RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy2671
(573 letters)
>gnl|CDD|238121 cd00200, WD40, WD40 domain, found in a number of eukaryotic
proteins that cover a wide variety of functions
including adaptor/regulatory modules in signal
transduction, pre-mRNA processing and cytoskeleton
assembly; typically contains a GH dipeptide 11-24
residues from its N-terminus and the WD dipeptide at its
C-terminus and is 40 residues long, hence the name WD40;
between GH and WD lies a conserved core; serves as a
stable propeller-like platform to which proteins can
bind either stably or reversibly; forms a propeller-like
structure with several blades where each blade is
composed of a four-stranded anti-parallel b-sheet;
instances with few detectable copies are hypothesized to
form larger structures by dimerization; each WD40
sequence repeat forms the first three strands of one
blade and the last strand in the next blade; the last
C-terminal WD40 repeat completes the blade structure of
the first WD40 repeat to create the closed ring
propeller-structure; residues on the top and bottom
surface of the propeller are proposed to coordinate
interactions with other proteins and/or small ligands; 7
copies of the repeat are present in this alignment.
Length = 289
Score = 252 bits (645), Expect = 9e-80
Identities = 114/333 (34%), Positives = 170/333 (51%), Gaps = 45/333 (13%)
Query: 199 CTSSMPGHAEAVISVKFSPNGRSLASGSGDTTVRFWDVTTQTPLFKCEGHKHWVLCIAWS 258
++ GH V V FSP+G+ LA+GSGD T++ WD+ T L +GH V +A S
Sbjct: 1 LRRTLKGHTGGVTCVAFSPDGKLLATGSGDGTIKVWDLETGELLRTLKGHTGPVRDVAAS 60
Query: 259 PDSKQLVSGCKNGVIHAWDSSTGKQIGQPMRGHKQWITALSWEPFHLNHQCRRFASSGKD 318
D L SG + I WD TG+ + + GH +++++++ + R +SS +D
Sbjct: 61 ADGTYLASGSSDKTIRLWDLETGECVRT-LTGHTSYVSSVAF-----SPDGRILSSSSRD 114
Query: 319 GAIRIWDVILSQCVRVLTSHTRSVTCIRWGGSG-LIYSASQDRTIKVWRASDGVMCRTLE 377
I++WDV +C+ L HT V + + G + S+SQD TIK+W G TL
Sbjct: 115 KTIKVWDVETGKCLTTLRGHTDWVNSVAFSPDGTFVASSSQDGTIKLWDLRTGKCVATLT 174
Query: 378 GHAHWVNTLALSTDYLMRVEATSTGGFKYDPANPEESSKHALAKYQAQCPEGEKLVSGSD 437
GH VN++A S P+GEKL+S S
Sbjct: 175 GHTGEVNSVAFS-------------------------------------PDGEKLLSSSS 197
Query: 438 DFTLFLWNPEKEKKSLARMTGHQQLINCVEFSPDGRIIASASFDKSIKLWDGRIGKFITT 497
D T+ LW+ K L + GH+ +N V FSPDG ++AS S D +I++WD R G+ + T
Sbjct: 198 DGTIKLWDL-STGKCLGTLRGHENGVNSVAFSPDGYLLASGSEDGTIRVWDLRTGECVQT 256
Query: 498 LRGHVQAVYMVAWSSDSRLLVSGSADSTLKVWN 530
L GH +V +AWS D + L SGSAD T+++W+
Sbjct: 257 LSGHTNSVTSLAWSPDGKRLASGSADGTIRIWD 289
Score = 248 bits (635), Expect = 2e-78
Identities = 119/328 (36%), Positives = 170/328 (51%), Gaps = 45/328 (13%)
Query: 246 EGHKHWVLCIAWSPDSKQLVSGCKNGVIHAWDSSTGKQIGQPMRGHKQWITALSWEPFHL 305
+GH V C+A+SPD K L +G +G I WD TG+ + ++GH + ++
Sbjct: 6 KGHTGGVTCVAFSPDGKLLATGSGDGTIKVWDLETGELLRT-LKGHTGPVRDVAASADG- 63
Query: 306 NHQCRRFASSGKDGAIRIWDVILSQCVRVLTSHTRSVTCIRWGGSG-LIYSASQDRTIKV 364
AS D IR+WD+ +CVR LT HT V+ + + G ++ S+S+D+TIKV
Sbjct: 64 ----TYLASGSSDKTIRLWDLETGECVRTLTGHTSYVSSVAFSPDGRILSSSSRDKTIKV 119
Query: 365 WRASDGVMCRTLEGHAHWVNTLALSTDYLMRVEATSTGGFKYDPANPEESSKHALAKYQA 424
W G TL GH WVN++A S D G F
Sbjct: 120 WDVETGKCLTTLRGHTDWVNSVAFSPD----------GTF-------------------- 149
Query: 425 QCPEGEKLVSGSDDFTLFLWNPEKEKKSLARMTGHQQLINCVEFSPDGRIIASASFDKSI 484
+ S S D T+ LW+ K +A +TGH +N V FSPDG + S+S D +I
Sbjct: 150 -------VASSSQDGTIKLWDLRTGK-CVATLTGHTGEVNSVAFSPDGEKLLSSSSDGTI 201
Query: 485 KLWDGRIGKFITTLRGHVQAVYMVAWSSDSRLLVSGSADSTLKVWNMKTKKIEQDLPGHG 544
KLWD GK + TLRGH V VA+S D LL SGS D T++VW+++T + Q L GH
Sbjct: 202 KLWDLSTGKCLGTLRGHENGVNSVAFSPDGYLLASGSEDGTIRVWDLRTGECVQTLSGHT 261
Query: 545 DEVYAVDWAPDGEKVASGGKDKVLRLWQ 572
+ V ++ W+PDG+++ASG D +R+W
Sbjct: 262 NSVTSLAWSPDGKRLASGSADGTIRIWD 289
Score = 196 bits (499), Expect = 3e-58
Identities = 88/242 (36%), Positives = 122/242 (50%), Gaps = 39/242 (16%)
Query: 331 CVRVLTSHTRSVTCIRW-GGSGLIYSASQDRTIKVWRASDGVMCRTLEGHAHWVNTLALS 389
R L HT VTC+ + L+ + S D TIKVW G + RTL+GH V +A
Sbjct: 1 LRRTLKGHTGGVTCVAFSPDGKLLATGSGDGTIKVWDLETGELLRTLKGHTGPVRDVA-- 58
Query: 390 TDYLMRVEATSTGGFKYDPANPEESSKHALAKYQAQCPEGEKLVSGSDDFTLFLWNPEKE 449
+G L SGS D T+ LW+ E
Sbjct: 59 -----------------------------------ASADGTYLASGSSDKTIRLWDLETG 83
Query: 450 KKSLARMTGHQQLINCVEFSPDGRIIASASFDKSIKLWDGRIGKFITTLRGHVQAVYMVA 509
+ + +TGH ++ V FSPDGRI++S+S DK+IK+WD GK +TTLRGH V VA
Sbjct: 84 EC-VRTLTGHTSYVSSVAFSPDGRILSSSSRDKTIKVWDVETGKCLTTLRGHTDWVNSVA 142
Query: 510 WSSDSRLLVSGSADSTLKVWNMKTKKIEQDLPGHGDEVYAVDWAPDGEKVASGGKDKVLR 569
+S D + S S D T+K+W+++T K L GH EV +V ++PDGEK+ S D ++
Sbjct: 143 FSPDGTFVASSSQDGTIKLWDLRTGKCVATLTGHTGEVNSVAFSPDGEKLLSSSSDGTIK 202
Query: 570 LW 571
LW
Sbjct: 203 LW 204
Score = 175 bits (446), Expect = 1e-50
Identities = 89/262 (33%), Positives = 132/262 (50%), Gaps = 24/262 (9%)
Query: 108 GHAEAVISVKFSPNGRSLASGSGDTTVRFWDVTTQTPLFKCEG-TPYLFYVNETEITKTL 166
GH V V S +G LASGS D T+R WD+ T + G T Y+ V
Sbjct: 49 GHTGPVRDVAASADGTYLASGSSDKTIRLWDLETGECVRTLTGHTSYVSSV--------- 99
Query: 167 ADVLPLDTLNTEEVVDIVYQKQA-VFQVRPVTRCTSSMPGHAEAVISVKFSPNGRSLASG 225
P + + K V+ V +C +++ GH + V SV FSP+G +AS
Sbjct: 100 -AFSPDGRI----LSSSSRDKTIKVWDVET-GKCLTTLRGHTDWVNSVAFSPDGTFVASS 153
Query: 226 SGDTTVRFWDVTTQTPLFKCEGHKHWVLCIAWSPDSKQLVSGCKNGVIHAWDSSTGKQIG 285
S D T++ WD+ T + GH V +A+SPD ++L+S +G I WD STGK +G
Sbjct: 154 SQDGTIKLWDLRTGKCVATLTGHTGEVNSVAFSPDGEKLLSSSSDGTIKLWDLSTGKCLG 213
Query: 286 QPMRGHKQWITALSWEPFHLNHQCRRFASSGKDGAIRIWDVILSQCVRVLTSHTRSVTCI 345
+RGH+ + ++++ P AS +DG IR+WD+ +CV+ L+ HT SVT +
Sbjct: 214 T-LRGHENGVNSVAFSPDGYL-----LASGSEDGTIRVWDLRTGECVQTLSGHTNSVTSL 267
Query: 346 RWGGSG-LIYSASQDRTIKVWR 366
W G + S S D TI++W
Sbjct: 268 AWSPDGKRLASGSADGTIRIWD 289
Score = 108 bits (272), Expect = 3e-26
Identities = 61/177 (34%), Positives = 90/177 (50%), Gaps = 13/177 (7%)
Query: 101 RCTSSMPGHAEAVISVKFSPNGRSLASGSGDTTVRFWDVTTQTPLFKCEGTPYLFYVNET 160
+C +++ GH + V SV FSP+G +AS S D T++ WD+ T + G + VN
Sbjct: 126 KCLTTLRGHTDWVNSVAFSPDGTFVASSSQDGTIKLWDLRTGKCVATLTG--HTGEVNSV 183
Query: 161 EITKTLADVLPLDTLNTEEVVDIVYQKQAVFQVRPVTRCTSSMPGHAEAVISVKFSPNGR 220
+ +L + T ++ D+ +C ++ GH V SV FSP+G
Sbjct: 184 AFSPDGEKLLSSSSDGTIKLWDL-----------STGKCLGTLRGHENGVNSVAFSPDGY 232
Query: 221 SLASGSGDTTVRFWDVTTQTPLFKCEGHKHWVLCIAWSPDSKQLVSGCKNGVIHAWD 277
LASGS D T+R WD+ T + GH + V +AWSPD K+L SG +G I WD
Sbjct: 233 LLASGSEDGTIRVWDLRTGECVQTLSGHTNSVTSLAWSPDGKRLASGSADGTIRIWD 289
>gnl|CDD|225201 COG2319, COG2319, FOG: WD40 repeat [General function prediction
only].
Length = 466
Score = 188 bits (478), Expect = 2e-53
Identities = 138/472 (29%), Positives = 224/472 (47%), Gaps = 73/472 (15%)
Query: 103 TSSMPGHAEAVISVKFSPNGRSLASGSGDTTVRFWDVTTQTPLFKCEGTPYLFYVNETEI 162
+ + GH +++ S+ FSP+G L SGS D T++ WD+ L K + V+ ++
Sbjct: 58 SLLLRGHEDSITSIAFSPDGELLLSGSSDGTIKLWDLDNGEKLIKSLEGLHDSSVS--KL 115
Query: 163 TKTLADVLPLDTLNTEEVVDIVYQKQAVFQVRPVTRCTSSMPGHAEAVISVKFSPNGRSL 222
+ D + ++ + ++ + + ++ GH+E+V S+ FSP+G+ L
Sbjct: 116 ALSSPDGNSILLASSSLDGTVK-----LWDLSTPGKLIRTLEGHSESVTSLAFSPDGKLL 170
Query: 223 ASGSG-DTTVRFWDVTTQTPLFKCEGHKHWVLCIAWSPDSK-QLVSGCKNGVIHAWDSST 280
ASGS D T++ WD+ T PL GH V +A+SPD + SG +G I WD ST
Sbjct: 171 ASGSSLDGTIKLWDLRTGKPLSTLAGHTDPVSSLAFSPDGGLLIASGSSDGTIRLWDLST 230
Query: 281 GKQIGQPMRGH-KQWITALSWEPFHLNHQCRRFASSGKDGAIRIWDV-ILSQCVRVLTSH 338
GK + + GH +++ S + AS DG IR+WD+ S +R L+ H
Sbjct: 231 GKLLRSTLSGHSDSVVSSFSPDG-------SLLASGSSDGTIRLWDLRSSSSLLRTLSGH 283
Query: 339 TRSVTCIRWGGSG-LIYSASQDRTIKVWRASDG--VMCRTLEGHAHWVNTLALSTDYLMR 395
+ SV + + G L+ S S D T+++W G + TL+GH V++L+ S
Sbjct: 284 SSSVLSVAFSPDGKLLASGSSDGTVRLWDLETGKLLSSLTLKGHEGPVSSLSFS------ 337
Query: 396 VEATSTGGFKYDPANPEESSKHALAKYQAQCPEGEKLVSG-SDDFTLFLWNPEKEKKSLA 454
P+G LVSG SDD T+ LW+ K
Sbjct: 338 -------------------------------PDGSLLVSGGSDDGTIRLWDLRTGKPLK- 365
Query: 455 RMTGHQQLINCVEFSPDGRIIASASFDKSIKLWDGRIGKFITTLRGHVQAVYMVAWSSDS 514
+ V FSPDGR+++S S D +++LWD G + L GH V + +S D
Sbjct: 366 -TLEGHSNVLSVSFSPDGRVVSSGSTDGTVRLWDLSTGSLLRNLDGHTSRVTSLDFSPDG 424
Query: 515 RLLVSGSADSTLKVWNMKTKKIEQDLPGHGDEVYAVDWAPDGEKVASGGKDK 566
+ L SGS+D+T+++W++KT + +V ++PDG+ +AS D
Sbjct: 425 KSLASGSSDNTIRLWDLKTS------------LKSVSFSPDGKVLASKSSDL 464
Score = 186 bits (473), Expect = 8e-53
Identities = 119/383 (31%), Positives = 187/383 (48%), Gaps = 54/383 (14%)
Query: 200 TSSMPGHAEAVISVKFSPNGRSLASGSGDTTVRFWDVTTQTPLFK--CEGHKHWVLCIAW 257
+ + GH +++ S+ FSP+G L SGS D T++ WD+ L K H V +A
Sbjct: 58 SLLLRGHEDSITSIAFSPDGELLLSGSSDGTIKLWDLDNGEKLIKSLEGLHDSSVSKLAL 117
Query: 258 -SPDSKQLVSGCK--NGVIHAWDSSTGKQIGQPMRGHKQWITALSWEPFHLNHQCRRFAS 314
SPD ++ +G + WD ST ++ + + GH + +T+L++ P +
Sbjct: 118 SSPDGNSILLASSSLDGTVKLWDLSTPGKLIRTLEGHSESVTSLAFSPDGKLL----ASG 173
Query: 315 SGKDGAIRIWDVILSQCVRVLTSHTRSVTCIRWGGSG--LIYSASQDRTIKVWRASDGVM 372
S DG I++WD+ + + L HT V+ + + G LI S S D TI++W S G +
Sbjct: 174 SSLDGTIKLWDLRTGKPLSTLAGHTDPVSSLAFSPDGGLLIASGSSDGTIRLWDLSTGKL 233
Query: 373 CR-TLEGHAHWVNTLALSTDYLMRVEATSTGGFKYDPANPEESSKHALAKYQAQCPEGEK 431
R TL GH+ V + P+G
Sbjct: 234 LRSTLSGHSDSVVSSF--------------------------------------SPDGSL 255
Query: 432 LVSGSDDFTLFLWNPEKEKKSLARMTGHQQLINCVEFSPDGRIIASASFDKSIKLWDGRI 491
L SGS D T+ LW+ L ++GH + V FSPDG+++AS S D +++LWD
Sbjct: 256 LASGSSDGTIRLWDLRSSSSLLRTLSGHSSSVLSVAFSPDGKLLASGSSDGTVRLWDLET 315
Query: 492 GKFI--TTLRGHVQAVYMVAWSSD-SRLLVSGSADSTLKVWNMKTKKIEQDLPGHGDEVY 548
GK + TL+GH V +++S D S L+ GS D T+++W+++T K + L GH V
Sbjct: 316 GKLLSSLTLKGHEGPVSSLSFSPDGSLLVSGGSDDGTIRLWDLRTGKPLKTLEGH-SNVL 374
Query: 549 AVDWAPDGEKVASGGKDKVLRLW 571
+V ++PDG V+SG D +RLW
Sbjct: 375 SVSFSPDGRVVSSGSTDGTVRLW 397
Score = 139 bits (349), Expect = 1e-35
Identities = 114/397 (28%), Positives = 186/397 (46%), Gaps = 73/397 (18%)
Query: 93 VFQVRPVTRCTSSMPGHAEAVISVKFSPNGRSLASGSG-DTTVRFWDVTTQTPLFKCEG- 150
++ + + ++ GH+E+V S+ FSP+G+ LASGS D T++ WD+ T PL G
Sbjct: 138 LWDLSTPGKLIRTLEGHSESVTSLAFSPDGKLLASGSSLDGTIKLWDLRTGKPLSTLAGH 197
Query: 151 TPYLFYVNETEITKTLADVLPLDTLNTEEVVDIVYQKQAVFQVRPVTRCTSSMPGHAEAV 210
T + + + L D ++ + S++ GH+++V
Sbjct: 198 TDPVSSLAFSPDGGLLIASGSSDGTIR------------LWDLSTGKLLRSTLSGHSDSV 245
Query: 211 ISVKFSPNGRSLASGSGDTTVRFWDV-TTQTPLFKCEGHKHWVLCIAWSPDSKQLVSGCK 269
+S FSP+G LASGS D T+R WD+ ++ + L GH VL +A+SPD K L SG
Sbjct: 246 VSS-FSPDGSLLASGSSDGTIRLWDLRSSSSLLRTLSGHSSSVLSVAFSPDGKLLASGSS 304
Query: 270 NGVIHAWDSSTGKQIGQ-PMRGHKQWITALSWEPFHLNHQCRRFASSGKDGAIRIWDVIL 328
+G + WD TGK + ++GH+ +++LS+ P + DG IR+WD+
Sbjct: 305 DGTVRLWDLETGKLLSSLTLKGHEGPVSSLSFSP----DGSLLVSGGSDDGTIRLWDLRT 360
Query: 329 SQCVRVLTSHTRSVTCIRWGGSGLIYS-ASQDRTIKVWRASDGVMCRTLEGHAHWVNTLA 387
+ ++ L H+ +V + + G + S S D T+++W S G + R L+GH V +L
Sbjct: 361 GKPLKTLEGHS-NVLSVSFSPDGRVVSSGSTDGTVRLWDLSTGSLLRNLDGHTSRVTSLD 419
Query: 388 LSTDYLMRVEATSTGGFKYDPANPEESSKHALAKYQAQCPEGEKLVSGSDDFTLFLWNPE 447
S P+G+ L SGS D T+ LW+ +
Sbjct: 420 FS-------------------------------------PDGKSLASGSSDNTIRLWDLK 442
Query: 448 KEKKSLARMTGHQQLINCVEFSPDGRIIASASFDKSI 484
KS++ FSPDG+++AS S D S+
Sbjct: 443 TSLKSVS-------------FSPDGKVLASKSSDLSV 466
>gnl|CDD|219730 pfam08154, NLE, NLE (NUC135) domain. This domain is located N
terminal to WD40 repeats. It is found in the
microtubule-associated yeast protein YTM1.
Length = 64
Score = 65.2 bits (160), Expect = 1e-13
Identities = 19/64 (29%), Positives = 37/64 (57%), Gaps = 2/64 (3%)
Query: 12 RILTRFKSDDG--EVAGDLLDLPLNVNTEHLSLIVNSLLQQDEGTPYLFYVNETEITKTL 69
++ +F +++G EV G +P N+ + LS ++N LL+ +E P+ F +N E+ +L
Sbjct: 1 QVQVQFVTEEGDYEVPGTPFLVPTNLTRDGLSELLNQLLENEEPVPFDFLINGEELRTSL 60
Query: 70 ADVL 73
+ L
Sbjct: 61 DEYL 64
Score = 29.4 bits (67), Expect = 0.70
Identities = 7/22 (31%), Positives = 12/22 (54%)
Query: 149 EGTPYLFYVNETEITKTLADVL 170
E P+ F +N E+ +L + L
Sbjct: 43 EPVPFDFLINGEELRTSLDEYL 64
>gnl|CDD|201208 pfam00400, WD40, WD domain, G-beta repeat.
Length = 39
Score = 51.6 bits (124), Expect = 6e-09
Identities = 16/39 (41%), Positives = 24/39 (61%)
Query: 450 KKSLARMTGHQQLINCVEFSPDGRIIASASFDKSIKLWD 488
K L + GH + V FSPDG ++AS S D ++++WD
Sbjct: 1 GKLLRTLKGHTGPVTSVAFSPDGNLLASGSDDGTVRVWD 39
Score = 50.8 bits (122), Expect = 9e-09
Identities = 20/39 (51%), Positives = 26/39 (66%)
Query: 492 GKFITTLRGHVQAVYMVAWSSDSRLLVSGSADSTLKVWN 530
GK + TL+GH V VA+S D LL SGS D T++VW+
Sbjct: 1 GKLLRTLKGHTGPVTSVAFSPDGNLLASGSDDGTVRVWD 39
Score = 48.9 bits (117), Expect = 4e-08
Identities = 14/38 (36%), Positives = 19/38 (50%)
Query: 240 TPLFKCEGHKHWVLCIAWSPDSKQLVSGCKNGVIHAWD 277
L +GH V +A+SPD L SG +G + WD
Sbjct: 2 KLLRTLKGHTGPVTSVAFSPDGNLLASGSDDGTVRVWD 39
Score = 48.9 bits (117), Expect = 4e-08
Identities = 20/38 (52%), Positives = 24/38 (63%)
Query: 101 RCTSSMPGHAEAVISVKFSPNGRSLASGSGDTTVRFWD 138
+ ++ GH V SV FSP+G LASGS D TVR WD
Sbjct: 2 KLLRTLKGHTGPVTSVAFSPDGNLLASGSDDGTVRVWD 39
Score = 48.9 bits (117), Expect = 4e-08
Identities = 20/38 (52%), Positives = 24/38 (63%)
Query: 198 RCTSSMPGHAEAVISVKFSPNGRSLASGSGDTTVRFWD 235
+ ++ GH V SV FSP+G LASGS D TVR WD
Sbjct: 2 KLLRTLKGHTGPVTSVAFSPDGNLLASGSDDGTVRVWD 39
Score = 45.4 bits (108), Expect = 8e-07
Identities = 15/38 (39%), Positives = 23/38 (60%)
Query: 534 KKIEQDLPGHGDEVYAVDWAPDGEKVASGGKDKVLRLW 571
K+ + L GH V +V ++PDG +ASG D +R+W
Sbjct: 1 GKLLRTLKGHTGPVTSVAFSPDGNLLASGSDDGTVRVW 38
Score = 43.5 bits (103), Expect = 3e-06
Identities = 14/37 (37%), Positives = 21/37 (56%), Gaps = 1/37 (2%)
Query: 330 QCVRVLTSHTRSVTCIRWGGSG-LIYSASQDRTIKVW 365
+ +R L HT VT + + G L+ S S D T++VW
Sbjct: 2 KLLRTLKGHTGPVTSVAFSPDGNLLASGSDDGTVRVW 38
Score = 38.5 bits (90), Expect = 2e-04
Identities = 10/38 (26%), Positives = 20/38 (52%), Gaps = 5/38 (13%)
Query: 288 MRGHKQWITALSWEPFHLNHQCRRFASSGKDGAIRIWD 325
++GH +T++++ + AS DG +R+WD
Sbjct: 7 LKGHTGPVTSVAF-----SPDGNLLASGSDDGTVRVWD 39
Score = 27.7 bits (62), Expect = 1.6
Identities = 10/20 (50%), Positives = 14/20 (70%)
Query: 426 CPEGEKLVSGSDDFTLFLWN 445
P+G L SGSDD T+ +W+
Sbjct: 20 SPDGNLLASGSDDGTVRVWD 39
>gnl|CDD|197651 smart00320, WD40, WD40 repeats. Note that these repeats are
permuted with respect to the structural repeats (blades)
of the beta propeller domain.
Length = 40
Score = 51.5 bits (124), Expect = 6e-09
Identities = 18/39 (46%), Positives = 24/39 (61%)
Query: 450 KKSLARMTGHQQLINCVEFSPDGRIIASASFDKSIKLWD 488
+ L + GH + V FSPDG+ +AS S D +IKLWD
Sbjct: 2 GELLKTLKGHTGPVTSVAFSPDGKYLASGSDDGTIKLWD 40
Score = 50.8 bits (122), Expect = 1e-08
Identities = 18/39 (46%), Positives = 26/39 (66%)
Query: 492 GKFITTLRGHVQAVYMVAWSSDSRLLVSGSADSTLKVWN 530
G+ + TL+GH V VA+S D + L SGS D T+K+W+
Sbjct: 2 GELLKTLKGHTGPVTSVAFSPDGKYLASGSDDGTIKLWD 40
Score = 49.6 bits (119), Expect = 3e-08
Identities = 16/40 (40%), Positives = 21/40 (52%)
Query: 238 TQTPLFKCEGHKHWVLCIAWSPDSKQLVSGCKNGVIHAWD 277
+ L +GH V +A+SPD K L SG +G I WD
Sbjct: 1 SGELLKTLKGHTGPVTSVAFSPDGKYLASGSDDGTIKLWD 40
Score = 47.3 bits (113), Expect = 2e-07
Identities = 18/38 (47%), Positives = 24/38 (63%)
Query: 101 RCTSSMPGHAEAVISVKFSPNGRSLASGSGDTTVRFWD 138
++ GH V SV FSP+G+ LASGS D T++ WD
Sbjct: 3 ELLKTLKGHTGPVTSVAFSPDGKYLASGSDDGTIKLWD 40
Score = 47.3 bits (113), Expect = 2e-07
Identities = 18/38 (47%), Positives = 24/38 (63%)
Query: 198 RCTSSMPGHAEAVISVKFSPNGRSLASGSGDTTVRFWD 235
++ GH V SV FSP+G+ LASGS D T++ WD
Sbjct: 3 ELLKTLKGHTGPVTSVAFSPDGKYLASGSDDGTIKLWD 40
Score = 45.4 bits (108), Expect = 9e-07
Identities = 14/39 (35%), Positives = 25/39 (64%)
Query: 533 TKKIEQDLPGHGDEVYAVDWAPDGEKVASGGKDKVLRLW 571
+ ++ + L GH V +V ++PDG+ +ASG D ++LW
Sbjct: 1 SGELLKTLKGHTGPVTSVAFSPDGKYLASGSDDGTIKLW 39
Score = 43.8 bits (104), Expect = 2e-06
Identities = 13/37 (35%), Positives = 20/37 (54%), Gaps = 1/37 (2%)
Query: 330 QCVRVLTSHTRSVTCIRWGGSG-LIYSASQDRTIKVW 365
+ ++ L HT VT + + G + S S D TIK+W
Sbjct: 3 ELLKTLKGHTGPVTSVAFSPDGKYLASGSDDGTIKLW 39
Score = 38.1 bits (89), Expect = 3e-04
Identities = 10/38 (26%), Positives = 21/38 (55%), Gaps = 5/38 (13%)
Query: 288 MRGHKQWITALSWEPFHLNHQCRRFASSGKDGAIRIWD 325
++GH +T++++ + + AS DG I++WD
Sbjct: 8 LKGHTGPVTSVAF-----SPDGKYLASGSDDGTIKLWD 40
Score = 27.7 bits (62), Expect = 1.6
Identities = 11/20 (55%), Positives = 15/20 (75%)
Query: 426 CPEGEKLVSGSDDFTLFLWN 445
P+G+ L SGSDD T+ LW+
Sbjct: 21 SPDGKYLASGSDDGTIKLWD 40
>gnl|CDD|177776 PLN00181, PLN00181, protein SPA1-RELATED; Provisional.
Length = 793
Score = 57.0 bits (137), Expect = 2e-08
Identities = 44/180 (24%), Positives = 73/180 (40%), Gaps = 40/180 (22%)
Query: 311 RFASSGKDGAIRIWDVILSQCVRVLTSHTRSVTCIRWGGSG--LIYSASQDRTIKVWRAS 368
+ ASS +G +++WDV SQ V + H + V I + + L+ S S D ++K+W +
Sbjct: 547 QVASSNFEGVVQVWDVARSQLVTEMKEHEKRVWSIDYSSADPTLLASGSDDGSVKLWSIN 606
Query: 369 DGVMCRTLEGHAHWVNTLALSTDYLMRVEATSTGGFKYDPANPEESSKHALAKYQAQCPE 428
GV T++ +K + Q
Sbjct: 607 QGVSIGTIK-------------------------------------TKANICCVQFPSES 629
Query: 429 GEKLVSGSDDFTLFLWNPEKEKKSLARMTGHQQLINCVEFSPDGRIIASASFDKSIKLWD 488
G L GS D ++ ++ K L M GH + ++ V F D + S+S D ++KLWD
Sbjct: 630 GRSLAFGSADHKVYYYDLRNPKLPLCTMIGHSKTVSYVRFV-DSSTLVSSSTDNTLKLWD 688
Score = 49.3 bits (117), Expect = 5e-06
Identities = 37/102 (36%), Positives = 56/102 (54%), Gaps = 5/102 (4%)
Query: 432 LVSGSDDFTLFLWNPEKEKKSLARMTGHQQLINCVEFSPD-GRIIASASFDKSIKLWDGR 490
L SGSDD ++ LW+ + S+ + I CV+F + GR +A S D + +D R
Sbjct: 591 LASGSDDGSVKLWSIN-QGVSIGTIKTKAN-ICCVQFPSESGRSLAFGSADHKVYYYDLR 648
Query: 491 IGKF-ITTLRGHVQAVYMVAWSSDSRLLVSGSADSTLKVWNM 531
K + T+ GH + V V + DS LVS S D+TLK+W++
Sbjct: 649 NPKLPLCTMIGHSKTVSYVRFV-DSSTLVSSSTDNTLKLWDL 689
Score = 43.9 bits (103), Expect = 2e-04
Identities = 19/58 (32%), Positives = 39/58 (67%), Gaps = 1/58 (1%)
Query: 475 IASASFDKSIKLWDGRIGKFITTLRGHVQAVYMVAWSS-DSRLLVSGSADSTLKVWNM 531
+AS++F+ +++WD + +T ++ H + V+ + +SS D LL SGS D ++K+W++
Sbjct: 548 VASSNFEGVVQVWDVARSQLVTEMKEHEKRVWSIDYSSADPTLLASGSDDGSVKLWSI 605
Score = 42.8 bits (100), Expect = 4e-04
Identities = 35/122 (28%), Positives = 60/122 (49%), Gaps = 5/122 (4%)
Query: 453 LARMTGHQQLINCVEFSP-DGRIIASASFDKSIKLWDGRIGKFITTLRGHVQAVYMVAWS 511
+ M H++ + +++S D ++AS S D S+KLW G I T++ + V +
Sbjct: 568 VTEMKEHEKRVWSIDYSSADPTLLASGSDDGSVKLWSINQGVSIGTIKTKAN-ICCVQFP 626
Query: 512 SDS-RLLVSGSADSTLKVWNMKTKKIEQ-DLPGHGDEVYAVDWAPDGEKVASGGKDKVLR 569
S+S R L GSAD + ++++ K+ + GH V V + D + S D L+
Sbjct: 627 SESGRSLAFGSADHKVYYYDLRNPKLPLCTMIGHSKTVSYVRFV-DSSTLVSSSTDNTLK 685
Query: 570 LW 571
LW
Sbjct: 686 LW 687
Score = 40.8 bits (95), Expect = 0.002
Identities = 48/201 (23%), Positives = 85/201 (42%), Gaps = 19/201 (9%)
Query: 222 LASGSGDTTVRFWDVTTQTPLFKCEGHKHWVLCIAWSP-DSKQLVSGCKNGVIHAWDSST 280
+AS + + V+ WDV + + + H+ V I +S D L SG +G + W +
Sbjct: 548 VASSNFEGVVQVWDVARSQLVTEMKEHEKRVWSIDYSSADPTLLASGSDDGSVKLWSINQ 607
Query: 281 GKQIGQPMRGHKQWITALSWEPFHLNHQCRRFASSGKDGAIRIWDV---ILSQCVRVLTS 337
G IG K I + + + R A D + +D+ L C +
Sbjct: 608 GVSIGTIKT--KANICCVQFP----SESGRSLAFGSADHKVYYYDLRNPKLPLC--TMIG 659
Query: 338 HTRSVTCIRWGGSGLIYSASQDRTIKVWRASDGVM------CRTLEGHAHWVNTLALS-T 390
H+++V+ +R+ S + S+S D T+K+W S + + GH + N + LS +
Sbjct: 660 HSKTVSYVRFVDSSTLVSSSTDNTLKLWDLSMSISGINETPLHSFMGHTNVKNFVGLSVS 719
Query: 391 DYLMRVEATSTGGFKYDPANP 411
D + + + F Y A P
Sbjct: 720 DGYIATGSETNEVFVYHKAFP 740
Score = 37.0 bits (85), Expect = 0.032
Identities = 28/119 (23%), Positives = 57/119 (47%), Gaps = 9/119 (7%)
Query: 462 LINCVEFSPDGRIIASASFDKSIKLW-------DGRIGKFITTLRGHVQAVYMVAWSSDS 514
L+ + F DG A+A +K IK++ DGR + + + W+S
Sbjct: 485 LVCAIGFDRDGEFFATAGVNKKIKIFECESIIKDGRDIHYPVVELASRSKLSGICWNSYI 544
Query: 515 RLLVSGSA-DSTLKVWNMKTKKIEQDLPGHGDEVYAVDW-APDGEKVASGGKDKVLRLW 571
+ V+ S + ++VW++ ++ ++ H V+++D+ + D +ASG D ++LW
Sbjct: 545 KSQVASSNFEGVVQVWDVARSQLVTEMKEHEKRVWSIDYSSADPTLLASGSDDGSVKLW 603
Score = 35.8 bits (82), Expect = 0.064
Identities = 26/72 (36%), Positives = 37/72 (51%), Gaps = 3/72 (4%)
Query: 210 VISVKF-SPNGRSLASGSGDTTVRFWDV-TTQTPLFKCEGHKHWVLCIAWSPDSKQLVSG 267
+ V+F S +GRSLA GS D V ++D+ + PL GH V + + DS LVS
Sbjct: 620 ICCVQFPSESGRSLAFGSADHKVYYYDLRNPKLPLCTMIGHSKTVSYVRFV-DSSTLVSS 678
Query: 268 CKNGVIHAWDSS 279
+ + WD S
Sbjct: 679 STDNTLKLWDLS 690
Score = 30.1 bits (67), Expect = 4.4
Identities = 19/55 (34%), Positives = 29/55 (52%), Gaps = 9/55 (16%)
Query: 102 CTSSMPGHAEAVISVKFSPNGRSLASGSGDTTVRFWDVT------TQTPLFKCEG 150
CT M GH++ V V+F + +L S S D T++ WD++ +TPL G
Sbjct: 655 CT--MIGHSKTVSYVRFV-DSSTLVSSSTDNTLKLWDLSMSISGINETPLHSFMG 706
>gnl|CDD|173611 PTZ00421, PTZ00421, coronin; Provisional.
Length = 493
Score = 54.5 bits (131), Expect = 8e-08
Identities = 30/114 (26%), Positives = 53/114 (46%), Gaps = 7/114 (6%)
Query: 430 EKLVSGSDDFTLFLWN-PEKEKKS-----LARMTGHQQLINCVEFSPDGR-IIASASFDK 482
+KL + S+D T+ W PE+ + + GH + + V F P ++ASA D
Sbjct: 89 QKLFTASEDGTIMGWGIPEEGLTQNISDPIVHLQGHTKKVGIVSFHPSAMNVLASAGADM 148
Query: 483 SIKLWDGRIGKFITTLRGHVQAVYMVAWSSDSRLLVSGSADSTLKVWNMKTKKI 536
+ +WD GK + ++ H + + W+ D LL + S D L + + + I
Sbjct: 149 VVNVWDVERGKAVEVIKCHSDQITSLEWNLDGSLLCTTSKDKKLNIIDPRDGTI 202
Score = 49.5 bits (118), Expect = 3e-06
Identities = 35/143 (24%), Positives = 71/143 (49%), Gaps = 14/143 (9%)
Query: 247 GHKHWVLCIAWSP-DSKQLVSGCKNGVIHAWD-------SSTGKQIGQPMRGHKQWITAL 298
G + ++ +A++P D ++L + ++G I W + I ++GH + + +
Sbjct: 73 GQEGPIIDVAFNPFDPQKLFTASEDGTIMGWGIPEEGLTQNISDPIVH-LQGHTKKVGIV 131
Query: 299 SWEPFHLNHQCRRFASSGKDGAIRIWDVILSQCVRVLTSHTRSVTCIRWGGSG-LIYSAS 357
S+ P +N AS+G D + +WDV + V V+ H+ +T + W G L+ + S
Sbjct: 132 SFHPSAMN----VLASAGADMVVNVWDVERGKAVEVIKCHSDQITSLEWNLDGSLLCTTS 187
Query: 358 QDRTIKVWRASDGVMCRTLEGHA 380
+D+ + + DG + ++E HA
Sbjct: 188 KDKKLNIIDPRDGTIVSSVEAHA 210
Score = 49.1 bits (117), Expect = 4e-06
Identities = 33/114 (28%), Positives = 58/114 (50%), Gaps = 9/114 (7%)
Query: 466 VEFSP-DGRIIASASFDKSIKLWD-------GRIGKFITTLRGHVQAVYMVAW-SSDSRL 516
V F+P D + + +AS D +I W I I L+GH + V +V++ S +
Sbjct: 81 VAFNPFDPQKLFTASEDGTIMGWGIPEEGLTQNISDPIVHLQGHTKKVGIVSFHPSAMNV 140
Query: 517 LVSGSADSTLKVWNMKTKKIEQDLPGHGDEVYAVDWAPDGEKVASGGKDKVLRL 570
L S AD + VW+++ K + + H D++ +++W DG + + KDK L +
Sbjct: 141 LASAGADMVVNVWDVERGKAVEVIKCHSDQITSLEWNLDGSLLCTTSKDKKLNI 194
Score = 31.4 bits (71), Expect = 1.3
Identities = 36/172 (20%), Positives = 51/172 (29%), Gaps = 55/172 (31%)
Query: 205 GHAEAVISVKFSPNGRS-LASGSGDTTVRFWDVTTQTPLFKCEGHKHWVLCIAWSPDSKQ 263
GH + V V F P+ + LAS D V WDV
Sbjct: 123 GHTKKVGIVSFHPSAMNVLASAGADMVVNVWDVERGKA---------------------- 160
Query: 264 LVSGCKNGVIHAWDSSTGKQIGQPMRGHKQWITALSWEPFHLNHQCRRFASSGKDGAIRI 323
+ ++ H IT+L W N ++ KD + I
Sbjct: 161 ---------------------VEVIKCHSDQITSLEW-----NLDGSLLCTTSKDKKLNI 194
Query: 324 WDVILSQCVRVLTSH--TRSVTCIRWGGSGLI----YSASQDRTIKVWRASD 369
D V + +H +S C+ LI S SQ R I +W
Sbjct: 195 IDPRDGTIVSSVEAHASAKSQRCLWAKRKDLIITLGCSKSQQRQIMLWDTRK 246
>gnl|CDD|240412 PTZ00420, PTZ00420, coronin; Provisional.
Length = 568
Score = 44.6 bits (105), Expect = 1e-04
Identities = 30/104 (28%), Positives = 53/104 (50%), Gaps = 12/104 (11%)
Query: 231 VRFWDVTTQTPLFKCEGHKHWVLCIAWSP-DSKQLVSGCKNGVIHAWD----SSTGKQIG 285
+R + + P+ K +GH +L + ++P S+ L SG ++ I W+ + K+I
Sbjct: 56 IRLENQMRKPPVIKLKGHTSSILDLQFNPCFSEILASGSEDLTIRVWEIPHNDESVKEIK 115
Query: 286 QP---MRGHKQWITALSWEPFHLNHQCRRFASSGKDGAIRIWDV 326
P ++GHK+ I+ + W P + C SSG D + IWD+
Sbjct: 116 DPQCILKGHKKKISIIDWNPMNYYIMC----SSGFDSFVNIWDI 155
Score = 40.3 bits (94), Expect = 0.002
Identities = 19/67 (28%), Positives = 38/67 (56%), Gaps = 8/67 (11%)
Query: 430 EKLVSGSDDFTLFLW-------NPEKEKKSLARMTGHQQLINCVEFSP-DGRIIASASFD 481
E L SGS+D T+ +W + ++ K + GH++ I+ ++++P + I+ S+ FD
Sbjct: 88 EILASGSEDLTIRVWEIPHNDESVKEIKDPQCILKGHKKKISIIDWNPMNYYIMCSSGFD 147
Query: 482 KSIKLWD 488
+ +WD
Sbjct: 148 SFVNIWD 154
Score = 32.2 bits (73), Expect = 0.87
Identities = 24/87 (27%), Positives = 43/87 (49%), Gaps = 10/87 (11%)
Query: 495 ITTLRGHVQAVYMVAWSS-DSRLLVSGSADSTLKVWNMK-----TKKIEQD---LPGHGD 545
+ L+GH ++ + ++ S +L SGS D T++VW + K+I+ L GH
Sbjct: 67 VIKLKGHTSSILDLQFNPCFSEILASGSEDLTIRVWEIPHNDESVKEIKDPQCILKGHKK 126
Query: 546 EVYAVDWAPDGEKV-ASGGKDKVLRLW 571
++ +DW P + S G D + +W
Sbjct: 127 KISIIDWNPMNYYIMCSSGFDSFVNIW 153
Score = 31.8 bits (72), Expect = 1.2
Identities = 17/48 (35%), Positives = 29/48 (60%), Gaps = 7/48 (14%)
Query: 95 QVR--PVTRCTSSMPGHAEAVISVKFSP-NGRSLASGSGDTTVRFWDV 139
Q+R PV + + GH +++ ++F+P LASGS D T+R W++
Sbjct: 61 QMRKPPVIK----LKGHTSSILDLQFNPCFSEILASGSEDLTIRVWEI 104
>gnl|CDD|234019 TIGR02800, propeller_TolB, tol-pal system beta propeller repeat
protein TolB. Members of this protein family are the
TolB periplasmic protein of Gram-negative bacteria. TolB
is part of the Tol-Pal (peptidoglycan-associated
lipoprotein) multiprotein complex, comprising five
envelope proteins, TolQ, TolR, TolA, TolB and Pal, which
form two complexes. The TolQ, TolR and TolA
inner-membrane proteins interact via their transmembrane
domains. The {beta}-propeller domain of the periplasmic
protein TolB is responsible for its interaction with
Pal. TolB also interacts with the outer-membrane
peptidoglycan-associated proteins Lpp and OmpA. TolA
undergoes a conformational change in response to changes
in the proton-motive force, and interacts with Pal in an
energy-dependent manner. The C-terminal periplasmic
domain of TolA also interacts with the N-terminal domain
of TolB. The Tol-PAL system is required for bacterial
outer membrane integrity. E. coli TolB is involved in
the tonB-independent uptake of group A colicins
(colicins A, E1, E2, E3 and K), and is necessary for the
colicins to reach their respective targets after initial
binding to the bacteria. It is also involved in uptake
of filamentous DNA. Study of its structure suggest that
the TolB protein might be involved in the recycling of
peptidoglycan or in its covalent linking with
lipoproteins. The Tol-Pal system is also implicated in
pathogenesis of E. coli, Haemophilus ducreyi ,
Salmonella enterica and Vibrio cholerae, but the
mechanism(s) is unclear [Transport and binding proteins,
Other, Cellular processes, Pathogenesis].
Length = 417
Score = 39.2 bits (92), Expect = 0.005
Identities = 34/135 (25%), Positives = 59/135 (43%), Gaps = 24/135 (17%)
Query: 445 NPEKEKKSLARM--TGH--QQLINCVE------FSPDGRIIASASFDK---SIKLWD--- 488
+ + + L G Q + E +SPDG+ +A SF+ I + D
Sbjct: 164 SGKGRRYELQVADYDGANPQTITRSREPILSPAWSPDGQKLAYVSFESGKPEIYVQDLAT 223
Query: 489 GRIGKFITTLRGHVQAVYMVAWSSD-SRLLVSGSADSTLKVW--NMKTKKIEQDLPGHGD 545
G+ K + + G A A+S D S+L VS S D ++ ++ K++ + G G
Sbjct: 224 GQREK-VASFPGMNGA---PAFSPDGSKLAVSLSKDGNPDIYVMDLDGKQLTRLTNGPGI 279
Query: 546 EVYAVDWAPDGEKVA 560
+ W+PDG+ +A
Sbjct: 280 DTEPS-WSPDGKSIA 293
>gnl|CDD|179329 PRK01742, tolB, translocation protein TolB; Provisional.
Length = 429
Score = 33.7 bits (77), Expect = 0.24
Identities = 36/116 (31%), Positives = 53/116 (45%), Gaps = 16/116 (13%)
Query: 467 EFSPDGRIIASASFD--KS-IKLWDGRIG--KFITTLRGHVQAVYMVAWSSD-SRLLVSG 520
+SPDG +A SF+ KS + + D R G K + + RGH A A+S D SRL +
Sbjct: 210 AWSPDGSKLAYVSFENKKSQLVVHDLRSGARKVVASFRGHNGA---PAFSPDGSRLAFAS 266
Query: 521 SADSTLKVW--NMKTKKIEQDLPGHGDEVYAVDWAPDGEKVA----SGGKDKVLRL 570
S D L ++ Q G G+ W+PDG+ + G +V R+
Sbjct: 267 SKDGVLNIYVMGANGGTPSQLTSGAGNNTEP-SWSPDGQSILFTSDRSGSPQVYRM 321
>gnl|CDD|149648 pfam08662, eIF2A, Eukaryotic translation initiation factor eIF2A.
This is a family of eukaryotic translation initiation
factors.
Length = 194
Score = 33.0 bits (76), Expect = 0.25
Identities = 25/98 (25%), Positives = 38/98 (38%), Gaps = 22/98 (22%)
Query: 464 NCVEFSPDGRIIASASFDK---SIKLWDGRIGKFITTLRGHVQAVYMVAWSSDSRLLVSG 520
N + +SP GR++ A F I+ WD + K I T A WS D R ++
Sbjct: 104 NTIFWSPFGRLVLLAGFGNLAGQIEFWDVKNKKKIATAE-ASNATD-CEWSPDGRYFLTA 161
Query: 521 S------ADSTLKVWNMKTKKIEQDLPGHGDEVYAVDW 552
+ D+ K+W+ G VY D+
Sbjct: 162 TTSPRLRVDNGFKIWHYS-----------GKLVYKYDF 188
>gnl|CDD|166839 PRK00178, tolB, translocation protein TolB; Provisional.
Length = 430
Score = 32.8 bits (75), Expect = 0.55
Identities = 32/125 (25%), Positives = 52/125 (41%), Gaps = 36/125 (28%)
Query: 468 FSPDGRIIASASFDKSIKLWDGRIGKF-----------ITTLRGHVQAVYMVAWSSD-SR 515
+SPDG+ IA SF++ R F IT G A AWS D S+
Sbjct: 206 WSPDGKRIAYVSFEQ------KRPRIFVQNLDTGRREQITNFEGLNGA---PAWSPDGSK 256
Query: 516 LLVSGSADST--LKVWNMKTKKIEQDLPGHGDEVYAVD----WAPDGEKVA----SGGKD 565
L S D + V ++ ++++ + + H A+D W DG + GGK
Sbjct: 257 LAFVLSKDGNPEIYVMDLASRQLSR-VTNH----PAIDTEPFWGKDGRTLYFTSDRGGKP 311
Query: 566 KVLRL 570
++ ++
Sbjct: 312 QIYKV 316
>gnl|CDD|185334 PRK15437, PRK15437, histidine ABC transporter substrate-binding
protein HisJ; Provisional.
Length = 259
Score = 31.2 bits (70), Expect = 1.2
Identities = 20/60 (33%), Positives = 35/60 (58%), Gaps = 3/60 (5%)
Query: 510 WSSDSRLLVSGSADSTLKVWNMKTKKIEQDLPGHGDEVYA-VDWAPDG-EKVASGGKDKV 567
+++DSRL+V+ ++D V ++K K++ L G E + WAP G E V+ G+D +
Sbjct: 110 YAADSRLVVAKNSDIQPTVESLKGKRVGV-LQGTTQETFGNEHWAPKGIEIVSYQGQDNI 168
>gnl|CDD|235312 PRK04792, tolB, translocation protein TolB; Provisional.
Length = 448
Score = 30.8 bits (70), Expect = 2.2
Identities = 26/102 (25%), Positives = 45/102 (44%), Gaps = 22/102 (21%)
Query: 469 SPDGRIIASASFDK------SIKLWDGRIGKFITTLRGHVQAVYMVAWSSDSR-LLVSGS 521
SPDGR +A SF+ ++ K +T+ G A +S D + L + S
Sbjct: 226 SPDGRKLAYVSFENRKAEIFVQDIYTQVREK-VTSFPGINGA---PRFSPDGKKLALVLS 281
Query: 522 ADSTLKVW--NMKTKKIEQDLPGHGDEVYAVD----WAPDGE 557
D +++ ++ TK + + + H A+D W PDG+
Sbjct: 282 KDGQPEIYVVDIATKALTR-ITRH----RAIDTEPSWHPDGK 318
>gnl|CDD|179892 PRK04922, tolB, translocation protein TolB; Provisional.
Length = 433
Score = 30.8 bits (70), Expect = 2.2
Identities = 31/118 (26%), Positives = 60/118 (50%), Gaps = 24/118 (20%)
Query: 469 SPDGRIIASASFDK---SIKLWDGRIG--KFITTLRGHVQAVYMVAWSSD-SRLLVSGSA 522
SPDG+ +A SF++ +I + D G + + + RG A ++S D RL ++ S
Sbjct: 212 SPDGKKLAYVSFERGRSAIYVQDLATGQRELVASFRGINGA---PSFSPDGRRLALTLSR 268
Query: 523 DSTLKVWNMK--TKKIEQDLPGHGDEVYAVD----WAPDGEKVA----SGGKDKVLRL 570
D +++ M ++++ + L H + +D WAPDG+ + GG+ ++ R+
Sbjct: 269 DGNPEIYVMDLGSRQLTR-LTNH----FGIDTEPTWAPDGKSIYFTSDRGGRPQIYRV 321
>gnl|CDD|227657 COG5354, COG5354, Uncharacterized protein, contains Trp-Asp (WD)
repeat [General function prediction only].
Length = 561
Score = 30.2 bits (68), Expect = 3.2
Identities = 27/114 (23%), Positives = 48/114 (42%), Gaps = 18/114 (15%)
Query: 455 RMTGHQQLINCVEFSPDGRIIASASFDK---SIKLWDGRIGKFITTLRGHVQAVYMVAWS 511
R +Q N + FSP R I A FD +I+++D G+F + WS
Sbjct: 310 RFYFPEQKRNTIFFSPHERYILFAGFDNLQGNIEIFD-PAGRFKVAGAFNGLNTSYCDWS 368
Query: 512 SDSRLLVSGSA------DSTLKVWNMKTKKIEQDLPGHGDEVYAVDWAPDGEKV 559
D + + + D+++K+W++ K+ E+ + W P G+ V
Sbjct: 369 PDGQFYDTDTTSEKLRVDNSIKLWDVYGAKV--------FELTNITWDPSGQYV 414
>gnl|CDD|227498 COG5170, CDC55, Serine/threonine protein phosphatase 2A, regulatory
subunit [Signal transduction mechanisms].
Length = 460
Score = 30.0 bits (67), Expect = 3.5
Identities = 19/75 (25%), Positives = 34/75 (45%), Gaps = 17/75 (22%)
Query: 463 INCVEFSPDGRIIASASFDKSIKLWDGRIGK-------FITTLRGHVQAVY--------- 506
I+ +FS +GR I S + ++K+WD + K L + VY
Sbjct: 283 ISDFKFSDNGRYILSRDYL-TVKIWDVNMAKNPIKTIPMHCDLMDELNDVYENDAIFDKF 341
Query: 507 MVAWSSDSRLLVSGS 521
+++S D + ++SGS
Sbjct: 342 EISFSGDDKHVLSGS 356
>gnl|CDD|225921 COG3386, COG3386, Gluconolactonase [Carbohydrate transport and
metabolism].
Length = 307
Score = 29.7 bits (67), Expect = 3.9
Identities = 11/34 (32%), Positives = 12/34 (35%), Gaps = 1/34 (2%)
Query: 250 HWVLCIAWSPDSKQLV-SGCKNGVIHAWDSSTGK 282
W PD L+ G IH D TGK
Sbjct: 25 TLGEGPVWDPDRGALLWVDILGGRIHRLDPETGK 58
>gnl|CDD|234889 PRK01029, tolB, translocation protein TolB; Provisional.
Length = 428
Score = 29.7 bits (67), Expect = 4.3
Identities = 35/133 (26%), Positives = 68/133 (51%), Gaps = 14/133 (10%)
Query: 427 PEGEKLVSGSD-DFT--LFLWNPEKEKKSLARMTGHQQLINCVEFSPDGRIIASASFDKS 483
P+G +LV S+ D +++ + E +S +T + +C +SPDG+ IA S K
Sbjct: 290 PDGTRLVFVSNKDGRPRIYIMQIDPEGQSPRLLTKKYRNSSCPAWSPDGKKIAFCSVIKG 349
Query: 484 IK---LWDGRIGK--FITTLRGHVQAVYMVAWSSDSRLLV---SGSADSTLKVWNMKTKK 535
++ ++D G+ +TT + ++ +W+ DS LV S +S L + ++ TKK
Sbjct: 350 VRQICVYDLATGRDYQLTTSPENKES---PSWAIDSLHLVYSAGNSNESELYLISLITKK 406
Query: 536 IEQDLPGHGDEVY 548
+ + G G++ +
Sbjct: 407 TRKIVIGSGEKRF 419
>gnl|CDD|233509 TIGR01652, ATPase-Plipid, phospholipid-translocating P-type ATPase,
flippase. This model describes the P-type ATPase
responsible for transporting phospholipids from one
leaflet of bilayer membranes to the other. These ATPases
are found only in eukaryotes.
Length = 1057
Score = 30.0 bits (68), Expect = 4.5
Identities = 19/70 (27%), Positives = 28/70 (40%), Gaps = 16/70 (22%)
Query: 421 KYQAQCPEGEKLVSGSDDFTLFLWNPEKEKKSLA-RMTGHQQ---LINCVEFS------- 469
YQA P+ LV + D + + SL M G + ++N +EF+
Sbjct: 466 TYQAASPDEAALVKAARDVGFVFFERTPKSISLLIEMHGETKEYEILNVLEFNSDRKRMS 525
Query: 470 -----PDGRI 474
PDGRI
Sbjct: 526 VIVRNPDGRI 535
>gnl|CDD|227282 COG4946, COG4946, Uncharacterized protein related to the
periplasmic component of the Tol biopolymer transport
system [Function unknown].
Length = 668
Score = 29.4 bits (66), Expect = 5.5
Identities = 24/99 (24%), Positives = 35/99 (35%), Gaps = 13/99 (13%)
Query: 443 LWNPEKEKKSLARMTGHQQLINCVEFSPDGRIIA------SASFDK----SIKLWDGRIG 492
LW + R+T ++N +FSPDGR +A +S + DG
Sbjct: 61 LWEYSLKDGKPLRITSGLGVVNNPKFSPDGRKVAFSRVMLGSSLQTADLYVVPSEDGEA- 119
Query: 493 KFITTLRGHVQAVYMVAWSSDSRLLVSGSADSTLKVWNM 531
K IT V W D ++VS + W
Sbjct: 120 KRITYFGRRFTRV--AGWIPDGEIIVSTDFHTPFSQWTE 156
>gnl|CDD|220023 pfam08801, Nucleoporin_N, Nup133 N terminal like. Nup133 is a
nucleoporin that is crucial for nuclear pore complex
(NPC) biogenesis. The N terminal forms a seven-bladed
beta propeller structure. This family now contains other
sized nucleoporins, including Nup155, Nup8, Nuo132,
Nup15 and Nup170.
Length = 411
Score = 29.4 bits (66), Expect = 5.9
Identities = 10/35 (28%), Positives = 18/35 (51%), Gaps = 2/35 (5%)
Query: 334 VLTSHTRSVTCIRWGGS--GLIYSASQDRTIKVWR 366
++ S R + +R S L+Y+ + TI+VW
Sbjct: 185 LVPSSDREIVSLRVDSSRGRLLYTLTSKGTIRVWD 219
>gnl|CDD|221182 pfam11715, Nup160, Nucleoporin Nup120/160. Nup120 is conserved
from fungi to plants to humans, and is homologous with
the Nup160 of vertebrates. The nuclear core complex, or
NPC, mediates macromolecular transport across the
nuclear envelope. Deletion of the NUP120 gene causes
clustering of NPCs at one side of the nuclear envelope,
moderate nucleolar fragmentation and slower cell growth.
The vertebrate NPC is estimated to contain between 30
and 60 different proteins. most of which are not known.
Two important ones in creating the nucleoporin basket
are Nup98 and Nup153, and Nup120, in conjunction with
Nup 133, interacts with these two and itself plays a
role in mRNA export. Nup160, Nup133, Nup96, and Nup107
are all targets of phosphorylation. The phosphorylation
sites are clustered mainly at the N-terminal regions of
these proteins, which are predicted to be natively
disordered. The entire Nup107-160 subcomplex is stable
throughout the cell cycle, thus it seems unlikely that
phosphorylation affects interactions within the
Nup107-160 subcomplex, but rather that it regulates the
association of the subcomplex with the NPC and other
proteins.
Length = 511
Score = 29.4 bits (66), Expect = 6.3
Identities = 12/72 (16%), Positives = 20/72 (27%), Gaps = 6/72 (8%)
Query: 300 WEPFHLN-HQCRRFASSGKDGAIRIWDVILSQCVRVLTSHTRSVTCIRWGGSGLIYSASQ 358
W+ R D + S V+ G +++ S
Sbjct: 186 WKETLYGPSSWLRSLRGLLPFQRYGKDRLASSAAASTI-----VSSSEVNGQTFLFTLSL 240
Query: 359 DRTIKVWRASDG 370
D T++VW G
Sbjct: 241 DGTLRVWNLDTG 252
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
0.317 0.132 0.409
Gapped
Lambda K H
0.267 0.0728 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 28,524,028
Number of extensions: 2671147
Number of successful extensions: 2217
Number of sequences better than 10.0: 1
Number of HSP's gapped: 2066
Number of HSP's successfully gapped: 84
Length of query: 573
Length of database: 10,937,602
Length adjustment: 102
Effective length of query: 471
Effective length of database: 6,413,494
Effective search space: 3020755674
Effective search space used: 3020755674
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: 62 (27.7 bits)