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= psy13048
(188 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1NTY|A Chain A, Crystal Structure Of The First DhPH DOMAIN OF TRIO TO 1.7
A
Length = 311
Score = 172 bits (435), Expect = 1e-43, Method: Compositional matrix adjust.
Identities = 80/128 (62%), Positives = 105/128 (82%), Gaps = 2/128 (1%)
Query: 60 AQKFNMYVHYCRNKPDSNALLVQHGGPLFEELQKKHRVDHPVSAYLIKPVQRITKYQLLL 119
A KF MYV YC+NKPDS L+++H G F+E+Q++H + + +S+YLIKPVQRITKYQLLL
Sbjct: 94 ADKFQMYVTYCKNKPDSTQLILEHAGSYFDEIQQRHGLANSISSYLIKPVQRITKYQLLL 153
Query: 120 KDLQGEI-KGQGEIKDGLEVMLSVPRKANDALHLSLLEAPADVNIDAMGEVVLQDALQVW 178
K+L +G+GEIKDGLEVMLSVP++ANDA+HLS+LE D NI++ GE++LQ++ QVW
Sbjct: 154 KELLTCCEEGKGEIKDGLEVMLSVPKRANDAMHLSMLEG-FDENIESQGELILQESFQVW 212
Query: 179 DPKQLIRK 186
DPK LIRK
Sbjct: 213 DPKTLIRK 220
>pdb|2NZ8|B Chain B, N-Terminal Dhph Cassette Of Trio In Complex With
Nucleotide- Free Rac1
Length = 313
Score = 171 bits (434), Expect = 2e-43, Method: Compositional matrix adjust.
Identities = 80/128 (62%), Positives = 105/128 (82%), Gaps = 2/128 (1%)
Query: 60 AQKFNMYVHYCRNKPDSNALLVQHGGPLFEELQKKHRVDHPVSAYLIKPVQRITKYQLLL 119
A KF MYV YC+NKPDS L+++H G F+E+Q++H + + +S+YLIKPVQRITKYQLLL
Sbjct: 96 ADKFQMYVTYCKNKPDSTQLILEHAGSYFDEIQQRHGLANSISSYLIKPVQRITKYQLLL 155
Query: 120 KDLQGEI-KGQGEIKDGLEVMLSVPRKANDALHLSLLEAPADVNIDAMGEVVLQDALQVW 178
K+L +G+GEIKDGLEVMLSVP++ANDA+HLS+LE D NI++ GE++LQ++ QVW
Sbjct: 156 KELLTCCEEGKGEIKDGLEVMLSVPKRANDAMHLSMLEG-FDENIESQGELILQESFQVW 214
Query: 179 DPKQLIRK 186
DPK LIRK
Sbjct: 215 DPKTLIRK 222
>pdb|2KR9|A Chain A, Kalirin Dh1 Nmr Structure
Length = 190
Score = 130 bits (326), Expect = 6e-31, Method: Compositional matrix adjust.
Identities = 59/94 (62%), Positives = 79/94 (84%), Gaps = 1/94 (1%)
Query: 60 AQKFNMYVHYCRNKPDSNALLVQHGGPLFEELQKKHRVDHPVSAYLIKPVQRITKYQLLL 119
A KF MYV YC+NKPDSN L+++H G F+E+Q++H + + +S+YLIKPVQR+TKYQLLL
Sbjct: 97 ADKFQMYVTYCKNKPDSNQLILEHAGTFFDEIQQRHGLANSISSYLIKPVQRVTKYQLLL 156
Query: 120 KDLQGEI-KGQGEIKDGLEVMLSVPRKANDALHL 152
K+L +G+GE+KDGLEVMLSVP+KANDA+H+
Sbjct: 157 KELLTCCEEGKGELKDGLEVMLSVPKKANDAMHV 190
>pdb|1KZG|A Chain A, Dbscdc42(Y889f)
pdb|1KZG|C Chain C, Dbscdc42(Y889f)
Length = 353
Score = 88.2 bits (217), Expect = 2e-18, Method: Compositional matrix adjust.
Identities = 48/124 (38%), Positives = 78/124 (62%), Gaps = 9/124 (7%)
Query: 61 QKFNMYVHYCRNKPDSNALLVQHG-GPLFEELQKKHRVDHPVS--AYLIKPVQRITKYQL 117
++F +Y YC+NKP S +L Q P F+E QKK +DH +S +YL+KPVQRITKYQL
Sbjct: 99 EEFQIYEKYCQNKPRSESLWRQCSDCPFFQECQKK--LDHKLSLDSYLLKPVQRITKYQL 156
Query: 118 LLKDL---QGEIKGQGEIKDGLEVMLSVPRKANDALHLSLLEAPADVNIDAMGEVVLQDA 174
LLK++ +G ++++ L +L + + ND++HL + D N+ +G++++Q +
Sbjct: 157 LLKEMLKYSKHCEGAEDLQEALSSILGILKAVNDSMHLIAI-TGYDGNLGDLGKLLMQGS 215
Query: 175 LQVW 178
VW
Sbjct: 216 FSVW 219
>pdb|1LB1|A Chain A, Crystal Structure Of The Dbl And Pleckstrin Homology
Domains Of Dbs In Complex With Rhoa
pdb|1LB1|C Chain C, Crystal Structure Of The Dbl And Pleckstrin Homology
Domains Of Dbs In Complex With Rhoa
pdb|1LB1|E Chain E, Crystal Structure Of The Dbl And Pleckstrin Homology
Domains Of Dbs In Complex With Rhoa
pdb|1LB1|G Chain G, Crystal Structure Of The Dbl And Pleckstrin Homology
Domains Of Dbs In Complex With Rhoa
Length = 353
Score = 88.2 bits (217), Expect = 2e-18, Method: Compositional matrix adjust.
Identities = 48/124 (38%), Positives = 78/124 (62%), Gaps = 9/124 (7%)
Query: 61 QKFNMYVHYCRNKPDSNALLVQHG-GPLFEELQKKHRVDHPVS--AYLIKPVQRITKYQL 117
++F +Y YC+NKP S +L Q P F+E QKK +DH +S +YL+KPVQRITKYQL
Sbjct: 99 EEFQIYEKYCQNKPRSESLWRQCSDCPFFQECQKK--LDHKLSLDSYLLKPVQRITKYQL 156
Query: 118 LLKDL---QGEIKGQGEIKDGLEVMLSVPRKANDALHLSLLEAPADVNIDAMGEVVLQDA 174
LLK++ +G ++++ L +L + + ND++HL + D N+ +G++++Q +
Sbjct: 157 LLKEMLKYSKHCEGAEDLQEALSSILGILKAVNDSMHLIAI-TGYDGNLGDLGKLLMQGS 215
Query: 175 LQVW 178
VW
Sbjct: 216 FSVW 219
>pdb|1RJ2|A Chain A, Crystal Structure Of The DhPH FRAGMENT OF DBS WITHOUT
Bound Gtpase
pdb|1RJ2|D Chain D, Crystal Structure Of The DhPH FRAGMENT OF DBS WITHOUT
Bound Gtpase
pdb|1RJ2|G Chain G, Crystal Structure Of The DhPH FRAGMENT OF DBS WITHOUT
Bound Gtpase
pdb|1RJ2|J Chain J, Crystal Structure Of The DhPH FRAGMENT OF DBS WITHOUT
Bound Gtpase
Length = 353
Score = 88.2 bits (217), Expect = 2e-18, Method: Compositional matrix adjust.
Identities = 48/124 (38%), Positives = 78/124 (62%), Gaps = 9/124 (7%)
Query: 61 QKFNMYVHYCRNKPDSNALLVQHG-GPLFEELQKKHRVDHPVS--AYLIKPVQRITKYQL 117
++F +Y YC+NKP S +L Q P F+E QKK +DH +S +YL+KPVQRITKYQL
Sbjct: 99 EEFQIYEKYCQNKPRSESLWRQCSDCPFFQECQKK--LDHKLSLDSYLLKPVQRITKYQL 156
Query: 118 LLKDL---QGEIKGQGEIKDGLEVMLSVPRKANDALHLSLLEAPADVNIDAMGEVVLQDA 174
LLK++ +G ++++ L +L + + ND++HL + D N+ +G++++Q +
Sbjct: 157 LLKEMLKYSKHCEGAEDLQEALSSILGILKAVNDSMHLIAITG-YDGNLGDLGKLLMQGS 215
Query: 175 LQVW 178
VW
Sbjct: 216 FSVW 219
>pdb|1KZ7|A Chain A, Crystal Structure Of The DhPH FRAGMENT OF MURINE DBS IN
Complex With The Placental Isoform Of Human Cdc42
pdb|1KZ7|C Chain C, Crystal Structure Of The DhPH FRAGMENT OF MURINE DBS IN
Complex With The Placental Isoform Of Human Cdc42
Length = 353
Score = 84.7 bits (208), Expect = 3e-17, Method: Compositional matrix adjust.
Identities = 48/124 (38%), Positives = 75/124 (60%), Gaps = 9/124 (7%)
Query: 61 QKFNMYVHYCRNKPDSNALLVQHG-GPLFEELQKKHRVDHPVS--AYLIKPVQRITKYQL 117
++F +Y YC+NKP S +L Q P F+E QKK +DH +S +YL+KPVQRITKYQL
Sbjct: 99 EEFQIYEKYCQNKPRSESLWRQCSDCPFFQECQKK--LDHKLSLDSYLLKPVQRITKYQL 156
Query: 118 LLKD---LQGEIKGQGEIKDGLEVMLSVPRKANDALHLSLLEAPADVNIDAMGEVVLQDA 174
LLK+ +G ++++ L +L + + ND+ HL + D N+ +G+++ Q +
Sbjct: 157 LLKEXLKYSKHCEGAEDLQEALSSILGILKAVNDSXHLIAITG-YDGNLGDLGKLLXQGS 215
Query: 175 LQVW 178
VW
Sbjct: 216 FSVW 219
>pdb|2RGN|B Chain B, Crystal Structure Of P63rhogef Complex With Galpha-Q And
Rhoa
pdb|2RGN|E Chain E, Crystal Structure Of P63rhogef Complex With Galpha-Q And
Rhoa
Length = 354
Score = 82.0 bits (201), Expect = 2e-16, Method: Compositional matrix adjust.
Identities = 49/129 (37%), Positives = 76/129 (58%), Gaps = 9/129 (6%)
Query: 59 HAQKFNMYVHYCRNKPDSNALLVQHGGPLFEELQKK--HRVDHPVSAYLIKPVQRITKYQ 116
H ++ +MYV YC+NKP S ++ + G FEEL+++ HR+ ++ LIKPVQRI KYQ
Sbjct: 94 HERRLHMYVVYCQNKPKSEHVVSEFGDSYFEELRQQLGHRLQ--LNDLLIKPVQRIMKYQ 151
Query: 117 LLLKDLQGEIKGQG----EIKDGLEVMLSVPRKANDALHLSLLEAPADVNIDAMGEVVLQ 172
LLLKD G +++ +EVM VP++ ND + L L + + A G+++ Q
Sbjct: 152 LLLKDFLKYYNRAGMDTADLEQAVEVMCFVPKRCNDMMTLGRLRG-FEGKLTAQGKLLGQ 210
Query: 173 DALQVWDPK 181
D V +P+
Sbjct: 211 DTFWVTEPE 219
>pdb|1KI1|B Chain B, Guanine Nucleotide Exchange Region Of Intersectin In
Complex With Cdc42
pdb|1KI1|D Chain D, Guanine Nucleotide Exchange Region Of Intersectin In
Complex With Cdc42
Length = 352
Score = 43.1 bits (100), Expect = 9e-05, Method: Compositional matrix adjust.
Identities = 20/64 (31%), Positives = 40/64 (62%), Gaps = 7/64 (10%)
Query: 66 YVHYCRNKPDSNALLVQHG--GPLFEELQKKHRVD-----HPVSAYLIKPVQRITKYQLL 118
Y+ +C + + AL+ Q P F+E K+ +D P+S++++KP+QR+T+Y L+
Sbjct: 101 YIRFCSRQLNGAALIQQKTDEAPDFKEFVKRLEMDPRCKGMPLSSFILKPMQRVTRYPLI 160
Query: 119 LKDL 122
+K++
Sbjct: 161 IKNI 164
>pdb|3JV3|A Chain A, Structure Of Sh3e-Dh Unit Of Murine Intersectin-1l
pdb|3JV3|B Chain B, Structure Of Sh3e-Dh Unit Of Murine Intersectin-1l
Length = 283
Score = 42.7 bits (99), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 20/64 (31%), Positives = 40/64 (62%), Gaps = 7/64 (10%)
Query: 66 YVHYCRNKPDSNALLVQHG--GPLFEELQKKHRVD-----HPVSAYLIKPVQRITKYQLL 118
Y+ +C + + AL+ Q P F+E K+ +D P+S++++KP+QR+T+Y L+
Sbjct: 174 YIRFCSCQLNGAALIQQKTDEAPDFKEFVKRLAMDPRCKGMPLSSFILKPMQRVTRYPLI 233
Query: 119 LKDL 122
+K++
Sbjct: 234 IKNI 237
>pdb|3QBV|B Chain B, Structure Of Designed Orthogonal Interaction Between Cdc42
And Nucleotide Exchange Domains Of Intersectin
pdb|3QBV|D Chain D, Structure Of Designed Orthogonal Interaction Between Cdc42
And Nucleotide Exchange Domains Of Intersectin
Length = 351
Score = 42.0 bits (97), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 20/64 (31%), Positives = 39/64 (60%), Gaps = 7/64 (10%)
Query: 66 YVHYCRNKPDSNALLVQHG--GPLFEELQKKHRVD-----HPVSAYLIKPVQRITKYQLL 118
Y+ +C + + AL+ Q P F+E K+ +D P+S +++KP+QR+T+Y L+
Sbjct: 101 YIRFCSRQLNGAALIQQKTDEAPDFKEFVKRLAMDPRCKGMPLSEFILKPMQRVTRYPLI 160
Query: 119 LKDL 122
+K++
Sbjct: 161 IKNI 164
>pdb|3GF9|A Chain A, Crystal Structure Of Human Intersectin 2 Rhogef Domain
Length = 295
Score = 41.2 bits (95), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 23/64 (35%), Positives = 37/64 (57%), Gaps = 7/64 (10%)
Query: 66 YVHYCRNKPDSNALLVQHGG--PLFEELQKKHRVD-----HPVSAYLIKPVQRITKYQLL 118
Y+ +C + + ALL Q F+E KK D P+S++L+KP+QRIT+Y LL
Sbjct: 190 YIRFCSCQLNGAALLQQKTDEDTDFKEFLKKLASDPRCKGMPLSSFLLKPMQRITRYPLL 249
Query: 119 LKDL 122
++ +
Sbjct: 250 IRSI 253
>pdb|3JZY|A Chain A, Crystal Structure Of Human Intersectin 2 C2 Domain
Length = 510
Score = 40.4 bits (93), Expect = 6e-04, Method: Compositional matrix adjust.
Identities = 23/64 (35%), Positives = 37/64 (57%), Gaps = 7/64 (10%)
Query: 66 YVHYCRNKPDSNALLVQHGG--PLFEELQKKHRVD-----HPVSAYLIKPVQRITKYQLL 118
Y+ +C + + ALL Q F+E KK D P+S++L+KP+QRIT+Y LL
Sbjct: 119 YIRFCSCQLNGAALLQQKTDEDTDFKEFLKKLASDPRCKGMPLSSFLLKPMQRITRYPLL 178
Query: 119 LKDL 122
++ +
Sbjct: 179 IRSI 182
>pdb|1FOE|A Chain A, Crystal Structure Of Rac1 In Complex With The Guanine
Nucleotide Exchange Region Of Tiam1
pdb|1FOE|C Chain C, Crystal Structure Of Rac1 In Complex With The Guanine
Nucleotide Exchange Region Of Tiam1
pdb|1FOE|E Chain E, Crystal Structure Of Rac1 In Complex With The Guanine
Nucleotide Exchange Region Of Tiam1
pdb|1FOE|G Chain G, Crystal Structure Of Rac1 In Complex With The Guanine
Nucleotide Exchange Region Of Tiam1
Length = 377
Score = 37.0 bits (84), Expect = 0.006, Method: Compositional matrix adjust.
Identities = 25/92 (27%), Positives = 44/92 (47%), Gaps = 5/92 (5%)
Query: 59 HAQKFNMYVHYCRNKPDSNALLVQ----HGGPLFEELQK-KHRVDHPVSAYLIKPVQRIT 113
+A +F +Y +C + +LV+ F + Q + + + +YLIKP+QR+
Sbjct: 106 YADRFKLYSAFCASHTKVPKVLVKAKTDTAFKAFLDAQNPRQQHSSTLESYLIKPIQRVL 165
Query: 114 KYQLLLKDLQGEIKGQGEIKDGLEVMLSVPRK 145
KY LLL++L + E L+V + K
Sbjct: 166 KYPLLLRELFALTDAESEEHYHLDVAIKTXNK 197
>pdb|2DX1|A Chain A, Crystal Structure Of Rhogef Protein Asef
Length = 482
Score = 35.4 bits (80), Expect = 0.019, Method: Compositional matrix adjust.
Identities = 24/72 (33%), Positives = 34/72 (47%), Gaps = 10/72 (13%)
Query: 59 HAQKFNMYVHYCRNKPDSNALL-----VQHGGPLFEE---LQKKHRVDHPVSAYLIKPVQ 110
H F +Y YC N P++ L + FE LQK +D + +L+ PVQ
Sbjct: 239 HQADFQIYSEYCNNHPNACVELSRLTKLSKYVYFFEACRLLQKX--IDISLDGFLLTPVQ 296
Query: 111 RITKYQLLLKDL 122
+I KY L L +L
Sbjct: 297 KICKYPLQLAEL 308
>pdb|2PZ1|A Chain A, Crystal Structure Of Auto-Inhibited Asef
Length = 466
Score = 35.0 bits (79), Expect = 0.026, Method: Compositional matrix adjust.
Identities = 24/72 (33%), Positives = 34/72 (47%), Gaps = 10/72 (13%)
Query: 59 HAQKFNMYVHYCRNKPDSNALL-----VQHGGPLFEE---LQKKHRVDHPVSAYLIKPVQ 110
H F +Y YC N P++ L + FE LQK +D + +L+ PVQ
Sbjct: 202 HQADFQIYSEYCNNHPNACVELSRLTKLSKYVYFFEACRLLQKM--IDISLDGFLLTPVQ 259
Query: 111 RITKYQLLLKDL 122
+I KY L L +L
Sbjct: 260 KICKYPLQLAEL 271
>pdb|1BY1|A Chain A, Dbl Homology Domain From Beta-Pix
Length = 209
Score = 34.7 bits (78), Expect = 0.029, Method: Compositional matrix adjust.
Identities = 20/63 (31%), Positives = 32/63 (50%), Gaps = 3/63 (4%)
Query: 64 NMYVHYCRNKPDSNALLVQHGGPLFEELQKKHRVDHPV---SAYLIKPVQRITKYQLLLK 120
+Y+ YC N P + +L +H L E ++ K + + L KP R+ KY LLK
Sbjct: 101 TLYLTYCANHPSAVNVLTEHSEELGEFMETKGASSPGILVLTTGLSKPFMRLDKYPTLLK 160
Query: 121 DLQ 123
+L+
Sbjct: 161 ELE 163
>pdb|2DFK|A Chain A, Crystal Structure Of The Cdc42-Collybistin Ii Complex
pdb|2DFK|C Chain C, Crystal Structure Of The Cdc42-Collybistin Ii Complex
Length = 402
Score = 33.1 bits (74), Expect = 0.10, Method: Compositional matrix adjust.
Identities = 23/72 (31%), Positives = 32/72 (44%), Gaps = 10/72 (13%)
Query: 59 HAQKFNMYVHYCRNKPDSNALL--------VQHGGPLFEELQKKHRVDHPVSAYLIKPVQ 110
H F +Y YC N D+ L QH LQ+ +D + +L+ PVQ
Sbjct: 125 HQDGFWIYSEYCNNHLDACMELSKLMKDSRYQHFFEACRLLQQM--IDIAIDGFLLTPVQ 182
Query: 111 RITKYQLLLKDL 122
+I KY L L +L
Sbjct: 183 KICKYPLQLAEL 194
>pdb|3EO2|A Chain A, Crystal Structure Of The Rhogef Domain Of Human
Neuroepithelial Cell- Transforming Gene 1 Protein
Length = 231
Score = 28.1 bits (61), Expect = 2.9, Method: Compositional matrix adjust.
Identities = 21/68 (30%), Positives = 35/68 (51%), Gaps = 8/68 (11%)
Query: 62 KFNMYVHYCRNKPDSNALLVQHG-GPLFEELQKKHRVDHPVS------AYLIKPVQRITK 114
+ N Y YC N+ + ALL Q P ++ ++ ++ P S ++L P R+ K
Sbjct: 117 RLNAYRGYCSNQLAAKALLDQKKQDPRVQDFLQRC-LESPFSRKLDLWSFLDIPRSRLVK 175
Query: 115 YQLLLKDL 122
Y LLLK++
Sbjct: 176 YPLLLKEI 183
>pdb|2GTL|M Chain M, Lumbricus Erythrocruorin At 3.5a Resolution
Length = 217
Score = 27.7 bits (60), Expect = 3.8, Method: Compositional matrix adjust.
Identities = 14/37 (37%), Positives = 20/37 (54%)
Query: 98 DHPVSAYLIKPVQRITKYQLLLKDLQGEIKGQGEIKD 134
DH VS ++ K +LLL L+G+ +G G I D
Sbjct: 151 DHTVSTTQLRGFYNFGKRELLLAPLKGQSEGYGVICD 187
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
0.316 0.134 0.383
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 5,148,109
Number of Sequences: 62578
Number of extensions: 189545
Number of successful extensions: 456
Number of sequences better than 100.0: 26
Number of HSP's better than 100.0 without gapping: 18
Number of HSP's successfully gapped in prelim test: 8
Number of HSP's that attempted gapping in prelim test: 419
Number of HSP's gapped (non-prelim): 27
length of query: 188
length of database: 14,973,337
effective HSP length: 93
effective length of query: 95
effective length of database: 9,153,583
effective search space: 869590385
effective search space used: 869590385
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.6 bits)
S2: 48 (23.1 bits)