RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy2196
(142 letters)
>gnl|CDD|146016 pfam03179, V-ATPase_G, Vacuolar (H+)-ATPase G subunit. This family
represents the eukaryotic vacuolar (H+)-ATPase
(V-ATPase) G subunit. V-ATPases generate an acidic
environment in several intracellular compartments.
Correspondingly, they are found as membrane-attached
proteins in several organelles. They are also found in
the plasma membranes of some specialised cells.
V-ATPases consist of peripheral (V1) and membrane
integral (V0) heteromultimeric complexes. The G subunit
is part of the V1 subunit, but is also thought to be
strongly attached to the V0 complex. It may be involved
in the coupling of ATP degradation to H+ translocation.
Length = 105
Score = 97.3 bits (243), Expect = 2e-27
Identities = 59/105 (56%), Positives = 82/105 (78%)
Query: 3 SQTQGIQQLLAAEKRAAEKVAEAKKRKARRLKQAKEEAQEDIEKYRQEREKIFREYEAKF 62
SQ+QGIQQLL AEK AAE V EA+KR+A+RLKQAKEEA+++IE+YR +RE F+E+EA+
Sbjct: 1 SQSQGIQQLLQAEKEAAEIVNEARKRRAKRLKQAKEEAEKEIEEYRAQREAEFKEFEAEH 60
Query: 63 MGSRDDVAAKIESDTKLKIDEMNKAVENNKENVIRKVLDLVYDIK 107
GSR ++ KIE +T+ KIDE+ ++ NKE V++ +L V D+K
Sbjct: 61 SGSRGELEKKIEKETEEKIDELKRSFNKNKEAVVQMLLSKVTDVK 105
Score = 31.4 bits (72), Expect = 0.046
Identities = 18/24 (75%), Positives = 20/24 (83%)
Query: 119 QTQGIQQLLAAEKRAAEKVAEAKK 142
Q+QGIQQLL AEK AAE V EA+K
Sbjct: 2 QSQGIQQLLQAEKEAAEIVNEARK 25
>gnl|CDD|130217 TIGR01147, V_ATP_synt_G, vacuolar ATP synthase, subunit G. This
model describes the vacuolar ATP synthase G subunit in
eukaryotes and includes members from diverse groups
e.g., fungi, plants, parasites etc. V-ATPases are
multi-subunit enzymes composed of two functional
domains: A transmembrane Vo domain and a peripheral
catalytic domain V1. The G subunit is one of the
subunits of the catalytic domain. V-ATPases are
responsible for the acidification of endosomes and
lysosomes, which are part of the central vacuolar system
[Energy metabolism, ATP-proton motive force
interconversion].
Length = 113
Score = 93.7 bits (233), Expect = 9e-26
Identities = 72/113 (63%), Positives = 91/113 (80%)
Query: 1 MASQTQGIQQLLAAEKRAAEKVAEAKKRKARRLKQAKEEAQEDIEKYRQEREKIFREYEA 60
MASQTQGIQQLL AEKRAAEKV+EA+KRK +RLKQAKEEAQ+++EKY+Q+REK F+E+EA
Sbjct: 1 MASQTQGIQQLLQAEKRAAEKVSEARKRKTKRLKQAKEEAQKEVEKYKQQREKEFKEFEA 60
Query: 61 KFMGSRDDVAAKIESDTKLKIDEMNKAVENNKENVIRKVLDLVYDIKPELHKN 113
K +G K E++T+ KI E+ KAV+ NK+ VI+ +L LV DI PELH N
Sbjct: 61 KHLGGNGAAEEKAEAETQAKIREIKKAVQKNKDAVIKDLLHLVCDISPELHIN 113
Score = 28.6 bits (64), Expect = 0.59
Identities = 22/26 (84%), Positives = 25/26 (96%)
Query: 117 ANQTQGIQQLLAAEKRAAEKVAEAKK 142
A+QTQGIQQLL AEKRAAEKV+EA+K
Sbjct: 2 ASQTQGIQQLLQAEKRAAEKVSEARK 27
>gnl|CDD|237177 PRK12704, PRK12704, phosphodiesterase; Provisional.
Length = 520
Score = 37.5 bits (88), Expect = 0.001
Identities = 20/54 (37%), Positives = 28/54 (51%)
Query: 9 QQLLAAEKRAAEKVAEAKKRKARRLKQAKEEAQEDIEKYRQEREKIFREYEAKF 62
++ AE+ A + EAKK K+A EA+E+I K R E EK RE +
Sbjct: 31 AKIKEAEEEAKRILEEAKKEAEAIKKEALLEAKEEIHKLRNEFEKELRERRNEL 84
>gnl|CDD|234750 PRK00409, PRK00409, recombination and DNA strand exchange inhibitor
protein; Reviewed.
Length = 782
Score = 37.5 bits (88), Expect = 0.001
Identities = 17/73 (23%), Positives = 41/73 (56%)
Query: 20 EKVAEAKKRKARRLKQAKEEAQEDIEKYRQEREKIFREYEAKFMGSRDDVAAKIESDTKL 79
EK + ++ + + L++A++EAQ+ I++ ++E ++I +E G V A + +
Sbjct: 555 EKKEKLQEEEDKLLEEAEKEAQQAIKEAKKEADEIIKELRQLQKGGYASVKAHELIEARK 614
Query: 80 KIDEMNKAVENNK 92
++++ N+ E K
Sbjct: 615 RLNKANEKKEKKK 627
Score = 28.3 bits (64), Expect = 1.5
Identities = 16/55 (29%), Positives = 28/55 (50%), Gaps = 1/55 (1%)
Query: 8 IQQLLAAEKRAAEKVAEAKKRKARRLKQAKEEAQEDIEKYRQEREKIFREYEAKF 62
I L E+ +K EA+ + ++ KEE +E EK ++E +K+ E E +
Sbjct: 522 IASLEELERELEQKAEEAEA-LLKEAEKLKEELEEKKEKLQEEEDKLLEEAEKEA 575
>gnl|CDD|184048 PRK13428, PRK13428, F0F1 ATP synthase subunit delta; Provisional.
Length = 445
Score = 35.1 bits (81), Expect = 0.006
Identities = 19/61 (31%), Positives = 37/61 (60%)
Query: 1 MASQTQGIQQLLAAEKRAAEKVAEAKKRKARRLKQAKEEAQEDIEKYRQEREKIFREYEA 60
MA++ ++Q LA AA+++AEA + + ++ AK EA +E+ R++ E+I + A
Sbjct: 30 MAARQDTVRQQLAESATAADRLAEADQAHTKAVEDAKAEAARVVEEAREDAERIAEQLRA 89
Query: 61 K 61
+
Sbjct: 90 Q 90
>gnl|CDD|188306 TIGR03319, RNase_Y, ribonuclease Y. Members of this family are
RNase Y, an endoribonuclease. The member from Bacillus
subtilis, YmdA, has been shown to be involved in
turnover of yitJ riboswitch [Transcription, Degradation
of RNA].
Length = 514
Score = 33.4 bits (77), Expect = 0.032
Identities = 18/54 (33%), Positives = 30/54 (55%)
Query: 9 QQLLAAEKRAAEKVAEAKKRKARRLKQAKEEAQEDIEKYRQEREKIFREYEAKF 62
++L +AE+ A + EAKK K+A EA+E++ K R E E+ +E +
Sbjct: 25 KKLGSAEELAKRIIEEAKKEAETLKKEALLEAKEEVHKLRAELERELKERRNEL 78
>gnl|CDD|233879 TIGR02468, sucrsPsyn_pln, sucrose phosphate synthase/possible
sucrose phosphate phosphatase, plant. Members of this
family are sucrose-phosphate synthases of plants. This
enzyme is known to exist in multigene families in
several species of both monocots and dicots. The
N-terminal domain is the glucosyltransferase domain.
Members of this family also have a variable linker
region and a C-terminal domain that resembles sucrose
phosphate phosphatase (SPP) (EC 3.1.3.24) (see
TIGR01485), the next and final enzyme of sucrose
biosynthesis. The SPP-like domain likely serves a
binding and not a catalytic function, as the reported
SPP is always encoded by a distinct protein.
Length = 1050
Score = 32.1 bits (73), Expect = 0.085
Identities = 26/87 (29%), Positives = 35/87 (40%), Gaps = 16/87 (18%)
Query: 30 ARRLKQAKEEAQEDIEKYRQEREKIFREYEAK-----FMGSRDDVAAKIESD-----TKL 79
AR+ KQ + E + + K R ERE+ RE A G + DVA I TK
Sbjct: 88 ARKKKQLEWEEAQRLAKRRLERERGRREATADMSEDLSEGEKGDVAGDISVAGGEPSTKG 147
Query: 80 K------IDEMNKAVENNKENVIRKVL 100
+ EM + KE + VL
Sbjct: 148 RLPRISSNLEMETWSDQQKEKKLYIVL 174
>gnl|CDD|216872 pfam02096, 60KD_IMP, 60Kd inner membrane protein.
Length = 193
Score = 31.0 bits (71), Expect = 0.12
Identities = 8/34 (23%), Positives = 21/34 (61%)
Query: 32 RLKQAKEEAQEDIEKYRQEREKIFREYEAKFMGS 65
+K+ +E+ ++D +K +QE K+++E+ +
Sbjct: 38 EIKEIQEKYKDDPQKLQQEMMKLYKEHGVNPLAG 71
>gnl|CDD|236272 PRK08475, PRK08475, F0F1 ATP synthase subunit B; Validated.
Length = 167
Score = 30.4 bits (69), Expect = 0.21
Identities = 23/82 (28%), Positives = 41/82 (50%), Gaps = 18/82 (21%)
Query: 20 EKVAEAKKRKA---RRLKQAKEEAQEDIEKYRQEREKIFREYEAKFMGSRDDVAAKIESD 76
EK+ E+K++K ++L++AKE+A+ +E ++E + KIE
Sbjct: 67 EKLKESKEKKEDALKKLEEAKEKAELIVETAKKEAYIL---------------TQKIEKQ 111
Query: 77 TKLKIDEMNKAVENNKENVIRK 98
TK I+ + K+ E E +RK
Sbjct: 112 TKDDIENLIKSFEELMEFEVRK 133
>gnl|CDD|236912 PRK11448, hsdR, type I restriction enzyme EcoKI subunit R;
Provisional.
Length = 1123
Score = 30.7 bits (70), Expect = 0.28
Identities = 18/84 (21%), Positives = 45/84 (53%), Gaps = 10/84 (11%)
Query: 10 QLLAAEKRAAEKVAEAKKRKARRLK-------QAKEEAQEDIEKYRQEREKIFREYEAKF 62
+L A EK ++ +AEA++++ L+ + ++E + +E+ +++ + +E + K
Sbjct: 159 ELQAREKAQSQALAEAQQQELVALEGLAAELEEKQQELEAQLEQLQEKAAETSQERKQKR 218
Query: 63 MGSRDDVAAKI---ESDTKLKIDE 83
D A ++ E +T++ ID+
Sbjct: 219 KEITDQAAKRLELSEEETRILIDQ 242
>gnl|CDD|235026 PRK02292, PRK02292, V-type ATP synthase subunit E; Provisional.
Length = 188
Score = 30.0 bits (68), Expect = 0.31
Identities = 12/39 (30%), Positives = 23/39 (58%)
Query: 13 AAEKRAAEKVAEAKKRKARRLKQAKEEAQEDIEKYRQER 51
A++ A E +AEA+ L+ + EA+ +IE+ R++
Sbjct: 24 EADEEAEEIIAEAEADAEEILEDREAEAEREIEQLREQE 62
>gnl|CDD|224340 COG1422, COG1422, Predicted membrane protein [Function unknown].
Length = 201
Score = 30.0 bits (68), Expect = 0.32
Identities = 10/49 (20%), Positives = 26/49 (53%), Gaps = 7/49 (14%)
Query: 20 EKVAEAKKRKARRLKQAKEEAQE-----DIEKYRQEREKIFREYEAKFM 63
EK+ E +K + ++ EAQE ++K ++++ ++ + + + M
Sbjct: 72 EKMKELQKM-MKEFQKEFREAQESGDMKKLKKLQEKQMEMMDD-QRELM 118
>gnl|CDD|240402 PTZ00399, PTZ00399, cysteinyl-tRNA-synthetase; Provisional.
Length = 651
Score = 30.0 bits (68), Expect = 0.39
Identities = 12/50 (24%), Positives = 30/50 (60%), Gaps = 3/50 (6%)
Query: 16 KRAAEKVAEAKKRKARRLKQAKEEAQEDIEKYRQER---EKIFREYEAKF 62
+ EK A ++++ R+LK+ +E+ ++++EK + + + F+ E K+
Sbjct: 555 REKEEKEALKEQKRLRKLKKQEEKKKKELEKLEKAKIPPAEFFKRQEDKY 604
>gnl|CDD|224555 COG1640, MalQ, 4-alpha-glucanotransferase [Carbohydrate transport
and metabolism].
Length = 520
Score = 30.0 bits (68), Expect = 0.39
Identities = 17/71 (23%), Positives = 26/71 (36%), Gaps = 8/71 (11%)
Query: 1 MASQTQGIQQLLAAEKRAAEKVAEAKKRKARRLKQAKEEAQEDIEKYRQEREKIFREYEA 60
+ Q + QL A + KV K++ + K R+EREK F +
Sbjct: 97 LDKDLQALPQLRALDWVDYAKVTALKRKALEKAFANF--------KKRKEREKDFAAFCQ 148
Query: 61 KFMGSRDDVAA 71
+ DD A
Sbjct: 149 EEGYWLDDYAL 159
>gnl|CDD|240396 PTZ00388, PTZ00388, 40S ribosomal protein S8-like; Provisional.
Length = 223
Score = 29.7 bits (67), Expect = 0.41
Identities = 16/46 (34%), Positives = 22/46 (47%)
Query: 1 MASQTQGIQQLLAAEKRAAEKVAEAKKRKARRLKQAKEEAQEDIEK 46
A + +GI+ L +KR AEK K KA K KE+ E +
Sbjct: 1 KAQKLRGIKAKLFNKKRYAEKAEMKKTIKAHEEKDVKEKVPEKVPD 46
>gnl|CDD|215278 PLN02502, PLN02502, lysyl-tRNA synthetase.
Length = 553
Score = 29.6 bits (67), Expect = 0.59
Identities = 16/49 (32%), Positives = 20/49 (40%), Gaps = 1/49 (2%)
Query: 14 AEKRAAEKVAEAKKRKARRLKQAKEEAQE-DIEKYRQEREKIFREYEAK 61
A K A+ A A K R K A + + D +YR R K AK
Sbjct: 27 AAKEEAKAAAAAAAAKGRSRKSAAADDETMDPTQYRANRLKKVEALRAK 75
>gnl|CDD|163494 TIGR03782, Bac_Flav_CT_J, Bacteroides conjugative transposon TraJ
protein. Members of this protein family are designated
TraM and are found in a proposed transfer region of a
class of conjugative transposon found in the Bacteroides
lineage. This family is related conjugation system
proteins in the Proteobacteria, including TrbL of
Agrobacterium Ti plasmids and VirB6 [Cellular processes,
DNA transformation].
Length = 322
Score = 28.5 bits (64), Expect = 0.98
Identities = 22/84 (26%), Positives = 43/84 (51%), Gaps = 19/84 (22%)
Query: 38 EEAQEDIEKYRQEREKIFREYEA-------KFMGSRDDVAAKIE------SDTKLKID-E 83
E D+ +YR++++K+ EYEA ++ S ++ K++ SD K
Sbjct: 95 EGQTLDMNRYREQKDKL--EYEAMVRDPETAYLVSDEEFDRKLDELGWSPSDMKTMAGMY 152
Query: 84 MNKAVENNKENVI---RKVLDLVY 104
M +A N K++V R++L+L++
Sbjct: 153 MERAAYNMKKSVRDWFRELLELLF 176
>gnl|CDD|112137 pfam03308, ArgK, ArgK protein. The ArgK protein acts as an ATPase
enzyme and as a kinase, and phosphorylates periplasmic
binding proteins involved in the LAO (lysine, arginine,
ornithine)/AO transport systems.
Length = 267
Score = 27.7 bits (62), Expect = 1.8
Identities = 11/44 (25%), Positives = 19/44 (43%)
Query: 2 ASQTQGIQQLLAAEKRAAEKVAEAKKRKARRLKQAKEEAQEDIE 45
A +GI +L A + E + ARR + +E + +E
Sbjct: 212 AVTGEGIDELWDAIEEHREFLTATGLLAARRRARIEEWLKTLVE 255
>gnl|CDD|223021 PHA03247, PHA03247, large tegument protein UL36; Provisional.
Length = 3151
Score = 28.0 bits (62), Expect = 1.9
Identities = 18/49 (36%), Positives = 28/49 (57%), Gaps = 3/49 (6%)
Query: 12 LAAEKRAAEKVAEAKKR---KARRLKQAKEEAQEDIEKYRQEREKIFRE 57
+AA K E EA++R +AR ++ EEA+E E R RE+ F++
Sbjct: 969 MAAAKLTDELSPEARERLRARARAIEAMLEEARERAEAARAARERFFQK 1017
>gnl|CDD|181362 PRK08296, PRK08296, hypothetical protein; Provisional.
Length = 603
Score = 27.7 bits (62), Expect = 2.3
Identities = 8/29 (27%), Positives = 12/29 (41%)
Query: 32 RLKQAKEEAQEDIEKYRQEREKIFREYEA 60
+ E + E R ER++I EY
Sbjct: 319 GRLRRGETIERPTEALRAERDRIVEEYRD 347
>gnl|CDD|216133 pfam00815, Histidinol_dh, Histidinol dehydrogenase.
Length = 413
Score = 27.6 bits (62), Expect = 2.5
Identities = 20/80 (25%), Positives = 38/80 (47%), Gaps = 5/80 (6%)
Query: 24 EAKKRKARRLKQAKEEAQEDIEKYRQEREKIFREYEAKFMGSRDD----VAAKIESDTKL 79
+ +R +++ + ++ + IE ++ +K EY KF G + A +IE +
Sbjct: 3 KLLRRPIQKVDEILKKVKPIIENVKENGDKALLEYTEKFDGVELESLRVSAEEIEEAYES 62
Query: 80 KIDEMNKAVENNKENVIRKV 99
E+ +A+E EN IRK
Sbjct: 63 LDPELREAIEVAIEN-IRKF 81
>gnl|CDD|221059 pfam11285, DUF3086, Protein of unknown function (DUF3086). This
family of proteins with unknown function appears to be
restricted to Cyanobacteria.
Length = 283
Score = 27.3 bits (61), Expect = 2.8
Identities = 12/43 (27%), Positives = 25/43 (58%)
Query: 31 RRLKQAKEEAQEDIEKYRQEREKIFREYEAKFMGSRDDVAAKI 73
+ L+Q ++ + +IEK + +E+I +E F G D +A ++
Sbjct: 7 KDLEQRRQALEIEIEKLERRKEQIEQELRTSFAGQSDAIARRV 49
>gnl|CDD|227263 COG4926, PblB, Phage-related protein [Function unknown].
Length = 698
Score = 27.5 bits (61), Expect = 2.9
Identities = 18/78 (23%), Positives = 36/78 (46%), Gaps = 4/78 (5%)
Query: 43 DIEKYRQEREKIFREYEAKFMGSRDDVAAKIESDTKLKIDEMNKAVENNKENVIRKVLDL 102
+ + E+ K FR E ++ + V + + L +D +++ +++ N I +V
Sbjct: 286 FDKLGKTEKIKNFRNLEQVYLFDTNTVFHE-RYNIDLYMD-VSQTLDDQLFNRIEEV--E 341
Query: 103 VYDIKPELHKNFRAANQT 120
+ DIKP L+ F Q
Sbjct: 342 LGDIKPTLYPKFGTNGQI 359
>gnl|CDD|236292 PRK08566, PRK08566, DNA-directed RNA polymerase subunit A';
Validated.
Length = 882
Score = 27.5 bits (62), Expect = 3.3
Identities = 8/26 (30%), Positives = 15/26 (57%)
Query: 24 EAKKRKARRLKQAKEEAQEDIEKYRQ 49
EAK+ +++A++ +E IE Y
Sbjct: 657 EAKEEIDEIIEEAEKRVEELIEAYEN 682
>gnl|CDD|180240 PRK05759, PRK05759, F0F1 ATP synthase subunit B; Validated.
Length = 156
Score = 26.7 bits (60), Expect = 3.8
Identities = 14/43 (32%), Positives = 27/43 (62%)
Query: 12 LAAEKRAAEKVAEAKKRKARRLKQAKEEAQEDIEKYRQEREKI 54
LAA +RA +++ A+ + +L +A+ EA E IE+ ++ +I
Sbjct: 44 LAAAERAKKELELAQAKYEAQLAEARAEAAEIIEQAKKRAAQI 86
Score = 25.9 bits (58), Expect = 6.8
Identities = 15/41 (36%), Positives = 25/41 (60%)
Query: 9 QQLLAAEKRAAEKVAEAKKRKARRLKQAKEEAQEDIEKYRQ 49
QL A AAE + +AKKR A+ +++AK EA+ + + +
Sbjct: 63 AQLAEARAEAAEIIEQAKKRAAQIIEEAKAEAEAEAARIKA 103
>gnl|CDD|217817 pfam03961, DUF342, Protein of unknown function (DUF342). This
family of bacterial proteins has no known function. The
proteins are in the region of 500-600 amino acid
residues in length.
Length = 450
Score = 26.8 bits (60), Expect = 4.5
Identities = 16/88 (18%), Positives = 38/88 (43%)
Query: 9 QQLLAAEKRAAEKVAEAKKRKARRLKQAKEEAQEDIEKYRQEREKIFREYEAKFMGSRDD 68
+ L K+A ++ K+ + +L + KE+ E++E+ +E +++ E E+ + +
Sbjct: 355 KLLKKLPKKARGQLPPEKREQLEKLLETKEKLSEELEELEEELKELKEELESLYSEGKIS 414
Query: 69 VAAKIESDTKLKIDEMNKAVENNKENVI 96
V I K+ I ++
Sbjct: 415 VNKTIYPGVKIHIGNKVLRIKREIGPCT 442
>gnl|CDD|211393 cd11381, NSA2, pre-ribosomal protein NSA2 (Nop seven-associated
2). NSA2 appears to be a protein required for the
maturation of 27S pre-rRNA in yeast; it has been
characterized in mammalian cells as a nucleolar protein
that might play a role in the regulation of the cell
cycle and in cell proliferation.
Length = 257
Score = 26.8 bits (60), Expect = 4.6
Identities = 10/46 (21%), Positives = 22/46 (47%)
Query: 1 MASQTQGIQQLLAAEKRAAEKVAEAKKRKARRLKQAKEEAQEDIEK 46
A + +G++ L +KR EK+ K K + K++ + + +
Sbjct: 35 KAQKLRGLKAKLYNKKRYKEKIQMKKTIKMHEERNVKQKVDDKVPE 80
>gnl|CDD|215180 PLN02316, PLN02316, synthase/transferase.
Length = 1036
Score = 26.8 bits (59), Expect = 4.7
Identities = 22/68 (32%), Positives = 33/68 (48%), Gaps = 7/68 (10%)
Query: 22 VAEAKKRKARRLKQAKEEAQEDIEKYRQEREKIFREYE-AKFMGSRDDVAAKIESDTKLK 80
+ E K+R+ +L AKEEA E+ RQ E+ RE E A R A++E +
Sbjct: 250 LLEEKRRELEKL--AKEEA----ERERQAEEQRRREEEKAAMEADRAQAKAEVEKRREKL 303
Query: 81 IDEMNKAV 88
+ + KA
Sbjct: 304 QNLLKKAS 311
>gnl|CDD|224617 COG1703, ArgK, Putative periplasmic protein kinase ArgK and related
GTPases of G3E family [Amino acid transport and
metabolism].
Length = 323
Score = 26.5 bits (59), Expect = 5.2
Identities = 9/45 (20%), Positives = 19/45 (42%)
Query: 2 ASQTQGIQQLLAAEKRAAEKVAEAKKRKARRLKQAKEEAQEDIEK 46
A + +GI +L A + + + E+ +R Q E + +
Sbjct: 236 ALEGEGIDELWDAIEDHRKFLTESGLFTEKRRTQYVEWIRTLVRD 280
>gnl|CDD|227570 COG5245, DYN1, Dynein, heavy chain [Cytoskeleton].
Length = 3164
Score = 26.5 bits (58), Expect = 6.1
Identities = 13/73 (17%), Positives = 24/73 (32%), Gaps = 8/73 (10%)
Query: 31 RRLKQAKEEAQEDIEKYRQEREKIFREYEAKFMGSRDDVAAKIESDTKLKIDEMNKAVEN 90
R ++ K E E+ R+ R K +S K + E V
Sbjct: 2143 RLEREVKSVFVEAPRDMLFLLEEEVRK--------RKGSVMKFKSSKKPAVLEAVLFVYK 2194
Query: 91 NKENVIRKVLDLV 103
K+ +R++ +
Sbjct: 2195 IKKASLREIRSFI 2207
>gnl|CDD|130141 TIGR01069, mutS2, MutS2 family protein. Function of MutS2 is
unknown. It should not be considered a DNA mismatch
repair protein. It is likely a DNA mismatch binding
protein of unknown cellular function [DNA metabolism,
Other].
Length = 771
Score = 26.3 bits (58), Expect = 6.3
Identities = 28/123 (22%), Positives = 54/123 (43%), Gaps = 11/123 (8%)
Query: 9 QQLLAAEKRAAEKVAEAKKRKARRLKQAKEEAQEDIEKYRQEREKIFREYEAKFMGSRDD 68
++ +K +++ E K+R+ + + ++EAQE ++ ++E E I RE + K
Sbjct: 539 KEQEKLKKELEQEMEELKERERNKKLELEKEAQEALKALKKEVESIIRELKEK------- 591
Query: 69 VAAKIESDTKLKIDEMNKAVENNKENVIRKVLDLVYDIKPELHKNFRAANQTQGIQQLLA 128
KI ++K E ++ K+ + +K + D K R Q I Q+L
Sbjct: 592 ---KIHKAKEIKSIEDLVKLKETKQKIPQKPTNFQAD-KIGDKVRIRYFGQKGKIVQILG 647
Query: 129 AEK 131
K
Sbjct: 648 GNK 650
>gnl|CDD|129911 TIGR00831, a_cpa1, Na+/H+ antiporter, bacterial form. The
Monovalent Cation:Proton Antiporter-1 (CPA1) Family (TC
2.A.36) The CPA1 family is a large family of proteins
derived from Gram-positive and Gram-negative bacteria,
blue green bacteria, yeast, plants and animals.
Transporters from eukaryotes have been functionally
characterized, and all of these catalyze Na+:H+
exchange. Their primary physiological functions may be
in (1) cytoplasmic pH regulation, extruding the H+
generated during metabolism, and (2) salt tolerance (in
plants), due to Na+ uptake into vacuoles. This model is
specific for the bacterial members of this family
[Transport and binding proteins, Cations and iron
carrying compounds].
Length = 525
Score = 26.4 bits (58), Expect = 6.3
Identities = 16/78 (20%), Positives = 28/78 (35%), Gaps = 7/78 (8%)
Query: 6 QGIQ-QLLAAEKRAAEKVAEAKKR---KARRLKQAKEEAQEDIEKYRQERE---KIFREY 58
QGI + K +E + + + AK + +E+ R ++ E
Sbjct: 396 QGISLPIFVKRKFVSEHSERELEEIIARYIAARSAKFALMKAVEQLRIVEPVARELLPEL 455
Query: 59 EAKFMGSRDDVAAKIESD 76
+A+ R D KI S
Sbjct: 456 DARIEELRADGEEKIRSG 473
>gnl|CDD|238937 cd01979, Pchlide_reductase_N, Pchlide_reductase_N: N protein of the
NB protein complex of Protochlorophyllide
(Pchlide)_reductase. Pchlide reductase catalyzes the
reductive formation of chlorophyllide (chlide) from
protochlorophyllide (pchlide) during biosynthesis of
chlorophylls and bacteriochlorophylls. This group
contains both the light-independent Pchlide reductase
(DPOR) and light-dependent Pchlide reductase (LPOR).
Angiosperms contain only LPOR, cyanobacteria, algae and
gymnosperms contain both DPOR and LPOR, primitive
anoxygenic photosynthetic bacteria contain only DPOR. NB
is structurally similar to the FeMo protein of
nitrogenase, forming an N2B2 heterotetramer. N and B are
homologous to the FeMo alpha and beta subunits
respectively. Also in common with nitrogenase in vitro
DPOR activity requires ATP hydrolysis and dithoionite or
ferredoxin as electron donor. The NB protein complex may
serve as a catalytic site for Pchlide reduction similar
to MoFe for nitrogen reduction.
Length = 396
Score = 26.2 bits (58), Expect = 6.5
Identities = 11/47 (23%), Positives = 15/47 (31%), Gaps = 8/47 (17%)
Query: 20 EKVAEAKKRKARRLKQAKEEAQEDIEKYRQERE--KIFREYEAKFMG 64
E + A L + + A +E Y IF FMG
Sbjct: 243 EAICSAFGIFPSVLAEREARAWRALEPYLDLLRGKSIF------FMG 283
>gnl|CDD|216494 pfam01425, Amidase, Amidase.
Length = 431
Score = 26.1 bits (58), Expect = 6.8
Identities = 7/31 (22%), Positives = 12/31 (38%)
Query: 30 ARRLKQAKEEAQEDIEKYRQEREKIFREYEA 60
A +AQ+ R+E +F E +
Sbjct: 329 AGYSGAYYLKAQKVRRLLRREFAGLFEELDV 359
>gnl|CDD|239500 cd03406, Band_7_3, A subgroup of the band 7 domain of flotillin
(reggie) like proteins. This subgroup contains proteins
similar to stomatin, prohibitin, flotillin, HlfK/C and
podicin. Many of these band 7 domain-containing
proteins are lipid raft-associated. Individual proteins
of this band 7 domain family may cluster to form
membrane microdomains which may in turn recruit
multiprotein complexes. Microdomains formed from
flotillin proteins may in addition be dynamic units with
their own regulatory functions. Flotillins have been
implicated in signal transduction, vesicle trafficking,
cytoskeleton rearrangement and are known to interact
with a variety of proteins. Stomatin interacts with and
regulates members of the degenerin/epithelia Na+ channel
family in mechanosensory cells of Caenorhabditis elegans
and vertebrate neurons and participates in trafficking
of Glut1 glucose transporters. Prohibitin may act as a
chaperone for the stabilization of mitochondrial
proteins. Prokaryotic HflK/C plays a role in the
decision between lysogenic and lytic cycle growth during
lambda phage infection. Flotillins have been implicated
in the progression of prion disease, in the pathogenesis
of neurodegenerative diseases such as Parkinson's and
Alzheimer's disease and, in cancer invasion and
metastasis. Mutations in the podicin gene give rise to
autosomal recessive steroid resistant nephritic
syndrome.
Length = 280
Score = 26.3 bits (58), Expect = 6.9
Identities = 26/82 (31%), Positives = 40/82 (48%), Gaps = 8/82 (9%)
Query: 11 LLAAEK-RAAEKVAEAKKRKARRLKQAKEEAQEDIEKYRQ-----EREKIFREYEAKFMG 64
L+A +K + EK AE +++KA + +A++ AQ + Q E EK E E +
Sbjct: 176 LIAIQKQKVVEKEAETERKKA--VIEAEKVAQVAKILFGQKVMEKETEKRISEIEDEAFL 233
Query: 65 SRDDVAAKIESDTKLKIDEMNK 86
+R+ A E T K E NK
Sbjct: 234 AREKAKADAEYYTAQKEAEANK 255
>gnl|CDD|203444 pfam06424, PRP1_N, PRP1 splicing factor, N-terminal. This domain
is specific to the N-terminal part of the prp1 splicing
factor, which is involved in mRNA splicing (and possibly
also poly(A)+ RNA nuclear export and cell cycle
progression). This domain is specific to the N terminus
of the RNA splicing factor encoded by prp1. It is
involved in mRNA splicing and possibly also poly(A)and
RNA nuclear export and cell cycle progression.
Length = 131
Score = 25.7 bits (57), Expect = 7.1
Identities = 15/30 (50%), Positives = 20/30 (66%), Gaps = 4/30 (13%)
Query: 25 AKKRKARRLKQAKEEAQEDIEKYRQEREKI 54
++RK RR ++ KEE IEKYR+E KI
Sbjct: 75 DERRKKRREQKEKEE----IEKYREENPKI 100
>gnl|CDD|223542 COG0466, Lon, ATP-dependent Lon protease, bacterial type
[Posttranslational modification, protein turnover,
chaperones].
Length = 782
Score = 26.4 bits (59), Expect = 7.7
Identities = 18/90 (20%), Positives = 38/90 (42%), Gaps = 3/90 (3%)
Query: 19 AEKVAEAKKRKARRLKQAKEEAQEDIEKYRQEREKIFREYEAKFMGSRD--DVAAKIESD 76
E + + + R ++ + E+Y + +KI E D +A I +
Sbjct: 114 IELLPDEPIDEEREIEALVRSILSEFEEYAKLNKKIPPEELQSLNSIDDPGKLADTIAAH 173
Query: 77 TKLKIDEMNKAVE-NNKENVIRKVLDLVYD 105
LK++E + +E + + + K+LDL+
Sbjct: 174 LPLKLEEKQEILETLDVKERLEKLLDLLEK 203
>gnl|CDD|215329 PLN02610, PLN02610, probable methionyl-tRNA synthetase.
Length = 801
Score = 25.9 bits (57), Expect = 8.6
Identities = 16/50 (32%), Positives = 24/50 (48%), Gaps = 11/50 (22%)
Query: 37 KEEAQEDIEKYRQEREKIFREYEAKFMGSRDDVAAKIESDTKLKIDEMNK 86
KE E++E YR+ KF GS+ D AA+ E+ K+ + K
Sbjct: 570 KELKDEEVEAYRE-----------KFAGSQADRAARAEAAEAKKLAKQLK 608
>gnl|CDD|130902 TIGR01843, type_I_hlyD, type I secretion membrane fusion protein,
HlyD family. Type I secretion is an ABC transport
process that exports proteins, without cleavage of any
signal sequence, from the cytosol to extracellular
medium across both inner and outer membranes. The
secretion signal is found in the C-terminus of the
transported protein. This model represents the adaptor
protein between the ATP-binding cassette (ABC) protein
of the inner membrane and the outer membrane protein,
and is called the membrane fusion protein. This model
selects a subfamily closely related to HlyD; it is
defined narrowly and excludes, for example, colicin V
secretion protein CvaA and multidrug efflux proteins
[Protein fate, Protein and peptide secretion and
trafficking].
Length = 423
Score = 26.1 bits (58), Expect = 8.9
Identities = 6/53 (11%), Positives = 18/53 (33%)
Query: 1 MASQTQGIQQLLAAEKRAAEKVAEAKKRKARRLKQAKEEAQEDIEKYRQEREK 53
+ ++ L + + ++ + + EAQ + + R+ K
Sbjct: 212 LGRLEAELEVLKRQIDELQLERQQIEQTFREEVLEELTEAQARLAELRERLNK 264
>gnl|CDD|235600 PRK05771, PRK05771, V-type ATP synthase subunit I; Validated.
Length = 646
Score = 26.0 bits (58), Expect = 9.3
Identities = 10/83 (12%), Positives = 33/83 (39%), Gaps = 4/83 (4%)
Query: 7 GIQQLLAAEKRAAEKVAEAKKRKARRLKQAKEEAQEDIEKYRQEREKIFREYEAKFMGSR 66
G ++L E+ ++ K + +++ +E E++++ ++ +
Sbjct: 201 GFERLELEEEGTPSELIREIKEELEEIEKERESLLEELKELAKKYLEELLALYEYL---- 256
Query: 67 DDVAAKIESDTKLKIDEMNKAVE 89
+ + E+ +K + A+E
Sbjct: 257 EIELERAEALSKFLKTDKTFAIE 279
>gnl|CDD|239497 cd03403, Band_7_stomatin_like, Band_7_stomatin_like: A subgroup of
the band 7 domain of flotillin (reggie) like proteins
similar to stomatin and podicin (two lipid
raft-associated integral membrane proteins). Individual
proteins of this band 7 domain family may cluster to
form membrane microdomains which may in turn recruit
multiprotein complexes. Stomatin is widely expressed
and, highly expressed in red blood cells. It localizes
predominantly to the plasma membrane and to
intracellular vesicles of the endocytic pathway, where
it is present in higher order homo-oligomeric complexes
(of between 9 and 12 monomers). Stomatin interacts with
and regulates members of the degenerin/epithelia Na+
channel family in mechanosensory cells of Caenorhabditis
elegans and vertebrate neurons and, is implicated in
trafficking of Glut1 glucose transporters. Prohibitin is
a mitochondrial inner-membrane protein hypothesized to
act as a chaperone for the stabilization of
mitochondrial proteins. Podicin localizes to the plasma
membrane of podocyte foot processes and, is found in
higher order oligomers. Podocin plays a role in
regulating glomerular permeability. Mutations in the
podicin gene give rise to autosomal recessive steroid
resistant nephritic syndrome. This group also contains
proteins similar to three Caenorhabditis elegans
proteins: UNC-1, UNC-24 and, MEC-2. Mutations in the
unc-1 and unc-24 genes result in abnormal motion and
altered patterns of sensitivity to volatile anesthetics.
MEC-2 and UNC-24 proteins interact with MEC-4 which is
part of the degenerin channel complex required for
response to gentle body touch.
Length = 215
Score = 25.6 bits (57), Expect = 9.3
Identities = 11/42 (26%), Positives = 19/42 (45%)
Query: 14 AEKRAAEKVAEAKKRKARRLKQAKEEAQEDIEKYRQEREKIF 55
E++AA +AEA K+ A + E +E+ +E
Sbjct: 169 GERQAAILLAEAAKQAAINPAALQLRELETLEEIAKEAASTV 210
>gnl|CDD|213365 cd12831, TmCorA-like_u2, Uncharacterized bacterial subfamily of the
Thermotoga maritima CorA-like family. This subfamily
belongs to the Thermotoga maritima CorA (TmCorA)-like
family of the MIT superfamily of essential membrane
proteins involved in transporting divalent cations
(uptake or efflux) across membranes. Members of the
TmCorA-like family are found in all three kingdoms of
life. It is a functionally diverse family which includes
the CorA Co2+ transporter from the hyperthermophilic
Thermotoga maritima, and three Saccharomyces cerevisiae
proteins: two located in the plasma membrane: the Mg2+
transporter Alr1p/Swc3p and the putative Mg2+
transporter, Alr2p, and the vacuole membrane protein
Mnr2p, a putative Mg2+ transporter. Thermotoga maritima
CorA forms funnel-shaped homopentamers, the tip of the
funnel is formed from two C-terminal transmembrane (TM)
helices from each monomer, and the large opening of the
funnel from the N-terminal cytoplasmic domains. The GMN
signature motif of the MIT superfamily occurs just after
TM1, mutation within this motif is known to abolish Mg2+
transport by a related protein, Saccharomyces cerevisiae
Alr1p. Natural variants in this signature sequence may
be associated with the transport of different divalent
cations. The functional diversity of the MIT superfamily
may also be due to minor structural differences
regulating gating, substrate selection, and transport.
Length = 287
Score = 25.6 bits (57), Expect = 9.4
Identities = 11/31 (35%), Positives = 22/31 (70%)
Query: 82 DEMNKAVENNKENVIRKVLDLVYDIKPELHK 112
D +N+ +NN ++ +K++D V+DI+ +L K
Sbjct: 126 DRLNEIEDNNVDSSNKKLMDEVFDIRSDLLK 156
>gnl|CDD|115019 pfam06334, Orthopox_A47, Orthopoxvirus A47 protein. This family
consists of several Orthopoxvirus A47 proteins. The
function of this family is unknown.
Length = 244
Score = 25.8 bits (56), Expect = 9.6
Identities = 16/71 (22%), Positives = 36/71 (50%), Gaps = 1/71 (1%)
Query: 27 KRKARRLKQAKEEAQEDIEKYRQ-EREKIFREYEAKFMGSRDDVAAKIESDTKLKIDEMN 85
KR + +E++ I+++ RE I ++ KF+ + ++ A I+ + + +D+
Sbjct: 26 KRGSWATSSFREKSHATIQRFSSLRREHIKVDHPDKFLELKREIYAIIQKSSSIDVDKRT 85
Query: 86 KAVENNKENVI 96
K + N K +I
Sbjct: 86 KLMSNIKTMMI 96
>gnl|CDD|222613 pfam14235, DUF4337, Domain of unknown function (DUF4337). This
family of proteins is functionally uncharacterized.
This family of proteins is found in bacteria. Proteins
in this family are typically between 187 and 201 amino
acids in length. There is a single completely conserved
residue Q that may be functionally important.
Length = 158
Score = 25.2 bits (56), Expect = 9.7
Identities = 6/40 (15%), Positives = 17/40 (42%)
Query: 18 AAEKVAEAKKRKARRLKQAKEEAQEDIEKYRQEREKIFRE 57
AA+ + L+ +++ +YR E +++ +
Sbjct: 57 AADLLELEAAAPRAELQAKIARYKKEKARYRSEAKELEAK 96
>gnl|CDD|233854 TIGR02409, carnitine_bodg, gamma-butyrobetaine hydroxylase.
Members of this protein family are gamma-butyrobetaine
hydroxylase, both bacterial and eukarytotic. This enzyme
catalyzes the last step in the conversion of lysine to
carnitine. Carnitine can serve as a compatible solvent
in bacteria and also participates in fatty acid
metabolism.
Length = 366
Score = 25.9 bits (57), Expect = 9.8
Identities = 17/73 (23%), Positives = 31/73 (42%)
Query: 45 EKYRQEREKIFREYEAKFMGSRDDVAAKIESDTKLKIDEMNKAVENNKENVIRKVLDLVY 104
E R+E + FR + + RD + +K + E++ E K D ++
Sbjct: 227 EALRKENPEAFRILSSTPVEFRDIGDDYCDLRSKHPVIELDDDGEVVKIRFNNASRDTIF 286
Query: 105 DIKPELHKNFRAA 117
D+ E ++F AA
Sbjct: 287 DVPVERVQDFYAA 299
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
0.309 0.123 0.308
Gapped
Lambda K H
0.267 0.0812 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 7,061,691
Number of extensions: 666336
Number of successful extensions: 3465
Number of sequences better than 10.0: 1
Number of HSP's gapped: 2753
Number of HSP's successfully gapped: 822
Length of query: 142
Length of database: 10,937,602
Length adjustment: 87
Effective length of query: 55
Effective length of database: 7,078,804
Effective search space: 389334220
Effective search space used: 389334220
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: 54 (24.4 bits)