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= psy16636
(425 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3VKH|A Chain A, X-Ray Structure Of A Functional Full-Length Dynein Motor
Domain
pdb|3VKH|B Chain B, X-Ray Structure Of A Functional Full-Length Dynein Motor
Domain
Length = 3367
Score = 305 bits (780), Expect = 4e-83, Method: Compositional matrix adjust.
Identities = 167/422 (39%), Positives = 246/422 (58%), Gaps = 23/422 (5%)
Query: 2 GRTNLPPEKIPWNALITLLSQSIYGGKIDNDFDQRLLGSFLSKLFTTRSFEADFALVANV 61
GR+N+ P+KIPW A+ T+L +IYGG+IDN+FD RLL SFL +LFT +F DF LV ++
Sbjct: 2957 GRSNIDPDKIPWIAVRTILGSTIYGGRIDNEFDMRLLYSFLEQLFTPSAFNPDFPLVPSI 3016
Query: 62 DGATRHINMPDGTRRDHFLHWIESLPDRQTPSWLGLPNSAEKVLLTTRGTDLVAKLLKMQ 121
+++P+GT R HF+ WIE+LP+ TP WLGLP +AE +LL+ + ++ L KMQ
Sbjct: 3017 G-----LSVPEGTTRAHFMKWIEALPEISTPIWLGLPENAESLLLSNKARKMINDLQKMQ 3071
Query: 122 QLED--EDEFAYTEANENKTEERNVDGRPAWMRTLHNSASTWLELLPKALQTLRRTVENI 179
E+ ED+ + + + + D A +R + + W +LLPK L+ L+RT +NI
Sbjct: 3072 SSEEDGEDDQVSGSSKKESSSSSSEDKGKAKLRA---TITEWTKLLPKPLKQLKRTTQNI 3128
Query: 180 KDPLYRYFEREVSSGAALLRDVISDLEDVILICSGGKRQTNYHRLLLSDLVKGMLPARWC 239
KDPL+R FERE+S+G L++ + +DL +++ + SG + TNY R L + + KG++P W
Sbjct: 3129 KDPLFRCFEREISTGGKLVKKITNDLANLLELISGNIKSTNYLRSLTTSISKGIVPKEWK 3188
Query: 240 RYSVPRGCTVIQWVTDFXXXXXXXXXXXXXXXXGGAKELKVYPVWLGGLFNPEAYITATR 299
YSVP ++ W++DF + VWLGGL NPEAYITATR
Sbjct: 3189 WYSVPETISLSVWISDFSKRMQQLSEISESSDYSSIQ------VWLGGLLNPEAYITATR 3242
Query: 300 QCIAEANGWSLEELVLDVSITDCMEPEKINTDDCSFRVVGLKLQGAQCRNNELVLTSTIL 359
Q ++ NGWSLE L L S + E SF V G+ L+GA N++L T +
Sbjct: 3243 QSASQLNGWSLENLRLHASSLGKISSE----GGASFNVKGMALEGAVWNNDQLTPTDILS 3298
Query: 360 MDLPVTLVRWVKVES---ETRQDKLSLPVYLNSTRTELLFNVDLNITSGQDPHSFYQRGV 416
+ + + W + KLS+PVYLN TR+ELLF++DL ++YQR V
Sbjct: 3299 TPISIATLTWKDKDDPIFNNSSSKLSVPVYLNETRSELLFSIDLPYDQSTSKQNWYQRSV 3358
Query: 417 AL 418
++
Sbjct: 3359 SI 3360
>pdb|3VKG|A Chain A, X-Ray Structure Of An Mtbd Truncation Mutant Of Dynein Motor
Domain
pdb|3VKG|B Chain B, X-Ray Structure Of An Mtbd Truncation Mutant Of Dynein Motor
Domain
Length = 3245
Score = 304 bits (779), Expect = 5e-83, Method: Compositional matrix adjust.
Identities = 167/422 (39%), Positives = 246/422 (58%), Gaps = 23/422 (5%)
Query: 2 GRTNLPPEKIPWNALITLLSQSIYGGKIDNDFDQRLLGSFLSKLFTTRSFEADFALVANV 61
GR+N+ P+KIPW A+ T+L +IYGG+IDN+FD RLL SFL +LFT +F DF LV ++
Sbjct: 2835 GRSNIDPDKIPWIAVRTILGSTIYGGRIDNEFDMRLLYSFLEQLFTPSAFNPDFPLVPSI 2894
Query: 62 DGATRHINMPDGTRRDHFLHWIESLPDRQTPSWLGLPNSAEKVLLTTRGTDLVAKLLKMQ 121
+++P+GT R HF+ WIE+LP+ TP WLGLP +AE +LL+ + ++ L KMQ
Sbjct: 2895 G-----LSVPEGTTRAHFMKWIEALPEISTPIWLGLPENAESLLLSNKARKMINDLQKMQ 2949
Query: 122 QLED--EDEFAYTEANENKTEERNVDGRPAWMRTLHNSASTWLELLPKALQTLRRTVENI 179
E+ ED+ + + + + D A +R + + W +LLPK L+ L+RT +NI
Sbjct: 2950 SSEEDGEDDQVSGSSKKESSSSSSEDKGKAKLRA---TITEWTKLLPKPLKQLKRTTQNI 3006
Query: 180 KDPLYRYFEREVSSGAALLRDVISDLEDVILICSGGKRQTNYHRLLLSDLVKGMLPARWC 239
KDPL+R FERE+S+G L++ + +DL +++ + SG + TNY R L + + KG++P W
Sbjct: 3007 KDPLFRCFEREISTGGKLVKKITNDLANLLELISGNIKSTNYLRSLTTSISKGIVPKEWK 3066
Query: 240 RYSVPRGCTVIQWVTDFXXXXXXXXXXXXXXXXGGAKELKVYPVWLGGLFNPEAYITATR 299
YSVP ++ W++DF + VWLGGL NPEAYITATR
Sbjct: 3067 WYSVPETISLSVWISDFSKRMQQLSEISESSDYSSIQ------VWLGGLLNPEAYITATR 3120
Query: 300 QCIAEANGWSLEELVLDVSITDCMEPEKINTDDCSFRVVGLKLQGAQCRNNELVLTSTIL 359
Q ++ NGWSLE L L S + E SF V G+ L+GA N++L T +
Sbjct: 3121 QSASQLNGWSLENLRLHASSLGKISSE----GGASFNVKGMALEGAVWNNDQLTPTDILS 3176
Query: 360 MDLPVTLVRWVKVES---ETRQDKLSLPVYLNSTRTELLFNVDLNITSGQDPHSFYQRGV 416
+ + + W + KLS+PVYLN TR+ELLF++DL ++YQR V
Sbjct: 3177 TPISIATLTWKDKDDPIFNNSSSKLSVPVYLNETRSELLFSIDLPYDQSTSKQNWYQRSV 3236
Query: 417 AL 418
++
Sbjct: 3237 SI 3238
>pdb|4HK3|J Chain J, I2 Fab (unbound) From Ch65-ch67 Lineage
Length = 237
Score = 31.6 bits (70), Expect = 0.86, Method: Compositional matrix adjust.
Identities = 24/82 (29%), Positives = 38/82 (46%), Gaps = 12/82 (14%)
Query: 74 TRRDHFLHWIESLPDRQTPSWLGL--PNS-----AEKV---LLTTRGTDLVAKLLKMQQL 123
T D+++HW+ P Q W+G PNS A+K + TR T + +++ +L
Sbjct: 28 TFTDYYIHWVRQAPG-QGLEWMGWIHPNSGGTNYAQKFQGWVTMTRDTSISTAYMELSRL 86
Query: 124 EDEDEFAYTEANENKTEERNVD 145
+D Y A E R+VD
Sbjct: 87 RSDDTAVYYCA-RGGLEPRSVD 107
>pdb|3DBA|A Chain A, Crystal Structure Of The Cgmp-Bound Gaf A Domain From The
Photoreceptor Phosphodiesterase 6c
pdb|3DBA|B Chain B, Crystal Structure Of The Cgmp-Bound Gaf A Domain From The
Photoreceptor Phosphodiesterase 6c
Length = 180
Score = 29.3 bits (64), Expect = 4.3, Method: Compositional matrix adjust.
Identities = 18/86 (20%), Positives = 38/86 (44%), Gaps = 15/86 (17%)
Query: 51 FEADFALVANVDGATRHINMPDGTRRDHFLHWIESLPDRQTPSWLGLPNSAEKVLLTTRG 110
F D + V + N+PD + +HF +++ T + + +P T+G
Sbjct: 83 FPLDIGIAGWVAHTKKFFNIPDVKKNNHFSDYLDKKTGYTTVNMMAIP--------ITQG 134
Query: 111 TDLVAKLLKMQQL-------EDEDEF 129
+++A ++ + +L EDE+ F
Sbjct: 135 KEVLAVVMALNKLNASEFSKEDEEVF 160
>pdb|3QMZ|A Chain A, Crystal Structure Of The Cytoplasmic Dynein Heavy Chain
Motor Domain
pdb|3QMZ|B Chain B, Crystal Structure Of The Cytoplasmic Dynein Heavy Chain
Motor Domain
Length = 2486
Score = 28.5 bits (62), Expect = 7.2, Method: Compositional matrix adjust.
Identities = 11/36 (30%), Positives = 20/36 (55%)
Query: 11 IPWNALITLLSQSIYGGKIDNDFDQRLLGSFLSKLF 46
IPW + ++ +YGGKID + D ++ + +F
Sbjct: 2374 IPWAQVRDHIATIVYGGKIDEEKDLEVVAKLCAHVF 2409
>pdb|4AI6|A Chain A, Dynein Motor Domain - Adp Complex
pdb|4AI6|B Chain B, Dynein Motor Domain - Adp Complex
pdb|4AKG|A Chain A, Dynein Motor Domain - Atp Complex
pdb|4AKG|B Chain B, Dynein Motor Domain - Atp Complex
pdb|4AKH|A Chain A, Dynein Motor Domain - Amppnp Complex
pdb|4AKH|B Chain B, Dynein Motor Domain - Amppnp Complex
pdb|4AKI|A Chain A, Dynein Motor Domain - Luac Derivative
pdb|4AKI|B Chain B, Dynein Motor Domain - Luac Derivative
Length = 2695
Score = 28.5 bits (62), Expect = 7.4, Method: Compositional matrix adjust.
Identities = 11/36 (30%), Positives = 20/36 (55%)
Query: 11 IPWNALITLLSQSIYGGKIDNDFDQRLLGSFLSKLF 46
IPW + ++ +YGGKID + D ++ + +F
Sbjct: 2583 IPWAQVRDHIATIVYGGKIDEEKDLEVVAKLCAHVF 2618
>pdb|1AHW|B Chain B, A Complex Of Extracellular Domain Of Tissue Factor With An
Inhibitory Fab (5g9)
pdb|1AHW|E Chain E, A Complex Of Extracellular Domain Of Tissue Factor With An
Inhibitory Fab (5g9)
pdb|1FGN|H Chain H, Monoclonal Murine Antibody 5g9-Anti-Human Tissue Factor
Length = 214
Score = 28.5 bits (62), Expect = 8.3, Method: Compositional matrix adjust.
Identities = 19/73 (26%), Positives = 32/73 (43%), Gaps = 13/73 (17%)
Query: 76 RDHFLHWIESLPDRQTPSWLGL-----------PNSAEKVLLTTRGTDLVAKLLKMQQLE 124
+D+++HW++ P+ Q W+GL P K +T + A L++ L
Sbjct: 30 KDYYMHWVKQRPE-QGLEWIGLIDPENGNTIYDPKFQGKASITADTSSNTA-YLQLSSLT 87
Query: 125 DEDEFAYTEANEN 137
ED Y A +N
Sbjct: 88 SEDTAVYYCARDN 100
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
0.319 0.135 0.409
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 12,376,229
Number of Sequences: 62578
Number of extensions: 486267
Number of successful extensions: 1186
Number of sequences better than 100.0: 15
Number of HSP's better than 100.0 without gapping: 8
Number of HSP's successfully gapped in prelim test: 7
Number of HSP's that attempted gapping in prelim test: 1168
Number of HSP's gapped (non-prelim): 15
length of query: 425
length of database: 14,973,337
effective HSP length: 102
effective length of query: 323
effective length of database: 8,590,381
effective search space: 2774693063
effective search space used: 2774693063
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: 53 (25.0 bits)