RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy8448
(482 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 = 154 bits (390), Expect = 3e-43
Identities = 83/257 (32%), Positives = 132/257 (51%), Gaps = 18/257 (7%)
Query: 91 LSKQIKFGSKSHVECARFSPDGQYLITGSVDGFIEVWNFTTGKIRKDLKYQAQDNFMLME 150
L + +K G V C FSPDG+ L TGS DG I+VW+ TG++ + LK
Sbjct: 1 LRRTLK-GHTGGVTCVAFSPDGKLLATGSGDGTIKVWDLETGELLRTLK--------GHT 51
Query: 151 EAVMSLAYSRDSEMLASGSQSGKVKIWKIATGQCLRKLEKAHSLGVTCIQFSRDNSQILT 210
V +A S D LASGS +++W + TG+C+R L H+ V+ + FS D + +
Sbjct: 52 GPVRDVAASADGTYLASGSSDKTIRLWDLETGECVRTLT-GHTSYVSSVAFSPDGRILSS 110
Query: 211 ASFDTYVRIHGLKSGKMLKEFRGHSSFVNDITFTADGHSVLSASSDGTVKMWNLKTTECT 270
+S D +++ +++GK L RGH+ +VN + F+ DG V S+S DGT+K+W+L+T +C
Sbjct: 111 SSRDKTIKVWDVETGKCLTTLRGHTDWVNSVAFSPDGTFVASSSQDGTIKLWDLRTGKCV 170
Query: 271 STFKSLGASDIAVNSIHLLPKNTEHFVVCNKTNTVVIMNMQ-GQIVRSLSSGKREGGDFL 329
+T VNS+ P E + + T+ + ++ G+ + +L G G
Sbjct: 171 ATLT---GHTGEVNSVAFSPDG-EKLLSSSSDGTIKLWDLSTGKCLGTL-RGHENG--VN 223
Query: 330 CCTTSPRGEWIYCVGED 346
SP G + ED
Sbjct: 224 SVAFSPDGYLLASGSED 240
Score = 150 bits (382), Expect = 4e-42
Identities = 72/245 (29%), Positives = 124/245 (50%), Gaps = 17/245 (6%)
Query: 103 VECARFSPDGQYLITGSVDGFIEVWNFTTGKIRKDLKYQAQDNFMLMEEAVMSLAYSRDS 162
V S DG YL +GS D I +W+ TG+ + L V S+A+S D
Sbjct: 54 VRDVAASADGTYLASGSSDKTIRLWDLETGECVRTLT--------GHTSYVSSVAFSPDG 105
Query: 163 EMLASGSQSGKVKIWKIATGQCLRKLEKAHSLGVTCIQFSRDNSQILTASFDTYVRIHGL 222
+L+S S+ +K+W + TG+CL L + H+ V + FS D + + ++S D +++ L
Sbjct: 106 RILSSSSRDKTIKVWDVETGKCLTTL-RGHTDWVNSVAFSPDGTFVASSSQDGTIKLWDL 164
Query: 223 KSGKMLKEFRGHSSFVNDITFTADGHSVLSASSDGTVKMWNLKTTECTSTFKSLGASDIA 282
++GK + GH+ VN + F+ DG +LS+SSDGT+K+W+L T +C T + +
Sbjct: 165 RTGKCVATLTGHTGEVNSVAFSPDGEKLLSSSSDGTIKLWDLSTGKCLGTLRG---HENG 221
Query: 283 VNSIHLLPKNTEHFVVCNKTNTVVIMNMQ-GQIVRSLSSGKREGGDFLCCTTSPRGEWIY 341
VNS+ P + ++ T+ + +++ G+ V++LS SP G+ +
Sbjct: 222 VNSVAFSP-DGYLLASGSEDGTIRVWDLRTGECVQTLSGHT---NSVTSLAWSPDGKRLA 277
Query: 342 CVGED 346
D
Sbjct: 278 SGSAD 282
Score = 146 bits (371), Expect = 2e-40
Identities = 68/196 (34%), Positives = 105/196 (53%), Gaps = 12/196 (6%)
Query: 98 GSKSHVECARFSPDGQYLITGSVDGFIEVWNFTTGKIRKDLKYQAQDNFMLMEEAVMSLA 157
G S+V FSPDG+ L + S D I+VW+ TGK L+ + V S+A
Sbjct: 91 GHTSYVSSVAFSPDGRILSSSSRDKTIKVWDVETGKCLTTLRGH--------TDWVNSVA 142
Query: 158 YSRDSEMLASGSQSGKVKIWKIATGQCLRKLEKAHSLGVTCIQFSRDNSQILTASFDTYV 217
+S D +AS SQ G +K+W + TG+C+ L H+ V + FS D ++L++S D +
Sbjct: 143 FSPDGTFVASSSQDGTIKLWDLRTGKCVATLT-GHTGEVNSVAFSPDGEKLLSSSSDGTI 201
Query: 218 RIHGLKSGKMLKEFRGHSSFVNDITFTADGHSVLSASSDGTVKMWNLKTTECTSTFKSLG 277
++ L +GK L RGH + VN + F+ DG+ + S S DGT+++W+L+T EC T
Sbjct: 202 KLWDLSTGKCLGTLRGHENGVNSVAFSPDGYLLASGSEDGTIRVWDLRTGECVQTLS--- 258
Query: 278 ASDIAVNSIHLLPKNT 293
+V S+ P
Sbjct: 259 GHTNSVTSLAWSPDGK 274
Score = 133 bits (336), Expect = 1e-35
Identities = 61/199 (30%), Positives = 111/199 (55%), Gaps = 11/199 (5%)
Query: 153 VMSLAYSRDSEMLASGSQSGKVKIWKIATGQCLRKLEKAHSLGVTCIQFSRDNSQILTAS 212
V +A+S D ++LA+GS G +K+W + TG+ LR L K H+ V + S D + + + S
Sbjct: 12 VTCVAFSPDGKLLATGSGDGTIKVWDLETGELLRTL-KGHTGPVRDVAASADGTYLASGS 70
Query: 213 FDTYVRIHGLKSGKMLKEFRGHSSFVNDITFTADGHSVLSASSDGTVKMWNLKTTECTST 272
D +R+ L++G+ ++ GH+S+V+ + F+ DG + S+S D T+K+W+++T +C +T
Sbjct: 71 SDKTIRLWDLETGECVRTLTGHTSYVSSVAFSPDGRILSSSSRDKTIKVWDVETGKCLTT 130
Query: 273 FKSLGASDIAVNSIHLLPKNTEHFVVCNKTN-TVVIMNM-QGQIVRSLSSGKREGGDFLC 330
+ G +D VNS+ P T FV + + T+ + ++ G+ V +L+ G+
Sbjct: 131 LR--GHTD-WVNSVAFSPDGT--FVASSSQDGTIKLWDLRTGKCVATLTGHT---GEVNS 182
Query: 331 CTTSPRGEWIYCVGEDMVL 349
SP GE + D +
Sbjct: 183 VAFSPDGEKLLSSSSDGTI 201
Score = 127 bits (322), Expect = 2e-33
Identities = 53/161 (32%), Positives = 87/161 (54%), Gaps = 9/161 (5%)
Query: 103 VECARFSPDGQYLITGSVDGFIEVWNFTTGKIRKDLKYQAQDNFMLMEEAVMSLAYSRDS 162
V FSPDG ++ + S DG I++W+ TGK V S+A+S D
Sbjct: 138 VNSVAFSPDGTFVASSSQDGTIKLWDLRTGKCVA--------TLTGHTGEVNSVAFSPDG 189
Query: 163 EMLASGSQSGKVKIWKIATGQCLRKLEKAHSLGVTCIQFSRDNSQILTASFDTYVRIHGL 222
E L S S G +K+W ++TG+CL L H GV + FS D + + S D +R+ L
Sbjct: 190 EKLLSSSSDGTIKLWDLSTGKCLGTLR-GHENGVNSVAFSPDGYLLASGSEDGTIRVWDL 248
Query: 223 KSGKMLKEFRGHSSFVNDITFTADGHSVLSASSDGTVKMWN 263
++G+ ++ GH++ V + ++ DG + S S+DGT+++W+
Sbjct: 249 RTGECVQTLSGHTNSVTSLAWSPDGKRLASGSADGTIRIWD 289
Score = 90.5 bits (225), Expect = 3e-20
Identities = 67/294 (22%), Positives = 117/294 (39%), Gaps = 56/294 (19%)
Query: 190 KAHSLGVTCIQFSRDNSQILTASFDTYVRIHGLKSGKMLKEFRGHSSFVNDITFTADGHS 249
K H+ GVTC+ FS D + T S D +++ L++G++L+ +GH+ V D+ +ADG
Sbjct: 6 KGHTGGVTCVAFSPDGKLLATGSGDGTIKVWDLETGELLRTLKGHTGPVRDVAASADGTY 65
Query: 250 VLSASSDGTVKMWNLKTTECTSTFKSLGASDIAVNSIHLLPKNTEHFVV-CNKTNTVVIM 308
+ S SSD T+++W+L+T EC T G + V+S+ P + ++ T+ +
Sbjct: 66 LASGSSDKTIRLWDLETGECVRTLT--GHTS-YVSSVAFSPDG--RILSSSSRDKTIKVW 120
Query: 309 NM-QGQIVRSLSSGKREGGDFLCCTTSPRGEWIYCVGEDMVLVVRLIQQYLKESNLMKTL 367
++ G+ + +L G SP G ++ +D ++L L+ + TL
Sbjct: 121 DVETGKCLTTL-RGHT--DWVNSVAFSPDGTFVASSSQDG--TIKLWD--LRTGKCVATL 173
Query: 368 QCLQEETGVSLNTVDSVDGFIADINNGHWDTVLKSVQSLKLPEKKLIDLYEQVVLELIEL 427
GH V S +KL+
Sbjct: 174 T-------------------------GHTGEVNSVAFSPD--GEKLL------------- 193
Query: 428 RELGAARSLLRQTDPMIFMKQHEPEVHEKLVIGLTHHPHQNLLGTYSEDGLLRF 481
++ ++ D HE V + P LL + SEDG +R
Sbjct: 194 --SSSSDGTIKLWDLSTGKCLGTLRGHENGVNSVAFSPDGYLLASGSEDGTIRV 245
Score = 41.2 bits (97), Expect = 7e-04
Identities = 13/31 (41%), Positives = 19/31 (61%)
Query: 98 GSKSHVECARFSPDGQYLITGSVDGFIEVWN 128
G + V +SPDG+ L +GS DG I +W+
Sbjct: 259 GHTNSVTSLAWSPDGKRLASGSADGTIRIWD 289
>gnl|CDD|225201 COG2319, COG2319, FOG: WD40 repeat [General function prediction
only].
Length = 466
Score = 111 bits (277), Expect = 2e-26
Identities = 69/275 (25%), Positives = 121/275 (44%), Gaps = 19/275 (6%)
Query: 98 GSKSHVECARFSPDGQYLI-TGSVDGFIEVWNFTTGKIRKDLKYQAQDNFMLMEEAVMSL 156
G V FSPDG LI +GS DG I +W+ +TGK+ + D+ +
Sbjct: 196 GHTDPVSSLAFSPDGGLLIASGSSDGTIRLWDLSTGKLLRSTLSGHSDSVVS-------- 247
Query: 157 AYSRDSEMLASGSQSGKVKIWKIATGQCLRKLEKAHSLGVTCIQFSRDNSQILTASFDTY 216
++S D +LASGS G +++W + + L + HS V + FS D + + S D
Sbjct: 248 SFSPDGSLLASGSSDGTIRLWDLRSSSSLLRTLSGHSSSVLSVAFSPDGKLLASGSSDGT 307
Query: 217 VRIHGLKSGK--MLKEFRGHSSFVNDITFTADGHSVLSA-SSDGTVKMWNLKTTECTSTF 273
VR+ L++GK +GH V+ ++F+ DG ++S S DGT+++W+L+T + T
Sbjct: 308 VRLWDLETGKLLSSLTLKGHEGPVSSLSFSPDGSLLVSGGSDDGTIRLWDLRTGKPLKTL 367
Query: 274 KSLGASDIAVNSIHLLPKNTEHFVVCNKTNTVVIMNMQGQIVRSLSSGKREGGDFLCCTT 333
+ V S+ P + + TV + ++ + G
Sbjct: 368 EGHS----NVLSVSFSP-DGRVVSSGSTDGTVRLWDLSTGSLLRNLDGH--TSRVTSLDF 420
Query: 334 SPRGEWIYCVGEDMVLVVRLIQQYLKESNLMKTLQ 368
SP G+ + D + + ++ LK + +
Sbjct: 421 SPDGKSLASGSSDNTIRLWDLKTSLKSVSFSPDGK 455
Score = 101 bits (251), Expect = 4e-23
Identities = 85/344 (24%), Positives = 150/344 (43%), Gaps = 34/344 (9%)
Query: 84 EEKYPTQLSKQIKFGSKSHVECARF-SPDGQYLIT--GSVDGFIEVWNFTTGKIRKDLKY 140
+ +L K ++ S V SPDG ++ S+DG +++W+ +T
Sbjct: 93 DLDNGEKLIKSLEGLHDSSVSKLALSSPDGNSILLASSSLDGTVKLWDLSTPGKL----- 147
Query: 141 QAQDNFMLMEEAVMSLAYSRDSEMLASGSQS-GKVKIWKIATGQCLRKLEKAHSLGVTCI 199
E+V SLA+S D ++LASGS G +K+W + TG+ L L H+ V+ +
Sbjct: 148 --IRTLEGHSESVTSLAFSPDGKLLASGSSLDGTIKLWDLRTGKPLSTL-AGHTDPVSSL 204
Query: 200 QFSRDNS-QILTASFDTYVRIHGLKSGKMLK-EFRGHSSFVNDITFTADGHSVLSASSDG 257
FS D I + S D +R+ L +GK+L+ GHS +F+ DG + S SSDG
Sbjct: 205 AFSPDGGLLIASGSSDGTIRLWDLSTGKLLRSTLSGHSD-SVVSSFSPDGSLLASGSSDG 263
Query: 258 TVKMWNLKTTECTSTFKSLGASDIAVNSIHLLPKNTEHFVVCNKTNTVVIMNMQGQIVRS 317
T+++W+L+++ S ++L +V S+ P + + + TV + +++ + S
Sbjct: 264 TIRLWDLRSSS--SLLRTLSGHSSSVLSVAFSP-DGKLLASGSSDGTVRLWDLETGKLLS 320
Query: 318 LSSGKREGGDFLCCTTSPRGEWIY-CVGEDMVLVVRLIQQYLKESNLMKTLQCLQEETGV 376
+ K G + SP G + +D + + L+ +KTL+ V
Sbjct: 321 SLTLKGHEGPVSSLSFSPDGSLLVSGGSDDGTIRL----WDLRTGKPLKTLEGHSNVLSV 376
Query: 377 SLN------TVDSVDGFIADINNGHWDTVLKSVQSLKLPEKKLI 414
S + + S DG + WD S+ +
Sbjct: 377 SFSPDGRVVSSGSTDGTV-----RLWDLSTGSLLRNLDGHTSRV 415
Score = 100 bits (249), Expect = 9e-23
Identities = 81/399 (20%), Positives = 157/399 (39%), Gaps = 22/399 (5%)
Query: 90 QLSKQIKFGSKSHVECARFSPDGQYLITGSVDGFIEVWNFTTGKIRKDLKYQAQDNFMLM 149
LS + G + + FSPDG+ L++GS DG I++W+ G+ ++ +
Sbjct: 55 DLSSLLLRGHEDSITSIAFSPDGELLLSGSSDGTIKLWDLDNGEK----LIKSLEGLHDS 110
Query: 150 EEAVMSLAYSRDSEMLASGSQS-GKVKIWKIATGQCLRKLEKAHSLGVTCIQFSRDNSQI 208
+ ++L+ + +L + S G VK+W ++T L + + HS VT + FS D +
Sbjct: 111 SVSKLALSSPDGNSILLASSSLDGTVKLWDLSTPGKLIRTLEGHSESVTSLAFSPDGKLL 170
Query: 209 LTAS-FDTYVRIHGLKSGKMLKEFRGHSSFVNDITFTADGHS-VLSASSDGTVKMWNLKT 266
+ S D +++ L++GK L GH+ V+ + F+ DG + S SSDGT+++W+L T
Sbjct: 171 ASGSSLDGTIKLWDLRTGKPLSTLAGHTDPVSSLAFSPDGGLLIASGSSDGTIRLWDLST 230
Query: 267 TECTSTFKSLGASDIAVNSIHLLPKNTEHFVVCNKTNTVVIMNMQGQIVRSLSSGKREGG 326
+ + S G SD V+S + + T+ + +++ L +
Sbjct: 231 GKLLRSTLS-GHSDSVVSSFS---PDGSLLASGSSDGTIRLWDLRSS-SSLLRTLSGHSS 285
Query: 327 DFLCCTTSPRGEWIYCVGEDMVLVVRLIQQYLKESNLMKTLQCLQEETGVSLNTVDSVDG 386
L SP G+ + D + + + + ++++
Sbjct: 286 SVLSVAFSPDGKLLASGSSDGTVRLWDL------ETGKLLSSLTLKGHEGPVSSLSFSPD 339
Query: 387 FIADINNGHWDTVLKSVQSLKLPEKKLIDLYEQV----VLELIELRELGAARSLLRQTDP 442
++ G D ++ K ++ + V + G+ +R D
Sbjct: 340 GSLLVSGGSDDGTIRLWDLRTGKPLKTLEGHSNVLSVSFSPDGRVVSSGSTDGTVRLWDL 399
Query: 443 MIFMKQHEPEVHEKLVIGLTHHPHQNLLGTYSEDGLLRF 481
+ H V L P L + S D +R
Sbjct: 400 STGSLLRNLDGHTSRVTSLDFSPDGKSLASGSSDNTIRL 438
Score = 45.8 bits (107), Expect = 3e-05
Identities = 38/187 (20%), Positives = 72/187 (38%), Gaps = 14/187 (7%)
Query: 162 SEMLASGSQSGKVKIWKIATGQCLRKLEKAHSLGVTCIQFSRDNSQILTASFDTYVRIHG 221
+ ++ S++ + K G L L + + S +L D+ V +
Sbjct: 2 VDNSSTSSENKSKLLKKSELGPSLNSLS------LLSLGSSESGILLLALLSDSLVSLPD 55
Query: 222 LKSGKMLKEFRGHSSFVNDITFTADGHSVLSASSDGTVKMWNLKTTECTSTFKSLGASDI 281
L S RGH + I F+ DG +LS SSDGT+K+W+L E G D
Sbjct: 56 LSSL----LLRGHEDSITSIAFSPDGELLLSGSSDGTIKLWDLDNGEKLIKSLE-GLHDS 110
Query: 282 AVNSIHLLPKNTEHFVVCNKT--NTVVIMNMQGQIVRSLSSGKREGGDFLCCTTSPRGEW 339
+V+ + L + ++ + + TV + ++ + + + + SP G+
Sbjct: 111 SVSKLALSSPDGNSILLASSSLDGTVKLWDLSTP-GKLIRTLEGHSESVTSLAFSPDGKL 169
Query: 340 IYCVGED 346
+
Sbjct: 170 LASGSSL 176
Score = 35.4 bits (80), Expect = 0.058
Identities = 16/62 (25%), Positives = 22/62 (35%)
Query: 85 EKYPTQLSKQIKFGSKSHVECARFSPDGQYLITGSVDGFIEVWNFTTGKIRKDLKYQAQD 144
T + G S V FSPDG+ L +GS D I +W+ T +
Sbjct: 397 WDLSTGSLLRNLDGHTSRVTSLDFSPDGKSLASGSSDNTIRLWDLKTSLKSVSFSPDGKV 456
Query: 145 NF 146
Sbjct: 457 LA 458
>gnl|CDD|177776 PLN00181, PLN00181, protein SPA1-RELATED; Provisional.
Length = 793
Score = 63.6 bits (154), Expect = 1e-10
Identities = 58/210 (27%), Positives = 103/210 (49%), Gaps = 36/210 (17%)
Query: 70 IDLFRGKAAMKDQEEEKYPT-QLSKQIKFGS-------KSHVECARFSPDGQYLITGSVD 121
I +F ++ +KD + YP +L+ + K KS V + F +
Sbjct: 507 IKIFECESIIKDGRDIHYPVVELASRSKLSGICWNSYIKSQVASSNF------------E 554
Query: 122 GFIEVWNFTTGKIRKDLKYQAQDNFMLMEEAVMSLAYSR-DSEMLASGSQSGKVKIWKIA 180
G ++VW+ ++ ++K E+ V S+ YS D +LASGS G VK+W I
Sbjct: 555 GVVQVWDVARSQLVTEMKEH--------EKRVWSIDYSSADPTLLASGSDDGSVKLWSIN 606
Query: 181 TGQCLRKLE-KAHSLGVTCIQFSRDNSQILT-ASFDTYVRIHGLKSGKM-LKEFRGHSSF 237
G + ++ KA+ + C+QF ++ + L S D V + L++ K+ L GHS
Sbjct: 607 QGVSIGTIKTKAN---ICCVQFPSESGRSLAFGSADHKVYYYDLRNPKLPLCTMIGHSKT 663
Query: 238 VNDITFTADGHSVLSASSDGTVKMWNLKTT 267
V+ + F D +++S+S+D T+K+W+L +
Sbjct: 664 VSYVRFV-DSSTLVSSSTDNTLKLWDLSMS 692
Score = 48.9 bits (116), Expect = 5e-06
Identities = 42/171 (24%), Positives = 82/171 (47%), Gaps = 17/171 (9%)
Query: 118 GSVDGFIE----VWNFTTGKIRKDLKYQAQDNFMLMEEAVMSLAYSRDSEMLASGSQSGK 173
G +D F+E +F+ +++ DLK Q + + V ++ + RD E A+ + K
Sbjct: 450 GWIDPFLEGLCKYLSFSKLRVKADLK---QGDLLNSSNLVCAIGFDRDGEFFATAGVNKK 506
Query: 174 VKIWK----IATGQCLR----KLEKAHSLGVTCIQFSRDNSQILTASFDTYVRIHGLKSG 225
+KI++ I G+ + +L L C S SQ+ +++F+ V++ +
Sbjct: 507 IKIFECESIIKDGRDIHYPVVELASRSKLSGICWN-SYIKSQVASSNFEGVVQVWDVARS 565
Query: 226 KMLKEFRGHSSFVNDITF-TADGHSVLSASSDGTVKMWNLKTTECTSTFKS 275
+++ E + H V I + +AD + S S DG+VK+W++ T K+
Sbjct: 566 QLVTEMKEHEKRVWSIDYSSADPTLLASGSDDGSVKLWSINQGVSIGTIKT 616
>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 = 50.4 bits (121), Expect = 1e-08
Identities = 17/40 (42%), Positives = 27/40 (67%)
Query: 224 SGKMLKEFRGHSSFVNDITFTADGHSVLSASSDGTVKMWN 263
SG++LK +GH+ V + F+ DG + S S DGT+K+W+
Sbjct: 1 SGELLKTLKGHTGPVTSVAFSPDGKYLASGSDDGTIKLWD 40
Score = 41.5 bits (98), Expect = 1e-05
Identities = 15/31 (48%), Positives = 20/31 (64%)
Query: 98 GSKSHVECARFSPDGQYLITGSVDGFIEVWN 128
G V FSPDG+YL +GS DG I++W+
Sbjct: 10 GHTGPVTSVAFSPDGKYLASGSDDGTIKLWD 40
Score = 40.8 bits (96), Expect = 3e-05
Identities = 12/40 (30%), Positives = 22/40 (55%), Gaps = 1/40 (2%)
Query: 181 TGQCLRKLEKAHSLGVTCIQFSRDNSQILTASFDTYVRIH 220
+G+ L+ L K H+ VT + FS D + + S D +++
Sbjct: 1 SGELLKTL-KGHTGPVTSVAFSPDGKYLASGSDDGTIKLW 39
Score = 37.3 bits (87), Expect = 5e-04
Identities = 13/29 (44%), Positives = 18/29 (62%)
Query: 150 EEAVMSLAYSRDSEMLASGSQSGKVKIWK 178
V S+A+S D + LASGS G +K+W
Sbjct: 12 TGPVTSVAFSPDGKYLASGSDDGTIKLWD 40
>gnl|CDD|201208 pfam00400, WD40, WD domain, G-beta repeat.
Length = 39
Score = 50.0 bits (120), Expect = 2e-08
Identities = 16/39 (41%), Positives = 27/39 (69%)
Query: 225 GKMLKEFRGHSSFVNDITFTADGHSVLSASSDGTVKMWN 263
GK+L+ +GH+ V + F+ DG+ + S S DGTV++W+
Sbjct: 1 GKLLRTLKGHTGPVTSVAFSPDGNLLASGSDDGTVRVWD 39
Score = 40.8 bits (96), Expect = 3e-05
Identities = 14/31 (45%), Positives = 17/31 (54%)
Query: 98 GSKSHVECARFSPDGQYLITGSVDGFIEVWN 128
G V FSPDG L +GS DG + VW+
Sbjct: 9 GHTGPVTSVAFSPDGNLLASGSDDGTVRVWD 39
Score = 40.4 bits (95), Expect = 4e-05
Identities = 15/38 (39%), Positives = 22/38 (57%), Gaps = 1/38 (2%)
Query: 182 GQCLRKLEKAHSLGVTCIQFSRDNSQILTASFDTYVRI 219
G+ LR L K H+ VT + FS D + + + S D VR+
Sbjct: 1 GKLLRTL-KGHTGPVTSVAFSPDGNLLASGSDDGTVRV 37
Score = 37.3 bits (87), Expect = 5e-04
Identities = 13/29 (44%), Positives = 18/29 (62%)
Query: 150 EEAVMSLAYSRDSEMLASGSQSGKVKIWK 178
V S+A+S D +LASGS G V++W
Sbjct: 11 TGPVTSVAFSPDGNLLASGSDDGTVRVWD 39
>gnl|CDD|128914 smart00668, CTLH, C-terminal to LisH motif. Alpha-helical motif of
unknown function.
Length = 58
Score = 41.0 bits (97), Expect = 4e-05
Identities = 16/56 (28%), Positives = 23/56 (41%), Gaps = 5/56 (8%)
Query: 380 TVDSVDGFIADINNGHWDTVLKSVQSLKLPEKK-----LIDLYEQVVLELIELREL 430
D I G WD L+ + SLK P + +L +Q LEL+ +L
Sbjct: 1 EFDERKRIRELILKGDWDEALEWLSSLKPPLLERNSKLEFELRKQKFLELVRQGKL 56
>gnl|CDD|128913 smart00667, LisH, Lissencephaly type-1-like homology motif.
Alpha-helical motif present in Lis1, treacle, Nopp140,
some katanin p60 subunits, muskelin, tonneau, LEUNIG and
numerous WD40 repeat-containing proteins. It is
suggested that LisH motifs contribute to the regulation
of microtubule dynamics, either by mediating
dimerisation, or else by binding cytoplasmic dynein
heavy chain or microtubules directly.
Length = 34
Score = 37.0 bits (87), Expect = 6e-04
Identities = 12/30 (40%), Positives = 20/30 (66%)
Query: 349 LVVRLIQQYLKESNLMKTLQCLQEETGVSL 378
+ RLI +YL + +T + LQ+E+G+SL
Sbjct: 5 ELNRLILEYLLRNGYEETAETLQKESGLSL 34
>gnl|CDD|173611 PTZ00421, PTZ00421, coronin; Provisional.
Length = 493
Score = 34.9 bits (80), Expect = 0.11
Identities = 36/148 (24%), Positives = 63/148 (42%), Gaps = 12/148 (8%)
Query: 95 IKFGSKSHVECARFSP-DGQYLITGSVDGFIEVWNFTTGKIRKDLKYQAQDNFMLMEE-- 151
I G + + F+P D Q L T S DG I W + L D + ++
Sbjct: 70 ILLGQEGPIIDVAFNPFDPQKLFTASEDGTIMGWGIPE----EGLTQNISDPIVHLQGHT 125
Query: 152 ---AVMSLAYSRDSEMLASGSQSGKVKIWKIATGQCLRKLEKAHSLGVTCIQFSRDNSQI 208
++S S + +LAS V +W + G+ + + K HS +T ++++ D S +
Sbjct: 126 KKVGIVSFHPSAMN-VLASAGADMVVNVWDVERGKAVEVI-KCHSDQITSLEWNLDGSLL 183
Query: 209 LTASFDTYVRIHGLKSGKMLKEFRGHSS 236
T S D + I + G ++ H+S
Sbjct: 184 CTTSKDKKLNIIDPRDGTIVSSVEAHAS 211
>gnl|CDD|173640 cd05067, PTKc_Lck_Blk, Catalytic domain of the Protein Tyrosine
Kinases, Lymphocyte-specific kinase and Blk. Protein
Tyrosine Kinase (PTK) family; Lck and Blk kinases;
catalytic (c) domain. The PTKc family is part of a
larger superfamily that includes the catalytic domains
of other kinases such as protein serine/threonine
kinases, RIO kinases, and phosphoinositide 3-kinase
(PI3K). PTKs catalyze the transfer of the
gamma-phosphoryl group from ATP to tyrosine (tyr)
residues in protein substrates. Lck (lymphocyte-specific
kinase) and Blk are members of the Src subfamily of
proteins, which are cytoplasmic (or non-receptor) tyr
kinases. Src kinases contain an N-terminal SH4 domain
with a myristoylation site, followed by SH3 and SH2
domains, a tyr kinase domain, and a regulatory
C-terminal region containing a conserved tyr. They are
activated by autophosphorylation at the tyr kinase
domain, but are negatively regulated by phosphorylation
at the C-terminal tyr by Csk (C-terminal Src Kinase).
Src proteins are involved in signaling pathways that
regulate cytokine and growth factor responses,
cytoskeleton dynamics, cell proliferation, survival, and
differentiation. Lck is expressed in T-cells and natural
killer (NK) cells. It plays a critical role in T-cell
maturation, activation, and T-cell receptor (TCR)
signaling. Lck phosphorylates ITAM (immunoreceptor tyr
activation motif) sequences on several subunits of TCRs,
leading to the activation of different second messenger
cascades. Phosphorylated ITAMs serve as binding sites
for other signaling factor such as Syk and ZAP-70,
leading to their activation and propagation of
downstream events. In addition, Lck regulates
drug-induced apoptosis by interfering with the
mitochondrial death pathway. The apototic role of Lck is
independent of its primary function in T-cell signaling.
Blk is expressed specifically in B-cells. It is involved
in pre-BCR (B-cell receptor) signaling.
Length = 260
Score = 33.7 bits (77), Expect = 0.16
Identities = 30/97 (30%), Positives = 45/97 (46%), Gaps = 19/97 (19%)
Query: 357 YLKESNLMKTLQCLQEETGVSLNTVDS------VDGFIADINNGHWDTVLKSVQSLKLPE 410
+L E+NLMK LQ V L V + + ++ NG LK+ + +KL
Sbjct: 48 FLAEANLMKQLQ---HPRLVRLYAVVTQEPIYIITEYME---NGSLVDFLKTPEGIKLTI 101
Query: 411 KKLIDLYEQVV--LELIEL-----RELGAARSLLRQT 440
KLID+ Q+ + IE R+L AA L+ +T
Sbjct: 102 NKLIDMAAQIAEGMAFIERKNYIHRDLRAANILVSET 138
>gnl|CDD|199833 cd00216, PQQ_DH_like, PQQ-dependent dehydrogenases and related
proteins. This family is composed of dehydrogenases
with pyrroloquinoline quinone (PQQ) as a cofactor, such
as ethanol, methanol, and membrane-bound glucose
dehydrogenases. The alignment model contains an 8-bladed
beta-propeller, and the family also includes distantly
related proteins which are not enzymatically active and
do not bind PQQ.
Length = 434
Score = 33.7 bits (77), Expect = 0.21
Identities = 21/109 (19%), Positives = 46/109 (42%), Gaps = 6/109 (5%)
Query: 157 AYSRDSEMLASGSQSGKVKIWKIATGQCLRKLEKAHSLGVTCIQFSRDNSQILTASFDTY 216
+Y D E L +G++ TG + + + H L + + + + + D Y
Sbjct: 309 SYDPDRE-LFYVPANGRIMALDPVTGVVVWEKSELHPLLGGPLSTAGNL--VFVGTSDGY 365
Query: 217 VRIHGLKSGKMLKEFRGHSSFVND-ITFTADGHS--VLSASSDGTVKMW 262
++ + +G+ L + + S F + +T+ DG ++ A G +W
Sbjct: 366 LKAYNADTGEKLWQQKVPSGFQAEPVTYEVDGEQYVLIQAGGGGAFPLW 414
>gnl|CDD|211858 TIGR03665, arCOG04150, arCOG04150 universal archaeal KH domain
protein. This family of proteins is universal among the
41 archaeal genomes analyzed in and is not observed
outside of the archaea. The proteins contain a single KH
domain (pfam00013) which is likely to confer the ability
to bind RNA.
Length = 172
Score = 32.5 bits (75), Expect = 0.28
Identities = 24/77 (31%), Positives = 41/77 (53%), Gaps = 8/77 (10%)
Query: 370 LQEETGVSLNTVDSVDG-FIADINNGHWDTVLKSVQSLKL------PEKKLIDLYEQVVL 422
++E TGV L +DS G + + V+K+ + +K PEK L L + +L
Sbjct: 23 IEERTGVKL-DIDSETGEVKIEEEDEDPLAVMKAREVVKAIGRGFSPEKALKLLDDDYML 81
Query: 423 ELIELRELGAARSLLRQ 439
E+I+L+E G + + LR+
Sbjct: 82 EVIDLKEYGKSPNALRR 98
>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 = 33.2 bits (76), Expect = 0.29
Identities = 16/84 (19%), Positives = 32/84 (38%), Gaps = 4/84 (4%)
Query: 219 IHGLKSGKMLKEFRGHSSFVNDITFTADGHS----VLSASSDGTVKMWNLKTTECTSTFK 274
+ GL + + R SS ++ + + + S DGT+++WNL T +C
Sbjct: 200 LRGLLPFQRYGKDRLASSAAASTIVSSSEVNGQTFLFTLSLDGTLRVWNLDTGQCAFLPS 259
Query: 275 SLGASDIAVNSIHLLPKNTEHFVV 298
+ + P ++ F
Sbjct: 260 RADSGGSRYLCVTYSPFSSGEFKF 283
>gnl|CDD|240448 cd13425, Peptidase_G1_like, Peptidases of the G1 family and
homologs that might lack peptidase activity. Some
members of this family had been classified earlier as
carboxyl peptidases insensitive to pepstatin, and the
family has also been called the eqolisin family, due to
the fact that the conserved catalytic dyad of the family
consists of a glutamate (E) and glutamine (Q) residue.
The family is found in fungi and bacteria. This family
also includes homologous uncharacterized proteins that
might lack peptidase activity.
Length = 195
Score = 30.8 bits (69), Expect = 1.0
Identities = 15/85 (17%), Positives = 32/85 (37%), Gaps = 11/85 (12%)
Query: 166 ASGSQSGKVKIWKIATGQCLRKLEKAHSLGVTCIQFSRDNSQILTASFDTYVRIHGLKSG 225
+ S +G+ + TGQ + +++ +S I N++ + F +Y +S
Sbjct: 90 KTSSGNGRATLENTTTGQIVSEIQGTNSPATLTIS----NAETIAEDFVSY------ESQ 139
Query: 226 KMLKEFRGHSSFVNDITFTADGHSV 250
+ + F + T G S
Sbjct: 140 RDAIKATFSVEF-TNCTIDNKGKSY 163
>gnl|CDD|240412 PTZ00420, PTZ00420, coronin; Provisional.
Length = 568
Score = 31.5 bits (71), Expect = 1.1
Identities = 22/76 (28%), Positives = 40/76 (52%), Gaps = 14/76 (18%)
Query: 162 SEMLASGSQSGKVKIWKIATG----------QCLRKLEKAHSLGVTCIQFSRDNSQILTA 211
SE+LASGS+ +++W+I QC+ K H ++ I ++ N I+ +
Sbjct: 87 SEILASGSEDLTIRVWEIPHNDESVKEIKDPQCIL---KGHKKKISIIDWNPMNYYIMCS 143
Query: 212 S-FDTYVRIHGLKSGK 226
S FD++V I +++ K
Sbjct: 144 SGFDSFVNIWDIENEK 159
>gnl|CDD|173641 cd05072, PTKc_Lyn, Catalytic domain of the Protein Tyrosine Kinase,
Lyn. Protein Tyrosine Kinase (PTK) family; Lyn kinase;
catalytic (c) domain. The PTKc family is part of a
larger superfamily that includes the catalytic domains
of other kinases such as protein serine/threonine
kinases, RIO kinases, and phosphoinositide 3-kinase
(PI3K). PTKs catalyze the transfer of the
gamma-phosphoryl group from ATP to tyrosine (tyr)
residues in protein substrates. Lyn is a member of the
Src subfamily of proteins, which are cytoplasmic (or
non-receptor) tyr kinases. Src kinases contain an
N-terminal SH4 domain with a myristoylation site,
followed by SH3 and SH2 domains, a tyr kinase domain,
and a regulatory C-terminal region containing a
conserved tyr. They are activated by autophosphorylation
at the tyr kinase domain, but are negatively regulated
by phosphorylation at the C-terminal tyr by Csk
(C-terminal Src Kinase). Src proteins are involved in
signaling pathways that regulate cytokine and growth
factor responses, cytoskeleton dynamics, cell
proliferation, survival, and differentiation. Lyn is
expressed in B lymphocytes and myeloid cells. It
exhibits both positive and negative regulatory roles in
B cell receptor (BCR) signaling. Lyn, as well as Fyn and
Blk, promotes B cell activation by phosphorylating ITAMs
(immunoreceptor tyr activation motifs) in CD19 and in Ig
components of BCR. It negatively regulates signaling by
its unique ability to phosphorylate ITIMs
(immunoreceptor tyr inhibition motifs) in cell surface
receptors like CD22 and CD5. Lyn also plays an important
role in G-CSF receptor signaling by phosphorylating a
variety of adaptor molecules.
Length = 261
Score = 30.0 bits (67), Expect = 2.5
Identities = 32/98 (32%), Positives = 47/98 (47%), Gaps = 14/98 (14%)
Query: 354 IQQYLKESNLMKTLQCLQEETGVSLNTVDSVDGFIADIN----NGHWDTVLKSVQSLKLP 409
+Q +L+E+NLMKT LQ + V L V + + I I G LKS + K+
Sbjct: 45 VQAFLEEANLMKT---LQHDKLVRLYAVVTKEEPIYIITEYMAKGSLLDFLKSDEGGKVL 101
Query: 410 EKKLIDLYEQVV--LELIEL-----RELGAARSLLRQT 440
KLID Q+ + IE R+L AA L+ ++
Sbjct: 102 LPKLIDFSAQIAEGMAYIERKNYIHRDLRAANVLVSES 139
>gnl|CDD|220437 pfam09844, DUF2071, Uncharacterized conserved protein (COG2071).
This conserved protein (similar to YgjF), found in
various prokaryotes, has no known function.
Length = 217
Score = 29.5 bits (67), Expect = 2.7
Identities = 13/36 (36%), Positives = 14/36 (38%), Gaps = 13/36 (36%)
Query: 42 VPPSRLLALLGQALKWQQHQGLLPPGTTIDLFRGKA 77
V P L LLPPG +D F GKA
Sbjct: 15 VDPEVL-------------APLLPPGLELDTFDGKA 37
>gnl|CDD|215396 PLN02743, PLN02743, nicotinamidase.
Length = 239
Score = 29.7 bits (67), Expect = 2.8
Identities = 13/32 (40%), Positives = 19/32 (59%)
Query: 360 ESNLMKTLQCLQEETGVSLNTVDSVDGFIADI 391
E NL+ LQ L+ + V+L D +DGF+ I
Sbjct: 103 EENLVPALQWLENDPNVTLRRKDCIDGFVGAI 134
>gnl|CDD|132187 TIGR03143, AhpF_homolog, putative alkyl hydroperoxide reductase F
subunit. This family of thioredoxin reductase homologs
is found adjacent to alkylhydroperoxide reductase C
subunit predominantly in cases where there is only one C
subunit in the genome and that genome is lacking the F
subunit partner (also a thioredcxin reductase homolog)
that is usually found (TIGR03140).
Length = 555
Score = 30.1 bits (68), Expect = 2.8
Identities = 22/80 (27%), Positives = 38/80 (47%), Gaps = 5/80 (6%)
Query: 112 GQYLITGSVDGFIEVWNFTTGKIRKDLKYQAQD---NFMLMEEAVMSLAYSRDSEMLASG 168
GQ IT V + + N T ++ ++++ QAQD F+ + V+ + + D + + +
Sbjct: 40 GQITITSEVVNYPGILNTTGPELMQEMRQQAQDFGVKFL--QAEVLDVDFDGDIKTIKTA 97
Query: 169 SQSGKVKIWKIATGQCLRKL 188
K IATG RKL
Sbjct: 98 RGDYKTLAVLIATGASPRKL 117
>gnl|CDD|238729 cd01452, VWA_26S_proteasome_subunit, 26S proteasome plays a major
role in eukaryotic protein breakdown, especially for
ubiquitin-tagged proteins. It is an ATP-dependent
protease responsible for the bulk of non-lysosomal
proteolysis in eukaryotes, often using covalent
modification of proteins by ubiquitylation. It consists
of a 20S proteolytic core particle (CP) and a 19S
regulatory particle (RP). The CP is an ATP independent
peptidase consisting of hydrolyzing activities. One or
both ends of CP carry the RP that confers both ubiquitin
and ATP dependence to the 26S proteosome. The RP's
proposed functions include recognition of substrates and
translocation of these to CP for proteolysis. The RP can
dissociate into a stable lid and base subcomplexes. The
base is composed of three non-ATPase subunits (Rpn 1, 2
and 10). A single residue in the vWA domain of Rpn10 has
been implicated to be responsible for stabilizing the
lid-base association.
Length = 187
Score = 29.6 bits (67), Expect = 2.8
Identities = 13/57 (22%), Positives = 21/57 (36%), Gaps = 7/57 (12%)
Query: 295 HFVVCNKT-----NTVVIMNMQGQIVRSLSSGKREGGDFLCC--TTSPRGEWIYCVG 344
+ + KT N V +M M G L + + G L P+G+ + G
Sbjct: 34 NLICQAKTRSNPENNVGLMTMAGNSPEVLVTLTNDQGKILSKLHDVQPKGKANFITG 90
>gnl|CDD|236753 PRK10757, PRK10757, inositol monophosphatase; Provisional.
Length = 267
Score = 29.8 bits (67), Expect = 3.3
Identities = 17/50 (34%), Positives = 22/50 (44%), Gaps = 10/50 (20%)
Query: 95 IKFGSKSHVECARFSPDGQ------YLITGSVDGFIEV----WNFTTGKI 134
I K ECA F G Y+ G VDGF E+ W+F G++
Sbjct: 169 INIVGKLFTECADFRRTGSAALDLAYVAAGRVDGFFEIGLKPWDFAAGEL 218
>gnl|CDD|225333 COG2706, COG2706, 3-carboxymuconate cyclase [Carbohydrate transport
and metabolism].
Length = 346
Score = 29.6 bits (67), Expect = 3.5
Identities = 9/18 (50%), Positives = 12/18 (66%)
Query: 100 KSHVECARFSPDGQYLIT 117
HV A F+PDG+YL+
Sbjct: 144 SPHVHSANFTPDGRYLVV 161
>gnl|CDD|237494 PRK13763, PRK13763, putative RNA-processing protein; Provisional.
Length = 180
Score = 28.7 bits (65), Expect = 4.2
Identities = 27/83 (32%), Positives = 42/83 (50%), Gaps = 9/83 (10%)
Query: 365 KTLQCLQEETGVSLNTVDSVDGFIADINNGHWD--TVLKSVQSLKL------PEKKLIDL 416
+T + ++E TGV L +DS G + D VLK+ +K PEK L L
Sbjct: 23 ETKKEIEERTGVKL-EIDSETGEVIIEPTDGEDPLAVLKARDIVKAIGRGFSPEKALRLL 81
Query: 417 YEQVVLELIELRELGAARSLLRQ 439
+ VLE+I+L + G + + LR+
Sbjct: 82 DDDYVLEVIDLSDYGDSPNALRR 104
>gnl|CDD|236070 PRK07636, ligB, ATP-dependent DNA ligase; Reviewed.
Length = 275
Score = 29.3 bits (66), Expect = 4.4
Identities = 9/37 (24%), Positives = 20/37 (54%)
Query: 246 DGHSVLSASSDGTVKMWNLKTTECTSTFKSLGASDIA 282
DG ++++ ++G ++++ E T+ F L DI
Sbjct: 27 DGIRLIASKNNGLIRLYTRHNNEVTAKFPELLNLDIP 63
>gnl|CDD|224019 COG1094, COG1094, Predicted RNA-binding protein (contains KH
domains) [General function prediction only].
Length = 194
Score = 28.8 bits (65), Expect = 4.6
Identities = 20/76 (26%), Positives = 37/76 (48%), Gaps = 10/76 (13%)
Query: 364 MKTLQCLQEETGVSLNTVDSVDGFIADINNGHWDT---VLKSVQSLKL------PEKKLI 414
+ + ++E+TGV L +DS G + + +LK+ +K PEK L
Sbjct: 27 GEVKKAIEEKTGVKL-RIDSKTGSVTIRTTRKTEDPLALLKARDVVKAIGRGFPPEKALK 85
Query: 415 DLYEQVVLELIELREL 430
L + LE+I+L+++
Sbjct: 86 LLEDDYYLEVIDLKDV 101
>gnl|CDD|222592 pfam14204, Ribosomal_L18_c, Ribosomal L18 C-terminal region.
This domain is the C-terminal end of ribosomal L18/L5
proteins.
Length = 93
Score = 27.1 bits (61), Expect = 7.1
Identities = 9/21 (42%), Positives = 15/21 (71%)
Query: 78 AMKDQEEEKYPTQLSKQIKFG 98
+K+++EE+Y Q S+ IK G
Sbjct: 18 TLKEEDEERYKRQFSRYIKAG 38
>gnl|CDD|220674 pfam10282, Lactonase, Lactonase, 7-bladed beta-propeller. This
entry contains bacterial 6-phosphogluconolactonases
(6PGL)YbhE-type (EC:3.1.1.31) which hydrolyse
6-phosphogluconolactone to 6-phosphogluconate. The entry
also contains the fungal muconate lactonising enzyme
carboxy-cis,cis-muconate cyclase (EC:5.5.1.5) and
muconate cycloisomerase (EC:5.5.1.1), which convert
cis,cis-muconates to muconolactones and vice versa as
part of the microbial beta-ketoadipate pathway.
Structures of proteins in this family have revealed a
7-bladed beta-propeller fold.
Length = 344
Score = 28.7 bits (65), Expect = 7.1
Identities = 6/22 (27%), Positives = 10/22 (45%), Gaps = 2/22 (9%)
Query: 100 KSHVECARFSPDGQYLITGSVD 121
H +PDG++L+ D
Sbjct: 142 GPHAHSVVLTPDGKFLV--VPD 161
>gnl|CDD|133204 cd05073, PTKc_Hck, Catalytic domain of the Protein Tyrosine Kinase,
Hematopoietic cell kinase. Protein Tyrosine Kinase
(PTK) family; Hematopoietic cell kinase (Hck); catalytic
(c) domain. The PTKc family is part of a larger
superfamily that includes the catalytic domains of other
kinases such as protein serine/threonine kinases, RIO
kinases, and phosphoinositide 3-kinase (PI3K). PTKs
catalyze the transfer of the gamma-phosphoryl group from
ATP to tyrosine (tyr) residues in protein substrates.
Hck is a member of the Src subfamily of proteins, which
are cytoplasmic (or non-receptor) tyr kinases. Src
kinases contain an N-terminal SH4 domain with a
myristoylation site, followed by SH3 and SH2 domains, a
tyr kinase domain, and a regulatory C-terminal region
containing a conserved tyr. They are activated by
autophosphorylation at the tyr kinase domain, but are
negatively regulated by phosphorylation at the
C-terminal tyr by Csk (C-terminal Src Kinase). Src
proteins are involved in signaling pathways that
regulate cytokine and growth factor responses,
cytoskeleton dynamics, cell proliferation, survival, and
differentiation. Hck is present in myeloid and lymphoid
cells that play a role in the development of cancer. It
may be important in the oncogenic signaling of the
protein Tel-Abl, which induces a chronic myelogenous
leukemia (CML)-like disease. Hck also acts as a negative
regulator of granulocyte colony-stimulating factor
(G-CSF)-induced proliferation of granulocytic
precursors, suggesting a possible role in the
development of acute myeloid leukemia (AML). In
addition, Hck is essential in regulating the
degranulation of polymorphonuclear leukocytes (PMNs).
Genetic polymorphisms affect the expression level of
Hck, which affects PMN mediator release and influences
the development of chronic obstructive pulmonary disease
(COPD).
Length = 260
Score = 28.4 bits (63), Expect = 8.5
Identities = 25/80 (31%), Positives = 38/80 (47%), Gaps = 8/80 (10%)
Query: 354 IQQYLKESNLMKTLQCLQEETGVSLNTV---DSVDGFIADINNGHWDTVLKSVQSLKLPE 410
++ +L E+N+MKT LQ + V L+ V + + + G LKS + K P
Sbjct: 45 VEAFLAEANVMKT---LQHDKLVKLHAVVTKEPIYIITEFMAKGSLLDFLKSDEGSKQPL 101
Query: 411 KKLIDLYEQVV--LELIELR 428
KLID Q+ + IE R
Sbjct: 102 PKLIDFSAQIAEGMAFIEQR 121
>gnl|CDD|190601 pfam03323, GerA, Bacillus/Clostridium GerA spore germination
protein.
Length = 468
Score = 28.5 bits (65), Expect = 8.8
Identities = 9/30 (30%), Positives = 17/30 (56%)
Query: 110 PDGQYLITGSVDGFIEVWNFTTGKIRKDLK 139
P+ + ++ G DGF+E T IR+ ++
Sbjct: 121 PETEKVVRGPRDGFVETLRTNTALIRRRIR 150
>gnl|CDD|239640 cd03585, NTR_TIMP, NTR domain, TIMP subfamily; TIMPs, or tissue
inibitors of metalloproteases, are essential regulators
of extracellular matrix turnover and remodeling. They
form complexes with matrix metalloproteases (MMPs) and
inactivate them irreversibly by non-covalently binding
their active zinc-binding sites. The levels of activated
membrane-type MMPs, MMPs, and free TIMPs determine the
balance between matrix degradation and matrix formation
or stabilization. Consequently, TIMPs play roles in
processes that require the remodeling and degradation of
connective tissue, such as development, morphogenesis,
wound healing, as well as in various diseases and
pathological states such as tumor cell metastasis,
arthritis, and artherosclerosis. Most TIMPs bind to a
variety of MMPs. TIMP-1 and TIMP-2 appear to be
multifunctional proteins with diverse biological action.
They may exhibit growth factor-like activity and can
inhibit angiogenesis. TIMP-3 has been implicated in
apoptosis.
Length = 183
Score = 27.8 bits (62), Expect = 9.6
Identities = 20/99 (20%), Positives = 35/99 (35%), Gaps = 30/99 (30%)
Query: 75 GKAAMKDQEEEKYPTQLS----KQIK----FGSKSHVE----------CARFSPDG---Q 113
G+ + + P + KQIK F ++ C +
Sbjct: 25 GEKEVDSGNDYGNPIKRIQYEIKQIKMFKGFDKDKDIQYIYTPASSSLCGVKLDVNGKKE 84
Query: 114 YLITGSVDG---------FIEVWNFTTGKIRKDLKYQAQ 143
YLI+G V+G F+E W+ + +K L ++ Q
Sbjct: 85 YLISGKVEGGKVHITLCDFVEPWDSLSLTQKKGLNHRYQ 123
>gnl|CDD|221977 pfam13200, DUF4015, Putative glycosyl hydrolase domain. This
domain is related to other known glycosyl hydrolases
suggesting this domain is also involved in carbohydrate
break down.
Length = 315
Score = 28.3 bits (64), Expect = 9.7
Identities = 9/34 (26%), Positives = 15/34 (44%), Gaps = 1/34 (2%)
Query: 129 FTTGKIRKDLKYQAQDNFMLMEEAVMS-LAYSRD 161
F ++L Y D +A+ LAY+R+
Sbjct: 148 FPEEGFLEELDYSKGDTEETRVDAITDFLAYARE 181
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
0.318 0.133 0.387
Gapped
Lambda K H
0.267 0.0795 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 24,086,726
Number of extensions: 2295962
Number of successful extensions: 1998
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1950
Number of HSP's successfully gapped: 52
Length of query: 482
Length of database: 10,937,602
Length adjustment: 101
Effective length of query: 381
Effective length of database: 6,457,848
Effective search space: 2460440088
Effective search space used: 2460440088
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: 61 (27.2 bits)