GSKA++ F T G+ V + PV E +LGRV +G G+P+D
Sbjct: 56 EVVGINGSKALLSPFTSTIGLHCGQQVMALRRR-HQVPVGEALLGRVIDGFGRPLD 110
>gnl|CDD|168181 PRK05688, fliI, flagellum-specific ATP synthase; Validated.
Length = 451
Score = 34.3 bits (79), Expect = 0.008
Identities = 25/69 (36%), Positives = 33/69 (47%), Gaps = 5/69 (7%)
Query: 57 LNDGSYRAGQV-LEV---SGSKAVVQVFEGTSGIDAKNTVCEFTGDILRTPVSEDMLGRV 112
+ND SY QV EV SG K + +GI V D R P+ MLGRV
Sbjct: 55 INDDSYHPVQVEAEVMGFSGDKVFLMPVGSVAGIAPGARVVPLA-DTGRLPMGMSMLGRV 113
Query: 113 FNGSGKPID 121
+G+G+ +D
Sbjct: 114 LDGAGRALD 122
>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 = 34.2 bits (79), Expect = 0.009
Identities = 12/23 (52%), Positives = 14/23 (60%)
Query: 99 ILRTPVSEDMLGRVFNGSGKPID 121
I PV E +LGRV + G PID
Sbjct: 1 IADVPVGEALLGRVVDALGNPID 23
>gnl|CDD|169656 PRK09099, PRK09099, type III secretion system ATPase; Provisional.
Length = 441
Score = 34.4 bits (79), Expect = 0.010
Identities = 24/75 (32%), Positives = 36/75 (48%), Gaps = 2/75 (2%)
Query: 48 KYAEIVQLRLNDGS-YRAGQVLEVSGSKAVVQVFEGTSGIDAKNTVCEFTGDILRTPVSE 106
E+ +LR DG+ + +V+ S A++ F G+ V G L PV
Sbjct: 44 TLGELCELRQRDGTLLQRAEVVGFSRDVALLSPFGELGGLSRGTRVIGL-GRPLSVPVGP 102
Query: 107 DMLGRVFNGSGKPID 121
+LGRV +G G+PID
Sbjct: 103 ALLGRVIDGLGEPID 117
>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 = 33.8 bits (78), Expect = 0.013
Identities = 10/28 (35%), Positives = 15/28 (53%)
Query: 100 LRTPVSEDMLGRVFNGSGKPIDKDCCSD 127
L PV + +LGRV + G+P+D
Sbjct: 2 LSVPVGDALLGRVLDAFGEPLDGKGPLG 29
>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 = 32.4 bits (74), Expect = 0.039
Identities = 11/26 (42%), Positives = 18/26 (69%)
Query: 96 TGDILRTPVSEDMLGRVFNGSGKPID 121
TG ++ PV + +LGRV + G+P+D
Sbjct: 91 TGRVMDVPVGDGLLGRVVDPLGRPLD 116
>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 = 32.2 bits (74), Expect = 0.048
Identities = 11/23 (47%), Positives = 16/23 (69%)
Query: 100 LRTPVSEDMLGRVFNGSGKPIDK 122
+ PV + LGR+FN G+PID+
Sbjct: 2 ISVPVGPETLGRIFNVLGEPIDE 24
>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 = 31.7 bits (72), Expect = 0.072
Identities = 11/35 (31%), Positives = 18/35 (51%)
Query: 88 AKNTVCEFTGDILRTPVSEDMLGRVFNGSGKPIDK 122
A+ +G L+ PV + L R+F+ G ID+
Sbjct: 59 ARGMPVRDSGGPLKAPVGKPTLSRMFDVFGNTIDR 93
>gnl|CDD|214349 CHL00060, atpB, ATP synthase CF1 beta subunit.
Length = 494
Score = 30.8 bits (70), Expect = 0.16
Identities = 13/26 (50%), Positives = 16/26 (61%)
Query: 96 TGDILRTPVSEDMLGRVFNGSGKPID 121
TG L PV LGR+FN G+P+D
Sbjct: 90 TGAPLSVPVGGATLGRIFNVLGEPVD 115
>gnl|CDD|181599 PRK08972, fliI, flagellum-specific ATP synthase; Validated.
Length = 444
Score = 30.1 bits (68), Expect = 0.25
Identities = 10/19 (52%), Positives = 13/19 (68%)
Query: 103 PVSEDMLGRVFNGSGKPID 121
PV +LGRV +G G P+D
Sbjct: 98 PVGMSLLGRVIDGVGNPLD 116
>gnl|CDD|181182 PRK07960, fliI, flagellum-specific ATP synthase; Validated.
Length = 455
Score = 30.1 bits (68), Expect = 0.31
Identities = 11/21 (52%), Positives = 16/21 (76%)
Query: 101 RTPVSEDMLGRVFNGSGKPID 121
+ P+ +LGRV +GSGKP+D
Sbjct: 109 QLPLGPALLGRVLDGSGKPLD 129
>gnl|CDD|180526 PRK06315, PRK06315, type III secretion system ATPase; Provisional.
Length = 442
Score = 29.1 bits (65), Expect = 0.63
Identities = 13/28 (46%), Positives = 16/28 (57%)
Query: 96 TGDILRTPVSEDMLGRVFNGSGKPIDKD 123
TG L +LGRV NG G+PID +
Sbjct: 90 TGLPLHIRAGNGLLGRVLNGLGEPIDTE 117
>gnl|CDD|102061 PRK05922, PRK05922, type III secretion system ATPase; Validated.
Length = 434
Score = 29.1 bits (65), Expect = 0.67
Identities = 9/20 (45%), Positives = 14/20 (70%)
Query: 103 PVSEDMLGRVFNGSGKPIDK 122
+S+ +LGRV +G G P+D
Sbjct: 93 HLSDHLLGRVLDGFGNPLDG 112
>gnl|CDD|238741 cd01464, vWA_subfamily, VWA subfamily: Von Willebrand factor type
A (vWA) domain was originally found in the blood
coagulation protein von Willebrand factor (vWF).
Typically, the vWA domain is made up of approximately
200 amino acid residues folded into a classic a/b
para-rossmann type of fold. The vWA domain, since its
discovery, has drawn great interest because of its
widespread occurrence and its involvement in a wide
variety of important cellular functions. These include
basal membrane formation, cell migration, cell
differentiation, adhesion, haemostasis, signaling,
chromosomal stability, malignant transformation and in
immune defenses In integrins these domains form
heterodimers while in vWF it forms multimers. There are
different interaction surfaces of this domain as seen
by the various molecules it complexes with. Ligand
binding in most cases is mediated by the presence of a
metal ion dependent adhesion site termed as the MIDAS
motif that is a characteristic feature of most, if not
all A domains. Members of this subgroup have no
assigned function. This subfamily is typified by the
presence of a conserved MIDAS motif.
Length = 176
Score = 28.5 bits (64), Expect = 0.88
Identities = 12/42 (28%), Positives = 21/42 (50%), Gaps = 2/42 (4%)
Query: 6 KQALRENVLAVTRDYISQPRITYKTVSGVNGPLVILDEVKFP 47
+ LR++ A+ IS IT+ + + V PL L+ + P
Sbjct: 32 QSELRQDPYALESVEISV--ITFDSAARVIVPLTPLESFQPP 71
>gnl|CDD|235666 PRK06002, fliI, flagellum-specific ATP synthase; Validated.
Length = 450
Score = 28.4 bits (64), Expect = 1.1
Identities = 25/95 (26%), Positives = 40/95 (42%), Gaps = 12/95 (12%)
Query: 27 TYKTVSGVNGPLVILDEVKFPKYAEIVQLRLNDGSYRAGQVLEVSGSKAVVQVFEGTSGI 86
++ V G+ +F + + V +R + G++ G+V+ V V+ FE I
Sbjct: 36 SHYRVRGL---------SRFVRLGDFVAIRADGGTHL-GEVVRVDPDGVTVKPFEPRIEI 85
Query: 87 DAKNTVCEFTGDILRTPVSEDMLGRVFNGSGKPID 121
+ V F LR GRV N G+PID
Sbjct: 86 GLGDAV--FRKGPLRIRPDPSWKGRVINALGEPID 118
>gnl|CDD|143373 cd07868, STKc_CDK8, Catalytic domain of the Serine/Threonine
Kinase, Cyclin-Dependent protein Kinase 8.
Serine/Threonine Kinases (STKs), Cyclin-Dependent
protein Kinase 8 (CDK8) subfamily, catalytic (c) domain.
STKs catalyze the transfer of the gamma-phosphoryl group
from ATP to serine/threonine residues on protein
substrates. The CDK8 subfamily is part of a larger
superfamily that includes the catalytic domains of other
protein STKs, protein tyrosine kinases, RIO kinases,
aminoglycoside phosphotransferase, choline kinase, and
phosphoinositide 3-kinase. CDKs belong to a large family
of STKs that are regulated by their cognate cyclins.
Together, they are involved in the control of cell-cycle
progression, transcription, and neuronal function. CDK8
can act as a negative or positive regulator of
transcription, depending on the scenario. Together with
its regulator, cyclin C, it reversibly associates with
the multi-subunit core Mediator complex, a cofactor that
is involved in regulating RNA polymerase II (RNAP
II)-dependent transcription. CDK8 phosphorylates cyclin
H, a subunit of the general transcription factor TFIIH,
which results in the inhibition of TFIIH-dependent
phosphorylation of the C-terminal domain (CTD) of RNAP
II, facilitating the inhibition of transcription. It has
also been shown to promote transcription by a mechanism
that is likely to involve RNAP II phosphorylation. CDK8
also functions as a stimulus-specific positive
coregulator of p53 transcriptional responses.
Length = 317
Score = 26.9 bits (59), Expect = 2.8
Identities = 11/21 (52%), Positives = 12/21 (57%)
Query: 103 PVSEDMLGRVFNGSGKPIDKD 123
P D L R+FN G P DKD
Sbjct: 228 PYHHDQLDRIFNVMGFPADKD 248
>gnl|CDD|140212 PTZ00185, PTZ00185, ATPase alpha subunit; Provisional.
Length = 574
Score = 26.9 bits (59), Expect = 3.7
Identities = 19/74 (25%), Positives = 37/74 (50%), Gaps = 4/74 (5%)
Query: 49 YAEIVQLRLNDGSYRAGQV--LEVSGSKAVVQVFEGTSGIDAKNTVCEFTGDILRTPVSE 106
Y I+ ++++ ++ AG V LE G ++ + + + + + V TG +L PV
Sbjct: 64 YNTIIMIQVSPTTFAAGLVFNLEKDGRIGII-LMDNITEVQSGQKVMA-TGKLLYIPVGA 121
Query: 107 DMLGRVFNGSGKPI 120
+LG+V N G +
Sbjct: 122 GVLGKVVNPLGHEV 135
>gnl|CDD|181092 PRK07721, fliI, flagellum-specific ATP synthase; Validated.
Length = 438
Score = 26.6 bits (59), Expect = 4.2
Identities = 10/28 (35%), Positives = 16/28 (57%)
Query: 94 EFTGDILRTPVSEDMLGRVFNGSGKPID 121
E TG L V ++G+V + G+P+D
Sbjct: 85 EATGKPLEVKVGSGLIGQVLDALGEPLD 112
>gnl|CDD|236047 PRK07560, PRK07560, elongation factor EF-2; Reviewed.
Length = 731
Score = 26.4 bits (59), Expect = 4.8
Identities = 17/50 (34%), Positives = 28/50 (56%), Gaps = 5/50 (10%)
Query: 35 NGPLVIL-DEVKFPKYA-EIVQLRLNDGSYRAGQVLEVSGSKA---VVQV 79
NGPLV++ ++ +A E+ R+ G+ R GQ + + G+K V QV
Sbjct: 288 NGPLVMMVTDIIVDPHAGEVATGRVFSGTLRKGQEVYLVGAKKKNRVQQV 337
>gnl|CDD|233209 TIGR00958, 3a01208, Conjugate Transporter-2 (CT2) Family protein.
[Transport and binding proteins, Other].
Length = 711
Score = 26.6 bits (59), Expect = 5.2
Identities = 20/55 (36%), Positives = 30/55 (54%), Gaps = 4/55 (7%)
Query: 24 PRITYKTVSGVNGPLVILDEVKFPKYAEIVQLRLNDGSYRAGQVLE--VSGSKAV 76
PR+T V+ +N PLV L E F K +++ L + +A QV E +SG + V
Sbjct: 301 PRLTM--VTLINLPLVFLAEKVFGKRYQLLSEELQEAVAKANQVAEEALSGMRTV 353
>gnl|CDD|180188 PRK05664, PRK05664, threonine-phosphate decarboxylase; Reviewed.
Length = 330
Score = 26.1 bits (58), Expect = 5.2
Identities = 9/17 (52%), Positives = 13/17 (76%)
Query: 62 YRAGQVLEVSGSKAVVQ 78
Y A Q+L V+GS+A +Q
Sbjct: 62 YGAPQLLPVAGSQAAIQ 78
>gnl|CDD|204989 pfam12631, GTPase_Cys_C, Catalytic cysteine-containing C-terminus
of GTPase, MnmE. This short C-terminal region contains
the only cysteine present in these proteins. It is
proposed that MnmE is a tRNA-modifying enzyme and that
Cys-451 functions as a catalytic residue in the
modification reaction.
Length = 73
Score = 25.2 bits (56), Expect = 5.4
Identities = 8/20 (40%), Positives = 12/20 (60%), Gaps = 4/20 (20%)
Query: 94 EFTGDILRTPVSEDMLGRVF 113
E TG++ SED+L +F
Sbjct: 54 EITGEV----DSEDLLDEIF 69
>gnl|CDD|214474 smart00022, PLAc, Cytoplasmic phospholipase A2, catalytic subunit.
Cytosolic phospholipases A2 hydrolyse arachidonyl
phospholipids. Family includes phospholipases B
isoforms.
Length = 549
Score = 26.2 bits (58), Expect = 5.5
Identities = 15/54 (27%), Positives = 22/54 (40%), Gaps = 8/54 (14%)
Query: 79 VFEGTSGIDAKNTVCEFT-------GDILRTPVSEDMLGRVFNGSGKPIDKDCC 125
G S I+ +TV EF+ L + + LG F +G P+ K C
Sbjct: 236 RKPGESVINFNDTVFEFSPFEFGSWDPKLNAFMPPEYLGSKFF-NGTPVKKGKC 288
>gnl|CDD|236166 PRK08149, PRK08149, ATP synthase SpaL; Validated.
Length = 428
Score = 26.1 bits (58), Expect = 6.5
Identities = 10/23 (43%), Positives = 13/23 (56%)
Query: 96 TGDILRTPVSEDMLGRVFNGSGK 118
TG L V E +LG V + +GK
Sbjct: 76 TGKPLSVWVGEALLGAVLDPTGK 98
>gnl|CDD|181362 PRK08296, PRK08296, hypothetical protein; Provisional.
Length = 603
Score = 25.8 bits (57), Expect = 8.2
Identities = 8/19 (42%), Positives = 12/19 (63%)
Query: 63 RAGQVLEVSGSKAVVQVFE 81
+ GQ L V G+K VV + +
Sbjct: 585 KTGQRLRVDGTKGVVTILD 603
>gnl|CDD|235250 PRK04195, PRK04195, replication factor C large subunit;
Provisional.
Length = 482
Score = 25.7 bits (57), Expect = 8.7
Identities = 7/18 (38%), Positives = 11/18 (61%)
Query: 27 TYKTVSGVNGPLVILDEV 44
T ++ G L++LDEV
Sbjct: 90 TSGSLFGARRKLILLDEV 107
>gnl|CDD|180875 PRK07196, fliI, flagellum-specific ATP synthase; Validated.
Length = 434
Score = 25.6 bits (56), Expect = 9.3
Identities = 18/65 (27%), Positives = 30/65 (46%), Gaps = 5/65 (7%)
Query: 59 DGSYRAGQVLEVSGSKAVVQVFEGTSGIDAKNTV--CEFTGDILRTPVSEDMLGRVFNGS 116
D ++ QV+ + F+ G+ V E G++L + + LGRV NG
Sbjct: 48 DETFIEAQVVGFDRDITYLMPFKHPGGVLGGARVFPSEQDGELL---IGDSWLGRVINGL 104
Query: 117 GKPID 121
G+P+D
Sbjct: 105 GEPLD 109
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
0.316 0.135 0.381
Gapped
Lambda K H
0.267 0.0672 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 6,342,700
Number of extensions: 551978
Number of successful extensions: 474
Number of sequences better than 10.0: 1
Number of HSP's gapped: 466
Number of HSP's successfully gapped: 65
Length of query: 128
Length of database: 10,937,602
Length adjustment: 86
Effective length of query: 42
Effective length of database: 7,123,158
Effective search space: 299172636
Effective search space used: 299172636
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.6 bits)
S2: 53 (24.3 bits)