RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy2197
(394 letters)
>gnl|CDD|204791 pfam11945, WASH_WAHD, WAHD domain of WASH complex. This domain
forms part of the WASH-complex of domains and proteins
that activates the Arp2/3 complex, see pfam04062. The
Arp2/3 complex regulates endocytosis, sorting, and
trafficking within the cell. The WAHD domain attaches to
the FAM21 proteins via its N-terminal residues and to
the microtubules via its C-terminal residues.
Length = 297
Score = 113 bits (285), Expect = 7e-29
Identities = 64/213 (30%), Positives = 105/213 (49%), Gaps = 12/213 (5%)
Query: 48 IALIQDDLKHNDTIIQIANSLDILDESMRNVFDHTKKSIWRTRQCLHAIEKRSSVVCANI 107
+ +IQ DL+ +TI QIA++L L++ +VFD + + R L AI R + A I
Sbjct: 7 VPIIQPDLRREETIRQIADALQYLEKVSNDVFDRISQRVEDNRARLQAINGRVKLAQAKI 66
Query: 108 EKLKNIQKSVTIVSKSKYPYP-YNGNY-SVHIQHEHVTPMYKCPLLLYDKTE-INTRDID 164
K+K +K++ + S +KYP Y S+ + + + K ++ + +
Sbjct: 67 RKIKGSKKAIKVFSSAKYPAADVLQEYESIFTGATDGIELKRPHYRIQSKHPPLDEKSLQ 126
Query: 165 NKLKFYHVKTNNMLHKNVELVCEESLGKLPAPIDSVMSSILFNTSDNVYEKYIIVHPGQV 224
KLK+Y V N H+ EE LG LP + SV S +LFNT++N+Y+KY+ + P
Sbjct: 127 EKLKYYPVCVNTKKHRIFSDPAEEGLGSLPRNLSSVSSLLLFNTTENLYKKYVTLDP--- 183
Query: 225 IARKPITKKHDHT----EQVKMEDAPKSLISKG 253
+ K H E+ K+ DAP S+ +
Sbjct: 184 --LAGVVTKTRHALEGEEEEKLFDAPSSITKRE 214
>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 = 7e-25
Identities = 38/57 (66%), Positives = 49/57 (85%)
Query: 321 GIQQLLAAEKRAAEKVAEAKKRKARRLKQAKEEAQEDIEKYRQEREKIFREYEAKVS 377
GIQQLL AEK AAE V EA+KR+A+RLKQAKEEA+++IE+YR +RE F+E+EA+ S
Sbjct: 5 GIQQLLQAEKEAAEIVNEARKRRAKRLKQAKEEAEKEIEEYRAQREAEFKEFEAEHS 61
>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 = 86.4 bits (214), Expect = 9e-21
Identities = 42/55 (76%), Positives = 52/55 (94%)
Query: 321 GIQQLLAAEKRAAEKVAEAKKRKARRLKQAKEEAQEDIEKYRQEREKIFREYEAK 375
GIQQLL AEKRAAEKV+EA+KRK +RLKQAKEEAQ+++EKY+Q+REK F+E+EAK
Sbjct: 7 GIQQLLQAEKRAAEKVSEARKRKTKRLKQAKEEAQKEVEKYKQQREKEFKEFEAK 61
>gnl|CDD|237177 PRK12704, PRK12704, phosphodiesterase; Provisional.
Length = 520
Score = 44.4 bits (106), Expect = 7e-05
Identities = 20/60 (33%), Positives = 30/60 (50%)
Query: 319 SLGIQQLLAAEKRAAEKVAEAKKRKARRLKQAKEEAQEDIEKYRQEREKIFREYEAKVSH 378
+ ++ AE+ A + EAKK K+A EA+E+I K R E EK RE ++
Sbjct: 27 KIAEAKIKEAEEEAKRILEEAKKEAEAIKKEALLEAKEEIHKLRNEFEKELRERRNELQK 86
>gnl|CDD|235026 PRK02292, PRK02292, V-type ATP synthase subunit E; Provisional.
Length = 188
Score = 38.4 bits (90), Expect = 0.002
Identities = 12/39 (30%), Positives = 23/39 (58%)
Query: 327 AAEKRAAEKVAEAKKRKARRLKQAKEEAQEDIEKYRQER 365
A++ A E +AEA+ L+ + EA+ +IE+ R++
Sbjct: 24 EADEEAEEIIAEAEADAEEILEDREAEAEREIEQLREQE 62
Score = 32.3 bits (74), Expect = 0.29
Identities = 16/55 (29%), Positives = 29/55 (52%), Gaps = 1/55 (1%)
Query: 328 AEKRAAEKVAEAKKRKARRLKQAKEEAQEDIEKYRQEREK-IFREYEAKVSHCNI 381
A RA+E AEA + + +A+ +A+E +E E E+ I + E ++S +
Sbjct: 14 ARARASEIRAEADEEAEEIIAEAEADAEEILEDREAEAEREIEQLREQELSSAKL 68
>gnl|CDD|184048 PRK13428, PRK13428, F0F1 ATP synthase subunit delta; Provisional.
Length = 445
Score = 39.3 bits (92), Expect = 0.003
Identities = 21/68 (30%), Positives = 37/68 (54%), Gaps = 6/68 (8%)
Query: 314 RPPVVSL------GIQQLLAAEKRAAEKVAEAKKRKARRLKQAKEEAQEDIEKYRQEREK 367
PPV L ++Q LA AA+++AEA + + ++ AK EA +E+ R++ E+
Sbjct: 23 VPPVRRLMAARQDTVRQQLAESATAADRLAEADQAHTKAVEDAKAEAARVVEEAREDAER 82
Query: 368 IFREYEAK 375
I + A+
Sbjct: 83 IAEQLRAQ 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 = 39.5 bits (93), Expect = 0.003
Identities = 18/55 (32%), Positives = 31/55 (56%)
Query: 323 QQLLAAEKRAAEKVAEAKKRKARRLKQAKEEAQEDIEKYRQEREKIFREYEAKVS 377
++L +AE+ A + EAKK K+A EA+E++ K R E E+ +E ++
Sbjct: 25 KKLGSAEELAKRIIEEAKKEAETLKKEALLEAKEEVHKLRAELERELKERRNELQ 79
Score = 29.5 bits (67), Expect = 3.7
Identities = 13/46 (28%), Positives = 24/46 (52%)
Query: 323 QQLLAAEKRAAEKVAEAKKRKARRLKQAKEEAQEDIEKYRQEREKI 368
+ L ++ EK + K + L + +EE +E I + R+E E+I
Sbjct: 96 MESLDKKEENLEKKEKELSNKEKNLDEKEEELEELIAEQREELERI 141
>gnl|CDD|223783 COG0711, AtpF, F0F1-type ATP synthase, subunit b [Energy production
and conversion].
Length = 161
Score = 37.3 bits (87), Expect = 0.005
Identities = 17/54 (31%), Positives = 30/54 (55%)
Query: 322 IQQLLAAEKRAAEKVAEAKKRKARRLKQAKEEAQEDIEKYRQEREKIFREYEAK 375
I LA +R E+ + L++A+E+A E IE+ ++E E+I E +A+
Sbjct: 42 IADDLAEAERLKEEAQALLAEYEQELEEAREQASEIIEQAKKEAEQIAEEIKAE 95
Score = 31.5 bits (72), Expect = 0.36
Identities = 11/45 (24%), Positives = 28/45 (62%)
Query: 323 QQLLAAEKRAAEKVAEAKKRKARRLKQAKEEAQEDIEKYRQEREK 367
++ A +++ EA+++ + ++QAK+EA++ E+ + E E+
Sbjct: 54 EEAQALLAEYEQELEEAREQASEIIEQAKKEAEQIAEEIKAEAEE 98
Score = 31.1 bits (71), Expect = 0.49
Identities = 13/38 (34%), Positives = 26/38 (68%)
Query: 323 QQLLAAEKRAAEKVAEAKKRKARRLKQAKEEAQEDIEK 360
Q+L A ++A+E + +AKK + ++ K EA+E++E+
Sbjct: 65 QELEEAREQASEIIEQAKKEAEQIAEEIKAEAEEELER 102
>gnl|CDD|180240 PRK05759, PRK05759, F0F1 ATP synthase subunit B; Validated.
Length = 156
Score = 35.9 bits (84), Expect = 0.013
Identities = 14/43 (32%), Positives = 27/43 (62%)
Query: 326 LAAEKRAAEKVAEAKKRKARRLKQAKEEAQEDIEKYRQEREKI 368
LAA +RA +++ A+ + +L +A+ EA E IE+ ++ +I
Sbjct: 44 LAAAERAKKELELAQAKYEAQLAEARAEAAEIIEQAKKRAAQI 86
Score = 34.8 bits (81), Expect = 0.027
Identities = 14/50 (28%), Positives = 28/50 (56%), Gaps = 4/50 (8%)
Query: 323 QQLLAAEKRAAEKVAEAKKRKARRLKQAKEEAQEDIEKYR----QEREKI 368
++L A+ + ++AEA+ A ++QAK+ A + IE+ + E +I
Sbjct: 52 KELELAQAKYEAQLAEARAEAAEIIEQAKKRAAQIIEEAKAEAEAEAARI 101
Score = 34.8 bits (81), Expect = 0.029
Identities = 15/41 (36%), Positives = 25/41 (60%)
Query: 323 QQLLAAEKRAAEKVAEAKKRKARRLKQAKEEAQEDIEKYRQ 363
QL A AAE + +AKKR A+ +++AK EA+ + + +
Sbjct: 63 AQLAEARAEAAEIIEQAKKRAAQIIEEAKAEAEAEAARIKA 103
>gnl|CDD|225368 COG2811, NtpF, Archaeal/vacuolar-type H+-ATPase subunit H [Energy
production and conversion].
Length = 108
Score = 34.7 bits (80), Expect = 0.016
Identities = 19/51 (37%), Positives = 35/51 (68%)
Query: 322 IQQLLAAEKRAAEKVAEAKKRKARRLKQAKEEAQEDIEKYRQEREKIFREY 372
++++ AE A E++ EAK+ + +K+A+EEA+E IE+ +E EK+ +E
Sbjct: 9 LREIKKAEISADEEIEEAKEEAEQIIKEAREEAREIIEEAEEEAEKLAQEI 59
Score = 29.7 bits (67), Expect = 0.88
Identities = 10/49 (20%), Positives = 29/49 (59%)
Query: 323 QQLLAAEKRAAEKVAEAKKRKARRLKQAKEEAQEDIEKYRQEREKIFRE 371
+++ A++ A + + EA++ +++A+EEA++ ++ +E + E
Sbjct: 21 EEIEEAKEEAEQIIKEAREEAREIIEEAEEEAEKLAQEILEEAREEAEE 69
Score = 27.0 bits (60), Expect = 7.3
Identities = 12/45 (26%), Positives = 26/45 (57%)
Query: 331 RAAEKVAEAKKRKARRLKQAKEEAQEDIEKYRQEREKIFREYEAK 375
++ +A+ +++AKEEA++ I++ R+E +I E E +
Sbjct: 7 EVLREIKKAEISADEEIEEAKEEAEQIIKEAREEAREIIEEAEEE 51
>gnl|CDD|109486 pfam00430, ATP-synt_B, ATP synthase B/B' CF(0). Part of the CF(0)
(base unit) of the ATP synthase. The base unit is
thought to translocate protons through membrane (inner
membrane in mitochondria, thylakoid membrane in plants,
cytoplasmic membrane in bacteria). The B subunits are
thought to interact with the stalk of the CF(1)
subunits. This domain should not be confused with the ab
CF(1) proteins (in the head of the ATP synthase) which
are found in pfam00006.
Length = 132
Score = 34.5 bits (80), Expect = 0.023
Identities = 19/62 (30%), Positives = 29/62 (46%), Gaps = 8/62 (12%)
Query: 323 QQLLAAEKRAAEKVAEAKKRKARRLKQAKEEAQEDIEK--------YRQEREKIFREYEA 374
QQL A A+E + AKK + ++ EAQ+D E+ QE+E+ E
Sbjct: 58 QQLAQARAEASEIINNAKKEAQKLKEEILAEAQKDAERLLESARAEIEQEKEQALAELRQ 117
Query: 375 KV 376
+V
Sbjct: 118 QV 119
Score = 32.2 bits (74), Expect = 0.17
Identities = 16/72 (22%), Positives = 32/72 (44%), Gaps = 2/72 (2%)
Query: 322 IQQLLAAEKRAAEKVAEAKKRKARRLKQAKEEAQEDIEKYRQEREKIFREYEAKVSHCNI 381
+ AE+R + A ++L QA+ EA E I ++E +K+ E A+ +
Sbjct: 36 ANNIKEAEERLKQ-AAALLAEAEQQLAQARAEASEIINNAKKEAQKLKEEILAEAQK-DA 93
Query: 382 VLIIKAAANYFM 393
++++A
Sbjct: 94 ERLLESARAEIE 105
>gnl|CDD|152067 pfam11631, DUF3255, Protein of unknown function (DUF3255). Members
in this family of proteins are annotated as YxeF however
no function is currently known. The family appears to be
restricted to Bacillus.
Length = 124
Score = 33.9 bits (77), Expect = 0.042
Identities = 33/109 (30%), Positives = 48/109 (44%), Gaps = 23/109 (21%)
Query: 191 GKLPAPIDSVMSSILFNTSDNVYEKYIIVHPGQV----IARKPITKKHDHTEQVKMEDAP 246
G P P+D V S+ + T D V EK +I G+V A K I++ D + +++ P
Sbjct: 24 GLAPGPMDGVKSATVTFTEDEVLEKEVIEGRGEVALPFDAYKVISQNTDGSIEIEYLGHP 83
Query: 247 KSLISKGILRTDFSKLAVVLKLGAKTNKSIIWCQN----SMARIKSTAG 291
L S LK G N ++IW N +M RI+S G
Sbjct: 84 HPLKS-------------TLKRG--ENDTLIWEINGERKTMTRIESKTG 117
>gnl|CDD|225606 COG3064, TolA, Membrane protein involved in colicin uptake [Cell
envelope biogenesis, outer membrane].
Length = 387
Score = 34.5 bits (79), Expect = 0.081
Identities = 18/49 (36%), Positives = 22/49 (44%), Gaps = 3/49 (6%)
Query: 327 AAEKRAAEKVAEAKKRKARRLKQAKEEAQEDIEKYRQEREKIFREYEAK 375
AA + A K A K+KA +A EEA+ K K E EAK
Sbjct: 156 AAAEAAKLKAAAEAKKKAEEAAKAAEEAK---AKAEAAAAKKKAEAEAK 201
Score = 30.7 bits (69), Expect = 1.4
Identities = 17/52 (32%), Positives = 25/52 (48%), Gaps = 3/52 (5%)
Query: 327 AAEKRAAEKVAEAKKRKARRLKQAK---EEAQEDIEKYRQEREKIFREYEAK 375
AA K+ AE A+A KA+ +AK E+ E + + EK +AK
Sbjct: 190 AAAKKKAEAEAKAAAEKAKAEAEAKAKAEKKAEAAAEEKAAAEKKKAAAKAK 241
Score = 28.8 bits (64), Expect = 5.1
Identities = 13/34 (38%), Positives = 17/34 (50%)
Query: 323 QQLLAAEKRAAEKVAEAKKRKARRLKQAKEEAQE 356
+ A EK AAEK A K KA + A + A+
Sbjct: 221 AEAAAEEKAAAEKKKAAAKAKADKAAAAAKAAER 254
>gnl|CDD|131972 TIGR02926, AhaH, ATP synthase archaeal, H subunit. he A1/A0 ATP
synthase is homologous to the V-type (V1/V0, vacuolar)
ATPase, but functions in the ATP synthetic direction as
does the F1/F0 ATPase of bacteria. The hydrophilic A1
"stalk" complex (AhaABCDEFG) is the site of ATP
generation and is coupled to the membrane-embedded
proton translocating A0 complex. It is unclear precisely
where AhaH fits into these complexes.
Length = 85
Score = 31.7 bits (72), Expect = 0.11
Identities = 16/50 (32%), Positives = 34/50 (68%)
Query: 322 IQQLLAAEKRAAEKVAEAKKRKARRLKQAKEEAQEDIEKYRQEREKIFRE 371
++++ AE+ A E + EA++ + +R+ +A+EEA+E +E+ +E K+ E
Sbjct: 1 LEEIKKAEEDAEELIEEAEEERKQRIAEAREEARELLEEAEEEASKLGEE 50
Score = 29.0 bits (65), Expect = 0.94
Identities = 16/48 (33%), Positives = 26/48 (54%)
Query: 328 AEKRAAEKVAEAKKRKARRLKQAKEEAQEDIEKYRQEREKIFREYEAK 375
A + E EA K +K+A+EE +++ EK R+E EK ++K
Sbjct: 33 ARELLEEAEEEASKLGEEIIKEAEEEIEKEAEKIREEGEKEIEAMKSK 80
Score = 28.3 bits (63), Expect = 2.0
Identities = 15/54 (27%), Positives = 27/54 (50%), Gaps = 4/54 (7%)
Query: 327 AAEKRAAEKVAEAKKRKARRLKQAKEEAQEDI----EKYRQEREKIFREYEAKV 376
++R AE EA++ ++A + +E I E+ +E EKI E E ++
Sbjct: 21 ERKQRIAEAREEARELLEEAEEEASKLGEEIIKEAEEEIEKEAEKIREEGEKEI 74
>gnl|CDD|235999 PRK07353, PRK07353, F0F1 ATP synthase subunit B'; Validated.
Length = 140
Score = 32.7 bits (75), Expect = 0.12
Identities = 23/49 (46%), Positives = 29/49 (59%), Gaps = 4/49 (8%)
Query: 323 QQLLAAEKRA----AEKVAEAKKRKARRLKQAKEEAQEDIEKYRQEREK 367
QQL +A K+A AE AEA K A L +A+ EAQ EK R+E E+
Sbjct: 64 QQLASARKQAQAVIAEAEAEADKLAAEALAEAQAEAQASKEKARREIEQ 112
Score = 32.3 bits (74), Expect = 0.17
Identities = 15/43 (34%), Positives = 27/43 (62%), Gaps = 3/43 (6%)
Query: 332 AAEKVAEAKKRKA---RRLKQAKEEAQEDIEKYRQEREKIFRE 371
A E++AEA+K +A ++L A+++AQ I + E +K+ E
Sbjct: 48 AKERLAEAEKLEAQYEQQLASARKQAQAVIAEAEAEADKLAAE 90
Score = 31.1 bits (71), Expect = 0.41
Identities = 16/47 (34%), Positives = 26/47 (55%), Gaps = 9/47 (19%)
Query: 323 QQLLA-----AEKRAAEKVAEAKKRKARRLKQAKEEAQEDIEKYRQE 364
Q ++A A+K AAE +AEA+ KE+A+ +IE+ +Q
Sbjct: 74 QAVIAEAEAEADKLAAEALAEAQAEAQAS----KEKARREIEQQKQA 116
>gnl|CDD|222636 pfam14265, DUF4355, Domain of unknown function (DUF4355). This
family of proteins is found in bacteria and viruses.
Proteins in this family are typically between 180 and
214 amino acids in length.
Length = 125
Score = 32.2 bits (74), Expect = 0.15
Identities = 18/52 (34%), Positives = 32/52 (61%), Gaps = 2/52 (3%)
Query: 322 IQQLLAAEKRAAEKVAEAKKRKARRLKQ--AKEEAQEDIEKYRQEREKIFRE 371
+ + +A EK EK E KK +A +L + A+E+A+ ++EK +E E++ E
Sbjct: 13 VDKAIAKEKAKWEKKQEEKKSEAEKLAKMSAEEKAEYELEKLEKELEELEAE 64
Score = 29.1 bits (66), Expect = 1.8
Identities = 13/56 (23%), Positives = 27/56 (48%), Gaps = 4/56 (7%)
Query: 324 QLLAAEKRAAEKVAEAKKRKAR----RLKQAKEEAQEDIEKYRQEREKIFREYEAK 375
+ EK+ EK +EA+K + + E+ ++++E+ E + + EAK
Sbjct: 20 EKAKWEKKQEEKKSEAEKLAKMSAEEKAEYELEKLEKELEELEAELARRELKAEAK 75
>gnl|CDD|219572 pfam07780, Spb1_C, Spb1 C-terminal domain. This presumed domain is
found at the C-terminus of a family of FtsJ-like
methyltransferases. Members of this family are involved
in 60S ribosomal biogenesis.
Length = 212
Score = 33.0 bits (76), Expect = 0.15
Identities = 22/55 (40%), Positives = 30/55 (54%), Gaps = 13/55 (23%)
Query: 323 QQLLAAEKRAAEKVAEAKKRK----ARRLKQAKEEA-----QEDIEKYRQEREKI 368
++L R +KVAEAK RK +RL++AK++A EDI EREK
Sbjct: 100 EKLKEINARPIKKVAEAKARKKMRALKRLEKAKKKAEAIAEDEDIS----EREKA 150
>gnl|CDD|169428 PRK08404, PRK08404, V-type ATP synthase subunit H; Validated.
Length = 103
Score = 31.7 bits (72), Expect = 0.18
Identities = 28/75 (37%), Positives = 43/75 (57%), Gaps = 19/75 (25%)
Query: 322 IQQLLAAEKRAAEKV----AEAKK--RKARR---------LKQAKEEAQEDIEKYRQERE 366
I++++ AEK A E++ EAKK RKA+ +K+A+EEAQ+ IEK ++E E
Sbjct: 5 IKEIVKAEKEAEERIEKAKEEAKKIIRKAKEEAKKIEEEIIKKAEEEAQKLIEKKKKEGE 64
Query: 367 ----KIFREYEAKVS 377
KI E E ++
Sbjct: 65 EEAKKILEEGEKEIE 79
>gnl|CDD|221198 pfam11740, KfrA_N, Plasmid replication region DNA-binding N-term.
The broad host-range plasmid RK2 is able to replicate in
and be inherited in a stable manner in diverse
Gram-negative bacterial species. It encodes a number of
co-ordinately regulated operons including a central
control korF1 operon that represses the kfrA operon. The
KfrA polypeptide is a site-specific DNA-binding protein
whose operator overlaps the kfrA promoter. The
N-terminus, containing an helix-turn-helix motif, is
essential for function. Downstream from this family is
an extended coiled-coil domain containing a heptad
repeat segment which is probably responsible for
formation of multimers, and may provide an example of a
bridge to host structures required for plasmid
partitioning.
Length = 120
Score = 31.9 bits (73), Expect = 0.19
Identities = 19/73 (26%), Positives = 30/73 (41%), Gaps = 6/73 (8%)
Query: 302 RQTRYALPTKPTRPPVVSLGIQQLLAAEKRAAEKVAEAKKRKARRLKQAKEEAQEDIEKY 361
P P P +S + +L+AA AA++ AE RL A+ A+ + +
Sbjct: 47 ELRAALAPAAPELPDALSEALAELVAALWEAAQEEAEE------RLAAARAAAEAERAEL 100
Query: 362 RQEREKIFREYEA 374
E + E EA
Sbjct: 101 EAELAEAAAEAEA 113
>gnl|CDD|130214 TIGR01144, ATP_synt_b, ATP synthase, F0 subunit b. This model
describes the F1/F0 ATP synthase b subunit in bacteria
only. Scoring just below the trusted cutoff are the
N-terminal domains of Mycobacterial b/delta fusion
proteins and a subunit from an archaeon, Methanosarcina
barkeri, in which the ATP synthase homolog differs in
architecture and is not experimentally confirmed. This
model helps resolve b from the related b' subunit.
Within the family is an example from a
sodium-translocating rather than proton-translocating
ATP synthase [Energy metabolism, ATP-proton motive force
interconversion].
Length = 147
Score = 32.4 bits (74), Expect = 0.19
Identities = 20/50 (40%), Positives = 30/50 (60%)
Query: 322 IQQLLAAEKRAAEKVAEAKKRKARRLKQAKEEAQEDIEKYRQEREKIFRE 371
I LA+ +RA ++ A A+K+ LK+AK+EAQE IE + +I E
Sbjct: 31 IADGLASAERAKKEAALAQKKAQVILKEAKDEAQEIIENANKRGSEILEE 80
Score = 28.9 bits (65), Expect = 2.4
Identities = 16/60 (26%), Positives = 28/60 (46%), Gaps = 11/60 (18%)
Query: 323 QQLLAAEKRAAEKVAEAKKRKARRLKQAKEEAQE-----------DIEKYRQEREKIFRE 371
L A+ A E + A KR + L++AK EA+E +IE +++ + R+
Sbjct: 54 VILKEAKDEAQEIIENANKRGSEILEEAKAEAREEREKIKAQARAEIEAEKEQAREELRK 113
>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 = 31.9 bits (73), Expect = 0.19
Identities = 15/30 (50%), Positives = 20/30 (66%), Gaps = 4/30 (13%)
Query: 339 AKKRKARRLKQAKEEAQEDIEKYRQEREKI 368
++RK RR ++ KEE IEKYR+E KI
Sbjct: 75 DERRKKRREQKEKEE----IEKYREENPKI 100
>gnl|CDD|218434 pfam05103, DivIVA, DivIVA protein. The Bacillus subtilis divIVA1
mutation causes misplacement of the septum during cell
division, resulting in the formation of small, circular,
anucleate mini-cells. Inactivation of divIVA produces a
mini-cell phenotype, whereas overproduction of DivIVA
results in a filamentation phenotype. These proteins
appear to contain coiled-coils.
Length = 131
Score = 31.9 bits (73), Expect = 0.20
Identities = 14/51 (27%), Positives = 29/51 (56%)
Query: 323 QQLLAAEKRAAEKVAEAKKRKARRLKQAKEEAQEDIEKYRQEREKIFREYE 373
+ L+ A++ A E A A+K +K+A+ +A+ + +E +K+ EY+
Sbjct: 67 KTLVVAQETAEEVKANAQKEAELIIKEAEAKAERIVNDANEEAKKLATEYD 117
>gnl|CDD|240402 PTZ00399, PTZ00399, cysteinyl-tRNA-synthetase; Provisional.
Length = 651
Score = 33.5 bits (77), Expect = 0.22
Identities = 21/70 (30%), Positives = 39/70 (55%), Gaps = 5/70 (7%)
Query: 311 KPTRPPVVSLGIQQLLAAEKRAAEKVAEAKKRKARRLKQAKEEAQEDIEKYRQER---EK 367
KP P V L ++ L EK EK A ++++ R+LK+ +E+ ++++EK + + +
Sbjct: 538 KPDGPSVWKLDDKEELQREK--EEKEALKEQKRLRKLKKQEEKKKKELEKLEKAKIPPAE 595
Query: 368 IFREYEAKVS 377
F+ E K S
Sbjct: 596 FFKRQEDKYS 605
>gnl|CDD|233008 TIGR00524, eIF-2B_rel, eIF-2B alpha/beta/delta-related
uncharacterized proteins. This model, eIF-2B_rel,
describes half of a superfamily, where the other half
consists of eukaryotic translation initiation factor 2B
(eIF-2B) subunits alpha, beta, and delta. It is unclear
whether the eIF-2B_rel set is monophyletic, or whether
they are all more closely related to each other than to
any eIF-2B subunit because the eIF-2B clade is highly
derived. Members of this branch of the family are all
uncharacterized with respect to function and are found
in the Archaea, Bacteria, and Eukarya, although a number
are described as putative translation intiation factor
components. Proteins found by eIF-2B_rel include at
least three clades, including a set of uncharacterized
eukaryotic proteins, a set found in some but not all
Archaea, and a set universal so far among the Archaea
and closely related to several uncharacterized bacterial
proteins [Unknown function, General].
Length = 303
Score = 33.2 bits (76), Expect = 0.23
Identities = 20/72 (27%), Positives = 36/72 (50%), Gaps = 3/72 (4%)
Query: 311 KPTRPPVVSL--GIQQLLAAEKRAAEKVAEAKKRKARRLKQAKEEAQEDIEKYRQEREKI 368
TRP V+L ++++L + + E V EAK+ R + EE E K + K+
Sbjct: 57 LSTRPTAVNLFWALERVLNSAENG-ESVEEAKESLLREAIEIIEEDLETNRKIGENGAKL 115
Query: 369 FREYEAKVSHCN 380
++ + ++HCN
Sbjct: 116 IKDGDTVLTHCN 127
>gnl|CDD|218684 pfam05672, MAP7, MAP7 (E-MAP-115) family. The organisation of
microtubules varies with the cell type and is presumably
controlled by tissue-specific microtubule-associated
proteins (MAPs). The 115-kDa epithelial MAP
(E-MAP-115/MAP7) has been identified as a
microtubule-stabilising protein predominantly expressed
in cell lines of epithelial origin. The binding of this
microtubule associated protein is nucleotide
independent.
Length = 171
Score = 32.4 bits (73), Expect = 0.25
Identities = 18/50 (36%), Positives = 31/50 (62%), Gaps = 4/50 (8%)
Query: 328 AEKRAAEKVAEAKKRKARRLKQAKEEAQ----EDIEKYRQEREKIFREYE 373
KR AE+ + ++ + R+++ KEEA+ E+ E+ R EREK F++ E
Sbjct: 89 KAKRKAEEEEKQEQEEQERIQKQKEEAEARAREEAERMRLEREKHFQQIE 138
>gnl|CDD|179204 PRK01005, PRK01005, V-type ATP synthase subunit E; Provisional.
Length = 207
Score = 32.4 bits (74), Expect = 0.29
Identities = 15/56 (26%), Positives = 31/56 (55%)
Query: 319 SLGIQQLLAAEKRAAEKVAEAKKRKARRLKQAKEEAQEDIEKYRQEREKIFREYEA 374
+L + L AE+ A V AK++ R + +A+EEA++ I + ++ ++ E+
Sbjct: 16 ALREETLKPAEEEAGAIVHNAKEQAKRIIAEAQEEAEKIIRSAEETADQKLKQGES 71
>gnl|CDD|112890 pfam04094, DUF390, Protein of unknown function (DUF390). This is a
family of long proteins currently only found in the rice
genome. They have no known function. However they may be
some kind of transposable element.
Length = 843
Score = 32.9 bits (74), Expect = 0.32
Identities = 23/86 (26%), Positives = 43/86 (50%), Gaps = 4/86 (4%)
Query: 292 WNR-TRSLALTRQTRYALPTKPTRPPVVSLGIQQLLAAEKRAAEKVAEAKK--RKARRLK 348
W S +R +R++ + + ++ A + AA+++ EA++ + A R +
Sbjct: 204 WFFFCLSEIPSRPSRHSKSGQSEAEDPAAAEARRREADRREAADRLREAEEAAQDAARAR 263
Query: 349 QAKEEAQEDIEKYRQEREKIFREYEA 374
QA+E A+E+ + RQ E RE EA
Sbjct: 264 QAEEAAREEAARARQAEEAA-REAEA 288
>gnl|CDD|234750 PRK00409, PRK00409, recombination and DNA strand exchange inhibitor
protein; Reviewed.
Length = 782
Score = 32.9 bits (76), Expect = 0.33
Identities = 21/69 (30%), Positives = 32/69 (46%), Gaps = 10/69 (14%)
Query: 322 IQQLLAAEKRAAEKVAEA--KKRKARRLKQAKEEAQEDIEKYRQEREKIFREYEAKVSHC 379
I L E+ +K EA ++A +LK EE +E EK ++E +K+ E E +
Sbjct: 522 IASLEELERELEQKAEEAEALLKEAEKLK---EELEEKKEKLQEEEDKLLEEAEKEAQQ- 577
Query: 380 NIVLIIKAA 388
IK A
Sbjct: 578 ----AIKEA 582
Score = 31.3 bits (72), Expect = 0.93
Identities = 11/38 (28%), Positives = 28/38 (73%)
Query: 334 EKVAEAKKRKARRLKQAKEEAQEDIEKYRQEREKIFRE 371
EK + ++ + + L++A++EAQ+ I++ ++E ++I +E
Sbjct: 555 EKKEKLQEEEDKLLEEAEKEAQQAIKEAKKEADEIIKE 592
>gnl|CDD|240396 PTZ00388, PTZ00388, 40S ribosomal protein S8-like; Provisional.
Length = 223
Score = 32.0 bits (73), Expect = 0.40
Identities = 19/55 (34%), Positives = 26/55 (47%), Gaps = 5/55 (9%)
Query: 321 GIQQLLAAEKRAAEKVAEAKKRKARRLKQAKEEAQEDIEK-----YRQEREKIFR 370
GI+ L +KR AEK K KA K KE+ E + Y +RE++ R
Sbjct: 7 GIKAKLFNKKRYAEKAEMKKTIKAHEEKDVKEKVPEKVPDGAVPSYLLDREQVNR 61
>gnl|CDD|220383 pfam09756, DDRGK, DDRGK domain. This is a family of proteins of
approximately 300 residues, found in plants and
vertebrates. They contain a highly conserved DDRGK
motif.
Length = 189
Score = 31.6 bits (72), Expect = 0.40
Identities = 15/41 (36%), Positives = 24/41 (58%)
Query: 335 KVAEAKKRKARRLKQAKEEAQEDIEKYRQEREKIFREYEAK 375
K AKKR KQA+ + +E E+ R+ER+K+ + E +
Sbjct: 1 KKIGAKKRAKLEEKQARRQQREAEEEEREERKKLEEKREGE 41
>gnl|CDD|220413 pfam09805, Nop25, Nucleolar protein 12 (25kDa). Members of this
family of proteins are part of the yeast nuclear pore
complex-associated pre-60S ribosomal subunit. The family
functions as a highly conserved exonuclease that is
required for the 5'-end maturation of 5.8S and 25S
rRNAs, demonstrating that 5'-end processing also has a
redundant pathway. Nop25 binds late pre-60S ribosomes,
accompanying them from the nucleolus to the nuclear
periphery; and there is evidence for both physical and
functional links between late 60S subunit processing and
export.
Length = 134
Score = 31.1 bits (71), Expect = 0.40
Identities = 13/47 (27%), Positives = 30/47 (63%), Gaps = 2/47 (4%)
Query: 330 KRAAEKVAEAKKRKARRL--KQAKEEAQEDIEKYRQEREKIFREYEA 374
++ A++ A+ K+R+ R K+ +EE ++++EK +ER++ + E
Sbjct: 35 RKKAQEEAKEKEREERIEERKRIREERKQELEKQLKERKEALKLLEE 81
Score = 27.7 bits (62), Expect = 5.5
Identities = 14/29 (48%), Positives = 22/29 (75%), Gaps = 1/29 (3%)
Query: 341 KRKARRLKQAKEEAQEDI-EKYRQEREKI 368
KRK +R K+A+EEA+E E+ +ER++I
Sbjct: 29 KRKQQRRKKAQEEAKEKEREERIEERKRI 57
>gnl|CDD|188627 cd09907, H3TH_FEN1-Euk, H3TH domain of Flap Endonuclease-1, a
structure-specific, divalent-metal-ion dependent, 5'
nuclease: Eukaryotic homologs. Members of this subgroup
include the H3TH (helix-3-turn-helix) domains of
eukaryotic Flap endonuclease-1 (FEN1), 5' nucleases.
FEN1 is involved in multiple DNA metabolic pathways,
including DNA replication processes (5' flap DNA
endonuclease activity and double stranded DNA
5'-exonuclease activity) and DNA repair processes
(long-patch base excision repair) in eukaryotes and
archaea. Interaction between FEN1 and PCNA
(Proliferating cell nuclear antigen) is an essential
prerequisite to FEN1's DNA replication functionality and
stimulates FEN1 nuclease activity by 10-50 fold. These
nucleases contain a PIN (PilT N terminus) domain with a
helical arch/clamp region/I domain (not included here)
and inserted within the PIN domain is an atypical
helix-hairpin-helix-2 (HhH2)-like region. This atypical
HhH2 region, the H3TH domain, has an extended loop with
at least three turns between the first two helices, and
only three of the four helices appear to be conserved.
Both the H3TH domain and the helical arch/clamp region
are involved in DNA binding. Studies suggest that a
glycine-rich loop in the H3TH domain contacts the
phosphate backbone of the template strand in the
downstream DNA duplex. The nucleases within this
subfamily have a carboxylate rich active site that is
involved in binding essential divalent metal ion
cofactors (Mg2+ or Mn2+) required for nuclease activity.
The first metal binding site is composed entirely of
Asp/Glu residues from the PIN domain, whereas, the
second metal binding site is composed generally of two
Asp residues from the PIN domain and one Asp residue
from the H3TH domain. Together with the helical arch and
network of amino acids interacting with metal binding
ions, the H3TH region defines a positively charged
active-site DNA-binding groove in structure-specific 5'
nucleases. Also, FEN1 has a C-terminal extension
containing residues forming the consensus PIP-box -
Qxx(M/L/I)xxF(Y/F) which serves to anchor FEN1 to PCNA.
Length = 70
Score = 29.4 bits (67), Expect = 0.47
Identities = 12/28 (42%), Positives = 18/28 (64%)
Query: 107 IEKLKNIQKSVTIVSKSKYPYPYNGNYS 134
I+K K+I+K + + KSKYP P + Y
Sbjct: 30 IKKHKSIEKILENIDKSKYPVPEDWPYK 57
>gnl|CDD|129833 TIGR00750, lao, LAO/AO transport system ATPase. In E. coli,
mutation of this kinase blocks phosphorylation of two
transporter system periplasmic binding proteins and
consequently inhibits those transporters. This kinase is
also found in Gram-positive bacteria, archaea, and the
roundworm C. elegans. It may have a more general, but
still unknown function. Mutations have also been found
that do not phosphorylate the periplasmic binding
proteins, yet still allow transport. The ATPase activity
of this protein seems to be necessary, however
[Transport and binding proteins, Amino acids, peptides
and amines, Regulatory functions, Protein interactions].
Length = 300
Score = 32.1 bits (73), Expect = 0.52
Identities = 17/73 (23%), Positives = 32/73 (43%), Gaps = 10/73 (13%)
Query: 314 RPPVVSL------GIQQLLAA---EKRAAEKVAE-AKKRKARRLKQAKEEAQEDIEKYRQ 363
RPPV++ GI +L A K ++R+ R ++ K+ +E++ K
Sbjct: 212 RPPVLTTSAVEGRGIDELWDAIEEHKTFLTASGLLQERRRQRSVEWLKKLVEEEVLKKVF 271
Query: 364 EREKIFREYEAKV 376
E ++R+ V
Sbjct: 272 ANEDVYRDLLLAV 284
>gnl|CDD|179302 PRK01558, PRK01558, V-type ATP synthase subunit E; Provisional.
Length = 198
Score = 31.3 bits (71), Expect = 0.57
Identities = 18/61 (29%), Positives = 27/61 (44%)
Query: 325 LLAAEKRAAEKVAEAKKRKARRLKQAKEEAQEDIEKYRQEREKIFREYEAKVSHCNIVLI 384
L AE+ A E + EAK+ + +A+EEA+E K +E R L+
Sbjct: 17 LEEAERLANEIILEAKEEAEEIIAKAEEEAKELKAKAEKEANDYKRHALEASRQAGRDLL 76
Query: 385 I 385
I
Sbjct: 77 I 77
Score = 27.8 bits (62), Expect = 7.9
Identities = 13/46 (28%), Positives = 25/46 (54%)
Query: 329 EKRAAEKVAEAKKRKARRLKQAKEEAQEDIEKYRQEREKIFREYEA 374
K + + EA++ + +AKEEA+E I K +E +++ + E
Sbjct: 10 NKIKKDGLEEAERLANEIILEAKEEAEEIIAKAEEEAKELKAKAEK 55
>gnl|CDD|221408 pfam12072, DUF3552, Domain of unknown function (DUF3552). This
presumed domain is functionally uncharacterized. This
domain is found in bacteria, archaea and eukaryotes.
This domain is about 200 amino acids in length. This
domain is found associated with pfam00013, pfam01966.
This domain has a single completely conserved residue A
that may be functionally important.
Length = 201
Score = 31.4 bits (72), Expect = 0.62
Identities = 17/72 (23%), Positives = 34/72 (47%), Gaps = 12/72 (16%)
Query: 317 VVSLGIQQLLAAEKRAAEKVAEAKKRKARRLKQAKEEA-----------QEDIEKYRQER 365
VV I + + A K++ A++ + +++AK+EA +E+I K R E
Sbjct: 11 VVGFAIGYFVR-KSIAEAKISSAEEEAKQIIEEAKKEAEALKKEALLEAKEEIHKLRAEA 69
Query: 366 EKIFREYEAKVS 377
E+ +E ++
Sbjct: 70 ERELKERRNELQ 81
>gnl|CDD|215278 PLN02502, PLN02502, lysyl-tRNA synthetase.
Length = 553
Score = 31.9 bits (73), Expect = 0.63
Identities = 16/49 (32%), Positives = 20/49 (40%), Gaps = 1/49 (2%)
Query: 328 AEKRAAEKVAEAKKRKARRLKQAKEEAQE-DIEKYRQEREKIFREYEAK 375
A K A+ A A K R K A + + D +YR R K AK
Sbjct: 27 AAKEEAKAAAAAAAAKGRSRKSAAADDETMDPTQYRANRLKKVEALRAK 75
>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 = 30.6 bits (70), Expect = 0.71
Identities = 6/40 (15%), Positives = 17/40 (42%)
Query: 332 AAEKVAEAKKRKARRLKQAKEEAQEDIEKYRQEREKIFRE 371
AA+ + L+ +++ +YR E +++ +
Sbjct: 57 AADLLELEAAAPRAELQAKIARYKKEKARYRSEAKELEAK 96
>gnl|CDD|236912 PRK11448, hsdR, type I restriction enzyme EcoKI subunit R;
Provisional.
Length = 1123
Score = 31.8 bits (73), Expect = 0.74
Identities = 15/74 (20%), Positives = 24/74 (32%), Gaps = 10/74 (13%)
Query: 306 YALPTKPTRPPVVSLGIQQLLAAEKRAAEKVAEAKKRKARRLKQAKEEAQEDIEKYRQER 365
+ P PP + L E K++ + K ++Q E +QE
Sbjct: 127 WDFKPGPFVPPEDPENLLHALQQE-------VLTLKQQLELQAREKAQSQALAEAQQQEL 179
Query: 366 ---EKIFREYEAKV 376
E + E E K
Sbjct: 180 VALEGLAAELEEKQ 193
>gnl|CDD|225824 COG3286, COG3286, Uncharacterized protein conserved in archaea
[Function unknown].
Length = 204
Score = 30.9 bits (70), Expect = 0.76
Identities = 24/89 (26%), Positives = 39/89 (43%), Gaps = 9/89 (10%)
Query: 286 IKSTAGWNRTRSLA-----LTRQTRYALPTKPTRPPVVSLGIQQLL----AAEKRAAEKV 336
+K+ A W+ L + R+ R+ T+ R VV++ I L AAE+ +
Sbjct: 112 LKTNAPWSEVVELVRELSEVYREARFQPLTRQVRKLVVAVSIVYGLDPDDAAEEAVELGL 171
Query: 337 AEAKKRKARRLKQAKEEAQEDIEKYRQER 365
E + R L + KE A E + K + R
Sbjct: 172 LEEGEDGLRELIKNKERALETLLKALKGR 200
>gnl|CDD|223021 PHA03247, PHA03247, large tegument protein UL36; Provisional.
Length = 3151
Score = 31.8 bits (72), Expect = 0.76
Identities = 21/67 (31%), Positives = 34/67 (50%), Gaps = 3/67 (4%)
Query: 308 LPTKPTRPPVVSLGIQQLLAAEKRAAEKVAEAKKR---KARRLKQAKEEAQEDIEKYRQE 364
L + R +L + +AA K E EA++R +AR ++ EEA+E E R
Sbjct: 951 LSPETRRLAEDALRQAKAMAAAKLTDELSPEARERLRARARAIEAMLEEARERAEAARAA 1010
Query: 365 REKIFRE 371
RE+ F++
Sbjct: 1011 RERFFQK 1017
>gnl|CDD|202427 pfam02841, GBP_C, Guanylate-binding protein, C-terminal domain.
Transcription of the anti-viral guanylate-binding
protein (GBP) is induced by interferon-gamma during
macrophage induction. This family contains GBP1 and
GPB2, both GTPases capable of binding GTP, GDP and GMP.
Length = 297
Score = 31.1 bits (71), Expect = 0.94
Identities = 22/73 (30%), Positives = 33/73 (45%), Gaps = 17/73 (23%)
Query: 323 QQLLAAEKR-AAEKV-AEAKKRKARRLKQAKEEAQED---------------IEKYRQER 365
Q L A EK AE+ AEA + + L++ ++E ++ IEK ER
Sbjct: 197 QALTAKEKAIEAERAKAEAAEAEQELLREKQKEEEQMMEAQERSYQEHVKQLIEKMEAER 256
Query: 366 EKIFREYEAKVSH 378
EK+ E E + H
Sbjct: 257 EKLLAEQERMLEH 269
>gnl|CDD|184697 PRK14475, PRK14475, F0F1 ATP synthase subunit B; Provisional.
Length = 167
Score = 30.3 bits (68), Expect = 0.95
Identities = 20/63 (31%), Positives = 34/63 (53%), Gaps = 5/63 (7%)
Query: 327 AAEKRAAEKVAEAKKRKARRLKQAKEEAQEDIEKYRQEREKIFREYEAKVSHCNIVLIIK 386
AE++AA +A AK R +AKE+ +E I++ + E+ + EA+ + +K
Sbjct: 73 EAERQAAAMLAAAKADARRMEAEAKEKLEEQIKRRAEMAERKIAQAEAQAA-----ADVK 127
Query: 387 AAA 389
AAA
Sbjct: 128 AAA 130
>gnl|CDD|234017 TIGR02794, tolA_full, TolA protein. TolA couples the inner
membrane complex of itself with TolQ and TolR to the
outer membrane complex of TolB and OprL (also called
Pal). Most of the length of the protein consists of
low-complexity sequence that may differ in both length
and composition from one species to another,
complicating efforts to discriminate TolA (the most
divergent gene in the tol-pal system) from paralogs such
as TonB. Selection of members of the seed alignment and
criteria for setting scoring cutoffs are based largely
conserved operon struction. //The Tol-Pal complex is
required for maintaining outer membrane integrity. Also
involved in transport (uptake) of colicins and
filamentous DNA, and implicated in pathogenesis.
Transport is energized by the proton motive force. TolA
is an inner membrane protein that interacts with
periplasmic TolB and with outer membrane porins ompC,
phoE and lamB [Transport and binding proteins, Other,
Cellular processes, Pathogenesis].
Length = 346
Score = 31.0 bits (70), Expect = 0.95
Identities = 17/67 (25%), Positives = 33/67 (49%), Gaps = 3/67 (4%)
Query: 309 PTKPTRPPVVSLGIQQLLAAEKRAAEKVAEAKKRKARRLKQAKEEAQEDIEKYRQEREKI 368
K + L Q A ++RAAE +A++++ + A++ A++ + +Q EK
Sbjct: 62 AAKKEQERQKKLEQQAEEAEKQRAAE---QARQKELEQRAAAEKAAKQAEQAAKQAEEKQ 118
Query: 369 FREYEAK 375
+ EAK
Sbjct: 119 KQAEEAK 125
Score = 30.6 bits (69), Expect = 1.4
Identities = 18/56 (32%), Positives = 27/56 (48%), Gaps = 4/56 (7%)
Query: 323 QQLLAAEKRAAEKVAEAKKR---KARRLKQAKEEAQEDIEKYRQEREKIFREYEAK 375
+ A K AE AE K + K + ++AK +A + +K E +K E EAK
Sbjct: 126 AKQAAEAKAKAEAEAEKKAKEEAKKQAEEEAKAKAAAEAKKKAAEAKKK-AEAEAK 180
Score = 30.2 bits (68), Expect = 1.9
Identities = 18/49 (36%), Positives = 26/49 (53%), Gaps = 5/49 (10%)
Query: 327 AAEKRAAEKVAEAKKRKARRLKQAKEEAQEDIEKYRQEREKIFREYEAK 375
A E+ A+ AEAKK+ A K+A+ EA K + E + + EAK
Sbjct: 152 AEEEAKAKAAAEAKKKAAEAKKKAEAEA-----KAKAEAKAKAKAEEAK 195
Score = 30.2 bits (68), Expect = 1.9
Identities = 17/50 (34%), Positives = 27/50 (54%), Gaps = 1/50 (2%)
Query: 327 AAEKRAAEKVAEAK-KRKARRLKQAKEEAQEDIEKYRQEREKIFREYEAK 375
A+K+AAE +A+ + KA+ +AK +A+E K + K E AK
Sbjct: 163 EAKKKAAEAKKKAEAEAKAKAEAKAKAKAEEAKAKAEAAKAKAAAEAAAK 212
Score = 28.3 bits (63), Expect = 8.8
Identities = 19/49 (38%), Positives = 30/49 (61%)
Query: 327 AAEKRAAEKVAEAKKRKARRLKQAKEEAQEDIEKYRQEREKIFREYEAK 375
A K+A EK +A++ KA++ +AK +A+ + EK +E K E EAK
Sbjct: 109 QAAKQAEEKQKQAEEAKAKQAAEAKAKAEAEAEKKAKEEAKKQAEEEAK 157
>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 = 30.8 bits (70), Expect = 1.0
Identities = 19/69 (27%), Positives = 30/69 (43%), Gaps = 11/69 (15%)
Query: 302 RQTRYAL----PTKPT-RPPVVSL------GIQQLLAAEKRAAEKVAEAKKRKARRLKQA 350
R+ R AL P + RPPV++ GI +L A + E + ARR +
Sbjct: 187 RELRSALHLLTPKEAGWRPPVLTTSAVTGEGIDELWDAIEEHREFLTATGLLAARRRARI 246
Query: 351 KEEAQEDIE 359
+E + +E
Sbjct: 247 EEWLKTLVE 255
>gnl|CDD|224308 COG1390, NtpE, Archaeal/vacuolar-type H+-ATPase subunit E [Energy
production and conversion].
Length = 194
Score = 30.4 bits (69), Expect = 1.3
Identities = 15/41 (36%), Positives = 26/41 (63%)
Query: 327 AAEKRAAEKVAEAKKRKARRLKQAKEEAQEDIEKYRQEREK 367
AE+ A E + EA++ + ++AK EA+E IE+ ++ EK
Sbjct: 14 EAEEEAEEILEEAREEAEKIKEEAKREAEEAIEEILRKAEK 54
>gnl|CDD|181442 PRK08476, PRK08476, F0F1 ATP synthase subunit B'; Validated.
Length = 141
Score = 29.7 bits (67), Expect = 1.3
Identities = 12/41 (29%), Positives = 24/41 (58%)
Query: 337 AEAKKRKARRLKQAKEEAQEDIEKYRQEREKIFREYEAKVS 377
EA K + + + +AKEEA++ IE + E E + + +++
Sbjct: 73 EEANKIRQKAIAKAKEEAEKKIEAKKAELESKYEAFAKQLA 113
>gnl|CDD|184724 PRK14520, rpsP, 30S ribosomal protein S16; Provisional.
Length = 155
Score = 29.7 bits (67), Expect = 1.4
Identities = 12/49 (24%), Positives = 17/49 (34%)
Query: 308 LPTKPTRPPVVSLGIQQLLAAEKRAAEKVAEAKKRKARRLKQAKEEAQE 356
L +P + L L A+ + KK+KA A E A
Sbjct: 93 LKVAEPKPSKLELFNAALAEADGGPTAEATTPKKKKAAAEAAAAEAAAP 141
>gnl|CDD|217840 pfam04006, Mpp10, Mpp10 protein. This family includes proteins
related to Mpp10 (M phase phosphoprotein 10). The U3
small nucleolar ribonucleoprotein (snoRNP) is required
for three cleavage events that generate the mature 18S
rRNA from the pre-rRNA. In Saccharomyces cerevisiae,
depletion of Mpp10, a U3 snoRNP-specific protein, halts
18S rRNA production and impairs cleavage at the three U3
snoRNP-dependent sites.
Length = 613
Score = 30.7 bits (69), Expect = 1.5
Identities = 12/41 (29%), Positives = 22/41 (53%)
Query: 327 AAEKRAAEKVAEAKKRKARRLKQAKEEAQEDIEKYRQEREK 367
A EK E K R+ R+ K+ + A++ + K ++ER+
Sbjct: 546 AIEKSKTELDRTDKNRERRKKKRKRRAAKKAVTKAKKERKI 586
>gnl|CDD|135898 PRK06397, PRK06397, V-type ATP synthase subunit H; Validated.
Length = 111
Score = 29.1 bits (65), Expect = 1.5
Identities = 9/44 (20%), Positives = 22/44 (50%)
Query: 329 EKRAAEKVAEAKKRKARRLKQAKEEAQEDIEKYRQEREKIFREY 372
E+ +++A K + +K+AK + +E +K +E ++
Sbjct: 19 EESIDKEIANIKNEQENEIKEAKSKYEEKAKKTEEESLNMYNAA 62
>gnl|CDD|233897 TIGR02499, HrpE_YscL_not, type III secretion apparatus protein,
HrpE/YscL family. This model is related to pfam06188,
but is broader. pfam06188 describes HrpE-like proteins,
components of bacterial type III secretion systems
primarily in bacteria that infect plants. This model
includes also the homologous proteins of animal
pathogens, such as YscL of Yersinia pestis. This model
excludes the related protein FliH of the bacterial
flagellar apparatus (see pfam02108) [Protein fate,
Protein and peptide secretion and trafficking, Cellular
processes, Pathogenesis].
Length = 166
Score = 29.6 bits (67), Expect = 1.6
Identities = 17/52 (32%), Positives = 29/52 (55%), Gaps = 1/52 (1%)
Query: 326 LAAEKRAAEKVAEAKKRKARRLKQAKEEAQEDIEK-YRQEREKIFREYEAKV 376
LAA +A +A A++R L A+EEA+ + Y Q E+ ++E A++
Sbjct: 9 LAALAQAQAILAAARQRAEAILADAEEEAEASRQLGYEQGLEQFWQEAAAQL 60
>gnl|CDD|153118 cd07909, YciF, YciF bacterial stress response protein,
ferritin-like iron-binding domain. YciF is a bacterial
protein of unknown function that is up-regulated when
bacteria experience stress conditions, and is highly
conserved in a broad range of bacterial species. YciF
has a ferritin-like domain. Ferritin-like,
diiron-carboxylate proteins participate in a range of
functions including iron regulation, mono-oxygenation,
and reactive radical production. These proteins are
characterized by the fact that they catalyze
dioxygen-dependent oxidation-hydroxylation reactions
within diiron centers; one exception is manganese
catalase, which catalyzes peroxide-dependent
oxidation-reduction within a dimanganese center.
Diiron-carboxylate proteins are further characterized by
the presence of duplicate metal ligands, glutamates and
histidines (ExxH) and two additional glutamates within a
four-helix bundle. Outside of these conserved residues
there is little obvious homology. Members include
bacterioferritin, ferritin, rubrerythrin, aromatic and
alkene monooxygenase hydroxylases (AAMH), ribonucleotide
reductase R2 (RNRR2), acyl-ACP-desaturases
(Acyl_ACP_Desat), manganese (Mn) catalases,
demethoxyubiquinone hydroxylases (DMQH), DNA protecting
proteins (DPS), and ubiquinol oxidases (AOX), and the
aerobic cyclase system, Fe-containing subunit (ACSF).
Length = 147
Score = 29.5 bits (67), Expect = 1.7
Identities = 17/62 (27%), Positives = 29/62 (46%), Gaps = 3/62 (4%)
Query: 321 GIQQLLAAEKRAAEKVAE-AKKRKARRLKQAKEEAQEDIEKYRQEREKIFREYEAKVS-- 377
++ L +AEK+ + + + AK + LK+A E E+ E + E+IF K
Sbjct: 7 ELRDLYSAEKQLVKALPKMAKAATSEELKEAFESHLEETEGQVERLEQIFESLGEKPEGK 66
Query: 378 HC 379
C
Sbjct: 67 KC 68
>gnl|CDD|206039 pfam13868, Trichoplein, Tumour suppressor, Mitostatin. Trichoplein
or mitostatin, was first defined as a meiosis-specific
nuclear structural protein. It has since been linked
with mitochondrial movement. It is associated with the
mitochondrial outer membrane, and over-expression leads
to reduction in mitochondrial motility whereas lack of
it enhances mitochondrial movement. The activity appears
to be mediated through binding the mitochondria to the
actin intermediate filaments (IFs).
Length = 349
Score = 30.3 bits (69), Expect = 1.9
Identities = 15/55 (27%), Positives = 31/55 (56%), Gaps = 3/55 (5%)
Query: 320 LGIQQLLAAEKRAAEKVAEAKKRKARRLKQAKEEAQEDIEKYRQ---EREKIFRE 371
L ++ E++ ++ AE ++R+ + L++A+EE E+ E+ Q E+ RE
Sbjct: 208 LYQEEYERKERQKEKEEAEKRRRQKQELQRAREEQIEEKEERLQEERAEEEAERE 262
Score = 29.9 bits (68), Expect = 2.3
Identities = 11/53 (20%), Positives = 26/53 (49%)
Query: 323 QQLLAAEKRAAEKVAEAKKRKARRLKQAKEEAQEDIEKYRQEREKIFREYEAK 375
++ E+ K+ E ++ KA R ++ + E +E E+ +E ++ + E
Sbjct: 142 EEEKEREREEELKILEYQREKAEREEEREAERRERKEEKEREVARLRAQQEEA 194
Score = 28.7 bits (65), Expect = 6.1
Identities = 15/63 (23%), Positives = 29/63 (46%), Gaps = 12/63 (19%)
Query: 320 LGIQQLLAAEKRA------AEKVAEAKKRKARRL----KQAKEEAQEDIEKYRQE--REK 367
L QQ A ++R A+ E +RK R+ + + ++++++ R+E EK
Sbjct: 187 LRAQQEEAEDEREELDELRADLYQEEYERKERQKEKEEAEKRRRQKQELQRAREEQIEEK 246
Query: 368 IFR 370
R
Sbjct: 247 EER 249
Score = 28.0 bits (63), Expect = 8.5
Identities = 8/43 (18%), Positives = 23/43 (53%)
Query: 334 EKVAEAKKRKARRLKQAKEEAQEDIEKYRQEREKIFREYEAKV 376
E+ A ++ + ++ +EE E + +ER+++ +E+ +
Sbjct: 302 ERRAAEREEELEEGERLREEEAERQARIEEERQRLLKEHAEAL 344
Score = 28.0 bits (63), Expect = 9.3
Identities = 11/53 (20%), Positives = 29/53 (54%), Gaps = 3/53 (5%)
Query: 322 IQQLLAAEKRAAEKVAEAKKRKA---RRLKQAKEEAQEDIEKYRQEREKIFRE 371
+Q+ EKR E+ E + + +++ +EE + + ++ R++++K+ E
Sbjct: 77 QEQIEEREKRRQEEYEERLQEREQMDEIIERIQEEDEAEAQEKREKQKKLREE 129
>gnl|CDD|173412 PTZ00121, PTZ00121, MAEBL; Provisional.
Length = 2084
Score = 30.5 bits (68), Expect = 1.9
Identities = 18/57 (31%), Positives = 36/57 (63%), Gaps = 2/57 (3%)
Query: 322 IQQLLAAEKRAAEKVAEAKKRKARRLKQAKEEAQEDIEKYRQEREKIFREYEAKVSH 378
+++ A EK+ AE++ +A++ + ++AK+EA+ED K + E K E + K++H
Sbjct: 1707 LKKKEAEEKKKAEELKKAEEENKIKAEEAKKEAEED--KKKAEEAKKDEEEKKKIAH 1761
Score = 30.1 bits (67), Expect = 2.6
Identities = 19/51 (37%), Positives = 26/51 (50%), Gaps = 3/51 (5%)
Query: 327 AAEKRAAE---KVAEAKKRKARRLKQAKEEAQEDIEKYRQEREKIFREYEA 374
A E + A+ K AE K+KA K+ EEA++ E + E E E EA
Sbjct: 1311 AEEAKKADEAKKKAEEAKKKADAAKKKAEEAKKAAEAAKAEAEAAADEAEA 1361
Score = 28.6 bits (63), Expect = 7.2
Identities = 17/48 (35%), Positives = 28/48 (58%)
Query: 328 AEKRAAEKVAEAKKRKARRLKQAKEEAQEDIEKYRQEREKIFREYEAK 375
AE AA AEA + KA ++ KEEA++ + +++ E+ + EAK
Sbjct: 1350 AEAEAAADEAEAAEEKAEAAEKKKEEAKKKADAAKKKAEEKKKADEAK 1397
Score = 28.6 bits (63), Expect = 7.6
Identities = 17/50 (34%), Positives = 29/50 (58%), Gaps = 3/50 (6%)
Query: 327 AAEKRAAE---KVAEAKKRKARRLKQAKEEAQEDIEKYRQEREKIFREYE 373
A E + AE K +K+KA LK+A+EE + E+ ++E E+ ++ E
Sbjct: 1698 AEEAKKAEELKKKEAEEKKKAEELKKAEEENKIKAEEAKKEAEEDKKKAE 1747
>gnl|CDD|172948 PRK14473, PRK14473, F0F1 ATP synthase subunit B; Provisional.
Length = 164
Score = 29.5 bits (66), Expect = 2.1
Identities = 19/58 (32%), Positives = 34/58 (58%), Gaps = 4/58 (6%)
Query: 323 QQLLAAEKRAAEKVAEAKKRKARRLKQAKEEAQ----EDIEKYRQEREKIFREYEAKV 376
+QL A++ ++A+A++ A+ + QA+E A+ E I + R+E EKI E A+
Sbjct: 56 EQLANAKRDYEAELAKARQEAAKIVAQAQERARAQEAEIIAQARREAEKIKEEARAQA 113
>gnl|CDD|227278 COG4942, COG4942, Membrane-bound metallopeptidase [Cell division
and chromosome partitioning].
Length = 420
Score = 30.1 bits (68), Expect = 2.3
Identities = 10/55 (18%), Positives = 24/55 (43%), Gaps = 4/55 (7%)
Query: 323 QQLLAAEKRAAEKVAEAKKRKARRLKQAKEEAQEDIEKYRQEREKIFREYEAKVS 377
+ LAA + A++ + L + Q + + +ER+K + +++S
Sbjct: 170 LKQLAAVRAEIA----AEQAELTTLLSEQRAQQAKLAQLLEERKKTLAQLNSELS 220
Score = 29.7 bits (67), Expect = 2.7
Identities = 12/53 (22%), Positives = 17/53 (32%)
Query: 322 IQQLLAAEKRAAEKVAEAKKRKARRLKQAKEEAQEDIEKYRQEREKIFREYEA 374
I AA +A E A A+ AR + E + E+ I
Sbjct: 240 IASAEAAAAKAREAAAAAEAAAARARAAEAKRTGETYKPTAPEKMLISSTGGF 292
>gnl|CDD|217573 pfam03462, PCRF, PCRF domain. This domain is found in peptide
chain release factors.
Length = 115
Score = 28.7 bits (65), Expect = 2.4
Identities = 13/45 (28%), Positives = 24/45 (53%), Gaps = 6/45 (13%)
Query: 351 KEEAQEDIEKYRQEREKIFREYEA------KVSHCNIVLIIKAAA 389
+EEA+E++E+ +E E++ +E N +L I+A A
Sbjct: 12 REEAEEELEELEKELEELEKELLNLLLPLDPYDDKNAILEIRAGA 56
>gnl|CDD|217512 pfam03359, GKAP, Guanylate-kinase-associated protein (GKAP)
protein.
Length = 342
Score = 29.8 bits (67), Expect = 2.6
Identities = 12/53 (22%), Positives = 17/53 (32%), Gaps = 5/53 (9%)
Query: 309 PTKPTRPPVVSLGIQQLLAAEKRAAEKVAEAKKRKARRLKQAKEEAQEDIEKY 361
+R + +Q A R A A ++ A E A IE Y
Sbjct: 287 KPAISREKSLDSSDRQRQEARSRLAAAKRAASFKQ----NSATESADS-IEIY 334
>gnl|CDD|236272 PRK08475, PRK08475, F0F1 ATP synthase subunit B; Validated.
Length = 167
Score = 28.8 bits (65), Expect = 2.8
Identities = 13/44 (29%), Positives = 29/44 (65%), Gaps = 3/44 (6%)
Query: 334 EKVAEAKKRKA---RRLKQAKEEAQEDIEKYRQEREKIFREYEA 374
EK+ E+K++K ++L++AKE+A+ +E ++E + ++ E
Sbjct: 67 EKLKESKEKKEDALKKLEEAKEKAELIVETAKKEAYILTQKIEK 110
>gnl|CDD|224340 COG1422, COG1422, Predicted membrane protein [Function unknown].
Length = 201
Score = 29.2 bits (66), Expect = 2.9
Identities = 9/42 (21%), Positives = 22/42 (52%), Gaps = 6/42 (14%)
Query: 334 EKVAEAKKRKARRLKQAKEEAQE-----DIEKYRQEREKIFR 370
EK+ E +K + ++ EAQE ++K ++++ ++
Sbjct: 72 EKMKELQKM-MKEFQKEFREAQESGDMKKLKKLQEKQMEMMD 112
>gnl|CDD|216108 pfam00769, ERM, Ezrin/radixin/moesin family. This family of
proteins contain a band 4.1 domain (pfam00373), at their
amino terminus. This family represents the rest of these
proteins.
Length = 244
Score = 29.3 bits (66), Expect = 3.1
Identities = 13/54 (24%), Positives = 23/54 (42%), Gaps = 1/54 (1%)
Query: 324 QLLAAEKRAAEKVAEAKKRKARRLKQAKEEAQEDIEKYRQEREKIFREYEAKVS 377
+ L E+ A+ + E K + + EE E+ R+ E E A+V+
Sbjct: 40 EKLKQEEEEAQLL-EKKADELEEENRRLEEEAAASEEERERLEAEVDEATAEVA 92
Score = 28.6 bits (64), Expect = 4.7
Identities = 17/53 (32%), Positives = 27/53 (50%), Gaps = 2/53 (3%)
Query: 323 QQLLAAEKRAAEKVAEAKKRKARRLKQAKEEAQEDIEKYRQEREKIFREYEAK 375
L E R E+ A A + + RL+ +EA ++ K +EREK +E E +
Sbjct: 56 ADELEEENRRLEEEAAASEEERERLEAEVDEATAEVAKLEEEREK--KEAETR 106
>gnl|CDD|225651 COG3109, ProQ, Activator of osmoprotectant transporter ProP [Signal
transduction mechanisms].
Length = 208
Score = 29.1 bits (65), Expect = 3.4
Identities = 14/54 (25%), Positives = 24/54 (44%)
Query: 323 QQLLAAEKRAAEKVAEAKKRKARRLKQAKEEAQEDIEKYRQEREKIFREYEAKV 376
+ + A K+ AE A + ++A + + +EEA EK ER + K
Sbjct: 94 EHVEHARKQLAEAKARVQAQRAEQQAKKREEAPAAGEKPTAERPATAARPKPKA 147
>gnl|CDD|225288 COG2433, COG2433, Uncharacterized conserved protein [Function
unknown].
Length = 652
Score = 29.7 bits (67), Expect = 3.6
Identities = 15/48 (31%), Positives = 23/48 (47%)
Query: 329 EKRAAEKVAEAKKRKARRLKQAKEEAQEDIEKYRQEREKIFREYEAKV 376
+ E+ E + + LK+ EE + +IEK E E+ RE KV
Sbjct: 423 RIKKLEETVERLEEENSELKRELEELKREIEKLESELERFRREVRDKV 470
>gnl|CDD|185611 PTZ00428, PTZ00428, 60S ribosomal protein L4; Provisional.
Length = 381
Score = 29.3 bits (66), Expect = 3.6
Identities = 15/69 (21%), Positives = 23/69 (33%), Gaps = 9/69 (13%)
Query: 296 RSLALTRQTRYALPTKPTR---------PPVVSLGIQQLLAAEKRAAEKVAEAKKRKARR 346
R R P + P L +LA EK A+ + K R+AR+
Sbjct: 302 RPAKKKPAKRRVQKKNPLKNRRVRLRLNPAAKKLRKLAVLAQEKATAKGAQKVKNRRARK 361
Query: 347 LKQAKEEAQ 355
+ A+
Sbjct: 362 KAKKARLAK 370
>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 = 29.0 bits (66), Expect = 3.7
Identities = 11/42 (26%), Positives = 19/42 (45%)
Query: 328 AEKRAAEKVAEAKKRKARRLKQAKEEAQEDIEKYRQEREKIF 369
E++AA +AEA K+ A + E +E+ +E
Sbjct: 169 GERQAAILLAEAAKQAAINPAALQLRELETLEEIAKEAASTV 210
Score = 28.3 bits (64), Expect = 6.6
Identities = 14/52 (26%), Positives = 26/52 (50%), Gaps = 4/52 (7%)
Query: 329 EKRAAEKVAEAKKRKARRLKQAKEEAQEDI----EKYRQEREKIFREYEAKV 376
EKRA AE +++ A L +A ++A + + + E+I +E + V
Sbjct: 159 EKRAKIIEAEGERQAAILLAEAAKQAAINPAALQLRELETLEEIAKEAASTV 210
>gnl|CDD|178867 PRK00106, PRK00106, hypothetical protein; Provisional.
Length = 535
Score = 29.5 bits (66), Expect = 3.8
Identities = 15/43 (34%), Positives = 23/43 (53%)
Query: 328 AEKRAAEKVAEAKKRKARRLKQAKEEAQEDIEKYRQEREKIFR 370
AE+ A AK+ K+ EA+E+ KYR+E E+ F+
Sbjct: 51 AERDAEHIKKTAKRESKALKKELLLEAKEEARKYREEIEQEFK 93
>gnl|CDD|179385 PRK02224, PRK02224, chromosome segregation protein; Provisional.
Length = 880
Score = 29.6 bits (67), Expect = 3.9
Identities = 9/31 (29%), Positives = 21/31 (67%), Gaps = 3/31 (9%)
Query: 338 EAKKRKARRLKQAKEEAQEDIEKYRQEREKI 368
E ++ +AR + ++EA E +E++ + RE++
Sbjct: 226 EEQREQAR---ETRDEADEVLEEHEERREEL 253
>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 = 27.9 bits (63), Expect = 4.0
Identities = 13/46 (28%), Positives = 23/46 (50%), Gaps = 5/46 (10%)
Query: 331 RAAEKVAEAKKRKARRLKQAKEEAQEDIEKYRQEREKIFREYEAKV 376
AE+ + +A ++A E A+E + + + EREK EA +
Sbjct: 78 DEAERPEDIDVERA---EEALERAEERLAQAKDEREK--ARAEAAL 118
>gnl|CDD|219099 pfam06595, BDV_P24, Borna disease virus P24 protein. This family
consists of several Borna disease virus (BDV) P24
proteins. The function of this family is unknown.
Length = 201
Score = 28.8 bits (64), Expect = 4.0
Identities = 16/74 (21%), Positives = 35/74 (47%), Gaps = 5/74 (6%)
Query: 12 SSDVQIEEVTVEGGLNNSSHNGNKVQSNMIKITNIEIALIQ--DDLKHNDTIIQIANSLD 69
+ + IE V G L ++++ ++ +++ IQ H+D+I + ++
Sbjct: 83 AENSMIEAEEVRGTL---GDISARIEAGFESLSALQVETIQTAQRCDHSDSIRILGENIK 139
Query: 70 ILDESMRNVFDHTK 83
ILD SM+ + + K
Sbjct: 140 ILDRSMKTMMETMK 153
>gnl|CDD|213754 TIGR02971, heterocyst_DevB, ABC exporter membrane fusion protein,
DevB family. Members of this protein family are found
mostly in the Cyanobacteria, but also in the
Planctomycetes. DevB from Anabaena sp. strain PCC 7120
is partially characterized as a membrane fusion protein
of the DevBCA ABC exporter, probably a glycolipid
exporter, required for heterocyst formation. Most
Cyanobacteria have one member only, but Nostoc sp. PCC
7120 has seven members.
Length = 327
Score = 29.0 bits (65), Expect = 4.1
Identities = 20/75 (26%), Positives = 33/75 (44%), Gaps = 9/75 (12%)
Query: 308 LPTKPTRPPVVSLGIQQLLAAEKRAAEKVAEAKK--RKARRLKQAKEEAQED-------I 358
L ++P R + + QL A+ R A+ A AKK A+R +A + +D +
Sbjct: 47 LDSRPERTAELDVARTQLDEAKARLAQVRAGAKKGEIAAQRAARAAAKLFKDVAAQQATL 106
Query: 359 EKYRQEREKIFREYE 373
+ E E RE +
Sbjct: 107 NRLEAELETAQREVD 121
>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 = 29.4 bits (66), Expect = 4.6
Identities = 14/34 (41%), Positives = 20/34 (58%)
Query: 344 ARRLKQAKEEAQEDIEKYRQEREKIFREYEAKVS 377
AR+ KQ + E + + K R ERE+ RE A +S
Sbjct: 88 ARKKKQLEWEEAQRLAKRRLERERGRREATADMS 121
>gnl|CDD|223787 COG0715, TauA, ABC-type nitrate/sulfonate/bicarbonate transport
systems, periplasmic components [Inorganic ion transport
and metabolism].
Length = 335
Score = 29.0 bits (65), Expect = 4.6
Identities = 6/41 (14%), Positives = 14/41 (34%)
Query: 332 AAEKVAEAKKRKARRLKQAKEEAQEDIEKYRQEREKIFREY 372
++ EA + +A +A + E +I +
Sbjct: 224 VRKEFIEANPEAVKAFLKALAKATAWANAHPDEAAEILAKA 264
>gnl|CDD|181362 PRK08296, PRK08296, hypothetical protein; Provisional.
Length = 603
Score = 29.2 bits (66), Expect = 4.7
Identities = 10/30 (33%), Positives = 15/30 (50%), Gaps = 1/30 (3%)
Query: 345 RRLKQAKEEAQEDIEKYRQEREKIFREYEA 374
RL++ E + E R ER++I EY
Sbjct: 319 GRLRRG-ETIERPTEALRAERDRIVEEYRD 347
>gnl|CDD|233757 TIGR02168, SMC_prok_B, chromosome segregation protein SMC, common
bacterial type. SMC (structural maintenance of
chromosomes) proteins bind DNA and act in organizing and
segregating chromosomes for partition. SMC proteins are
found in bacteria, archaea, and eukaryotes. This family
represents the SMC protein of most bacteria. The smc
gene is often associated with scpB (TIGR00281) and scpA
genes, where scp stands for segregation and condensation
protein. SMC was shown (in Caulobacter crescentus) to be
induced early in S phase but present and bound to DNA
throughout the cell cycle [Cellular processes, Cell
division, DNA metabolism, Chromosome-associated
proteins].
Length = 1179
Score = 29.3 bits (66), Expect = 4.7
Identities = 16/57 (28%), Positives = 26/57 (45%)
Query: 334 EKVAEAKKRKARRLKQAKEEAQEDIEKYRQEREKIFREYEAKVSHCNIVLIIKAAAN 390
E+ A +R+ L++ EE EDIE E E++ E S +L +A+
Sbjct: 830 ERRIAATERRLEDLEEQIEELSEDIESLAAEIEELEELIEELESELEALLNERASLE 886
>gnl|CDD|206034 pfam13863, DUF4200, Domain of unknown function (DUF4200). This
family is found in eukaryotes. It is a coiled-coil
domain of unknwon function.
Length = 126
Score = 28.0 bits (63), Expect = 4.9
Identities = 14/46 (30%), Positives = 29/46 (63%)
Query: 328 AEKRAAEKVAEAKKRKARRLKQAKEEAQEDIEKYRQEREKIFREYE 373
A++R AEK AE +K+ + ++ +E + ++E+ + E EK+ + E
Sbjct: 60 AKRRRAEKKAEEEKKLRKEKEEEIKELKAELEELKAEIEKLEEKLE 105
>gnl|CDD|235850 PRK06669, fliH, flagellar assembly protein H; Validated.
Length = 281
Score = 28.8 bits (65), Expect = 4.9
Identities = 15/50 (30%), Positives = 26/50 (52%)
Query: 328 AEKRAAEKVAEAKKRKARRLKQAKEEAQEDIEKYRQEREKIFREYEAKVS 377
AE+ A E V A++ L + +EA IEK + + E+ E+E ++
Sbjct: 64 AEEDAFEIVEAAEEEAKEELLKKTDEASSIIEKLQMQIEREQEEWEEELE 113
>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 = 28.7 bits (65), Expect = 5.1
Identities = 16/61 (26%), Positives = 27/61 (44%), Gaps = 8/61 (13%)
Query: 321 GIQQLLAAEKRAAEKVAEAKKRKARRLKQAKEEAQEDIEK-----YRQEREKIFREYEAK 375
G++ L +KR EK+ K K + K++ + + + Y +RE R AK
Sbjct: 41 GLKAKLYNKKRYKEKIQMKKTIKMHEERNVKQKVDDKVPEGAVPAYLLDREGQSR---AK 97
Query: 376 V 376
V
Sbjct: 98 V 98
>gnl|CDD|235600 PRK05771, PRK05771, V-type ATP synthase subunit I; Validated.
Length = 646
Score = 29.1 bits (66), Expect = 5.2
Identities = 7/59 (11%), Positives = 25/59 (42%)
Query: 320 LGIQQLLAAEKRAAEKVAEAKKRKARRLKQAKEEAQEDIEKYRQEREKIFREYEAKVSH 378
LG ++L E+ ++ K + +++ +E E++++ ++ + +
Sbjct: 200 LGFERLELEEEGTPSELIREIKEELEEIEKERESLLEELKELAKKYLEELLALYEYLEI 258
>gnl|CDD|218896 pfam06098, Radial_spoke_3, Radial spoke protein 3. This family
consists of several radial spoke protein 3 (RSP3)
sequences. Eukaryotic cilia and flagella present in
diverse types of cells perform motile, sensory, and
developmental functions in organisms from protists to
humans. They are centred by precisely organised,
microtubule-based structures, the axonemes. The axoneme
consists of two central singlet microtubules, called the
central pair, and nine outer doublet microtubules. These
structures are well-conserved during evolution. The
outer doublet microtubules, each composed of A and B
sub-fibres, are connected to each other by nexin links,
while the central pair is held at the centre of the
axoneme by radial spokes. The radial spokes are T-shaped
structures extending from the A-tubule of each outer
doublet microtubule to the centre of the axoneme. Radial
spoke protein 3 (RSP3), is present at the proximal end
of the spoke stalk and helps in anchoring the radial
spoke to the outer doublet. It is thought that radial
spokes regulate the activity of inner arm dynein through
protein phosphorylation and dephosphorylation.
Length = 288
Score = 28.5 bits (64), Expect = 5.8
Identities = 18/51 (35%), Positives = 25/51 (49%), Gaps = 8/51 (15%)
Query: 322 IQQLLAAEKRAAEKVAEAKKR----KARRLKQAKEEAQEDIEKYRQEREKI 368
+Q AE +++ EA++R K RR KQ KE Q + E EKI
Sbjct: 164 FEQRRNAELAETQRLEEAERRRREEKERRKKQDKERKQREKET----AEKI 210
>gnl|CDD|180941 PRK07352, PRK07352, F0F1 ATP synthase subunit B; Validated.
Length = 174
Score = 28.0 bits (63), Expect = 5.8
Identities = 12/41 (29%), Positives = 23/41 (56%)
Query: 323 QQLLAAEKRAAEKVAEAKKRKARRLKQAKEEAQEDIEKYRQ 363
Q+L A++ A A+AK R + +++A ED+ + +Q
Sbjct: 78 QKLAQAQQEAERIRADAKARAEAIRAEIEKQAIEDMARLKQ 118
Score = 28.0 bits (63), Expect = 6.9
Identities = 17/51 (33%), Positives = 28/51 (54%), Gaps = 7/51 (13%)
Query: 328 AEKR---AAEKVAEAKKRKARRLKQAKEEAQEDIEKYRQEREKIFREYEAK 375
AE+R AA+ +AEA+++ L QA++EA+ + E I E E +
Sbjct: 62 AEERLRQAAQALAEAQQK----LAQAQQEAERIRADAKARAEAIRAEIEKQ 108
>gnl|CDD|224117 COG1196, Smc, Chromosome segregation ATPases [Cell division and
chromosome partitioning].
Length = 1163
Score = 28.9 bits (65), Expect = 6.0
Identities = 15/50 (30%), Positives = 27/50 (54%), Gaps = 5/50 (10%)
Query: 322 IQQLLAAEKRAAEKVAEAKKRKARRLKQAKEEAQEDIEKYRQEREKIFRE 371
I++ E+R E K + L++AKE+ E IE+ +E+ + F+E
Sbjct: 969 IEEYEEVEERYEEL-----KSQREDLEEAKEKLLEVIEELDKEKRERFKE 1013
>gnl|CDD|99820 cd05777, DNA_polB_delta_exo, DEDDy 3'-5' exonuclease domain of
eukaryotic DNA polymerase delta, a family-B DNA
polymerase. The 3'-5' exonuclease domain of eukaryotic
DNA polymerase delta. DNA polymerase delta is a
family-B DNA polymerase with a catalytic subunit that
contains a DEDDy-type DnaQ-like 3'-5' exonuclease
domain. It is one of the three DNA-dependent type B DNA
polymerases (alpha and epsilon are the other two) that
have been identified as essential for nuclear DNA
replication in eukaryotes. DNA polymerase delta is the
enzyme responsible for both elongation and maturation
of Okazaki fragments on the lagging strand. It is also
implicated in mismatch repair (MMR) and base excision
repair (BER). The catalytic subunit displays both
polymerase and 3'-5' exonuclease activities. The
exonuclease domain contains three sequence motifs
termed ExoI, ExoII and ExoIII, with a specific YX(3)D
pattern at ExoIII. These motifs are clustered around
the active site and contain four conserved acidic
residues necessary for metal binding and catalysis. The
exonuclease domain of family B polymerase also contains
a beta hairpin structure that plays an important role
in active site switching in the event of nucleotide
misincorporation.
Length = 230
Score = 28.3 bits (64), Expect = 6.0
Identities = 10/26 (38%), Positives = 14/26 (53%), Gaps = 3/26 (11%)
Query: 57 HNDTIIQIANSLDILDES---MRNVF 79
D +IQIAN + E +RN+F
Sbjct: 27 EKDPVIQIANVVTRQGEGEPFIRNIF 52
>gnl|CDD|217206 pfam02731, SKIP_SNW, SKIP/SNW domain. This domain is found in
chromatin proteins.
Length = 158
Score = 28.0 bits (63), Expect = 6.2
Identities = 18/45 (40%), Positives = 29/45 (64%), Gaps = 4/45 (8%)
Query: 325 LLAAEKRAAEKV---AEAKKRKARRLKQAKEEA-QEDIEKYRQER 365
L AE++A E+V AE +++ A + KQ KEE +E ++ R+ER
Sbjct: 114 LYIAERKAREEVRQRAELQRQLAEKEKQEKEEKLRELAQRAREER 158
>gnl|CDD|235322 PRK04950, PRK04950, ProP expression regulator; Provisional.
Length = 213
Score = 28.4 bits (64), Expect = 6.3
Identities = 10/37 (27%), Positives = 22/37 (59%), Gaps = 1/37 (2%)
Query: 332 AAEKVAEAKKR-KARRLKQAKEEAQEDIEKYRQEREK 367
A +++ EAK + +A+R +Q ++ + EK + R +
Sbjct: 99 ARKQLEEAKAKVQAQRAEQQAKKREAAGEKEKAPRRE 135
>gnl|CDD|219924 pfam08597, eIF3_subunit, Translation initiation factor eIF3
subunit. This is a family of proteins which are
subunits of the eukaryotic translation initiation factor
3 (eIF3). In yeast it is called Hcr1. The Saccharomyces
cerevisiae protein eIF3j (HCR1) has been shown to be
required for processing of 20S pre-rRNA and binds to 18S
rRNA and eIF3 subunits Rpg1p and Prt1p.
Length = 242
Score = 28.1 bits (63), Expect = 6.5
Identities = 12/39 (30%), Positives = 23/39 (58%)
Query: 329 EKRAAEKVAEAKKRKARRLKQAKEEAQEDIEKYRQEREK 367
E++ EK A K KA++ +AK E +E ++ ++E+
Sbjct: 43 EEKEEEKAKVAAKAKAKKALKAKIEEKEKAKREKEEKGL 81
>gnl|CDD|217348 pfam03064, U79_P34, HSV U79 / HCMV P34. This family represents
herpes virus protein U79 and cytomegalovirus early
phosphoprotein P34 (UL112).
Length = 238
Score = 28.3 bits (63), Expect = 6.9
Identities = 12/55 (21%), Positives = 25/55 (45%)
Query: 317 VVSLGIQQLLAAEKRAAEKVAEAKKRKARRLKQAKEEAQEDIEKYRQEREKIFRE 371
+ + + E RA + + + R KQ ++ ED +K++++R K E
Sbjct: 134 LGDVKNAEKFEKECRALSRKKSDDEHRKRSGKQKEKRRVEDSQKHKEDRRKKQEE 188
>gnl|CDD|191634 pfam06886, TPX2, Targeting protein for Xklp2 (TPX2). This family
represents a conserved region approximately 60 residues
long within the eukaryotic targeting protein for Xklp2
(TPX2). Xklp2 is a kinesin-like protein localised on
centrosomes throughout the cell cycle and on spindle
pole microtubules during metaphase. In Xenopus, it has
been shown that Xklp2 protein is required for centrosome
separation and maintenance of spindle bi-polarity. TPX2
is a microtubule-associated protein that mediates the
binding of the C-terminal domain of Xklp2 to
microtubules. It is phosphorylated during mitosis in a
microtubule-dependent way.
Length = 57
Score = 25.8 bits (57), Expect = 7.1
Identities = 15/43 (34%), Positives = 21/43 (48%), Gaps = 6/43 (13%)
Query: 328 AEKRA------AEKVAEAKKRKARRLKQAKEEAQEDIEKYRQE 364
AEKRA EK + K + KEE +E I++ R+E
Sbjct: 7 AEKRAEFDKKLEEKEKALEAEKEEAEARQKEEEEEAIKQLRKE 49
>gnl|CDD|184064 PRK13461, PRK13461, F0F1 ATP synthase subunit B; Provisional.
Length = 159
Score = 27.7 bits (62), Expect = 7.3
Identities = 14/39 (35%), Positives = 24/39 (61%)
Query: 333 AEKVAEAKKRKARRLKQAKEEAQEDIEKYRQEREKIFRE 371
+K E K + R LK AKEE ++ +E+Y+ + E ++ E
Sbjct: 52 QKKARELKLKNERELKNAKEEGKKIVEEYKSKAENVYEE 90
>gnl|CDD|114011 pfam05262, Borrelia_P83, Borrelia P83/100 protein. This family
consists of several Borrelia P83/P100 antigen proteins.
Length = 489
Score = 28.4 bits (63), Expect = 7.5
Identities = 11/45 (24%), Positives = 21/45 (46%)
Query: 323 QQLLAAEKRAAEKVAEAKKRKARRLKQAKEEAQEDIEKYRQEREK 367
+Q+ +KR EK K+ +AK+ D+++ + EK
Sbjct: 273 KQVAENQKREIEKAQIEIKKNDEEALKAKDHKAFDLKQESKASEK 317
Score = 28.4 bits (63), Expect = 8.4
Identities = 12/58 (20%), Positives = 27/58 (46%)
Query: 323 QQLLAAEKRAAEKVAEAKKRKARRLKQAKEEAQEDIEKYRQEREKIFREYEAKVSHCN 380
++ L A+ A + + K + + + EAQ+ E ++ +K + EA+ + N
Sbjct: 295 EEALKAKDHKAFDLKQESKASEKEAEDKELEAQKKREPVAEDLQKTKPQVEAQPTSLN 352
>gnl|CDD|148033 pfam06188, HrpE, HrpE/YscL/FliH and V-type ATPase subunit E. This
is a prokaryotic family that contains proteins of the
FliH and HrpE/YscL family. These proteins are involved
in type III secretion, which is the process that drives
flagellar biosynthesis and mediates bacterial-eukaryotic
interactions. This family also V-type ATPase subunit E.
This subunit appears to form a tight interaction with
subunit G in the F0 complex. Subunits E and G may act
together as stators to prevent certain subunits from
rotating with the central rotary element. pfam01991 also
contains V-type ATPase subunit E proteins.
Length = 191
Score = 27.8 bits (62), Expect = 7.6
Identities = 12/54 (22%), Positives = 28/54 (51%), Gaps = 3/54 (5%)
Query: 316 PVVSLGIQQLLAAEKRAAEKVAEAKKRKARRLKQAKEEAQEDIEKYRQEREKIF 369
PV+ ++ LA A + +A+++ + L A+E+A+ ++ ++ E F
Sbjct: 19 PVLR---REQLAQSLLARTLLEDARQQAEQILDLAEEKAEALQQRAEEQAEAAF 69
>gnl|CDD|236081 PRK07735, PRK07735, NADH dehydrogenase subunit C; Validated.
Length = 430
Score = 28.4 bits (63), Expect = 7.7
Identities = 17/56 (30%), Positives = 26/56 (46%), Gaps = 1/56 (1%)
Query: 321 GIQQLLAAEKRAAE-KVAEAKKRKARRLKQAKEEAQEDIEKYRQEREKIFREYEAK 375
G +++ EK A+ K A A K KA L + K E E++ + + K AK
Sbjct: 81 GTEEVTEEEKAKAKAKAAAAAKAKAAALAKQKREGTEEVTEEEKAAAKAKAAAAAK 136
>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 = 28.6 bits (64), Expect = 7.7
Identities = 13/49 (26%), Positives = 29/49 (59%)
Query: 323 QQLLAAEKRAAEKVAEAKKRKARRLKQAKEEAQEDIEKYRQEREKIFRE 371
++ +K +++ E K+R+ + + ++EAQE ++ ++E E I RE
Sbjct: 539 KEQEKLKKELEQEMEELKERERNKKLELEKEAQEALKALKKEVESIIRE 587
>gnl|CDD|223407 COG0330, HflC, Membrane protease subunits, stomatin/prohibitin
homologs [Posttranslational modification, protein
turnover, chaperones].
Length = 291
Score = 28.2 bits (63), Expect = 7.9
Identities = 14/58 (24%), Positives = 25/58 (43%), Gaps = 4/58 (6%)
Query: 323 QQLLAAEKRAAEKVAEAKKRKARRLKQA--KEEAQEDIE--KYRQEREKIFREYEAKV 376
+LA + AE +A A+ A+ + A + A +Y +E +I +KV
Sbjct: 214 AIILAEAEAEAEVIARAEADAAKIIAAALREAPAAPQALAQRYLEELLEIALAGNSKV 271
>gnl|CDD|203848 pfam08079, Ribosomal_L30_N, Ribosomal L30 N-terminal domain. This
presumed domain is found at the N-terminus of Ribosomal
L30 proteins and has been termed RL30NT or NUC018.
Length = 71
Score = 26.0 bits (58), Expect = 8.0
Identities = 14/51 (27%), Positives = 28/51 (54%), Gaps = 1/51 (1%)
Query: 330 KRAAEKVAEAKKRKARRLKQAKEEAQEDIEKYR-QEREKIFREYEAKVSHC 379
+ A+K A K + ++ K + A++ +++YR ER++I + EAK
Sbjct: 14 AKRAKKRAAKKAARKKKRKLIFKRAEKYVKEYRAAERDEIRLKREAKKKGN 64
>gnl|CDD|226894 COG4499, COG4499, Predicted membrane protein [Function unknown].
Length = 434
Score = 28.2 bits (63), Expect = 8.1
Identities = 16/41 (39%), Positives = 23/41 (56%), Gaps = 1/41 (2%)
Query: 327 AAEKRAAEKVAEAKKRKARRLKQAKEEAQEDIEKYRQEREK 367
A + A K E K ++ K+ KE+A ED EK RQ+ E+
Sbjct: 393 DASEEAEAKAKEEKLKQEENEKKQKEQADEDKEK-RQKDER 432
>gnl|CDD|203149 pfam05008, V-SNARE, Vesicle transport v-SNARE protein N-terminus.
V-SNARE proteins are required for protein traffic
between eukaryotic organelles. The v-SNAREs on transport
vesicles interact with t-SNAREs on target membranes in
order to facilitate this. This domain is the N-terminal
half of the V-Snare proteins.
Length = 79
Score = 26.0 bits (58), Expect = 8.7
Identities = 8/43 (18%), Positives = 21/43 (48%)
Query: 322 IQQLLAAEKRAAEKVAEAKKRKARRLKQAKEEAQEDIEKYRQE 364
+ ++ R + E +K R +++ +EA+E +++ E
Sbjct: 5 LAEIKRKLARIPKLSGEERKAALREIERKLDEAEELLDQMELE 47
>gnl|CDD|223164 COG0086, RpoC, DNA-directed RNA polymerase, beta' subunit/160 kD
subunit [Transcription].
Length = 808
Score = 28.4 bits (64), Expect = 8.8
Identities = 11/46 (23%), Positives = 17/46 (36%), Gaps = 6/46 (13%)
Query: 338 EAKKRKARRLKQAKEEAQEDIEKY------RQEREKIFREYEAKVS 377
EA+ K + +A+ + I +Y R ER I E
Sbjct: 595 EAEDEKDEIVIEAEGSVLKLILQYEEGDLTRTERNNIVEIIEVLGI 640
>gnl|CDD|221756 pfam12757, DUF3812, Protein of unknown function (DUF3812). This is
a family of fungal proteins whose function is not known.
Length = 126
Score = 26.9 bits (60), Expect = 9.0
Identities = 9/34 (26%), Positives = 16/34 (47%), Gaps = 2/34 (5%)
Query: 327 AAEKRAAEKVAEAKKRKARRLKQAKEEAQEDIEK 360
A +RA + E K + +Q +E + + EK
Sbjct: 93 AEAQRARD--EEKKLDEEEAKRQHEEAKEREREK 124
>gnl|CDD|220535 pfam10037, MRP-S27, Mitochondrial 28S ribosomal protein S27.
Members of this family of small ribosomal proteins
possess one of three conserved blocks of sequence found
in proteins that stimulate the dissociation of guanine
nucleotides from G-proteins, leaving open the
possibility that MRP-S27 might be a functional partner
of GTP-binding ribosomal proteins.
Length = 417
Score = 28.2 bits (63), Expect = 9.0
Identities = 11/52 (21%), Positives = 25/52 (48%)
Query: 323 QQLLAAEKRAAEKVAEAKKRKARRLKQAKEEAQEDIEKYRQEREKIFREYEA 374
+ LL+ E+R E + +R + E ++ ++ ++ RE+ EY+
Sbjct: 359 RSLLSVEERLPTIEKEDLELYEQRQQLWFFENRKLWQRKKKLREQADEEYQQ 410
>gnl|CDD|216872 pfam02096, 60KD_IMP, 60Kd inner membrane protein.
Length = 193
Score = 27.5 bits (62), Expect = 9.1
Identities = 8/27 (29%), Positives = 20/27 (74%)
Query: 346 RLKQAKEEAQEDIEKYRQEREKIFREY 372
+K+ +E+ ++D +K +QE K+++E+
Sbjct: 38 EIKEIQEKYKDDPQKLQQEMMKLYKEH 64
>gnl|CDD|236545 PRK09510, tolA, cell envelope integrity inner membrane protein
TolA; Provisional.
Length = 387
Score = 28.2 bits (63), Expect = 9.2
Identities = 13/46 (28%), Positives = 26/46 (56%)
Query: 322 IQQLLAAEKRAAEKVAEAKKRKARRLKQAKEEAQEDIEKYRQEREK 367
QQ + KRA E+ + ++++A L+Q + QE +++ +ER
Sbjct: 67 QQQQQKSAKRAEEQRKKKEQQQAEELQQKQAAEQERLKQLEKERLA 112
>gnl|CDD|224202 COG1283, NptA, Na+/phosphate symporter [Inorganic ion transport and
metabolism].
Length = 533
Score = 28.0 bits (63), Expect = 9.6
Identities = 9/29 (31%), Positives = 15/29 (51%), Gaps = 2/29 (6%)
Query: 355 QEDIEKYRQ--EREKIFREYEAKVSHCNI 381
D+E R+ ER+K R E + S ++
Sbjct: 464 TGDLELARRLVERKKRVRRLERRSSKRHL 492
>gnl|CDD|224617 COG1703, ArgK, Putative periplasmic protein kinase ArgK and related
GTPases of G3E family [Amino acid transport and
metabolism].
Length = 323
Score = 28.1 bits (63), Expect = 9.7
Identities = 17/72 (23%), Positives = 27/72 (37%), Gaps = 13/72 (18%)
Query: 302 RQTRYAL-------PTKPTRPPVVSL------GIQQLLAAEKRAAEKVAEAKKRKARRLK 348
R+ R AL RPPVV+ GI +L A + + + E+ +R
Sbjct: 209 RELRSALDLLREVWRENGWRPPVVTTSALEGEGIDELWDAIEDHRKFLTESGLFTEKRRT 268
Query: 349 QAKEEAQEDIEK 360
Q E + +
Sbjct: 269 QYVEWIRTLVRD 280
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 0.130 0.365
Gapped
Lambda K H
0.267 0.0788 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 19,049,838
Number of extensions: 1803065
Number of successful extensions: 4468
Number of sequences better than 10.0: 1
Number of HSP's gapped: 4069
Number of HSP's successfully gapped: 387
Length of query: 394
Length of database: 10,937,602
Length adjustment: 99
Effective length of query: 295
Effective length of database: 6,546,556
Effective search space: 1931234020
Effective search space used: 1931234020
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 (21.7 bits)
S2: 60 (26.8 bits)