BLASTP 2.2.26 [Sep-21-2011]
Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer,
Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997),
"Gapped BLAST and PSI-BLAST: a new generation of protein database search
programs", Nucleic Acids Res. 25:3389-3402.
Reference for compositional score matrix adjustment: Altschul, Stephen F.,
John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis,
Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches
using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109.
Query= psy8415
(1561 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2YIN|A Chain A, Structure Of The Complex Between Dock2 And Rac1.
pdb|2YIN|B Chain B, Structure Of The Complex Between Dock2 And Rac1
Length = 436
Score = 335 bits (858), Expect = 2e-91, Method: Compositional matrix adjust.
Identities = 183/427 (42%), Positives = 248/427 (58%), Gaps = 42/427 (9%)
Query: 939 DENRDKRMSCTVNLLNFYKNEINRKEMYLRYIYKLHDLHRPADNFTEAGFTLKLYADSLS 998
DE++D RMSCTVNLLNFYK+ NR+EMY+RY+YKL DLH DN+TEA +TL L+ L
Sbjct: 8 DESKDNRMSCTVNLLNFYKDN-NREEMYIRYLYKLRDLHLDCDNYTEAAYTLLLHTWLLK 66
Query: 999 WTSSAPLINDPMCQPNGAPEWYR--KEQLYYEIISYFDKGKCWEKGIPLCKELADLYEKR 1056
W S + M P+ +R KE LY II YFDKGK WE+ I LCKELA+ YE
Sbjct: 67 W-SDEQCASQVMQTGQQHPQTHRQLKETLYETIIGYFDKGKMWEEAISLCKELAEQYEME 125
Query: 1057 LFDYKKLSNILQTQAQFCDNILNQLRPEPEYFRVGFYGLSFPLFVRNKVFVYRGLAYERM 1116
+FDY+ LS L QA+F ++I+ LRP+P+YF VG+YG FP F+RNKVF+YRG YER
Sbjct: 126 IFDYELLSQNLIQQAKFYESIMKILRPKPDYFAVGYYGQGFPSFLRNKVFIYRGKEYERR 185
Query: 1117 EAFTQRLQTEFPSANILSKNSPPSHTIQQSDVQYIQICNVKPLPERGPPCINPPLAPVPD 1176
E F +L T+FP+A ++ S P ++ + QYIQ V+P+ + P N PVPD
Sbjct: 186 EDFQMQLMTQFPNAEKMNTTSAPGDDVKNAPGQYIQCFTVQPVLDEHPRFKN---KPVPD 242
Query: 1177 KIAQYYQVNDVRTFQLDRPMHKGPIDKDNEFKSLWLERTIMTISSPLPGILRWFEVVESN 1236
+I +Y+ N V+ F RP+ +G +D +NEF S+W+ERT + LPGILRWFEVV +
Sbjct: 243 QIINFYKSNYVQRFHYSRPVRRGTVDPENEFASMWIERTSFVTAYKLPGILRWFEVVHMS 302
Query: 1237 VD----LENPG-------------------------------LQGTIDANVMGGIAKYQQ 1261
LEN L G +D VMGG AKY++
Sbjct: 303 QTTISPLENAIETMSTANEKILMMINQYQSDETLPINPLSMLLNGIVDPAVMGGFAKYEK 362
Query: 1262 AFFTPEFARGYPQYIPYINRLHILILEQVDVLENGLVVHGQLAPPGVQPLHKRLQERFAG 1321
AFFT E+ R +P+ + L LI Q+ L G+ +H + ++P H R++E F
Sbjct: 363 AFFTEEYVRDHPEDQDKLTHLKDLIAWQIPFLGAGIKIHEKRVSDNLRPFHDRMEECFKN 422
Query: 1322 LRQSIRK 1328
L+ + K
Sbjct: 423 LKMKVEK 429
>pdb|3B13|A Chain A, Crystal Structure Of The Dhr-2 Domain Of Dock2 In Complex
With Rac1 (T17n Mutant)
pdb|3B13|C Chain C, Crystal Structure Of The Dhr-2 Domain Of Dock2 In Complex
With Rac1 (T17n Mutant)
Length = 431
Score = 330 bits (847), Expect = 3e-90, Method: Compositional matrix adjust.
Identities = 181/425 (42%), Positives = 246/425 (57%), Gaps = 42/425 (9%)
Query: 941 NRDKRMSCTVNLLNFYKNEINRKEMYLRYIYKLHDLHRPADNFTEAGFTLKLYADSLSWT 1000
++D RMSCTVNLLNFYK+ NR+EMY+RY+YKL DLH DN+TEA +TL L+ L W
Sbjct: 5 SKDNRMSCTVNLLNFYKDN-NREEMYIRYLYKLRDLHLDCDNYTEAAYTLLLHTWLLKW- 62
Query: 1001 SSAPLINDPMCQPNGAPEWYR--KEQLYYEIISYFDKGKCWEKGIPLCKELADLYEKRLF 1058
S + M P+ +R KE LY II YFDKGK WE+ I LCKELA+ YE +F
Sbjct: 63 SDEQCASQVMQTGQQHPQTHRQLKETLYETIIGYFDKGKMWEEAISLCKELAEQYEMEIF 122
Query: 1059 DYKKLSNILQTQAQFCDNILNQLRPEPEYFRVGFYGLSFPLFVRNKVFVYRGLAYERMEA 1118
DY+ LS L QA+F ++I+ LRP+P+YF VG+YG FP F+RNKVF+YRG YER E
Sbjct: 123 DYELLSQNLIQQAKFYESIMKILRPKPDYFAVGYYGQGFPSFLRNKVFIYRGKEYERRED 182
Query: 1119 FTQRLQTEFPSANILSKNSPPSHTIQQSDVQYIQICNVKPLPERGPPCINPPLAPVPDKI 1178
F +L T+FP+A ++ S P ++ + QYIQ V+P+ + P N PVPD+I
Sbjct: 183 FQMQLMTQFPNAEKMNTTSAPGDDVKNAPGQYIQCFTVQPVLDEHPRFKN---KPVPDQI 239
Query: 1179 AQYYQVNDVRTFQLDRPMHKGPIDKDNEFKSLWLERTIMTISSPLPGILRWFEVVESNVD 1238
+Y+ N V+ F RP+ +G +D +NEF S+W+ERT + LPGILRWFEVV +
Sbjct: 240 INFYKSNYVQRFHYSRPVRRGTVDPENEFASMWIERTSFVTAYKLPGILRWFEVVHMSQT 299
Query: 1239 ----LENPG-------------------------------LQGTIDANVMGGIAKYQQAF 1263
LEN L G +D VMGG AKY++AF
Sbjct: 300 TISPLENAIETMSTANEKILMMINQYQSDETLPINPLSMLLNGIVDPAVMGGFAKYEKAF 359
Query: 1264 FTPEFARGYPQYIPYINRLHILILEQVDVLENGLVVHGQLAPPGVQPLHKRLQERFAGLR 1323
FT E+ R +P+ + L LI Q+ L G+ +H + ++P H R++E F L+
Sbjct: 360 FTEEYVRDHPEDQDKLTHLKDLIAWQIPFLGAGIKIHEKRVSDNLRPFHDRMEECFKNLK 419
Query: 1324 QSIRK 1328
+ K
Sbjct: 420 MKVEK 424
>pdb|3L4C|A Chain A, Structural Basis Of Membrane-Targeting By Dock180
pdb|3L4C|B Chain B, Structural Basis Of Membrane-Targeting By Dock180
Length = 220
Score = 156 bits (395), Expect = 7e-38, Method: Compositional matrix adjust.
Identities = 79/195 (40%), Positives = 121/195 (62%), Gaps = 2/195 (1%)
Query: 185 RNDLYLILERGEFEKGGKSTGKNIEVTVQVLDSDGTVLQNCLWGASGSDTSSEYHSMIIY 244
RND+Y+ L +G+F+KG K+T KN+EVTV V D DG L++ ++ +G + SEY S+I Y
Sbjct: 26 RNDIYVTLVQGDFDKGSKTTAKNVEVTVSVYDEDGKRLEHVIFPGAGDEAISEYKSVIYY 85
Query: 245 HHNSPCWSEIIRLAVPIERYQSSHIRLEYRHCSTRDKAD-NKKLLGFSFARLMEPSGATL 303
P W E +++A+PIE SH+R +RH S++D D ++K+ +F +LM G TL
Sbjct: 86 QVKQPRWFETVKVAIPIEDVNRSHLRFTFRHRSSQDSKDKSEKIFALAFVKLMRYDGTTL 145
Query: 304 QDCQHELFIYRCEERSKLDPGHYLGLASTVQEAQAGTVPIPYKTDSAHYACS-HKESVFI 362
+D +H+L +Y+ E + D YL L ST E + K+ + +C+ K+S I
Sbjct: 146 RDGEHDLIVYKAEAKKLEDAATYLSLPSTKAELEEKGHSATGKSMQSLGSCTISKDSFQI 205
Query: 363 RTLLCSTKLTQNVEI 377
TL+CSTKLTQNV++
Sbjct: 206 STLVCSTKLTQNVDL 220
>pdb|3IBV|A Chain A, Karyopherin Cytosolic State
pdb|3IBV|B Chain B, Karyopherin Cytosolic State
pdb|3ICQ|T Chain T, Karyopherin Nuclear State
pdb|3ICQ|U Chain U, Karyopherin Nuclear State
Length = 980
Score = 33.9 bits (76), Expect = 0.82, Method: Compositional matrix adjust.
Identities = 19/77 (24%), Positives = 37/77 (48%), Gaps = 5/77 (6%)
Query: 938 GDENRDK---RMSCTVNLLNFYKNEINRKEM--YLRYIYKLHDLHRPADNFTEAGFTLKL 992
GDE D + + N K+ I +M + ++Y++ + A N+ G L++
Sbjct: 157 GDEIADSLVLKTDVQIQKDNLVKDAIRANDMSDIVSFVYEMMLAYSNAKNYGTVGLCLQV 216
Query: 993 YADSLSWTSSAPLINDP 1009
YA +SW + ++N+P
Sbjct: 217 YAQWVSWININLIVNEP 233
>pdb|3VHL|A Chain A, Crystal Structure Of The Dhr-2 Domain Of Dock8 In Complex
With Cdc42 (T17n Mutant)
Length = 288
Score = 33.5 bits (75), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 25/80 (31%), Positives = 38/80 (47%), Gaps = 11/80 (13%)
Query: 1087 YFRVGFYGLSFPLFVRNKVFVYRGLAYERMEAFTQRLQ--------TEFPSANILSKNSP 1138
YFRVGFYG F + + FVY+ A ++ + RL+ EF ++ ++P
Sbjct: 16 YFRVGFYGSRFGD-LDEQEFVYKEPAITKLPEISHRLEGFYGQCFGAEF--VEVIKDSTP 72
Query: 1139 PSHTIQQSDVQYIQICNVKP 1158
T + YIQI V+P
Sbjct: 73 VDKTKLDPNKAYIQITFVEP 92
>pdb|2WM9|A Chain A, Structure Of The Complex Between Dock9 And Cdc42.
pdb|2WMN|A Chain A, Structure Of The Complex Between Dock9 And Cdc42-Gdp.
pdb|2WMO|A Chain A, Structure Of The Complex Between Dock9 And Cdc42
Length = 428
Score = 32.7 bits (73), Expect = 1.5, Method: Compositional matrix adjust.
Identities = 57/289 (19%), Positives = 106/289 (36%), Gaps = 70/289 (24%)
Query: 1025 LYYEIISYFDKGKCWEKGIPLCKELADLYEKRLFDYKKLSNILQTQAQFCDNILNQLRPE 1084
+Y II ++K + +E+ LA LY+ Y K++ ++ + +
Sbjct: 110 IYKLIIPIYEKRRDFER-------LAHLYDTLHRAYSKVTEVMHSGRRLLGT-------- 154
Query: 1085 PEYFRVGFYGLSFPLFVRNKVFVYRGLAYERMEAFTQRL----QTEFPSANILSKNSPPS 1140
YFRV F+G F K ++Y+ + +QRL +F S N+ K S
Sbjct: 155 --YFRVAFFGQGFFEDEDGKEYIYKEPKLTPLSEISQRLLKLYSDKFGSENV--KMIQDS 210
Query: 1141 HTIQQSDVQ----YIQICNVKPLPERGPPCINPPLAPVPDKIAQYYQVNDVRTFQLDRPM 1196
+ D+ YIQ+ +V P + + ++ ++ + +++R F + P
Sbjct: 211 GKVNPKDLDSKYAYIQVTHVIPFFDE---------KELQERKTEFERSHNIRRFMFEMPF 261
Query: 1197 HKGPIDKDNEFKSLWLERTIMTISSPLPGILRWFEVV-ESNVDLENP------------- 1242
+ + + RTI+T P + + V+ + + DL NP
Sbjct: 262 TQTG-KRQGGVEEQCKRRTILTAIHCFPYVKKRIPVMYQHHTDL-NPIEVAIDEMSKKVA 319
Query: 1243 ------------------GLQGTIDANVMGGIAKYQQAFFTPEFARGYP 1273
LQG++ V G Y +AF + YP
Sbjct: 320 ELRQLCSSAEVDMIKLQLKLQGSVSVQVNAGPLAYARAFLDDTNTKRYP 368
>pdb|2NVP|A Chain A, X-Ray Crystal Structure Of Protein Cpf_0428 From
Clostridium Perfringens. Northeast Structural Genomics
Consortium Target Cpr63
Length = 435
Score = 32.7 bits (73), Expect = 1.9, Method: Compositional matrix adjust.
Identities = 48/184 (26%), Positives = 89/184 (48%), Gaps = 33/184 (17%)
Query: 696 KLWEELGDKKPLKDFLLRAFLVLRDLVKQDVF---PPDWLVMRMVTNQVILTALGH--LA 750
K W+E GD+ D + +AF + DL + + + D+ R+ N + L H L
Sbjct: 146 KYWKESGDETFFNDDIKKAFNXIIDLWRVEQYHREKSDYSFQRL--NCSVTDTLSHEGLG 203
Query: 751 PPLIY----W--FLDSRGA--FAYQVWSNYFN-LAVSFLTQPSLQLEKFSDVK------R 795
P+ Y W F S A + Y + +N F +A+ ++++ + ++ K ++K R
Sbjct: 204 TPVTYTGXTWSGFRPSDDACEYGYLIPANXFAVVALRYISEIAEKVYKDEELKEKADSLR 263
Query: 796 EKI---IEKYGDMRVQMGFQILKVWSSLGEHKINF-----IPSMVG-PFLEVTLVPENEL 846
E+I IEK+G + + GF + + + G NF +PS++ P+LE + E+E+
Sbjct: 264 EEIDNAIEKHGKV-YKEGFGEVYAYETDGXGNYNFXDDANVPSLLSIPYLEYKGI-EDEV 321
Query: 847 RKAT 850
+ T
Sbjct: 322 YQNT 325
Database: pdbaa
Posted date: Mar 3, 2013 10:34 PM
Number of letters in database: 14,973,337
Number of sequences in database: 62,578
Lambda K H
0.320 0.136 0.409
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 46,471,287
Number of Sequences: 62578
Number of extensions: 1967913
Number of successful extensions: 4173
Number of sequences better than 100.0: 8
Number of HSP's better than 100.0 without gapping: 4
Number of HSP's successfully gapped in prelim test: 4
Number of HSP's that attempted gapping in prelim test: 4158
Number of HSP's gapped (non-prelim): 11
length of query: 1561
length of database: 14,973,337
effective HSP length: 112
effective length of query: 1449
effective length of database: 7,964,601
effective search space: 11540706849
effective search space used: 11540706849
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 58 (26.9 bits)