RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy9749
(148 letters)
>gnl|CDD|215793 pfam00213, OSCP, ATP synthase delta (OSCP) subunit. The ATP D
subunit from E. coli is the same as the OSCP subunit
which is this family. The ATP D subunit from metazoa are
found in family pfam00401.
Length = 171
Score = 116 bits (293), Expect = 6e-34
Identities = 52/144 (36%), Positives = 76/144 (52%), Gaps = 3/144 (2%)
Query: 1 QALKTDVKFRDFVLDPTIQKSLKIEALKIVGQKKNFSAASINLLALLAENGKIKNIDGVI 60
L + R+F+ +P I K LK V K S + N L LLAENG++ + +
Sbjct: 31 AVLAENPDLREFLSNPLISAEEKKALLKAVFGGK-LSELTKNFLKLLAENGRLSLLPEIA 89
Query: 61 NNFSIIMAAHRGDLPVEVITARPLEEADKSELQSTLKLFAKKGENILLTTKVDPSIIGGM 120
F + HRG + V +A PL E L++ L+ K G+ + L TKVDPS+IGG+
Sbjct: 90 EEFEELYNEHRGIVEATVTSAVPLSEEQLKALKAALE--KKTGKKVKLETKVDPSLIGGV 147
Query: 121 IVSVGDKYVDMSVASKIKKYTDLL 144
+V VGDK +D SV K+++ L
Sbjct: 148 VVRVGDKVIDGSVRGKLERLKRAL 171
>gnl|CDD|223784 COG0712, AtpH, F0F1-type ATP synthase, delta subunit (mitochondrial
oligomycin sensitivity protein) [Energy production and
conversion].
Length = 178
Score = 95.0 bits (237), Expect = 2e-25
Identities = 44/139 (31%), Positives = 74/139 (53%), Gaps = 3/139 (2%)
Query: 1 QALKTDVKFRDFVLDPTIQKSLKIEALKIVGQKKNFSAASINLLALLAENGKIKNIDGVI 60
+ LK K + + P + K E L + +K N L LLAEN ++ + ++
Sbjct: 37 EILKNSPKLKQLLSSPAVSAEDKKELLISIFKKIGDPLL-QNFLRLLAENKRLNLLPEIL 95
Query: 61 NNFSIIMAAHRGDLPVEVITARPLEEADKSELQSTLKLFAKKGENILLTTKVDPSIIGGM 120
F + A RG + EV +A L + ++L++ L+ K G+ + L K+DPS+IGG+
Sbjct: 96 EEFLKLAAESRGIVEAEVTSAFELSDEQLTKLEAKLE--KKFGKKVKLNNKIDPSLIGGL 153
Query: 121 IVSVGDKYVDMSVASKIKK 139
I+ VGD+ +D SV K+K+
Sbjct: 154 IIKVGDEVIDGSVRGKLKR 172
>gnl|CDD|235593 PRK05758, PRK05758, F0F1 ATP synthase subunit delta; Validated.
Length = 177
Score = 92.9 bits (232), Expect = 1e-24
Identities = 45/146 (30%), Positives = 74/146 (50%), Gaps = 6/146 (4%)
Query: 1 QALKTDVKFRDFVLDPTIQKSLKIEALKIVGQKKNFSAASINLLALLAENGKIKNIDGVI 60
+ + + P + K + L V K+ S N L +LAENG++ + ++
Sbjct: 36 AEVAENEDLAALLSSPLVSAEQKKKLLAAVF--KSLSEYVQNFLKVLAENGRLALLPEIL 93
Query: 61 NNFSIIMAAHRGDLPVEVITARPLEEADKSELQSTL-KLFAKKGENILLTTKVDPSIIGG 119
F + A H + EV +A PL E +L++ L K +K + L KVDPS+IGG
Sbjct: 94 EQFEALRAEHENIVDAEVTSAFPLSEEQLDKLKAALEKRLGRK---VKLNEKVDPSLIGG 150
Query: 120 MIVSVGDKYVDMSVASKIKKYTDLLQ 145
+I+ VGD+ +D SV K+++ D L+
Sbjct: 151 VIIKVGDRVIDGSVRGKLERLKDALK 176
>gnl|CDD|237386 PRK13429, PRK13429, F0F1 ATP synthase subunit delta; Provisional.
Length = 181
Score = 78.7 bits (195), Expect = 4e-19
Identities = 38/139 (27%), Positives = 73/139 (52%), Gaps = 2/139 (1%)
Query: 1 QALKTDVKFRDFVLDPTIQKSLKIEALKIVGQKKNFSAASINLLALLAENGKIKNIDGVI 60
+ L+ + RD + +P + K L+ + K S +N L LLA+ ++ + +
Sbjct: 36 ELLEDSPELRDALSNPVLSAEEKKAVLEKLLGKLKVSPEVLNFLKLLADRRRLGILPEIA 95
Query: 61 NNFSIIMAAHRGDLPVEVITARPLEEADKSELQSTLKLFAKKGENILLTTKVDPSIIGGM 120
+ + +G + V +A PL EA + ++ L+ G+ + L T VDPS+IGG+
Sbjct: 96 ARYLELADEQKGIVRATVTSAVPLSEAQQEAIRQKLE--KMTGKKVELDTAVDPSLIGGV 153
Query: 121 IVSVGDKYVDMSVASKIKK 139
+V +GDK +D SV +++++
Sbjct: 154 VVKIGDKVLDASVRTQLRR 172
>gnl|CDD|130215 TIGR01145, ATP_synt_delta, ATP synthase, F1 delta subunit. This
model describes the ATP synthase delta subunit in
bacteria, mitochondria, and chloroplasts. It is
sometimes called OSCP for Oligomycin Sensitivity
Conferring Protein. F1/F0-ATP synthase is a
multisubunit, membrane associated enzyme found in
bacteria and organelles of higher eukaryotes, namely,
mitochondria and chloroplast. This enzyme is principally
involved in the synthesis of ATP from ADP and inorganic
phosphate by coupling the energy derived from the proton
electrochemical gradient across the biological membrane.
A brief description of this multisubunit enzyme complex:
F1 and F0 represent two major clusters of subunits.
Delta subunit belongs to the F1 cluster or sector and
functionally implicated in the overall stability of the
complex. Expression of truncated forms of this subunit
results in low ATPase activity [Energy metabolism,
ATP-proton motive force interconversion].
Length = 172
Score = 76.6 bits (189), Expect = 2e-18
Identities = 44/144 (30%), Positives = 81/144 (56%), Gaps = 2/144 (1%)
Query: 1 QALKTDVKFRDFVLDPTIQKSLKIEALKIVGQKKNFSAASINLLALLAENGKIKNIDGVI 60
+ LK + + + F+ +P I K E +K V + +S+NLL LLAENG++ + ++
Sbjct: 31 EVLKNNKELKKFLSNPLISAEKKKEFIKNVF-GEQLDESSLNLLLLLAENGRLAALPDIL 89
Query: 61 NNFSIIMAAHRGDLPVEVITARPLEEADKSELQSTLKLFAKKGENILLTTKVDPSIIGGM 120
+ F + + VEVI+A+PL E ++++ L+ + + L KVD +IGG+
Sbjct: 90 DQFLKLSYEAQQTADVEVISAKPLTEDQQAKIAEKLEKITGAAK-VKLNCKVDKDLIGGV 148
Query: 121 IVSVGDKYVDMSVASKIKKYTDLL 144
I+ +GD+ +D SV ++K+ + L
Sbjct: 149 IIRIGDRVIDGSVRGQLKRLSRQL 172
>gnl|CDD|237387 PRK13430, PRK13430, F0F1 ATP synthase subunit delta; Provisional.
Length = 271
Score = 61.9 bits (151), Expect = 3e-12
Identities = 30/78 (38%), Positives = 44/78 (56%), Gaps = 2/78 (2%)
Query: 60 INNFSIIMAAHRGDLPVEVITARPLEEADKSELQSTLKLFAKKGENILLTTKVDPSIIGG 119
++ S + AA RG V TA PL + K L + L G + L ++VDPS++GG
Sbjct: 187 LDELSNLAAARRGRSVATVTTAVPLSDEQKQRLAAALS--RIYGRPVHLNSEVDPSVLGG 244
Query: 120 MIVSVGDKYVDMSVASKI 137
M V VGD+ +D SVA ++
Sbjct: 245 MRVQVGDEVIDGSVAGRL 262
>gnl|CDD|177042 CHL00119, atpD, ATP synthase CF1 delta subunit; Validated.
Length = 184
Score = 56.9 bits (138), Expect = 7e-11
Identities = 41/146 (28%), Positives = 68/146 (46%), Gaps = 2/146 (1%)
Query: 1 QALKTDVKFRDFVLDPTIQKSLKIEALKIVGQKKNFSAASINLLALLAENGKIKNIDGVI 60
L + + F+ +P I K+ K E +K + ++ L +L + G+I +D +I
Sbjct: 38 TFLNESPELKKFLANPLISKNAKKEVIKKT-FGSQINENTLKFLMVLVDRGRIALLDAII 96
Query: 61 NNFSIIMAAHRGDLPVEVITARPLEEADKSELQSTLKLFAKKGENILLTTKVDPSIIGGM 120
+ ++ EV TA PL A + L LK E I L VDPS+IGG
Sbjct: 97 EKYLELVYKLASIKIAEVSTAVPLSSAQEEALIEKLKEMTNAKE-IKLVITVDPSLIGGF 155
Query: 121 IVSVGDKYVDMSVASKIKKYTDLLQT 146
++ +G K +D S+ ++K+ L T
Sbjct: 156 LIKIGSKVIDTSIKGQLKQLASHLDT 181
>gnl|CDD|139571 PRK13434, PRK13434, F0F1 ATP synthase subunit delta; Provisional.
Length = 184
Score = 44.9 bits (106), Expect = 2e-06
Identities = 34/137 (24%), Positives = 64/137 (46%), Gaps = 3/137 (2%)
Query: 1 QALKTDVKFRDFVLDPTIQKSLKIEALKIVGQKKNFSAASINLLALLAENGKIKNIDGVI 60
Q L D K R+F L PT+ K E + S ++N L +L G+ + +
Sbjct: 33 QLLFKDEKIRNFFLSPTVSPEEK-EQTLAKNLRGKISDITLNFLGVLLNKGRFIYLPEIQ 91
Query: 61 NNFSIIMAAHRGDLPVEVITARPLEEADKSELQSTLKLFAKKGENILLTTKVDPSIIGGM 120
+F++ + +G + ++++ LE A +L S L K +L D +++GG
Sbjct: 92 KDFTVELDKKKGRVRAQIVSYPSLEPAQVDKLGSILS--EKFKSEFILEVSEDKNLLGGF 149
Query: 121 IVSVGDKYVDMSVASKI 137
+V D ++ S+AS++
Sbjct: 150 VVQFNDLKIEKSIASQL 166
>gnl|CDD|184054 PRK13441, PRK13441, F0F1 ATP synthase subunit delta; Provisional.
Length = 180
Score = 43.6 bits (103), Expect = 6e-06
Identities = 27/137 (19%), Positives = 60/137 (43%), Gaps = 4/137 (2%)
Query: 7 VKFRDFVLDPTIQKSLKIEALKIVGQ--KKNFSAASINLLALLAENGKIKNIDGVINNFS 64
++F +P ++ K+ +K + + + N L L+ EN + K + + F
Sbjct: 39 ESAKEFFDNPIVKPEKKVSLIKEIMKEFGQEMDEFFENFLNLVFENKRQKLLPQIRALFE 98
Query: 65 IIMAAHRGDLPVEVITARPLEEADKSELQSTLKLFAKKGENILLTTKVDPSIIGGMIVSV 124
+PV + TA L + + L+ ++ + + + + +D S+I G +V
Sbjct: 99 YEKILSEQKVPVNLTTAHELSDEELKLLRKFVRKYVLR--DPVFEETIDESLIAGAVVEF 156
Query: 125 GDKYVDMSVASKIKKYT 141
K +D++V ++KK
Sbjct: 157 EGKRLDVTVQGRLKKIA 173
>gnl|CDD|184053 PRK13436, PRK13436, F0F1 ATP synthase subunit delta; Provisional.
Length = 179
Score = 42.7 bits (101), Expect = 1e-05
Identities = 29/98 (29%), Positives = 47/98 (47%), Gaps = 2/98 (2%)
Query: 41 INLLALLAENGKIKNIDGVINNFSIIMAAHRGDLPVEVITARPLEEADKSELQSTLKLFA 100
+N L +LA+N I ++ F + E+ T PL E S +S KL
Sbjct: 76 VNFLKILAKNNLFIYIKQILKKFVKLSNEKLNITYGEIYTTEPLSEVQISRFES--KLSK 133
Query: 101 KKGENILLTTKVDPSIIGGMIVSVGDKYVDMSVASKIK 138
K + + L K+DP +I G+ + V +K + S+ SK+K
Sbjct: 134 KLNKKVHLVNKIDPKLIAGIKIKVDNKVFENSIKSKLK 171
>gnl|CDD|184048 PRK13428, PRK13428, F0F1 ATP synthase subunit delta; Provisional.
Length = 445
Score = 43.2 bits (102), Expect = 2e-05
Identities = 19/72 (26%), Positives = 40/72 (55%), Gaps = 2/72 (2%)
Query: 68 AAHRGDLPVEVITARPLEEADKSELQSTLKLFAKKGENILLTTKVDPSIIGGMIVSVGDK 127
A RG++ +V A L +A ++ L L G + + +DP ++GG+ ++VGD+
Sbjct: 369 VARRGEVVAQVSAAAELSDAQRTRLTEVLSRIY--GRPVSVQLHIDPELLGGLSIAVGDE 426
Query: 128 YVDMSVASKIKK 139
+D +++S++
Sbjct: 427 VIDGTLSSRLAA 438
>gnl|CDD|223545 COG0469, PykF, Pyruvate kinase [Carbohydrate transport and
metabolism].
Length = 477
Score = 30.6 bits (70), Expect = 0.27
Identities = 16/34 (47%), Positives = 20/34 (58%), Gaps = 5/34 (14%)
Query: 53 IKNIDGVINNFSIIMAAHRGDLPVEVITARPLEE 86
+ N+D +I IM A RGDL VE+ PLEE
Sbjct: 230 VDNLDEIIEASDGIMVA-RGDLGVEI----PLEE 258
>gnl|CDD|236271 PRK08474, PRK08474, F0F1 ATP synthase subunit delta; Validated.
Length = 176
Score = 29.9 bits (68), Expect = 0.31
Identities = 36/129 (27%), Positives = 54/129 (41%), Gaps = 10/129 (7%)
Query: 6 DVKFRDFVLDPTIQKSLKIE-ALKIVGQKKNFSAASINLLALLAENGKIKNIDGVINNFS 64
D KF++ + P I K KIE L V N +A N + LLAEN +++ I +
Sbjct: 38 DEKFKEIISSPEISKEQKIEFLLSFV---DNANAKFQNFIKLLAENKRLELIPAIAKELE 94
Query: 65 IIMAAHRGDLPVEVITARPLEEADKSELQSTLKLFAKK-GENILLTTKVDPSIIGGMIVS 123
+A + V + L E +L+ +KK I L K G+ V
Sbjct: 95 RQIALKENEYVGVVYSNEKLSEETLKKLEEK---LSKKFNAKIKLKQKKSD--YDGIKVE 149
Query: 124 VGDKYVDMS 132
V D V++S
Sbjct: 150 VDDLGVEVS 158
>gnl|CDD|173361 PTZ00066, PTZ00066, pyruvate kinase; Provisional.
Length = 513
Score = 30.1 bits (68), Expect = 0.41
Identities = 23/56 (41%), Positives = 29/56 (51%), Gaps = 15/56 (26%)
Query: 37 SAASINLL-ALLAENG-------KIKNIDGVINNFSI------IMAAHRGDLPVEV 78
SA + L LL E G KI+NI+G+IN I IM A RGDL +E+
Sbjct: 234 SADDVRLCRQLLGERGRHIKIIPKIENIEGLINFDEILAESDGIMVA-RGDLGMEI 288
>gnl|CDD|180487 PRK06247, PRK06247, pyruvate kinase; Provisional.
Length = 476
Score = 29.9 bits (68), Expect = 0.46
Identities = 14/34 (41%), Positives = 19/34 (55%), Gaps = 5/34 (14%)
Query: 53 IKNIDGVINNFSIIMAAHRGDLPVEVITARPLEE 86
I ++ ++ IM A RGDL VEV PLE+
Sbjct: 224 IDRLEAIVEASDAIMVA-RGDLGVEV----PLEQ 252
>gnl|CDD|235619 PRK05826, PRK05826, pyruvate kinase; Provisional.
Length = 465
Score = 28.2 bits (64), Expect = 1.8
Identities = 13/26 (50%), Positives = 16/26 (61%), Gaps = 1/26 (3%)
Query: 53 IKNIDGVINNFSIIMAAHRGDLPVEV 78
+ NID +I IM A RGDL VE+
Sbjct: 228 VDNIDEIIEASDGIMVA-RGDLGVEI 252
>gnl|CDD|234395 TIGR03918, GTP_HydF, [FeFe] hydrogenase H-cluster maturation GTPase
HydF. This model describes the family of the [Fe]
hydrogenase maturation protein HypF as characterized in
Chlamydomonas reinhardtii and found, in an operon with
radical SAM proteins HydE and HydG, in numerous
bacteria. It has GTPase activity, can bind an 4Fe-4S
cluster, and is essential for hydrogenase activity
[Protein fate, Protein modification and repair].
Length = 391
Score = 27.9 bits (63), Expect = 2.1
Identities = 9/24 (37%), Positives = 15/24 (62%)
Query: 63 FSIIMAAHRGDLPVEVITARPLEE 86
FSI+ A ++GDL V A+ ++
Sbjct: 264 FSILFARYKGDLATFVEGAKAIDR 287
>gnl|CDD|222397 pfam13814, Replic_Relax, Replication-relaxation. This family
includes proteins which are essential for plasmid
replication and plasmid DNA relaxation.
Length = 191
Score = 27.7 bits (62), Expect = 2.2
Identities = 17/99 (17%), Positives = 31/99 (31%), Gaps = 25/99 (25%)
Query: 60 INNFSIIMAAHRGDLPVEVITARPLEEADKSELQSTLKLFAKKGENILLTTKVDPSIIGG 119
+N + + A E+ SE + T + KG + + D
Sbjct: 93 VNEVFVALLAASRQEGGELTEW-------WSEPRCTRQYTNIKGAGKKI--RPD----AY 139
Query: 120 MIVSVGDKY------VDMS------VASKIKKYTDLLQT 146
+ G + VD +A KI +Y L ++
Sbjct: 140 GRWTEGGRTLEFFLEVDRGTEPLEVLAEKIDRYARLARS 178
>gnl|CDD|235971 PRK07219, PRK07219, DNA topoisomerase I; Validated.
Length = 822
Score = 27.7 bits (62), Expect = 2.8
Identities = 13/39 (33%), Positives = 21/39 (53%)
Query: 75 PVEVITARPLEEADKSELQSTLKLFAKKGENILLTTKVD 113
P E+I A P+++ K + LK AK + I++ T D
Sbjct: 70 PAELIDADPVKKITKQNYINALKKLAKDADEIIIATDYD 108
>gnl|CDD|168292 PRK05906, PRK05906, lipid A biosynthesis lauroyl acyltransferase;
Provisional.
Length = 454
Score = 27.4 bits (61), Expect = 3.3
Identities = 16/48 (33%), Positives = 22/48 (45%), Gaps = 5/48 (10%)
Query: 41 INLLALLAENGKIKNIDGVINNFSIIMA--AHRGDLPVEVITARPLEE 86
I L LLA +ID +I +I + A G P EV + + LE
Sbjct: 87 ITFLELLAVEKLAGHIDELI---AIATSEDAPEGFFPEEVSSQQELEH 131
>gnl|CDD|131976 TIGR02930, vnfG_nitrog, V-containing nitrogenase, delta subunit.
Nitrogenase is the enzyme of biological nitrogen
fixation. The most wide-spread and most efficient
nitrogenase contains a molybdenum cofactor. This protein
family, VnfG, represents the delta subunit of the
V-containing (vanadium) alternative nitrogenase. It is
homologous to AnfG, the delta subunit of the Fe-only
nitrogenase [Central intermediary metabolism, Nitrogen
fixation].
Length = 109
Score = 26.3 bits (58), Expect = 3.3
Identities = 17/81 (20%), Positives = 34/81 (41%), Gaps = 9/81 (11%)
Query: 54 KNIDGVINNFSIIMAAHRGDLPVEVITARPLEEADKSELQSTLKLFAKKGENILLTTKVD 113
+NI+GV+ ++ G+ L AD L S +K E +++D
Sbjct: 26 ENIEGVMTMAGKLLN---GEKINLETPMDKLFYADAKNLASDIK------ERFPWISELD 76
Query: 114 PSIIGGMIVSVGDKYVDMSVA 134
I ++ SV + V++++
Sbjct: 77 KDQILELVESVKKRLVEITIT 97
>gnl|CDD|233976 TIGR02687, TIGR02687, TIGR02687 family protein. Members of this
family are uncharacterized proteins sporadically
distributed in bacteria and archaea, about 880 amino
acids in length. This protein is repeatedly found
upstream of another uncharacterized protein of about 470
amino acids in length, modeled by TIGR02688.
Length = 844
Score = 27.5 bits (61), Expect = 3.5
Identities = 20/59 (33%), Positives = 29/59 (49%), Gaps = 11/59 (18%)
Query: 53 IKNIDGVINNFSIIMAAHRGDLPVEVITARPLEEADKSELQSTLKLFAKKGENILLTTK 111
+K + +N +II+ A G L PLE ADKS+L + E+I+ TTK
Sbjct: 608 VKYLINRLNGTNIIVTADHGFLYQR----DPLENADKSDLDA-------FPESIIKTTK 655
>gnl|CDD|224891 COG1980, COG1980, Archaeal fructose 1,6-bisphosphatase
[Carbohydrate transport and metabolism].
Length = 369
Score = 27.0 bits (60), Expect = 4.1
Identities = 14/49 (28%), Positives = 24/49 (48%), Gaps = 5/49 (10%)
Query: 13 VLDPTIQKSLKIEALKIVGQKKNFSAA---SINLLALLAENGK--IKNI 56
V+DP++ + + E +V KK F +LLAL+ + IK +
Sbjct: 156 VIDPSMHEGFRFEVWDVVEHKKVFLNTPEEMYDLLALIGSKSRYVIKRV 204
>gnl|CDD|172377 PRK13856, PRK13856, two-component response regulator VirG;
Provisional.
Length = 241
Score = 26.7 bits (59), Expect = 4.9
Identities = 18/85 (21%), Positives = 42/85 (49%), Gaps = 7/85 (8%)
Query: 6 DVKFRDFVLDPTIQKSLKIEALKIVGQ-KKNFSAASINLLALLAENGKIKNIDGVINNFS 64
DV R +++ + K+ A+ Q + ++ +++++ + G+ ++ V +
Sbjct: 10 DVAMRHLIVEYLTIHAFKVTAVADSQQFNRVLASETVDVVVVDLNLGREDGLEIVRS--- 66
Query: 65 IIMAAHRGDLPVEVITARPLEEADK 89
A + D+P+ +I+ LEEADK
Sbjct: 67 ---LATKSDVPIIIISGDRLEEADK 88
>gnl|CDD|233462 TIGR01548, HAD-SF-IA-hyp1, haloacid dehalogenase superfamily,
subfamily IA hydrolase, TIGR01548. This model
represents a small and phylogenetically curious clade of
sequences. Sequences are found from Halobacterium (an
archaeon), Nostoc and Synechococcus (cyanobacteria) and
Phytophthora (a stramenophile eukaryote). These appear
to be members of the haloacid dehalogenase (HAD)
superfamily of aspartate-nucleophile hydrolases by
general homology and the conservation of all of the
recognized catalytic motifs. The variable domain is
found in between motifs 1 and 2, indicating membership
in subfamily I and phylogeny and prediction of the alpha
helical nature of the variable domain (by PSI-PRED)
indicate membership in subfamily IA. All but the
Halobacterium sequence currently found are annotated as
"Imidazoleglycerol-phosphate dehydratase", however, the
source of the annotation could not be traced and
significant homology could not be found between any of
these sequences and known IGPD's.
Length = 197
Score = 26.4 bits (58), Expect = 5.2
Identities = 10/41 (24%), Positives = 19/41 (46%), Gaps = 6/41 (14%)
Query: 55 NIDGVINNFSIIMAA------HRGDLPVEVITARPLEEADK 89
G+I + +++ HR + V+T RP ++A K
Sbjct: 98 ATLGLIEDETLLTPKGLLRELHRAPKGMAVVTGRPRKDAAK 138
>gnl|CDD|168689 PRK06824, PRK06824, translation initiation factor Sui1;
Validated.
Length = 118
Score = 25.4 bits (56), Expect = 7.7
Identities = 13/27 (48%), Positives = 13/27 (48%)
Query: 71 RGDLPVEVITARPLEEADKSELQSTLK 97
RG V VIT PL E EL LK
Sbjct: 52 RGGKTVTVITGVPLAEDALKELAKELK 78
>gnl|CDD|238178 cd00288, Pyruvate_Kinase, Pyruvate kinase (PK): Large allosteric
enzyme that regulates glycolysis through binding of the
substrate, phosphoenolpyruvate, and one or more
allosteric effectors. Like other allosteric enzymes, PK
has a high substrate affinity R state and a low affinity
T state. PK exists as several different isozymes,
depending on organism and tissue type. In mammals,
there are four PK isozymes: R, found in red blood cells,
L, found in liver, M1, found in skeletal muscle, and M2,
found in kidney, adipose tissue, and lung. PK forms a
homotetramer, with each subunit containing three
domains. The T state to R state transition of PK is
more complex than in most allosteric enzymes, involving
a concerted rotation of all 3 domains of each monomer in
the homotetramer.
Length = 480
Score = 26.1 bits (58), Expect = 7.9
Identities = 14/32 (43%), Positives = 19/32 (59%), Gaps = 5/32 (15%)
Query: 52 KIKNIDGVINNFSIIMAAH-----RGDLPVEV 78
KI+N +GV N I+ A+ RGDL VE+
Sbjct: 221 KIENQEGVNNFDEILEASDGIMVARGDLGVEI 252
>gnl|CDD|206738 cd08771, DLP_1, Dynamin_like protein family includes dynamins and
Mx proteins. The dynamin family of large
mechanochemical GTPases includes the classical dynamins
and dynamin-like proteins (DLPs) that are found
throughout the Eukarya. These proteins catalyze membrane
fission during clathrin-mediated endocytosis. Dynamin
consists of five domains; an N-terminal G domain that
binds and hydrolyzes GTP, a middle domain (MD) involved
in self-assembly and oligomerization, a pleckstrin
homology (PH) domain responsible for interactions with
the plasma membrane, GED, which is also involved in
self-assembly, and a proline arginine rich domain (PRD)
that interacts with SH3 domains on accessory proteins.
To date, three vertebrate dynamin genes have been
identified; dynamin 1, which is brain specific, mediates
uptake of synaptic vesicles in presynaptic terminals;
dynamin-2 is expressed ubiquitously and similarly
participates in membrane fission; mutations in the MD,
PH and GED domains of dynamin 2 have been linked to
human diseases such as Charcot-Marie-Tooth peripheral
neuropathy and rare forms of centronuclear myopathy.
Dynamin 3 participates in megakaryocyte progenitor
amplification, and is also involved in cytoplasmic
enlargement and the formation of the demarcation
membrane system. This family also includes
interferon-induced Mx proteins that inhibit a wide range
of viruses by blocking an early stage of the replication
cycle. Dynamin oligomerizes into helical structures
around the neck of budding vesicles in a GTP
hydrolysis-dependent manner.
Length = 278
Score = 26.1 bits (58), Expect = 9.3
Identities = 7/34 (20%), Positives = 17/34 (50%)
Query: 10 RDFVLDPTIQKSLKIEALKIVGQKKNFSAASINL 43
++F +++ ++ E ++ G+ K S I L
Sbjct: 69 KEFTDFEELREEIEKETDRVAGENKGISPEPIRL 102
>gnl|CDD|237551 PRK13902, alaS, alanyl-tRNA synthetase; Provisional.
Length = 900
Score = 26.0 bits (58), Expect = 9.7
Identities = 16/69 (23%), Positives = 32/69 (46%), Gaps = 6/69 (8%)
Query: 76 VEVITARPLEEADKSELQSTLKLFAKKGENILLTTKVDPSIIGGMIVSVGDKYVDMSVAS 135
V+V+ +AD+ EL+ AK+G+ L+ I +V VG+ V ++
Sbjct: 802 VKVVVEE--VDADEDELRKIANELAKEGKVALVVLGNGGGQI---VVGVGED-VGVNAGE 855
Query: 136 KIKKYTDLL 144
+++ +L
Sbjct: 856 IVRELAKVL 864
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 0.134 0.353
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: 7,390,126
Number of extensions: 673498
Number of successful extensions: 743
Number of sequences better than 10.0: 1
Number of HSP's gapped: 726
Number of HSP's successfully gapped: 46
Length of query: 148
Length of database: 10,937,602
Length adjustment: 88
Effective length of query: 60
Effective length of database: 7,034,450
Effective search space: 422067000
Effective search space used: 422067000
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: 54 (24.6 bits)