RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= 014749
(419 letters)
>gnl|CDD|185519 PTZ00219, PTZ00219, Sec61 alpha subunit; Provisional.
Length = 474
Score = 714 bits (1845), Expect = 0.0
Identities = 289/396 (72%), Positives = 347/396 (87%)
Query: 1 MGGGFRVLHLVRPFLPFLPEVQSADRKIPFREKVIYTVISLFIFLVCSQLPLYGIHSTTG 60
M R L+L+RP + LPEV DRKIPF+EKV++T I+LF+FLVC Q+PLYGI S++
Sbjct: 1 MAKMTRFLNLLRPAMAILPEVAEPDRKIPFKEKVLWTAIALFVFLVCCQIPLYGIRSSSS 60
Query: 61 ADPFYWMRVILASNRGTVMELGITPIVTSGLVMQLLAGSKIIEVDNNVREDRALLNGAQK 120
+DPFYWMRVILASNRGT+MELGI+PIVTS +VMQLLAGSKII+VD N +EDRAL GAQK
Sbjct: 61 SDPFYWMRVILASNRGTLMELGISPIVTSSMVMQLLAGSKIIDVDQNNKEDRALFEGAQK 120
Query: 121 LLGILIAIGEAVAYVMSGMYGSVSQLGAGNAILIILQLCFAGIIVICLDELLQKGYGLGS 180
LLG+LI +GEAVAYV SGMYG +S++GAGNAILIILQL FAGI+VI LDELLQKGYGLGS
Sbjct: 121 LLGLLITLGEAVAYVWSGMYGDISEIGAGNAILIILQLFFAGIVVILLDELLQKGYGLGS 180
Query: 181 GISLFIATNICESIIWKAFSPTTINSGRGAEFEGAVIALFHLLITKQNKVGALREAFYRQ 240
GISLFIATNICE+IIWKAFSPTTIN+GRG EFEGA+IALFHLL T+ +K+ AL+EAFYR
Sbjct: 181 GISLFIATNICETIIWKAFSPTTINTGRGTEFEGAIIALFHLLFTRSDKLRALKEAFYRP 240
Query: 241 NLPNITNLLATVLVFLIVVYFQGFKVVLPVRSKNARGQQGAYPIKLFYTSNMPIILQSAL 300
+LPN+TNLLATVLVFL+V+YFQGF+V LP++S+ RGQQ +YPIKLFYTSN+PIILQ+AL
Sbjct: 241 HLPNLTNLLATVLVFLVVIYFQGFRVDLPLKSQKVRGQQQSYPIKLFYTSNIPIILQTAL 300
Query: 301 VSNLYFISQLLYRKYSGNFFVNLLGKWKESEYSGHSIPVGGLAYYVTAPASLADMAANPF 360
VSNLYF SQ+LYR++ NF +NLLG+W+E EYSG S+PVGGLAYY++ P S +D+ +P
Sbjct: 301 VSNLYFFSQILYRRFKNNFLINLLGQWQEVEYSGQSVPVGGLAYYLSPPNSFSDIINDPI 360
Query: 361 HALFYLVFMLTACALFSKTWIEVSGSSARDVAKQLK 396
H + Y+VF+L +CALFSKTWIEVSGSSA+DVAKQLK
Sbjct: 361 HTILYIVFVLFSCALFSKTWIEVSGSSAKDVAKQLK 396
>gnl|CDD|236293 PRK08568, PRK08568, preprotein translocase subunit SecY; Reviewed.
Length = 462
Score = 320 bits (822), Expect = e-106
Identities = 144/387 (37%), Positives = 221/387 (57%), Gaps = 20/387 (5%)
Query: 11 VRPFLPFLPEVQSADRKIPFREKVIYTVISLFIFLVCSQLPLYGIHSTTGADPFYWMRVI 70
+ P L LP V+ +PF+EK+ +T I L ++ + + +PLYGI S + D F +R+I
Sbjct: 7 LEPILERLPAVKRPKGHVPFKEKLKWTAIVLILYFILTNIPLYGI-SQSSQDLFELLRII 65
Query: 71 LASNRGTVMELGITPIVTSGLVMQLLAGSKIIEVDNNVREDRALLNGAQKLLGILIAIGE 130
A + GT+++LGI PIVT+G+++QLL GSK+I +D + EDRAL G QKLL I++ E
Sbjct: 66 FAGSFGTLLQLGIGPIVTAGIILQLLVGSKLINLDLSDPEDRALFQGLQKLLAIVMIALE 125
Query: 131 AVAYVMSGMYGSVSQLGAGN--AILIILQLCFAGIIVICLDELLQKGYGLGSGISLFIAT 188
A +V++G +G + L + A+LI LQL GI++I LDEL+ K +G+GSGISLFI
Sbjct: 126 AAPFVLAGAFGPATGLASTPLLALLIFLQLFLGGILIILLDELVSK-WGIGSGISLFILA 184
Query: 189 NICESIIWKAFSPTTINSGRGAEFEGAVIALFHLLITKQNKVGALREAFYRQNLPNITNL 248
+ ++I F+ T G G + ALF + + + L + L
Sbjct: 185 GVSQTIFVGLFNWLTGGQG---LPVGFIPALFSAITSGNLTLALLL----TTRGLLLLGL 237
Query: 249 LATVLVFLIVVYFQGFKVVLPVRSKNARGQQGAYPIKLFYTSNMPIILQSALVSNLYFIS 308
+ T+++FLIVVY + +V +P+ RG +G YP+K Y S +P+IL AL +N+
Sbjct: 238 ITTIVIFLIVVYLESMRVEIPLSHGRVRGARGRYPLKFIYVSVLPVILVRALQANIQLFG 297
Query: 309 QLLYRKYSGNFFVNLLGKWKESEYSGHSIPVGGLAYYVTAPASLADMAANPFHALFYLVF 368
QLL R + +LG + S S P+ GLAYY++ P S D +P A+ Y +F
Sbjct: 298 QLLQR-----LGIPILGTYDSSGAS----PISGLAYYLSPPHSPYDWIQDPLRAIIYALF 348
Query: 369 MLTACALFSKTWIEVSGSSARDVAKQL 395
M+ LF+ W+E +G + A+QL
Sbjct: 349 MIVLSILFAIFWVETTGLDPKTQARQL 375
>gnl|CDD|233214 TIGR00967, 3a0501s007, preprotein translocase, SecY subunit.
Members of this protein family are the SecY component of
the SecYEG translocon, or protein translocation pore,
which is driven by the ATPase SecA. This model does not
discriminate bacterial from archaeal forms [Protein
fate, Protein and peptide secretion and trafficking].
Length = 410
Score = 242 bits (619), Expect = 4e-76
Identities = 105/382 (27%), Positives = 171/382 (44%), Gaps = 72/382 (18%)
Query: 31 REKVIYTVISLFIFLVCSQLPLYGI------HSTTGADPFYWMRVILASNRG--TVMELG 82
REK+++T+ L +F + + +P+ GI + F + G ++ LG
Sbjct: 1 REKLLFTLGLLVLFRIGTFIPIPGIDASAFQNLIQQNPIFGLLNTFSGGALGQISIFALG 60
Query: 83 ITPIVTSGLVMQLLAGSKIIEVDNNVRE---DRALLNGAQKLLGILIAIGEAVAYVMSGM 139
I+P +T+ +++QLL G + +E R +N + L +++A +++ VM+GM
Sbjct: 61 ISPYITASIIIQLLTGDVPPLLQLQKKEGEIGRRKINQLTRYLTLILAFIQSLGIVMTGM 120
Query: 140 YGSVSQLGAGNAILIILQLCFAGIIVICLDELLQKGYGLGSGISLFIATNICESIIWKAF 199
YG V GA +LI++QL +IV+ L E + K YG+G+GISL I I +I
Sbjct: 121 YGYVGDPGAFFYLLIVIQLTTGSMIVMWLGEQITK-YGIGNGISLLIFAGIAATIPSGLL 179
Query: 200 SPTTINSGRGAEFEGAVIALFHLLITKQNKVGALREAFYRQNLPNITNLLATVLVFLIVV 259
PT + Q+KV L LP + L+AT++VF +VV
Sbjct: 180 QPTEVR---------------------QSKVRDLISFLQN--LPFLLYLIATIIVFAVVV 216
Query: 260 YFQGFKVVLPVRS-----KNARGQQGAYPIKLFYTSNMPIILQSALVSNLYFISQLLYRK 314
+ Q + +P++S Q P+KL Y +P+I SAL+SN ISQ L
Sbjct: 217 FVQQARRKIPIQSAKRQGGRRGSQSTYLPLKLNYAGVIPVIFASALLSNPATISQFLNSN 276
Query: 315 YSGNFFVNLLGKWKESEYSGHSIPVGGLAYYVTAPASLADMAANPFHALFYLVFMLTACA 374
G +F+N + SL+D P A+ YL+
Sbjct: 277 QGGAWFLNPI-----------------------LSLSLSD----PIGAILYLIL----II 305
Query: 375 LFSKTWIEVSGSSARDVAKQLK 396
FS ++E+ + D+AK LK
Sbjct: 306 FFSFFYVEL-QLNPEDMAKNLK 326
>gnl|CDD|223279 COG0201, SecY, Preprotein translocase subunit SecY [Intracellular
trafficking and secretion].
Length = 436
Score = 220 bits (562), Expect = 2e-67
Identities = 103/402 (25%), Positives = 181/402 (45%), Gaps = 75/402 (18%)
Query: 13 PFLPFLPEVQSADRKIPF-REKVIYTVISLFIFLVCSQLPLYGIHSTTGADPFYWMRVIL 71
P LP LPEV S K+P R+++++T+ +L ++ + S +P+ GI+ +D F R ++
Sbjct: 1 PLLPLLPEVLSPKFKVPELRKRILFTLGALIVYRIGSFIPVPGINPAALSDLFNSQRFLI 60
Query: 72 --------ASNRGTVMELGITPIVTSGLVMQLL-AGSKIIE-VDNNVREDRALLNGAQKL 121
A +RG++ LGI P +T+ ++MQLL GS I++ +D E R + +
Sbjct: 61 LFNMFSGGALSRGSIFALGIMPYITASIIMQLLTVGSPILKKLDKEGEEGRRKIQQYTRY 120
Query: 122 LGILIAIGEAVAYVMSGMY----GSVSQLGAGNAILIILQLCFAGIIVICLDELLQKGYG 177
L +++A+ +A+ V+ G V G +LIILQL + ++ L E + K G
Sbjct: 121 LTLVLAVIQALGVVLGGNNGGSPSDVGNGGIFFYLLIILQLTAGTMFLMWLGEQITK-RG 179
Query: 178 LGSGISLFIATNICESIIWKAFSPTTINSGRGAEFEGAVIALFHLLITKQNKVGALREAF 237
+G+GISL I I S+ F GA+ A
Sbjct: 180 IGNGISLIIFAGIVASLPSAIFGI-----------IGALPTG----------------AL 212
Query: 238 YRQNLPNITNLLATVLVFLIVVYFQGFKVVLPVRS---KNARGQQGAYPIKLFYTSNMPI 294
+ L + +L T+ + +VVY + + +P++ ++ RGQ P+KL Y +P+
Sbjct: 213 FLSILFLLLLVLLTLAIIFLVVYVEQARRRIPIQYAKRQSYRGQSSYLPLKLNYAGVIPV 272
Query: 295 ILQSALVSNLYFISQLLYRKYSGNFFVNLLGKWKESEYSGHSIPVGGLAYYVTAPASLAD 354
I S+L+ I+Q L GGLAYY++ S++D
Sbjct: 273 IFASSLLLFPSTIAQFL--------------------------GNGGLAYYLSPLTSISD 306
Query: 355 MAANPFHALFYLVFMLTACALFSKTWIEVSGSSARDVAKQLK 396
+ + Y+ + FS + E+ + ++A+ LK
Sbjct: 307 ALS--PGSPVYIALYVVLIIFFSYFYTEIQF-NPEEIAENLK 345
>gnl|CDD|215869 pfam00344, SecY, SecY translocase.
Length = 340
Score = 209 bits (534), Expect = 3e-64
Identities = 98/333 (29%), Positives = 150/333 (45%), Gaps = 73/333 (21%)
Query: 77 TVMELGITPIVTSGLVMQLL--AGSKIIEVDNNVREDRALLNGAQKLLGILIAIGEAVAY 134
++ LGI P +T+ ++MQLL G K+ ++D E R + + L +++A+ +A+
Sbjct: 1 SIFALGIGPYITASIIMQLLTVVGPKLEKLDKEGEEGRKKIQQYTRYLTLVLALIQAIGI 60
Query: 135 VM-SGMYGSVSQL-----GAGNAILIILQLCFAGIIVICLDELLQKGYGLGSGISLFIAT 188
V+ G YG+ S G N +LI+LQL + ++ L EL+ K YG+G+GISL I
Sbjct: 61 VLGLGSYGAFSNGIVLGVGFLNLLLIVLQLTAGTMFLMWLGELITK-YGIGNGISLIIFA 119
Query: 189 NICESIIWKAFSPTTINSGRGAEFEGAVIALFHLLITKQNKVGALREAFYRQNLPNITNL 248
I SI W A+I LF LL + + L + L
Sbjct: 120 GIVASIPW------------------AIINLFSLLSSAGGLLSILY---------LLLLL 152
Query: 249 LATVLVFLIVVYFQGFKVVLPVRS-----KNARGQQGAYPIKLFYTSNMPIILQSALVSN 303
LAT+ V L+VVY Q + +P++ RGQ PIKL Y +PII S+L++N
Sbjct: 153 LATLAVILLVVYLQEARRRIPIQYAKRVVGGGRGQSSYLPIKLNYAGVIPIIFASSLLAN 212
Query: 304 LYFISQLLYRKYSGNFFVNLLGKWKESEYSGHSIPVGGLAYYVTAPASLADMAANPFHAL 363
I+Q L S PV GLAYY+ P +
Sbjct: 213 PQTIAQFLGS-------------------SFPLWPVSGLAYYL------------PIGSP 241
Query: 364 FYLVFMLTACALFSKTWIEVSGSSARDVAKQLK 396
Y++F + FS + G + +D+A+ LK
Sbjct: 242 VYILFYIVLIIFFSYFYT-AIGFNPKDIAENLK 273
>gnl|CDD|204513 pfam10559, Plug_translocon, Plug domain of Sec61p. The
Sec61/SecY translocon mediates translocation of
proteins across the membrane and integration of
membrane proteins into the lipid bilayer. The structure
of the translocon revealed a plug domain blocking the
pore on the lumenal side.The plug is unlikely to be
important for sealing the translocation pore in yeast
but it plays a role in stabilising Sec61p during
translocon formation. The domain runs from residues
52-74.
Length = 35
Score = 64.0 bits (157), Expect = 1e-13
Identities = 22/35 (62%), Positives = 30/35 (85%)
Query: 42 FIFLVCSQLPLYGIHSTTGADPFYWMRVILASNRG 76
++LV SQ+PLYG++S+ +DPFYW+R ILASNRG
Sbjct: 1 LLYLVLSQIPLYGLYSSDSSDPFYWLRAILASNRG 35
>gnl|CDD|236412 PRK09204, secY, preprotein translocase subunit SecY; Reviewed.
Length = 426
Score = 39.0 bits (92), Expect = 0.004
Identities = 63/305 (20%), Positives = 120/305 (39%), Gaps = 71/305 (23%)
Query: 31 REKVIYTVISLFIFLVCSQLPLYGIHST-------TGADPFYWMRVIL---ASNRGTVME 80
R+++++T+ +L +F + S +P+ GI + + + A +R ++
Sbjct: 15 RKRILFTLGALIVFRIGSYIPVPGIDPAALAQLFDQQSGGILGLFNLFSGGALSRFSIFA 74
Query: 81 LGITPIVTSGLVMQLLAGS--KIIEVDNNVREDRALLNGAQKLLGILIAIGEAVAYVMS- 137
LGI P +T+ ++MQLL K+ E+ R +N + L +++A +++
Sbjct: 75 LGIMPYITASIIMQLLTVVIPKLEELKKEGEAGRRKINQYTRYLTVVLAFVQSIGIAAGL 134
Query: 138 -GMYGSVSQLGAGNAILIILQLCF---AG-IIVICLDELLQKGYGLGSGISLFIATNICE 192
M G + L + AG + ++ L E + + G+G+GISL I I
Sbjct: 135 NSMSGGGGLVPIPPGFFFYLTIVITLTAGTMFLMWLGEQITE-RGIGNGISLIIFAGIV- 192
Query: 193 SIIWKAFSPTTINSGRGAEFEGAVIALFHLLITKQNKVGALREAFYRQNLPNITNLLATV 252
A A+ F + + G+L +I L +
Sbjct: 193 -----------------AGLPSAIGQTF-----ELARTGSL----------SILVFLLLI 220
Query: 253 LVFLIVVYFQGFKVVL--------PV----RSKNARGQQGA--Y-PIKLFYTSNMPIILQ 297
++FL V+ F VV PV R + G Y P+K+ +P+I
Sbjct: 221 VLFLAVIAF----VVFVEQAQRRIPVQYAKRQVGRKMYGGQSSYLPLKVNMAGVIPVIFA 276
Query: 298 SALVS 302
S+++
Sbjct: 277 SSILL 281
>gnl|CDD|237095 PRK12417, secY, preprotein translocase subunit SecY; Reviewed.
Length = 404
Score = 33.0 bits (76), Expect = 0.28
Identities = 37/167 (22%), Positives = 81/167 (48%), Gaps = 18/167 (10%)
Query: 33 KVIYTVISLFIFLVCSQLPLYGIHST---TGADPFYWMRVILASNRG------TVMELGI 83
K+++T LFI+++ S + + + G + F I A+N G + LG+
Sbjct: 15 KILFTCFILFIYILGSNISIPFVSYNDMLGGHESFL---KIAAANTGGDLRTLNIFSLGL 71
Query: 84 TPIVTSGLVMQLLAGSKIIEVDNNVREDRALLNGAQKLLGILIAIGEAVAYVMSGMYGSV 143
P +TS +++QL + K + E++ +++L ++IA+ +++A ++S S
Sbjct: 72 GPWMTSMIILQLFSYRKRDGLMKQTIEEQHY---RERILTLIIAVIQSLAVILS--LPSK 126
Query: 144 SQLGAGNAILIILQLCFAGIIVICLDELLQKGYGLGSGISLFIATNI 190
++ N +L L L + ++ L + L YG+G + + + + I
Sbjct: 127 ERISQTNILLNTLILVTGTMFLVWLSD-LNARYGIGGPMPIVLVSMI 172
>gnl|CDD|214379 CHL00161, secY, preprotein translocase subunit SecY; Validated.
Length = 417
Score = 31.5 bits (72), Expect = 0.77
Identities = 55/246 (22%), Positives = 100/246 (40%), Gaps = 51/246 (20%)
Query: 81 LGITPIVTSGLVMQLLAGSKIIEVDNNVREDRALLNGAQKLLGI--LIAIGEAVAYVMSG 138
LGI P + + +++QLL I ++ +E+ G +K+ + +G A+ +
Sbjct: 69 LGILPYINASIIIQLLTSI-IPSLEKLQKEEGEA--GRRKINQYTRYLTLGWAIIQSIGI 125
Query: 139 MYGSVSQLGAGN---AILIILQLCFAGIIVICLDELLQKGYGLGSGISLFIATNICESII 195
+ L N A+ I+L L +IV+ L EL+ + GLG+G SL I NI
Sbjct: 126 SFWLKPYLFNWNLLLALEIVLALTSGSMIVLWLSELITE-KGLGNGSSLLIFFNI----- 179
Query: 196 WKAFSPTTINSGRGAEFEGAVIALFHLLITKQNKVGALREAFYRQNLPNITNLLATVLVF 255
++ L+ N+ ++ LL L F
Sbjct: 180 ---------------------VSNLPKLLQSLLFS-------LSANITILSILLLLFLFF 211
Query: 256 LIV---VYFQGFKVVLPVRS-----KNARGQQGAY-PIKLFYTSNMPIILQSALVSNLYF 306
+ + ++ Q +P+ S K++R +Y P++L MPII SAL+ +
Sbjct: 212 ITLIGIIFLQEAIRKIPLISAKQLGKSSRLASNSYLPLRLNQAGVMPIIFASALLVLPGY 271
Query: 307 ISQLLY 312
++ +L
Sbjct: 272 LTNILL 277
>gnl|CDD|238504 cd01031, EriC, ClC chloride channel EriC. This domain is found in
the EriC chloride transporters that mediate the extreme
acid resistance response in eubacteria and archaea. This
response allows bacteria to survive in the acidic
environments by decarboxylation-linked proton
utilization. As shown for Escherichia coli EriC, these
channels can counterbalance the electric current
produced by the outwardly directed virtual proton pump
linked to amino acid decarboxylation. The EriC proteins
belong to the ClC superfamily of chloride ion channels,
which share a unique double-barreled architecture and
voltage-dependent gating mechanism. The
voltage-dependent gating is conferred by the permeating
anion itself, acting as the gating charge. In
Escherichia coli EriC, a glutamate residue that
protrudes into the pore is thought to participate in
gating by binding to a Cl- ion site within the
selectivity filter.
Length = 402
Score = 31.4 bits (72), Expect = 0.86
Identities = 17/53 (32%), Positives = 24/53 (45%), Gaps = 3/53 (5%)
Query: 214 GAVIALFHLLITKQNKVGALREAFYRQNLPNITNLLATVLVFLIVVYFQGFKV 266
G V LF L I +K+G LR + Y N LL L+ ++ G+ V
Sbjct: 6 GLVAVLFRLGI---DKLGNLRLSLYDFAANNPPLLLVLPLISAVLGLLAGWLV 55
>gnl|CDD|239508 cd03415, CbiX_CbiC, Archaeal sirohydrochlorin cobalt chelatase
(CbiX) single domain. Proteins in this subgroup contain
a single CbiX domain N-terminal to a precorrin-8X
methylmutase (CbiC) domain. CbiX is a cobaltochelatase,
responsible for the chelation of Co2+ into
sirohydrochlorin, while CbiC catalyzes the conversion of
cobalt-precorrin 8 to cobyrinic acid by methyl
rearrangement. Both CbiX and CbiC are involved in
vitamin B12 biosynthesis.
Length = 125
Score = 29.8 bits (67), Expect = 1.0
Identities = 18/51 (35%), Positives = 23/51 (45%), Gaps = 8/51 (15%)
Query: 317 GNFFVNLLGKWKESEYSGHSIPVGGLAYYVTAPASLADMAANPFHALFYLV 367
G V+ KW S+Y G I V YVT P + + + ALFY V
Sbjct: 80 GELGVSRFYKWVMSKYGGKEILV-----YVTEPLADSPLVKL---ALFYRV 122
>gnl|CDD|233857 TIGR02412, pepN_strep_liv, aminopeptidase N, Streptomyces lividans
type. This family is a subset of the members of the
zinc metallopeptidase family M1 (pfam01433), with a
single member characterized in Streptomyces lividans 66
and designated aminopeptidase N. The spectrum of
activity may differ somewhat from the aminopeptidase N
clade of E. coli and most other Proteobacteria, well
separated phylogenetically within the M1 family. The M1
family also includes leukotriene A-4
hydrolase/aminopeptidase (with a bifunctional active
site).
Length = 831
Score = 30.9 bits (70), Expect = 1.5
Identities = 15/46 (32%), Positives = 21/46 (45%), Gaps = 1/46 (2%)
Query: 285 KLFYTSNMPIILQSALVSNLYFISQ-LLYRKYSGNFFVNLLGKWKE 329
KL T +P Q A++ + Q LL Y+ +F NL WK
Sbjct: 725 KLVTTDALPNSKQRAIIEGFWQPEQALLLAAYAERYFANLADIWKR 770
>gnl|CDD|131966 TIGR02920, acc_sec_Y2, accessory Sec system translocase SecY2.
Members of this family are restricted to the Firmicutes
lineage (low-GC Gram-positive bacteria) and appear to be
paralogous to, and much more divergent than, the
preprotein translocase SecY. Members include the SecY2
protein of the accessory Sec system in Streptococcus
gordonii, involved in export of the highly glycosylated
platelet-binding protein GspB [Protein fate, Protein and
peptide secretion and trafficking].
Length = 395
Score = 30.5 bits (69), Expect = 1.9
Identities = 38/174 (21%), Positives = 84/174 (48%), Gaps = 21/174 (12%)
Query: 33 KVIYTVISLFIFLVCSQLPLYGIHSTT-----GADPFYWMRVILASNRG------TVMEL 81
K+++T L I+++ S +P+ + + + F+ I +N G ++ L
Sbjct: 5 KILFTCFILIIYVLGSYIPIPFVEVSKQDMEGVKNSFF---KIAIANTGGNLTTLSIFSL 61
Query: 82 GITPIVTSGLVMQLLAGSKIIEVDNNVREDRALLNGAQKLLGILIAIGEAVAYVMSGMYG 141
G+ P +TS +++QL + +K D +++ ++ L ++IAI + +A + S +
Sbjct: 62 GLGPWMTSMIILQLFSFTKSDGFDAQSPKEQQYR---ERFLTLIIAIIQGLAIIHS--FT 116
Query: 142 SVSQLGAGNAILIILQLCFAGIIVICLDELLQKGYGLGSGISLFIATNICESII 195
+ + L N +L L L +++ L +L K YG+G G + ++ ++I
Sbjct: 117 NKNGLSDFNMLLATLILVTGTCLLVWLADLNAK-YGIG-GSMPIVLVSMLKNIP 168
>gnl|CDD|227244 COG4907, COG4907, Predicted membrane protein [Function unknown].
Length = 595
Score = 29.9 bits (67), Expect = 2.9
Identities = 9/52 (17%), Positives = 24/52 (46%), Gaps = 1/52 (1%)
Query: 20 EVQSADRKIPFREKVIYTVISLFIFLVCSQLPLYGIHSTTGADPFYWMRVIL 71
E + A R+ + + ++ + P++ I+ + GA+ Y++ V+
Sbjct: 239 EARLAYEANEERDNALRRLENIQKLSDLA-FPIFIIYLSIGAELMYYIHVVF 289
>gnl|CDD|211958 TIGR04235, seadorna_VP4, seadornavirus VP4 protein. This protein
family occurs in the seadornavirus virus group, with
designation VP4 in Banna virus, Kadipiro virus, and Liao
ning virus. Although this family has been suggested to
resemble methyltransferases, members show apparent
N-terminal sequence similarity to the outer capsid
protein VP5 of the orbivirus group, such as bluetongue
virus, which also belong to the Reoviridae.
Length = 618
Score = 29.9 bits (67), Expect = 2.9
Identities = 21/94 (22%), Positives = 39/94 (41%), Gaps = 14/94 (14%)
Query: 52 LYGIHSTTGADPFYWMRVILASNR---------GTVMELGITP-IVTSGLVMQLLAGSKI 101
LY IH G+ + V + + GT+ G I++ G L G+++
Sbjct: 279 LYVIHPVQGS---LGLVVQMMGDALSYNVFAQYGTLDSSGFGKTILSGGATNTALEGTRV 335
Query: 102 IEVDNNVREDRAL-LNGAQKLLGILIAIGEAVAY 134
++ V +AL + A + +++ GE V Y
Sbjct: 336 VKFQTKVTAQQALAMTMALQSAVSMLSQGELVGY 369
>gnl|CDD|131533 TIGR02480, fliN, flagellar motor switch protein FliN. Proteins
that consist largely of the domain described by This
model for this protein family can be designated
flagellar motor switch protein FliN. Longer proteins in
which this region is a C-terminal domain typically are
designated FliY. More distantly related sequences,
outside the scope of this family, are associated with
type III secretion and include the surface presentation
of antigens protein SpaO required or invasion of host
cells by Salmonella enterica [Cellular processes,
Chemotaxis and motility].
Length = 77
Score = 27.2 bits (61), Expect = 4.0
Identities = 25/63 (39%), Positives = 33/63 (52%), Gaps = 11/63 (17%)
Query: 80 ELGITPIVTSGLVMQLLAGSKIIEVDNNVRED-RALLNGAQKLLGILIAIGEAVAYVMSG 138
ELG T I T G +++L GS +IE+D E L+NG LIA GE V V+
Sbjct: 15 ELGRTRI-TLGDLLKLGEGS-VIELDKLAGEPLDILVNGR------LIARGEVV--VVED 64
Query: 139 MYG 141
+G
Sbjct: 65 KFG 67
>gnl|CDD|218073 pfam04412, DUF521, Protein of unknown function (DUF521). Family of
hypothetical proteins.
Length = 397
Score = 29.1 bits (66), Expect = 4.1
Identities = 11/29 (37%), Positives = 17/29 (58%), Gaps = 5/29 (17%)
Query: 109 REDRALLNG-----AQKLLGILIAIGEAV 132
E+ A+L+G QK + IL+A+GE
Sbjct: 5 DEEEAMLDGEYGEAVQKAMEILVALGEIY 33
>gnl|CDD|99861 cd06108, Ec2MCS_like, Escherichia coli (Ec) 2-methylcitrate
synthase (2MCS)_like. 2MCS catalyzes the condensation of
propionyl-coenzyme A (PrCoA) and oxalacetate (OAA) to
form 2-methylcitrate and coenzyme A (CoA) during
propionate metabolism. Citrate synthase (CS) catalyzes
the condensation of acetyl coenzyme A (AcCoA) and OAA to
form citrate and coenzyme A (CoA), the first step in the
citric acid cycle (TCA or Krebs cycle). This group
contains proteins similar to the E. coli 2MCS, EcPrpC.
EcPrpC is one of two CS isozymes in the gram-negative E.
coli. EcPrpC is a dimeric (type I ) CS; it is induced
during growth on propionate and prefers PrCoA as a
substrate though it has partial CS activity with AcCoA.
This group also includes Salmonella typhimurium PrpC and
Ralstonia eutropha (Re) 2-MCS1 which are also induced
during growth on propionate and prefer PrCoA as
substrate, but can also use AcCoA. Re 2-MCS1 can use
butyryl-CoA and valeryl-CoA at a lower rate. A second
Ralstonia eutropha 2MCS, Re 2-MCS2, which is induced on
propionate is also found in this group. This group may
include proteins which may function exclusively as a CS,
those which may function exclusively as a 2MCS, or those
with dual specificity which functions as both a CS and a
2MCS.
Length = 363
Score = 28.8 bits (65), Expect = 5.3
Identities = 13/51 (25%), Positives = 22/51 (43%), Gaps = 6/51 (11%)
Query: 369 MLTACALFSKTWIEVSGSSARDVAKQLKVYWSSLLCYFWSLFAGIRALHHG 419
M T C++ E S ++A +L + S+L Y W ++ H G
Sbjct: 91 MRTGCSMLGCLEPENEFSQQYEIAIRLLAIFPSILLY-WYHYS-----HSG 135
>gnl|CDD|227164 COG4827, COG4827, Predicted transporter [General function
prediction only].
Length = 239
Score = 28.6 bits (64), Expect = 6.1
Identities = 15/57 (26%), Positives = 20/57 (35%), Gaps = 1/57 (1%)
Query: 107 NVREDRALLNGAQKLLGILIAIGEAVAYVMSGMYGSVSQLGAGNAILIILQLCFAGI 163
+ AL A IL G A + +S G +L+ L L AGI
Sbjct: 34 GITTREALTIAASYGFLILAFGGLADHVSFD-AFERLSAYGLLIHVLLSLFLIGAGI 89
>gnl|CDD|183702 PRK12723, PRK12723, flagellar biosynthesis regulator FlhF;
Provisional.
Length = 388
Score = 28.7 bits (64), Expect = 6.2
Identities = 10/20 (50%), Positives = 14/20 (70%)
Query: 375 LFSKTWIEVSGSSARDVAKQ 394
LFS+ W+EVSG D+ +Q
Sbjct: 43 LFSRDWVEVSGYVRYDIGQQ 62
>gnl|CDD|235605 PRK05782, PRK05782, bifunctional sirohydrochlorin cobalt
chelatase/precorrin-8X methylmutase; Validated.
Length = 335
Score = 28.6 bits (64), Expect = 6.9
Identities = 15/51 (29%), Positives = 22/51 (43%), Gaps = 8/51 (15%)
Query: 317 GNFFVNLLGKWKESEYSGHSIPVGGLAYYVTAPASLADMAANPFHALFYLV 367
G V L W+ S+ SG + YVT P S + + AL+Y +
Sbjct: 86 GELGVQRLNSWEVSKISGKEVEF-----YVTEPLSDSPLVGL---ALYYRL 128
>gnl|CDD|100054 cd04649, LbH_THP_succinylT_putative, Putative
2,3,4,5-tetrahydropyridine-2,6-dicarboxylate (THDP)
N-succinyltransferase (THP succinyltransferase),
C-terminal left-handed parallel alpha-helix (LbH)
domain: This group is composed of mostly uncharacterized
proteins containing an N-terminal domain of unknown
function and a C-terminal LbH domain with similarity to
THP succinyltransferase LbH. THP succinyltransferase
catalyzes the conversion of tetrahydrodipicolinate and
succinyl-CoA to N-succinyltetrahydrodipicolinate and
CoA. It is the committed step in the succinylase pathway
by which bacteria synthesize L-lysine and
meso-diaminopimelate, a component of peptidoglycan. The
enzyme is trimeric and displays the left-handed parallel
alpha-helix (LbH) structural motif encoded by the
hexapeptide repeat motif.
Length = 147
Score = 27.4 bits (61), Expect = 9.4
Identities = 20/59 (33%), Positives = 29/59 (49%), Gaps = 6/59 (10%)
Query: 68 RVILASNRGTVMELGITPIVTSGLVMQLLAGSKIIEVDNNVREDRAL----LNGAQKLL 122
R +L +N G + LG IV +GL + AG+K+ DN E + L+G LL
Sbjct: 79 RCLLGANSGIGISLGDNCIVEAGLY--VTAGTKVTLPDNEEFEKNVVKARELSGKNGLL 135
>gnl|CDD|216018 pfam00606, Glycoprotein_B, Herpesvirus Glycoprotein B. This family
of proteins contains a transmembrane region.
Length = 711
Score = 28.3 bits (64), Expect = 9.8
Identities = 25/76 (32%), Positives = 38/76 (50%), Gaps = 14/76 (18%)
Query: 100 KIIEVDNNVREDRALLNGAQKLLGILIAIGEAVAYVMSGMYGSVSQLGAG------N--- 150
K I+ DN A + G L A+G+AV V+SG+ G+V + +G N
Sbjct: 611 KDIDNDNR----PAFVRGLDDFFQGLGAVGKAVGNVVSGVAGAVGSIVSGVVSFLKNPFG 666
Query: 151 AILIILQLCFAGIIVI 166
+LIIL L AG++ +
Sbjct: 667 GLLIIL-LVLAGLVAV 681
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
0.327 0.141 0.426
Gapped
Lambda K H
0.267 0.0698 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 21,834,688
Number of extensions: 2181304
Number of successful extensions: 2881
Number of sequences better than 10.0: 1
Number of HSP's gapped: 2829
Number of HSP's successfully gapped: 81
Length of query: 419
Length of database: 10,937,602
Length adjustment: 99
Effective length of query: 320
Effective length of database: 6,546,556
Effective search space: 2094897920
Effective search space used: 2094897920
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 15 ( 7.1 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.7 bits)
S2: 60 (27.0 bits)