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= psy17025
(2010 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3VHL|A Chain A, Crystal Structure Of The Dhr-2 Domain Of Dock8 In Complex
With Cdc42 (T17n Mutant)
Length = 288
Score = 345 bits (885), Expect = 2e-94, Method: Compositional matrix adjust.
Identities = 159/278 (57%), Positives = 214/278 (76%), Gaps = 1/278 (0%)
Query: 1720 KRVFGTYFRVGFYGMKFGDLNNEEFIYKEPTLTKLPEIFSRLENFYAERFGVNNIMIIKD 1779
KR+FGTYFRVGFYG +FGDL+ +EF+YKEP +TKLPEI RLE FY + FG + +IKD
Sbjct: 10 KRMFGTYFRVGFYGSRFGDLDEQEFVYKEPAITKLPEISHRLEGFYGQCFGAEFVEVIKD 69
Query: 1780 SNPVDTMSLDPDIAYIQITYVEPYFENYEKRYRETHFEQNFNIKTFMYATPFTTTGKAHG 1839
S PVD LDP+ AYIQIT+VEPYF+ YE + R T+FE+NFN++ FMY TPFT G+ G
Sbjct: 70 STPVDKTKLDPNKAYIQITFVEPYFDEYEMKDRVTYFEKNFNLRRFMYTTPFTLEGRPRG 129
Query: 1840 ELHEQYKRKTILTTATHFPYVKTRIQVVDRKQIILTPIEVAIEDIQKKTQELSNSIRQEP 1899
ELHEQ++R T+LTT FPY+KTRI+V +++ +LTPIEVAIED++KKT +L+ + QEP
Sbjct: 130 ELHEQHRRNTVLTTMHAFPYIKTRIRVSQKEEFVLTPIEVAIEDMKKKTLQLAVATHQEP 189
Query: 1900 PDPKILQMVLQGCIGTTVNQGPMEMAVVFLSDLLDGEKSPTKLQNKLRLCFKDFSKKCCD 1959
PD K+LQMVLQG +G TVNQGP+E+A VFL++ + + + NKLRLCFK+F +C +
Sbjct: 190 PDAKMLQMVLQGSVGATVNQGPLEVAQVFLAE-IPADPKLYRHHNKLRLCFKEFIMRCGE 248
Query: 1960 ALRKNKTLIGPDQKDYQKELERNYHRFTDKLMPLITFK 1997
A+ KN+ LI +Q++YQ+EL++NY++ D L P+I K
Sbjct: 249 AVEKNRRLITAEQREYQQELKKNYNKLRDSLRPMIERK 286
>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 = 315 bits (806), Expect = 2e-85, Method: Compositional matrix adjust.
Identities = 174/434 (40%), Positives = 252/434 (58%), Gaps = 14/434 (3%)
Query: 1564 KGYQNSPNLRLTWLANMAQKHMERNNHTEAGMCLVHSAALVAEYLHMIEEQPYLPLGAVS 1623
K Y ++P LR TWL +MA+ H++ + +EA MC VH ALVAEYL + G +
Sbjct: 1 KSYASTPELRKTWLDSMARIHVKNGDLSEAAMCYVHVTALVAEYL---TRKGVFRQGCTA 57
Query: 1624 LEFISPNCLEECAVSDDVLSPEQEGVCLGKDFTESGFVCLLEHAASSFYTAGMYETVNNV 1683
I+PN EE ++ +DV + F E + LLE A + A YE + ++
Sbjct: 58 FRVITPNIDEEASMMEDVGMQDVH-------FNEDVLMELLEQCADGLWKAERYELIADI 110
Query: 1684 YKVIFPIVEKSRDYKKLSNIHSKLHDAYVKLYQI--QGKRVFGTYFRVGFYGMKF-GDLN 1740
YK+I PI EK RD+++L++++ LH AY K+ ++ G+R+ GTYFRV F+G F D +
Sbjct: 111 YKLIIPIYEKRRDFERLAHLYDTLHRAYSKVTEVMHSGRRLLGTYFRVAFFGQGFFEDED 170
Query: 1741 NEEFIYKEPTLTKLPEIFSRLENFYAERFGVNNIMIIKDSNPVDTMSLDPDIAYIQITYV 1800
+E+IYKEP LT L EI RL Y+++FG N+ +I+DS V+ LD AYIQ+T+V
Sbjct: 171 GKEYIYKEPKLTPLSEISQRLLKLYSDKFGSENVKMIQDSGKVNPKDLDSKYAYIQVTHV 230
Query: 1801 EPYFENYEKRYRETHFEQNFNIKTFMYATPFTTTGKAHGELHEQYKRKTILTTATHFPYV 1860
P+F+ E + R+T FE++ NI+ FM+ PFT TGK G + EQ KR+TILT FPYV
Sbjct: 231 IPFFDEKELQERKTEFERSHNIRRFMFEMPFTQTGKRQGGVEEQCKRRTILTAIHCFPYV 290
Query: 1861 KTRIQVVDRKQIILTPIEVAIEDIQKKTQELSNSIRQEPPDPKILQMVLQGCIGTTVNQG 1920
K RI V+ + L PIEVAI+++ KK EL D LQ+ LQG + VN G
Sbjct: 291 KKRIPVMYQHHTDLNPIEVAIDEMSKKVAELRQLCSSAEVDMIKLQLKLQGSVSVQVNAG 350
Query: 1921 PMEMAVVFLSDLLDGEKSPTKLQNKLRLCFKDFSKKCCDALRKNKTLIGPDQKDYQKELE 1980
P+ A FL D + ++ P L+ F+ F + C AL N+ LI DQ +YQ+E++
Sbjct: 351 PLAYARAFLDD-TNTKRYPDNKVKLLKEVFRQFVEACGQALAVNERLIKEDQLEYQEEMK 409
Query: 1981 RNYHRFTDKLMPLI 1994
NY +L ++
Sbjct: 410 ANYREMAKELSEIM 423
>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 = 47.0 bits (110), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 52/219 (23%), Positives = 89/219 (40%), Gaps = 20/219 (9%)
Query: 1726 YFRVGFYGMKFGD-LNNEEFIYKEPTLTKLPEIFSRLENFYAERFGVNNIMIIKDSNPVD 1784
YF VG+YG F L N+ FIY+ + + +L + +N S P D
Sbjct: 156 YFAVGYYGQGFPSFLRNKVFIYRGKEYERREDFQMQLMTQFPNAEKMNTT-----SAPGD 210
Query: 1785 TMSLDPDIAYIQITYVEPYFENYEKRYRET-------HFEQNFNIKTFMYATPFT-TTGK 1836
+ P YIQ V+P + + R++ +F ++ ++ F Y+ P T
Sbjct: 211 DVKNAPG-QYIQCFTVQPVLDEH-PRFKNKPVPDQIINFYKSNYVQRFHYSRPVRRGTVD 268
Query: 1837 AHGELHEQYKRKTILTTATHFPYVKTRIQVVDRKQIILTPIEVAIEDIQKKTQELSNSIR 1896
E + +T TA P + +VV Q ++P+E AIE + +++ I
Sbjct: 269 PENEFASMWIERTSFVTAYKLPGILRWFEVVHMSQTTISPLENAIETMSTANEKILMMIN 328
Query: 1897 QEPPDPKI----LQMVLQGCIGTTVNQGPMEMAVVFLSD 1931
Q D + L M+L G + V G + F ++
Sbjct: 329 QYQSDETLPINPLSMLLNGIVDPAVMGGFAKYEKAFFTE 367
>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 = 46.6 bits (109), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 52/219 (23%), Positives = 89/219 (40%), Gaps = 20/219 (9%)
Query: 1726 YFRVGFYGMKFGD-LNNEEFIYKEPTLTKLPEIFSRLENFYAERFGVNNIMIIKDSNPVD 1784
YF VG+YG F L N+ FIY+ + + +L + +N S P D
Sbjct: 151 YFAVGYYGQGFPSFLRNKVFIYRGKEYERREDFQMQLMTQFPNAEKMNTT-----SAPGD 205
Query: 1785 TMSLDPDIAYIQITYVEPYFENYEKRYRET-------HFEQNFNIKTFMYATPFT-TTGK 1836
+ P YIQ V+P + + R++ +F ++ ++ F Y+ P T
Sbjct: 206 DVKNAPG-QYIQCFTVQPVLDEH-PRFKNKPVPDQIINFYKSNYVQRFHYSRPVRRGTVD 263
Query: 1837 AHGELHEQYKRKTILTTATHFPYVKTRIQVVDRKQIILTPIEVAIEDIQKKTQELSNSIR 1896
E + +T TA P + +VV Q ++P+E AIE + +++ I
Sbjct: 264 PENEFASMWIERTSFVTAYKLPGILRWFEVVHMSQTTISPLENAIETMSTANEKILMMIN 323
Query: 1897 QEPPDPKI----LQMVLQGCIGTTVNQGPMEMAVVFLSD 1931
Q D + L M+L G + V G + F ++
Sbjct: 324 QYQSDETLPINPLSMLLNGIVDPAVMGGFAKYEKAFFTE 362
>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 = 36.2 bits (82), Expect = 0.17, Method: Compositional matrix adjust.
Identities = 34/108 (31%), Positives = 56/108 (51%), Gaps = 6/108 (5%)
Query: 531 RETNLPHYLYRNLLFVYPKEINF-TGRTGSARNLTVKVQLMYGETPESALPAIFGKSSCP 589
R +++P + RN ++V + +F G +A+N+ V V + Y E + IF +
Sbjct: 17 RGSHMPGDV-RNDIYVTLVQGDFDKGSKTTAKNVEVTVSV-YDEDGKRLEHVIF-PGAGD 73
Query: 590 EFTTEAYTSVIYHN-KCPYVSDEIKIQLPPTLEDKHHLLFTFYHISCQ 636
E +E Y SVIY+ K P + +K+ +P ++ HL FTF H S Q
Sbjct: 74 EAISE-YKSVIYYQVKQPRWFETVKVAIPIEDVNRSHLRFTFRHRSSQ 120
>pdb|2YWG|A Chain A, Crystal Structure Of Gtp-Bound Lepa From Aquifex Aeolicus
Length = 600
Score = 32.7 bits (73), Expect = 1.9, Method: Composition-based stats.
Identities = 35/126 (27%), Positives = 59/126 (46%), Gaps = 19/126 (15%)
Query: 1683 VYKVIFPIVEKSRDYKKLSNIHSK--LHDAYVKLYQIQGKRVFGTYFRVGFYGMKFGDLN 1740
VY I+P + + Y++L + K ++DA + +Y+ + G FRVGF G+ ++
Sbjct: 297 VYAGIYPAEDTT--YEELRDALEKYAINDAAI-VYEPESSPALGXGFRVGFLGLLHXEIV 353
Query: 1741 NE--EFIYKEPTLTKLPEIFSRLENFYAERFGVNNIMIIKDSNPVDTMSLDPDIAYIQIT 1798
E E Y +T P + R++ + + +I+ NP D PD A + I
Sbjct: 354 QERLEREYGVKIITTAPNVIYRVKKKFTDE-------VIEVRNPXDF----PDNAGL-IE 401
Query: 1799 YVEPYF 1804
YVE F
Sbjct: 402 YVEEPF 407
>pdb|2YWE|A Chain A, Crystal Structure Of Lepa From Aquifex Aeolicus
pdb|2YWF|A Chain A, Crystal Structure Of Gmppnp-Bound Lepa From Aquifex Aeolicus
pdb|2YWH|A Chain A, Crystal Structure Of Gdp-Bound Lepa From Aquifex Aeolicus
Length = 600
Score = 31.2 bits (69), Expect = 6.6, Method: Compositional matrix adjust.
Identities = 35/126 (27%), Positives = 60/126 (47%), Gaps = 19/126 (15%)
Query: 1683 VYKVIFPIVEKSRDYKKLSNIHSK--LHDAYVKLYQIQGKRVFGTYFRVGFYGMKFGDLN 1740
VY I+P + + Y++L + K ++DA + +Y+ + G FRVGF G+ ++
Sbjct: 297 VYAGIYPAEDTT--YEELRDALEKYAINDAAI-VYEPESSPALGMGFRVGFLGLLHMEIV 353
Query: 1741 NE--EFIYKEPTLTKLPEIFSRLENFYAERFGVNNIMIIKDSNPVDTMSLDPDIAYIQIT 1798
E E Y +T P + R++ + + +I+ NP+D PD A + I
Sbjct: 354 QERLEREYGVKIITTAPNVIYRVKKKFTDE-------VIEVRNPMDF----PDNAGL-IE 401
Query: 1799 YVEPYF 1804
YVE F
Sbjct: 402 YVEEPF 407
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 0.135 0.402
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 55,605,455
Number of Sequences: 62578
Number of extensions: 2237919
Number of successful extensions: 4702
Number of sequences better than 100.0: 9
Number of HSP's better than 100.0 without gapping: 2
Number of HSP's successfully gapped in prelim test: 7
Number of HSP's that attempted gapping in prelim test: 4682
Number of HSP's gapped (non-prelim): 18
length of query: 2010
length of database: 14,973,337
effective HSP length: 113
effective length of query: 1897
effective length of database: 7,902,023
effective search space: 14990137631
effective search space used: 14990137631
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: 59 (27.3 bits)