RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy9917
(219 letters)
>gnl|CDD|213395 cd12152, F1-ATPase_delta, mitochondrial ATP synthase delta subunit.
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.
Alpha and beta subunit form the globular catalytic
moiety, a hexameric ring of alternating subunits. Gamma,
delta and epsilon subunits form a stalk, connecting F1
to F0, the integral membrane proton translocating
domain. In bacteria, which is lacking a eukaryotic
epsilon subunit homolog, this subunit is called the
epsilon subunit.
Length = 123
Score = 115 bits (290), Expect = 4e-33
Identities = 42/125 (33%), Positives = 69/125 (55%), Gaps = 2/125 (1%)
Query: 21 MDFTLASGNKVFYTNQNVKQVDVPSFSGAFGILPNHVPTLAILKPGVITVYETEGVSQKI 80
+ + + +VF++ + V+ V +P G FGILP H P + LKPGV+ + + +G +
Sbjct: 1 LKLEIVTPERVFFSGE-VESVVLPGTEGEFGILPGHAPLVTALKPGVLRIRDEDGEEKYF 59
Query: 81 FVSSGTITVNDDSSVQIIAEEAHPVDSLDASAARDVLSKAQSELSSASSETAKAEAQIAV 140
VS G + V + V I+A+EA + +D A + L +A+ L+ A E KA A+ A+
Sbjct: 60 AVSGGFLEVTPN-RVTILADEAERPEDIDVERAEEALERAEERLAQAKDEREKARAEAAL 118
Query: 141 EVAEA 145
E A A
Sbjct: 119 ERALA 123
Score = 59.1 bits (144), Expect = 1e-11
Identities = 23/67 (34%), Positives = 35/67 (52%), Gaps = 1/67 (1%)
Query: 147 KIFVSSGTITVNDDSSVQIIAEEAHPVDSLDASAARDVLSKAQSELSSASSETAKAEAQI 206
VS G + V + V I+A+EA + +D A + L +A+ L+ A E KA A+
Sbjct: 58 YFAVSGGFLEVTPNR-VTILADEAERPEDIDVERAEEALERAEERLAQAKDEREKARAEA 116
Query: 207 AVEVAEA 213
A+E A A
Sbjct: 117 ALERALA 123
>gnl|CDD|217242 pfam02823, ATP-synt_DE_N, ATP synthase, Delta/Epsilon chain,
beta-sandwich domain. Part of the ATP synthase CF(1).
These subunits are part of the head unit of the ATP
synthase. The subunit is called epsilon in bacteria and
delta in mitochondria. In bacteria the delta (D) subunit
is equivalent to the mitochondrial Oligomycin sensitive
subunit, OSCP (pfam00213).
Length = 80
Score = 81.7 bits (203), Expect = 1e-20
Identities = 30/82 (36%), Positives = 45/82 (54%), Gaps = 2/82 (2%)
Query: 21 MDFTLASGNKVFYTNQNVKQVDVPSFSGAFGILPNHVPTLAILKPGVITVYETEGVSQKI 80
+ + + +V + + V+ V P G FGILP H P L LKPGV+ + +G +KI
Sbjct: 1 LKLEIVTPERVVF-SGEVEMVVAPGTEGEFGILPGHAPLLTALKPGVLRIKTEDGEEEKI 59
Query: 81 FVSSGTITVNDDSSVQIIAEEA 102
VS G + V + V I+A+EA
Sbjct: 60 AVSGGFLEVQPN-EVTILADEA 80
Score = 27.4 bits (62), Expect = 1.9
Identities = 11/24 (45%), Positives = 15/24 (62%), Gaps = 1/24 (4%)
Query: 147 KIFVSSGTITVNDDSSVQIIAEEA 170
KI VS G + V + V I+A+EA
Sbjct: 58 KIAVSGGFLEVQPN-EVTILADEA 80
>gnl|CDD|234796 PRK00571, atpC, F0F1 ATP synthase subunit epsilon; Validated.
Length = 135
Score = 78.3 bits (194), Expect = 1e-18
Identities = 38/109 (34%), Positives = 57/109 (52%), Gaps = 1/109 (0%)
Query: 37 NVKQVDVPSFSGAFGILPNHVPTLAILKPGVITVYETEGVSQKIFVSSGTITVNDDSSVQ 96
V++V VP G GILP H P L LKPGV+ + + +G + I VS G + V D V
Sbjct: 19 EVEEVVVPGTEGELGILPGHAPLLTALKPGVVRIKKDDGEEEVIAVSGGFLEVQPD-KVT 77
Query: 97 IIAEEAHPVDSLDASAARDVLSKAQSELSSASSETAKAEAQIAVEVAEA 145
++A+ A D +D + A + +A+ L + + A AQ A+ A A
Sbjct: 78 VLADSAERADDIDEARAEEAKERAEEALENKHDDVDYARAQAALARAIA 126
Score = 43.2 bits (103), Expect = 1e-05
Identities = 21/71 (29%), Positives = 34/71 (47%), Gaps = 1/71 (1%)
Query: 148 IFVSSGTITVNDDSSVQIIAEEAHPVDSLDASAARDVLSKAQSELSSASSETAKAEAQIA 207
I VS G + V D V ++A+ A D +D + A + +A+ L + + A AQ A
Sbjct: 62 IAVSGGFLEVQPDK-VTVLADSAERADDIDEARAEEAKERAEEALENKHDDVDYARAQAA 120
Query: 208 VEVAEALVAAA 218
+ A A + A
Sbjct: 121 LARAIARLRVA 131
>gnl|CDD|223432 COG0355, AtpC, F0F1-type ATP synthase, epsilon subunit
(mitochondrial delta subunit) [Energy production and
conversion].
Length = 135
Score = 78.1 bits (193), Expect = 1e-18
Identities = 42/127 (33%), Positives = 65/127 (51%), Gaps = 3/127 (2%)
Query: 20 QMDFTLASGNKVFYTNQNVKQVDVPSFSGAFGILPNHVPTLAILKPGVITVYETEGV-SQ 78
++ + S + Y + VK V VP+ G GILP H P + LKPGV+ + +G +
Sbjct: 3 ELKLEIVSPEGIIY-SGEVKSVVVPTTEGELGILPGHAPLITALKPGVVRIKTEDGDKEE 61
Query: 79 KIFVSSGTITVNDDSSVQIIAEEAHPVDSLDASAARDVLSKAQSELSSASSETAKAEAQI 138
KI VS G + V + V I+A+ A D +D + A + +A+ EL SA + A+
Sbjct: 62 KIAVSGGFLEV-QPNEVTILADSAERADDIDEARAEEAKERAEKELESAKDDKDYRRAEA 120
Query: 139 AVEVAEA 145
A+ A A
Sbjct: 121 ALARALA 127
Score = 40.7 bits (96), Expect = 9e-05
Identities = 23/76 (30%), Positives = 37/76 (48%), Gaps = 1/76 (1%)
Query: 144 EALKIFVSSGTITVNDDSSVQIIAEEAHPVDSLDASAARDVLSKAQSELSSASSETAKAE 203
+ KI VS G + V + V I+A+ A D +D + A + +A+ EL SA +
Sbjct: 59 KEEKIAVSGGFLEV-QPNEVTILADSAERADDIDEARAEEAKERAEKELESAKDDKDYRR 117
Query: 204 AQIAVEVAEALVAAAS 219
A+ A+ A A + A
Sbjct: 118 AEAALARALARLRVAE 133
>gnl|CDD|130283 TIGR01216, ATP_synt_epsi, ATP synthase, F1 epsilon subunit (delta
in mitochondria). This model describes one of the five
types of subunits in the F1 part of F1/F0 ATP synthases.
Members of this family are designated epsilon in
bacterial and chloroplast systems but designated delta
in mitochondria, where the counterpart of the bacterial
delta subunit is designated OSCP. In a few cases
(Propionigenium modestum, Acetobacterium woodii) scoring
above the trusted cutoff and designated here as
exceptions, Na+ replaces H+ for translocation [Energy
metabolism, ATP-proton motive force interconversion].
Length = 130
Score = 70.7 bits (174), Expect = 8e-16
Identities = 37/108 (34%), Positives = 53/108 (49%), Gaps = 1/108 (0%)
Query: 38 VKQVDVPSFSGAFGILPNHVPTLAILKPGVITVYETEGVSQKIFVSSGTITVNDDSSVQI 97
V+ V +P G GILP H P + LKPGV+ + + + I VS G V V I
Sbjct: 18 VESVILPGSEGELGILPGHAPLITALKPGVVRIRKLGDDWEHIAVSGGFAEV-QPDKVTI 76
Query: 98 IAEEAHPVDSLDASAARDVLSKAQSELSSASSETAKAEAQIAVEVAEA 145
+A+ A D +D + A L A+ L SA + AEA + ++ A A
Sbjct: 77 LADGAVFADDIDEAEAEKALEAAEKLLESAEDDKDLAEALLKLKKARA 124
Score = 39.2 bits (92), Expect = 3e-04
Identities = 23/71 (32%), Positives = 33/71 (46%), Gaps = 1/71 (1%)
Query: 148 IFVSSGTITVNDDSSVQIIAEEAHPVDSLDASAARDVLSKAQSELSSASSETAKAEAQIA 207
I VS G V V I+A+ A D +D + A L A+ L SA + AEA +
Sbjct: 60 IAVSGGFAEV-QPDKVTILADGAVFADDIDEAEAEKALEAAEKLLESAEDDKDLAEALLK 118
Query: 208 VEVAEALVAAA 218
++ A A + A
Sbjct: 119 LKKARAQLEAL 129
>gnl|CDD|184056 PRK13446, atpC, F0F1 ATP synthase subunit epsilon; Provisional.
Length = 136
Score = 70.4 bits (173), Expect = 1e-15
Identities = 36/109 (33%), Positives = 57/109 (52%), Gaps = 2/109 (1%)
Query: 35 NQNVKQVDVPSFSGAFGILPNHVPTLAILKPGVITVYETEGVSQKIFVSSGTITVNDDSS 94
++ V +V P G FG+LP H P L LK G +T Y+ G + + V+ G V+++
Sbjct: 18 SEEVDEVGAPGVLGEFGVLPGHAPFLTALKIGELT-YKKGGKTHYVAVNGGFAEVSNN-K 75
Query: 95 VQIIAEEAHPVDSLDASAARDVLSKAQSELSSASSETAKAEAQIAVEVA 143
V ++AE A + +D AR L +A+ L + E A A+ A+E A
Sbjct: 76 VTVLAETAERAEEIDVERARAALERAEQRLKKLTPEDDSARAEAALERA 124
Score = 39.6 bits (93), Expect = 2e-04
Identities = 20/73 (27%), Positives = 35/73 (47%), Gaps = 1/73 (1%)
Query: 147 KIFVSSGTITVNDDSSVQIIAEEAHPVDSLDASAARDVLSKAQSELSSASSETAKAEAQI 206
+ V+ G V+++ V ++AE A + +D AR L +A+ L + E A A+
Sbjct: 61 YVAVNGGFAEVSNNK-VTVLAETAERAEEIDVERARAALERAEQRLKKLTPEDDSARAEA 119
Query: 207 AVEVAEALVAAAS 219
A+E A + A
Sbjct: 120 ALERALIRLQVAG 132
>gnl|CDD|139579 PRK13448, atpC, F0F1 ATP synthase subunit epsilon; Provisional.
Length = 135
Score = 58.6 bits (142), Expect = 3e-11
Identities = 33/102 (32%), Positives = 58/102 (56%), Gaps = 3/102 (2%)
Query: 23 FTLASGNKVFYTNQNVKQVDVPSFSGAFGILPNHVPTLAILKPGVITVYETEGVSQKIFV 82
F L S K+ ++ + V QVD+P G FG+L H P +A+++PG++TV G QKI V
Sbjct: 6 FDLVSPEKLAFSGE-VDQVDIPGVEGDFGVLAGHAPVVAVIRPGILTV-TAGGNQQKIVV 63
Query: 83 SSGTITVNDDSSVQIIAEEAHPVDSLDASAARDVLSKAQSEL 124
G V+ + + ++A+ A V LD + +++ +++L
Sbjct: 64 LGGLAEVS-EKGLTVLADVATSVADLDLAQFAATIAEMEAQL 104
>gnl|CDD|184059 PRK13450, atpC, F0F1 ATP synthase subunit epsilon; Provisional.
Length = 132
Score = 54.8 bits (132), Expect = 7e-10
Identities = 33/108 (30%), Positives = 55/108 (50%), Gaps = 2/108 (1%)
Query: 18 ADQMDFTLASGNKVFYTNQNVKQVDVPSFSGAFGILPNHVPTLAILKPGVITVYETEGVS 77
A+ + T+ + K FY + VK+V G ILPNHVP + LKP + + + G
Sbjct: 1 ANNIKLTILTPEKNFYIGE-VKEVITEGLDGDIAILPNHVPLITYLKPTITKIIDENGEK 59
Query: 78 QKIFVSSGTITVNDDSSVQIIAEEAHPVDSLDASAARDVLSKAQSELS 125
+KIF SSG + V ++ V I+ + + + +D A + +A+ L
Sbjct: 60 KKIFTSSGVLKVE-NNEVYILCDASEWPEEIDIKRAENAKKRAEERLR 106
>gnl|CDD|173198 PRK14736, atpC, F0F1 ATP synthase subunit epsilon; Provisional.
Length = 133
Score = 52.9 bits (127), Expect = 4e-09
Identities = 33/86 (38%), Positives = 47/86 (54%), Gaps = 2/86 (2%)
Query: 23 FTLASGNKVFYTNQNVKQVDVPSFSGAFGILPNHVPTLAILKPGVITVYETEGVSQKIFV 82
F L + Y+ + V+ V +P G +LP H P L LK GVITV ET G ++I+V
Sbjct: 6 FDLVGPERTLYSGE-VEAVQLPGSEGEMTVLPGHAPVLTTLKVGVITVTETTGNGKRIYV 64
Query: 83 SSGTITVNDDSSVQIIAEEAHPVDSL 108
G + +SV ++AE A PV+ L
Sbjct: 65 RGGFAEIG-PTSVTVLAERAAPVEEL 89
>gnl|CDD|139576 PRK13444, atpC, F0F1 ATP synthase subunit epsilon; Provisional.
Length = 127
Score = 52.6 bits (126), Expect = 5e-09
Identities = 32/128 (25%), Positives = 59/128 (46%), Gaps = 3/128 (2%)
Query: 17 YADQMDFTLASGNKVFYTNQNVKQVDVPSFSGAFGILPNHVPTLAILKPGVITVYETEGV 76
A ++ ++ S K+ Y + V + VP G FGILPNH P +A L G++ +
Sbjct: 2 MAKKLTVSVISPEKILYKGE-VDSLIVPGSEGFFGILPNHAPLVATLGIGLLEIR-KGEK 59
Query: 77 SQKIFVSSGTITVNDDSSVQIIAEEAHPVDSLDASAARDVLSKAQSELSSASSETAKAEA 136
++I V G V D+ + I+ + + +D + +L++A+ S S +
Sbjct: 60 LKRISVEGGFCEVKDN-QISILTDHGALKEDIDHEHEKKLLAEAEKLPPSDSKNLLLQKT 118
Query: 137 QIAVEVAE 144
+ + VA
Sbjct: 119 KTRILVAS 126
>gnl|CDD|214351 CHL00063, atpE, ATP synthase CF1 epsilon subunit.
Length = 134
Score = 52.2 bits (126), Expect = 6e-09
Identities = 29/117 (24%), Positives = 55/117 (47%), Gaps = 3/117 (2%)
Query: 29 NKVFYTNQNVKQVDVPSFSGAFGILPNHVPTLAILKPGVITVYETEGVSQKIFVSSGTIT 88
N++ + + V+++ +P+ SG G+LPNH P L GV+ + + G
Sbjct: 11 NRIVW-DSEVEEIILPTNSGQIGVLPNHAPIATALDIGVLRIRLNDQWL--TMALMGGFA 67
Query: 89 VNDDSSVQIIAEEAHPVDSLDASAARDVLSKAQSELSSASSETAKAEAQIAVEVAEA 145
++ + I+ +A +D A+ L A++ L A + K EA +A++ A A
Sbjct: 68 RIGNNEITILVNDAEKGSDIDPQEAQQTLEIAEANLEKAEGKKQKIEANLALKRARA 124
Score = 33.7 bits (78), Expect = 0.022
Identities = 21/66 (31%), Positives = 31/66 (46%), Gaps = 10/66 (15%)
Query: 154 TITVNDDSSVQIIAEEAHPVDSLDASAARDVLSKAQSELSSASSETAKAEAQIAVEVAEA 213
TI VND AE+ +D A+ L A++ L A + K EA +A++ A A
Sbjct: 75 TILVND-------AEKG---SDIDPQEAQQTLEIAEANLEKAEGKKQKIEANLALKRARA 124
Query: 214 LVAAAS 219
V A +
Sbjct: 125 RVEAIN 130
>gnl|CDD|184058 PRK13449, atpC, F0F1 ATP synthase subunit epsilon; Provisional.
Length = 88
Score = 47.1 bits (112), Expect = 2e-07
Identities = 25/66 (37%), Positives = 37/66 (56%), Gaps = 2/66 (3%)
Query: 38 VKQVDVPSFSGAFGILPNHVPTLAILKPGVITVYETEGVSQKIF-VSSGTITVNDDSSVQ 96
V V VP G FG+L H P + L+ G +TVY ++G + ++F V G VN+ +
Sbjct: 20 VDMVVVPGTEGDFGVLAGHAPFMTTLREGEVTVYSSDGAAPEVFHVQGGFAEVNEK-GLT 78
Query: 97 IIAEEA 102
I+AE A
Sbjct: 79 ILAEHA 84
>gnl|CDD|173197 PRK14735, atpC, F0F1 ATP synthase subunit epsilon; Provisional.
Length = 139
Score = 45.4 bits (107), Expect = 2e-06
Identities = 32/109 (29%), Positives = 49/109 (44%), Gaps = 2/109 (1%)
Query: 35 NQNVKQVDVPSFSGAFGILPNHVPTLAILKPGVITVYETEGVSQKIFVSSGTITVNDDSS 94
+ +V + P+ G GILP H P L IL+PG + GV +S G + V
Sbjct: 16 SDDVDMISAPTKDGRVGILPRHAPLLTILEPGELD-IVKNGVRTPFAISGGFMEVLPH-R 73
Query: 95 VQIIAEEAHPVDSLDASAARDVLSKAQSELSSASSETAKAEAQIAVEVA 143
V I+A+ A D +D + A ++A+ SE A A+ + A
Sbjct: 74 VTILADTAERADEIDEARAEQARAEAEQRRRERQSEQDLALAEAKLRRA 122
>gnl|CDD|237388 PRK13443, atpC, F0F1 ATP synthase subunit epsilon; Provisional.
Length = 136
Score = 45.3 bits (107), Expect = 3e-06
Identities = 28/122 (22%), Positives = 55/122 (45%), Gaps = 3/122 (2%)
Query: 18 ADQMDFTLASGNKVFYTNQNVKQVDVPSFSGAFGILPNHVPTLAILKPGVITVYETEGVS 77
A + F L S + + Q V +P G + H PT+ L+PG++ + G
Sbjct: 2 AGTLQFDLVSPERRLASFQ-ATAVQIPGADGDMTAMEGHAPTITTLRPGILRAHGPSGTQ 60
Query: 78 QKIFVSSGTITVNDDSSVQIIAEEAHPVDSLDASAARDVLSKAQSELSSASSETAKAEAQ 137
+ + +G + +S+ ++AE+A PV+ L + + +++A+ S A E +
Sbjct: 61 E--YAVTGGFAEINATSISVLAEKAIPVEELTGAVLDEFIAEARELASVALPENEPGDVD 118
Query: 138 IA 139
A
Sbjct: 119 DA 120
>gnl|CDD|184055 PRK13442, atpC, F0F1 ATP synthase subunit epsilon; Provisional.
Length = 89
Score = 43.5 bits (103), Expect = 4e-06
Identities = 21/68 (30%), Positives = 31/68 (45%), Gaps = 1/68 (1%)
Query: 39 KQVDVPSFSGAFGILPNHVPTLAILKPGVITVYETEGVSQKIFVSSGTITVNDDSSVQII 98
V + G GILP H P L +L+ G +TV G V G I+ + + + ++
Sbjct: 23 TMVVARTTEGDIGILPGHEPLLGVLESGTVTVVTPGGERISAAVDGGFISFDSN-KLTVL 81
Query: 99 AEEAHPVD 106
AE A V
Sbjct: 82 AERAELVA 89
>gnl|CDD|235750 PRK06228, PRK06228, F0F1 ATP synthase subunit epsilon; Validated.
Length = 131
Score = 44.2 bits (105), Expect = 4e-06
Identities = 23/75 (30%), Positives = 37/75 (49%), Gaps = 8/75 (10%)
Query: 19 DQMDFTLASGNKVFYTNQNVKQVDVPSFSGAFGILPNHVPTLAILKPGVITVYETEG--- 75
M+ + +VF + V ++ + G+FG+LP+ + +A L PG I VYETE
Sbjct: 1 ASMNLKILLPFEVFAEKKGVTRIVAETREGSFGLLPHRLDCVAALVPG-ILVYETEAEGE 59
Query: 76 ----VSQKIFVSSGT 86
V + I V +G
Sbjct: 60 VYVAVDEGILVKTGP 74
>gnl|CDD|184057 PRK13447, PRK13447, F0F1 ATP synthase subunit epsilon; Provisional.
Length = 136
Score = 44.2 bits (105), Expect = 5e-06
Identities = 23/78 (29%), Positives = 35/78 (44%), Gaps = 5/78 (6%)
Query: 38 VKQVDVPSF-----SGAFGILPNHVPTLAILKPGVITVYETEGVSQKIFVSSGTITVNDD 92
V ++D+ S SG FGILP H L +L+ V+ +G + V G + V
Sbjct: 13 VDELDIVSLRAEDASGGFGILPGHADFLTVLRASVVRWRRADGATHYCAVRGGVLRVTGG 72
Query: 93 SSVQIIAEEAHPVDSLDA 110
+ V+I EA + L
Sbjct: 73 ARVEIACREAVLGEDLAR 90
>gnl|CDD|100879 PRK01474, atpC, F0F1 ATP synthase subunit epsilon; Validated.
Length = 112
Score = 41.8 bits (98), Expect = 3e-05
Identities = 29/88 (32%), Positives = 44/88 (50%), Gaps = 1/88 (1%)
Query: 39 KQVDVPSFSGAFGILPNHVPTLAILKPGVITVY-ETEGVSQKIFVSSGTITVNDDSSVQI 97
K V +P G FG+LP+HVP + LK G++ VY + S+ ++ SG +T + + I
Sbjct: 22 KMVTMPGEEGMFGVLPSHVPMIVSLKAGLVQVYIDDMHKSENTYLISGGVTEVTGNYINI 81
Query: 98 IAEEAHPVDSLDASAARDVLSKAQSELS 125
E A V +L + L Q LS
Sbjct: 82 ATETAINVTNLSEAEIATKLLDLQKTLS 109
>gnl|CDD|132210 TIGR03166, alt_F1F0_F1_eps, alternate F1F0 ATPase, F1 subunit
epsilon. 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
epsilon subunit of this apparent second ATP synthase.
Length = 122
Score = 35.0 bits (81), Expect = 0.008
Identities = 31/119 (26%), Positives = 53/119 (44%), Gaps = 5/119 (4%)
Query: 22 DFTLASGNKVFYTNQNVKQVDVPSFSGAFGILPNHVPTLAILKPGVITVYETEGVSQKIF 81
+ + +VF V ++ + SG+FG+LP HV +A L PG++ +YET + +
Sbjct: 1 RLKILTPFRVFLDKLPVTRIVAETESGSFGLLPGHVDCVAALVPGIL-IYETAD-GGEHY 58
Query: 82 VS-SGTITVNDDSSVQIIAEEAHPVDSLDA--SAARDVLSKAQSELSSASSETAKAEAQ 137
V+ I V + V++ A L+ A R + SA S A+ E+
Sbjct: 59 VAVDQGILVKRGADVEVSVRNAVGGTELEELEEAVRQEFLTLDEQERSARSAMARLESD 117
>gnl|CDD|234515 TIGR04234, seadorna_RNAP, seadornavirus RNA-directed RNA
polymerase. Members of this protein family are the
seadornavirus VP1 protein, the RNA-directed RNA
polymerase.
Length = 1144
Score = 32.1 bits (73), Expect = 0.24
Identities = 31/111 (27%), Positives = 44/111 (39%), Gaps = 16/111 (14%)
Query: 53 LPNHVPTLAILKPGVITVYETEGVSQ---KIFVSSGTITVNDDSSVQIIAEEAHPVDSLD 109
L N V A + T Y V Q KI + I V DD +V + + P+ D
Sbjct: 650 LRNTVTNKAHTTQYLET-YNRTKVRQGFRKIELVQENI-VGDDKNVILRTADGKPLTLRD 707
Query: 110 A----SAARDVLSKAQSELSSASSETAKAEAQIAVEVAEALKIFVSSGTIT 156
A + A DV ++ E+S+ S V E +KI+V G I
Sbjct: 708 AKLYINCAFDVAAENHLEISAKRSVVGNV-------VTEHIKIWVKKGYIL 751
>gnl|CDD|172059 PRK13451, atpC, F0F1 ATP synthase subunit epsilon; Provisional.
Length = 101
Score = 30.1 bits (68), Expect = 0.31
Identities = 21/82 (25%), Positives = 32/82 (39%), Gaps = 3/82 (3%)
Query: 21 MDFTLASGNKVFYTNQNVKQVDVPSFSGAFGILPNHVPTLAILKPGVITVYETEGVSQKI 80
M + + + Y ++ V + G GILP P +A L V V G +
Sbjct: 1 MKVKIVTPYGIVY-DRESDFVSFRTVEGEMGILPRRAPIIAKLS--VCDVKIKSGDDEYE 57
Query: 81 FVSSGTITVNDDSSVQIIAEEA 102
+ + D +V II EEA
Sbjct: 58 YKVADGFLHCDGKNVIIITEEA 79
>gnl|CDD|220585 pfam10123, Mu-like_Pro, Mu-like prophage I protein. Members of
this family of proteins comprise various viral Mu-like
prophage I proteins.
Length = 326
Score = 31.2 bits (71), Expect = 0.37
Identities = 23/92 (25%), Positives = 34/92 (36%), Gaps = 9/92 (9%)
Query: 129 SETAKAEAQIAVEVAEALKIFVSSGTITVNDDSSVQIIAEEAHPVDSLDASAARDVLSK- 187
+ A E A A AL+ + D +A +L A A L+K
Sbjct: 164 AADATDEDLTAALAAAALEALAALAAAAGALDELRSQLA-------ALTAKTANVDLAKY 216
Query: 188 -AQSELSSASSETAKAEAQIAVEVAEALVAAA 218
+ + +E A A++A EALV AA
Sbjct: 217 VPIATYQALRAELAALTAKLAEAEVEALVTAA 248
>gnl|CDD|215901 pfam00401, ATP-synt_DE, ATP synthase, Delta/Epsilon chain, long
alpha-helix domain. Part of the ATP synthase CF(1).
These subunits are part of the head unit of the ATP
synthase. This subunit is called epsilon in bacteria and
delta in mitochondria. In bacteria the delta (D) subunit
is equivalent to the mitochondrial Oligomycin sensitive
subunit, OSCP (pfam00213).
Length = 48
Score = 28.6 bits (65), Expect = 0.38
Identities = 11/45 (24%), Positives = 22/45 (48%)
Query: 174 DSLDASAARDVLSKAQSELSSASSETAKAEAQIAVEVAEALVAAA 218
+ +D A + +A+ L+ A + A+ A++ A A + AA
Sbjct: 1 EDIDLERAEEAKERAEEALAKAEGDKEYIRAEAALKRARARLRAA 45
Score = 27.8 bits (63), Expect = 0.69
Identities = 9/40 (22%), Positives = 19/40 (47%)
Query: 106 DSLDASAARDVLSKAQSELSSASSETAKAEAQIAVEVAEA 145
+ +D A + +A+ L+ A + A+ A++ A A
Sbjct: 1 EDIDLERAEEAKERAEEALAKAEGDKEYIRAEAALKRARA 40
>gnl|CDD|215487 PLN02900, PLN02900, alanyl-tRNA synthetase.
Length = 936
Score = 31.1 bits (71), Expect = 0.46
Identities = 25/92 (27%), Positives = 39/92 (42%), Gaps = 6/92 (6%)
Query: 132 AKAEAQIAVEVAEALKIFVSSGTITVNDDSSVQIIAEEAHPVDSLDASAA-----RDVLS 186
A A+ A++L+ + S + V + +A VD+ AA R +S
Sbjct: 735 TGGAAVEAINAADSLERELDS-ALKVEGSDLEKKVASLKSRVDAAVIPAAKKEEIRARVS 793
Query: 187 KAQSELSSASSETAKAEAQIAVEVAEALVAAA 218
Q EL +A E A A++AV A L + A
Sbjct: 794 ALQKELRAAQKEAAALRAKLAVAKATELASKA 825
Score = 30.4 bits (69), Expect = 0.76
Identities = 28/110 (25%), Positives = 43/110 (39%), Gaps = 22/110 (20%)
Query: 105 VDSLDASAA-----RDVLSKAQSELSSASSETAKAEAQIAVEVAEALKIFVSSGTITVND 159
VD+ AA R +S Q EL +A E A A++AV A L +S ++
Sbjct: 775 VDAAVIPAAKKEEIRARVSALQKELRAAQKEAAALRAKLAVAKATEL----ASKALSAGK 830
Query: 160 DSSVQIIAEEAHPVDSLDASAARDVLSKAQSELS-------SASSETAKA 202
V A +DA+A ++ K ++L S+ E K
Sbjct: 831 SVLV------ARLDVGVDAAALKEAAEKVIAKLGDPAAVVLSSDEEKGKV 874
>gnl|CDD|236766 PRK10811, rne, ribonuclease E; Reviewed.
Length = 1068
Score = 31.2 bits (71), Expect = 0.52
Identities = 27/147 (18%), Positives = 45/147 (30%), Gaps = 6/147 (4%)
Query: 72 ETEGVSQKIFVSSGTITVNDDSSVQIIAEEAHPVDSLDASAARDVLSKAQSELSSASSET 131
+ E + V + + + + PV A + + A+ +
Sbjct: 854 QVEEQREAEEVQVQPVVAEVPVAAAVEPVVSAPVVEAVAEVVEEPVVVAEPQPEEVVVVE 913
Query: 132 AKAEAQIAVEVAEALKIFVSSGTITVNDDSSVQIIAEEAHPVDSLDASAARDVLSKAQSE 191
IA V E ++ IT +D + Q +AE A PV A + +E
Sbjct: 914 TTHPEVIAAPVTEQPQV------ITESDVAVAQEVAEHAEPVVEPQDETADIEEAAETAE 967
Query: 192 LSSASSETAKAEAQIAVEVAEALVAAA 218
+ A E A V A V
Sbjct: 968 VVVAEPEVVAQPAAPVVAEVAAEVETV 994
>gnl|CDD|237011 PRK11892, PRK11892, pyruvate dehydrogenase subunit beta;
Provisional.
Length = 464
Score = 30.3 bits (69), Expect = 0.73
Identities = 26/94 (27%), Positives = 41/94 (43%), Gaps = 1/94 (1%)
Query: 127 ASSETAKAEAQI-AVEVAEALKIFVSSGTITVNDDSSVQIIAEEAHPVDSLDASAARDVL 185
A ET KA ++ AV+ KI V GT V ++ + ++ EE A+ A
Sbjct: 37 AEIETDKATMEVEAVDEGTLGKILVPEGTEGVKVNTPIAVLLEEGESASDAGAAPAAAAE 96
Query: 186 SKAQSELSSASSETAKAEAQIAVEVAEALVAAAS 219
+ A + ++A++ KA A A A AA
Sbjct: 97 AAAAAPAAAAAAAAKKAAPAPAAPAAPAAEVAAD 130
Score = 28.7 bits (65), Expect = 2.2
Identities = 19/75 (25%), Positives = 33/75 (44%)
Query: 74 EGVSQKIFVSSGTITVNDDSSVQIIAEEAHPVDSLDASAARDVLSKAQSELSSASSETAK 133
EG KI V GT V ++ + ++ EE A+ A + A + ++A++ K
Sbjct: 53 EGTLGKILVPEGTEGVKVNTPIAVLLEEGESASDAGAAPAAAAEAAAAAPAAAAAAAAKK 112
Query: 134 AEAQIAVEVAEALKI 148
A A A A ++
Sbjct: 113 AAPAPAAPAAPAAEV 127
>gnl|CDD|220415 pfam09809, MRP-L27, Mitochondrial ribosomal protein L27. Members
of this family of proteins are components of the
mitochondrial ribosome large subunit. They are also
involved in apoptosis and cell cycle regulation.
Length = 113
Score = 28.5 bits (64), Expect = 1.1
Identities = 19/76 (25%), Positives = 32/76 (42%), Gaps = 12/76 (15%)
Query: 18 ADQM-DFTLASGNKVFYTNQNVKQVDVPSFSGAFGILPNHVPTLAI-------LKPGV-- 67
++ T GNK FY + + + SG + I+ VPT + LKP V
Sbjct: 3 GNRRFPLTSKRGNKTFYKGRGASGIGRHTSSGRYVIIWEKVPTFVVPDLTGFKLKPYVSY 62
Query: 68 --ITVYETEGVSQKIF 81
V ++E ++ +F
Sbjct: 63 KAPEVIQSEFTAKDLF 78
>gnl|CDD|205821 pfam13644, DKNYY, DKNYY family. This family represents a group
of proteins found enriched in fusobacteria. These
proteins contain many repeats of a DKNXXYY motif. The
repeats are spaced at about 35 amino acid residues
intervals. These proteins are likely to be associated
with the membrane. The specific function of these
proteins is unknown.
Length = 163
Score = 28.4 bits (64), Expect = 1.7
Identities = 6/19 (31%), Positives = 10/19 (52%)
Query: 28 GNKVFYTNQNVKQVDVPSF 46
N V+Y + +K D +F
Sbjct: 5 KNNVYYYGKKIKGADPKTF 23
>gnl|CDD|237538 PRK13876, PRK13876, conjugal transfer coupling protein TraG;
Provisional.
Length = 663
Score = 29.1 bits (66), Expect = 2.1
Identities = 12/23 (52%), Positives = 17/23 (73%), Gaps = 3/23 (13%)
Query: 103 HPVDSLDASAARDVLSKAQSELS 125
HPV ASAAR++L+K+ +E S
Sbjct: 302 HPVV---ASAARELLNKSDNERS 321
Score = 29.1 bits (66), Expect = 2.1
Identities = 12/23 (52%), Positives = 17/23 (73%), Gaps = 3/23 (13%)
Query: 171 HPVDSLDASAARDVLSKAQSELS 193
HPV ASAAR++L+K+ +E S
Sbjct: 302 HPVV---ASAARELLNKSDNERS 321
>gnl|CDD|106409 PRK13452, atpC, F0F1 ATP synthase subunit epsilon; Provisional.
Length = 145
Score = 27.8 bits (61), Expect = 3.0
Identities = 21/90 (23%), Positives = 43/90 (47%), Gaps = 2/90 (2%)
Query: 47 SGAFGILPNHVPTLAILKPGVITVYETEGVSQKIFVSSGTITVNDDSSVQIIAEEAHPVD 106
+G GI H L+ L GV+ V + + + ++VS G + V + V I+ ++ +
Sbjct: 31 AGEMGIAYGHTELLSTLPAGVVNVRKDQH-TDVLYVSGGIVEVT-PTRVTIMVDDMERAE 88
Query: 107 SLDASAARDVLSKAQSELSSASSETAKAEA 136
+L+ + A ++A+ L + + EA
Sbjct: 89 NLNQAEAEKARARAKEVLKNPDASKLDIEA 118
>gnl|CDD|184676 PRK14429, PRK14429, acylphosphatase; Provisional.
Length = 90
Score = 27.0 bits (60), Expect = 3.2
Identities = 11/26 (42%), Positives = 19/26 (73%), Gaps = 1/26 (3%)
Query: 84 SGTITVNDDSSVQIIAEEAHP-VDSL 108
+G +T +D SV+I+A+ + P VD+L
Sbjct: 31 TGYVTNCEDGSVEILAQGSDPAVDNL 56
Score = 27.0 bits (60), Expect = 3.2
Identities = 11/26 (42%), Positives = 19/26 (73%), Gaps = 1/26 (3%)
Query: 152 SGTITVNDDSSVQIIAEEAHP-VDSL 176
+G +T +D SV+I+A+ + P VD+L
Sbjct: 31 TGYVTNCEDGSVEILAQGSDPAVDNL 56
>gnl|CDD|215621 PLN03188, PLN03188, kinesin-12 family protein; Provisional.
Length = 1320
Score = 28.4 bits (63), Expect = 3.9
Identities = 31/137 (22%), Positives = 53/137 (38%), Gaps = 10/137 (7%)
Query: 83 SSGTITVNDDSSVQIIAEEAHPVDSLDASAARDVLSKAQSELSSASSETAKAEAQIAVEV 142
S T++ +SS Q + E+ S+ + SK S +++ V V
Sbjct: 597 SLQIDTLDHESSEQPLEEKNALHSSVSKLNTEESPSKMVEIRPSCQDSVSESGVSTGVSV 656
Query: 143 AEALKIFVSSGTITVN--DDSSVQIIAEEAHPV-----DSLDASAARDVLSKAQSELSSA 195
A+ S VN SS+ I+ E PV S+ S S + +A
Sbjct: 657 ADESN---DSENELVNCASPSSLSIVPVEVSPVLKSPTLSVSPRIRNSRKSLRTSSMLTA 713
Query: 196 SSETAKAEAQIAVEVAE 212
S + ++ E+++ E AE
Sbjct: 714 SQKDSEDESKLTPEDAE 730
>gnl|CDD|180941 PRK07352, PRK07352, F0F1 ATP synthase subunit B; Validated.
Length = 174
Score = 27.6 bits (62), Expect = 4.1
Identities = 27/98 (27%), Positives = 42/98 (42%), Gaps = 13/98 (13%)
Query: 113 ARDVLSKAQSELSSASSETAKAEAQIAVEVAEALKIFVSSGTI--------TVNDDSSVQ 164
A L++AQ +L+ A E + A A AEA++ + I T D S
Sbjct: 69 AAQALAEAQQKLAQAQQEAERIRAD-AKARAEAIRAEIEKQAIEDMARLKQTAAADLS-- 125
Query: 165 IIAEEAHPVDSLDASAARDVLSKAQSELSSASSETAKA 202
AE+ + L AA ++KA+S+L E A+
Sbjct: 126 --AEQERVIAQLRREAAELAIAKAESQLPGRLDEDAQQ 161
>gnl|CDD|237284 PRK13108, PRK13108, prolipoprotein diacylglyceryl transferase;
Reviewed.
Length = 460
Score = 28.0 bits (62), Expect = 4.5
Identities = 25/109 (22%), Positives = 40/109 (36%), Gaps = 13/109 (11%)
Query: 110 ASAARDVLSKAQSELSSASSETAKAEAQIAVEVAEALKIFVSSGTITVNDDSSVQIIAEE 169
AA V S A + E + + VAEA+K V+ T V +S VQ
Sbjct: 302 ELAAAAVASAASAVGPVGPGEPNQPDD-----VAEAVKAEVAEVTDEVAAESVVQ----- 351
Query: 170 AHPVDSLDASAARDVLSKAQSELSSASSETAKAEAQIAVEVAEALVAAA 218
V D + V +++++ +A A +V +AA
Sbjct: 352 ---VADRDGESTPAVEETSEADIEREQPGDLAGQAPAAHQVDAEAASAA 397
>gnl|CDD|235136 PRK03598, PRK03598, putative efflux pump membrane fusion protein;
Provisional.
Length = 331
Score = 27.6 bits (62), Expect = 5.7
Identities = 28/132 (21%), Positives = 52/132 (39%), Gaps = 29/132 (21%)
Query: 108 LDASAARDVLSKAQSELSSASSETAKAE--------AQIAVEVAEALKIF---------- 149
LDA+ + L +A++ +S A ++ AQ V +A +
Sbjct: 74 LDAAPYENALMQAKANVSVAQAQLDLMLAGYRDEEIAQARAAVKQAQAAYDYAQNFYNRQ 133
Query: 150 ---VSSGTITVNDDSSVQIIAEEAHPVDSLDASAARDVLSKAQSELSSASSETAKAEAQI 206
S TI+ ND + A + +A+D LS+ + + + A+A+A
Sbjct: 134 QGLWKSRTISANDLEN----ARSSRDQAQATLKSAQDKLSQYRE--GNRPQDIAQAKAS- 186
Query: 207 AVEVAEALVAAA 218
+ A+A +A A
Sbjct: 187 -LAQAQAALAQA 197
>gnl|CDD|234501 TIGR04211, SH3_and_anchor, SH3 domain protein. Members of this
protein family have a signal peptide, a strongly
conserved SH3 domain, a variable region, and then a
C-terminal hydrophobic transmembrane alpha helix region.
Length = 198
Score = 27.3 bits (61), Expect = 5.8
Identities = 30/150 (20%), Positives = 59/150 (39%), Gaps = 13/150 (8%)
Query: 68 ITVYETEGVSQKI--FVSSGT-ITV---NDDSSVQIIAEEAHP--VDS---LDASAARDV 116
+ + G +I + SGT + V +DD ++ + V S D +AR+
Sbjct: 8 VYMRSGPGNQYRILGSLKSGTPVEVLERSDDGYSRVRTPKGREGWVLSRYLSDTPSARER 67
Query: 117 LSKAQSELSSASSETAKAEAQIAVEVAEALKIFVSSGTITVNDDSSVQIIAEEAHPVDSL 176
L + Q EL+ E A+ + Q+A E+ + + + + +Q + S
Sbjct: 68 LPELQQELAELQEELAELQEQLA-ELQQENQELKQELSTLEAELERLQKELARIKQL-SA 125
Query: 177 DASAARDVLSKAQSELSSASSETAKAEAQI 206
+A + + + EL+ E EA+
Sbjct: 126 NAIELDEENRELREELAELKQENEALEAEN 155
>gnl|CDD|177886 PLN02243, PLN02243, S-adenosylmethionine synthase.
Length = 386
Score = 27.5 bits (61), Expect = 6.4
Identities = 17/63 (26%), Positives = 31/63 (49%), Gaps = 1/63 (1%)
Query: 108 LDASAARDVLSKAQSELSSASSETAKAEAQIAVEVAEALKIFVSS-GTITVNDDSSVQII 166
+D S A V A+S +++ + + A+ V E L +FV + GT + D ++I+
Sbjct: 278 VDRSGAYIVRQAAKSVVAAGLARRCIVQVSYAIGVPEPLSVFVDTYGTGKIPDKEILKIV 337
Query: 167 AEE 169
E
Sbjct: 338 KEN 340
>gnl|CDD|233589 TIGR01828, pyru_phos_dikin, pyruvate, phosphate dikinase. This
model represents pyruvate,phosphate dikinase, also
called pyruvate,orthophosphate dikinase. It is similar
in sequence to other PEP-utilizing enzymes [Energy
metabolism, Other].
Length = 856
Score = 27.7 bits (62), Expect = 6.7
Identities = 26/82 (31%), Positives = 39/82 (47%), Gaps = 6/82 (7%)
Query: 131 TAKAEAQIAVEVAEALKIFVSSGTITVNDDSSVQIIAEEAHPVDSLDASAARDVLSKAQS 190
TAKA +IAV++ + I + V S Q++ HP D SA + VL+K
Sbjct: 340 TAKAAVRIAVDMVKEGLITEEEAIMRVEPKSLDQLL----HPR--FDPSALKTVLAKGLP 393
Query: 191 ELSSASSETAKAEAQIAVEVAE 212
A++ A+ AVE+AE
Sbjct: 394 ASPGAATGKIVFSAEDAVELAE 415
>gnl|CDD|235906 PRK07003, PRK07003, DNA polymerase III subunits gamma and tau;
Validated.
Length = 830
Score = 27.1 bits (60), Expect = 7.9
Identities = 27/121 (22%), Positives = 41/121 (33%), Gaps = 5/121 (4%)
Query: 99 AEEAHPVDSLDASAARDVLSKAQSELSSASSETAKAEAQIAVEVAEALKIFVSSGTITVN 158
+ P AA + +A + ++ + A A A +A
Sbjct: 475 GSASAPASDAPPDAAFEPAPRAAAPSAATPAAVPDARAPAAASREDAPAAAAPPAP---- 530
Query: 159 DDSSVQIIAEEAHPVDSLDASAARDVLSKAQSELSSASSETAKAEAQIAVEVAEALVAAA 218
++ A A + A+AA DVL A +SS A A A+ A A A AA
Sbjct: 531 -EARPPTPAAAAPAARAGGAAAALDVLRNAGMRVSSDRGARAAAAAKPAAAPAAAPKPAA 589
Query: 219 S 219
Sbjct: 590 P 590
>gnl|CDD|237875 PRK14974, PRK14974, cell division protein FtsY; Provisional.
Length = 336
Score = 26.9 bits (60), Expect = 9.3
Identities = 23/103 (22%), Positives = 37/103 (35%), Gaps = 19/103 (18%)
Query: 114 RDVLSKAQSELSSASSETAKAEAQIAVEVAEALKIFVSSGTITVNDDSSVQIIAEEAHPV 173
++ LSK ++ E + EA A E E D + + I E+
Sbjct: 6 KEKLSKFVEKVEEKIEEEEEEEAPEAEEEEEEEDEEEKKEKPGFFDKAKITEIKEK-DIE 64
Query: 174 DSLDASAARDVLSKAQSELSSASSETAKAEAQIAVEVAEALVA 216
D L+ EL E E+ +A+EVAE ++
Sbjct: 65 DLLE-------------EL-----ELELLESDVALEVAEEILE 89
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
0.308 0.120 0.301
Gapped
Lambda K H
0.267 0.0701 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 10,252,504
Number of extensions: 939970
Number of successful extensions: 1271
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1195
Number of HSP's successfully gapped: 126
Length of query: 219
Length of database: 10,937,602
Length adjustment: 93
Effective length of query: 126
Effective length of database: 6,812,680
Effective search space: 858397680
Effective search space used: 858397680
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.1 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.7 bits)
S2: 57 (25.8 bits)