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= 005376
(699 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3O4X|E Chain E, Crystal Structure Of Complex Between Amino And Carboxy
Terminal Fragments Of Mdia1
pdb|3O4X|H Chain H, Crystal Structure Of Complex Between Amino And Carboxy
Terminal Fragments Of Mdia1
pdb|3O4X|G Chain G, Crystal Structure Of Complex Between Amino And Carboxy
Terminal Fragments Of Mdia1
pdb|3O4X|F Chain F, Crystal Structure Of Complex Between Amino And Carboxy
Terminal Fragments Of Mdia1
Length = 467
Score = 108 bits (271), Expect = 7e-24, Method: Compositional matrix adjust.
Identities = 100/344 (29%), Positives = 147/344 (42%), Gaps = 51/344 (14%)
Query: 307 DQKKAQNLSIMLRALNVTLEEVCDALLEGNE--LPAELIQTLLKMAPTAEEELKLRLFNG 364
D K AQNLSI L + + +E+ + +LE NE L +IQ L+K P E+ L
Sbjct: 103 DSKTAQNLSIFLGSFRMPYQEIKNVILEVNEAVLTESMIQNLIKQMPEPEQLKMLSELKE 162
Query: 365 ELSQLGPAERFLKALVDIPFSFKRLEALLFMCTLQEEVSATKESFEILEVACKELRNSRL 424
E L +E+F + +P RL A+LF E+V K + AC+ELR S
Sbjct: 163 EYDDLAESEQFGVVMGTVPRLRPRLNAILFKLQFSEQVENIKPEIVSVTAACEELRKSEN 222
Query: 425 FLKLLEAVLKTGNRMNDGTFRGGAQAFKLDTLLKLSDVKGVDGKTTLLHFVVQEIIXXXX 484
F LLE L GN MN G+ GA F + L KL D K D K TLLHF+
Sbjct: 223 FSSLLELTLLVGNYMNAGSRNAGAFGFNISFLCKLRDTKSADQKMTLLHFLA-------- 274
Query: 485 XXXXXXXXXXXXXXXXKTDDLLEETSKSNETDEHYRNLGLQAVSHLSSELENVKKAAAID 544
+L E N+ E V EL +V+KA+ +
Sbjct: 275 -------------------ELCE-----NDHPE---------VLKFPDELAHVEKASRVS 301
Query: 545 ADSLTGTVSKLGHALLKTRDFLNTDMKNL----GENSGFHETLKSFVQNAEGDIMWLLEE 600
A++L ++ ++ + + D++N E F E + SFV++A+ L
Sbjct: 302 AENLQKSLDQMKKQIAD----VERDVQNFPAATDEKDKFVEKMTSFVKDAQEQYNKLRMM 357
Query: 601 EKRIMSLVKSTGDYFHGNAGKDEGLRLFTIVRDFFIMLDKACKQ 644
+ +L K GDYF + K F + +F M +A K+
Sbjct: 358 HSNMETLYKELGDYFVFDPKKLSVEEFFMDLHNFRNMFLQAVKE 401
>pdb|3OBV|E Chain E, Autoinhibited Formin Mdia1 Structure
pdb|3OBV|F Chain F, Autoinhibited Formin Mdia1 Structure
pdb|3OBV|G Chain G, Autoinhibited Formin Mdia1 Structure
pdb|3OBV|H Chain H, Autoinhibited Formin Mdia1 Structure
Length = 457
Score = 107 bits (268), Expect = 2e-23, Method: Compositional matrix adjust.
Identities = 100/344 (29%), Positives = 147/344 (42%), Gaps = 51/344 (14%)
Query: 307 DQKKAQNLSIMLRALNVTLEEVCDALLEGNE--LPAELIQTLLKMAPTAEEELKLRLFNG 364
D K AQNLSI L + + +E+ + +LE NE L +IQ L+K P E+ L
Sbjct: 84 DSKTAQNLSIFLGSFRMPYQEIKNVILEVNEAVLTESMIQNLIKQMPEPEQLKMLSELKE 143
Query: 365 ELSQLGPAERFLKALVDIPFSFKRLEALLFMCTLQEEVSATKESFEILEVACKELRNSRL 424
E L +E+F + +P RL A+LF E+V K + AC+ELR S
Sbjct: 144 EYDDLAESEQFGVVMGTVPRLRPRLNAILFKLQFSEQVENIKPEIVSVTAACEELRKSEN 203
Query: 425 FLKLLEAVLKTGNRMNDGTFRGGAQAFKLDTLLKLSDVKGVDGKTTLLHFVVQEIIXXXX 484
F LLE L GN MN G+ GA F + L KL D K D K TLLHF+
Sbjct: 204 FSSLLELTLLVGNYMNAGSRNAGAFGFNISFLCKLRDTKSADQKMTLLHFLA-------- 255
Query: 485 XXXXXXXXXXXXXXXXKTDDLLEETSKSNETDEHYRNLGLQAVSHLSSELENVKKAAAID 544
+L E N+ E V EL +V+KA+ +
Sbjct: 256 -------------------ELCE-----NDHPE---------VLKFPDELAHVEKASRVS 282
Query: 545 ADSLTGTVSKLGHALLKTRDFLNTDMKNL----GENSGFHETLKSFVQNAEGDIMWLLEE 600
A++L ++ ++ + + D++N E F E + SFV++A+ L
Sbjct: 283 AENLQKSLDQMKKQIAD----VERDVQNFPAATDEKDKFVEKMTSFVKDAQEQYNKLRMM 338
Query: 601 EKRIMSLVKSTGDYFHGNAGKDEGLRLFTIVRDFFIMLDKACKQ 644
+ +L K GDYF + K F + +F M +A K+
Sbjct: 339 HSNMETLYKELGDYFVFDPKKLSVEEFFMDLHNFRNMFLQAVKE 382
>pdb|1V9D|A Chain A, Crystal Structure Of The Core Fh2 Domain Of Mouse Mdia1
pdb|1V9D|B Chain B, Crystal Structure Of The Core Fh2 Domain Of Mouse Mdia1
pdb|1V9D|C Chain C, Crystal Structure Of The Core Fh2 Domain Of Mouse Mdia1
pdb|1V9D|D Chain D, Crystal Structure Of The Core Fh2 Domain Of Mouse Mdia1
Length = 340
Score = 107 bits (267), Expect = 2e-23, Method: Compositional matrix adjust.
Identities = 103/345 (29%), Positives = 147/345 (42%), Gaps = 53/345 (15%)
Query: 307 DQKKAQNLSIMLRALNVTLEEVCDALLEGNE--LPAELIQTLLKMAPTAEEELKLRLFNG 364
D K AQNLSI L + + +E+ + +LE NE L +IQ L+K P E+ L
Sbjct: 13 DSKTAQNLSIFLGSFRMPYQEIKNVILEVNEAVLTESMIQNLIKQMPEPEQLKMLSELKE 72
Query: 365 ELSQLGPAERFLKALVDIPFSFKRLEALLFMCTLQEEVSATKESFEILEVACKELRNSRL 424
E L +E+F + +P RL A+LF E+V K + AC+ELR S
Sbjct: 73 EYDDLAESEQFGVVMGTVPRLRPRLNAILFKLQFSEQVENIKPEIVSVTAACEELRKSEN 132
Query: 425 FLKLLEAVLKTGNRMNDGTFRGGAQAFKLDTLLKLSDVKGVDGKTTLLHFVVQEIIXXXX 484
F LLE L GN MN G+ GA F + L KL D K D K TLLHF+
Sbjct: 133 FSSLLELTLLVGNYMNAGSRNAGAFGFNISFLCKLRDTKSADQKMTLLHFLA-------- 184
Query: 485 XXXXXXXXXXXXXXXXKTDDLLEETSKSNETDEHYRNLGLQAVSHLSSELENVKKAAAID 544
+L E N+ E V EL +V+KA+ +
Sbjct: 185 -------------------ELCE-----NDHPE---------VLKFPDELAHVEKASRVS 211
Query: 545 ADSLTGTVSKLGHALLKT-RDFLN----TDMKNLGENSGFHETLKSFVQNAEGDIMWLLE 599
A++L ++ ++ + RD N TD E F E + SFV++A+ L
Sbjct: 212 AENLQKSLDQMKKQIADVERDVQNFPAATD-----EKDKFVEKMTSFVKDAQEQYNKLRM 266
Query: 600 EEKRIMSLVKSTGDYFHGNAGKDEGLRLFTIVRDFFIMLDKACKQ 644
+ +L K GDYF + K F + +F M +A K+
Sbjct: 267 MHSNMETLYKELGDYFVFDPKKLSVEEFFMDLHNFRNMFLQAVKE 311
>pdb|2J1D|G Chain G, Crystallization Of Hdaam1 C-Terminal Fragment
Length = 483
Score = 93.2 bits (230), Expect = 4e-19, Method: Compositional matrix adjust.
Identities = 76/257 (29%), Positives = 121/257 (47%), Gaps = 20/257 (7%)
Query: 239 PKTKLKPFFWDKVLANPDNSMVWHQIK-SGSFQ-FNEEMIETLFG--------YXXXXXX 288
P LK F W K+ N VW +I + F+ + E +E F +
Sbjct: 11 PTNALKSFNWSKLPENKLEGTVWTEIDDTKVFKILDLEDLERTFSAYQRQQDFFVNSNSK 70
Query: 289 XXXXXXXLDT-----GPQYIQIIDQKKAQNLSIMLRALNVTLEEVCDALL---EGNELPA 340
DT + + +ID ++AQN +I+L L ++ +E+ A+L E +LP
Sbjct: 71 QKEADAIDDTLSSKLKVKELSVIDGRRAQNCNILLSRLKLSNDEIKRAILTMDEQEDLPK 130
Query: 341 ELIQTLLKMAPTAEEELKLRLFNGELSQLGPAERFLKALVDIPFSFKRLEALLFMCTLQE 400
++++ LLK P + L EL ++ A+RFL + I +RL++L F E
Sbjct: 131 DMLEQLLKFVPEKSDIDLLEEHKHELDRMAKADRFLFEMSRINHYQQRLQSLYFKKKFAE 190
Query: 401 EVSATKESFEILEVACKELRNSRLFLKLLEAVLKTGNRMNDGTFRGGAQAFKLDTLLKLS 460
V+ K E + +E+ S +LLE VL GN MN G RG A FK+ +L K++
Sbjct: 191 RVAEVKPKVEAIRSGSEEVFRSGALKQLLEVVLAFGNYMNKGQ-RGNAYGFKISSLNKIA 249
Query: 461 DVK-GVDGKTTLLHFVV 476
D K +D TLLH+++
Sbjct: 250 DTKSSIDKNITLLHYLI 266
>pdb|2Z6E|A Chain A, Crystal Structure Of Human Daam1 Fh2
pdb|2Z6E|B Chain B, Crystal Structure Of Human Daam1 Fh2
pdb|2Z6E|C Chain C, Crystal Structure Of Human Daam1 Fh2
pdb|2Z6E|D Chain D, Crystal Structure Of Human Daam1 Fh2
Length = 419
Score = 92.8 bits (229), Expect = 5e-19, Method: Compositional matrix adjust.
Identities = 60/178 (33%), Positives = 97/178 (54%), Gaps = 5/178 (2%)
Query: 303 IQIIDQKKAQNLSIMLRALNVTLEEVCDALL---EGNELPAELIQTLLKMAPTAEEELKL 359
+ +ID ++AQN +I+L L ++ +E+ A+L E +LP ++++ LLK P + L
Sbjct: 92 LSVIDGRRAQNCNILLSRLKLSNDEIKRAILTMDEQEDLPKDMLEQLLKFVPEKSDIDLL 151
Query: 360 RLFNGELSQLGPAERFLKALVDIPFSFKRLEALLFMCTLQEEVSATKESFEILEVACKEL 419
EL ++ A+RFL + I +RL++L F E V+ K E + +E+
Sbjct: 152 EEHKHELDRMAKADRFLFEMSRINHYQQRLQSLYFKKKFAERVAEVKPKVEAIRSGSEEV 211
Query: 420 RNSRLFLKLLEAVLKTGNRMNDGTFRGGAQAFKLDTLLKLSDVK-GVDGKTTLLHFVV 476
S +LLE VL GN MN G RG A FK+ +L K++D K +D TLLH+++
Sbjct: 212 FRSGALKQLLEVVLAFGNYMNKGQ-RGNAYGFKISSLNKIADTKSSIDKNITLLHYLI 268
>pdb|4EAH|A Chain A, Crystal Structure Of The Formin Homology 2 Domain Of Fmnl3
Bound To Actin
pdb|4EAH|E Chain E, Crystal Structure Of The Formin Homology 2 Domain Of Fmnl3
Bound To Actin
pdb|4EAH|C Chain C, Crystal Structure Of The Formin Homology 2 Domain Of Fmnl3
Bound To Actin
pdb|4EAH|B Chain B, Crystal Structure Of The Formin Homology 2 Domain Of Fmnl3
Bound To Actin
Length = 402
Score = 79.7 bits (195), Expect = 5e-15, Method: Compositional matrix adjust.
Identities = 51/178 (28%), Positives = 88/178 (49%), Gaps = 6/178 (3%)
Query: 303 IQIIDQKKAQNLSIMLRALNVTLEEVCDAL--LEGNELPAELIQTLLKMAPTAEEELKLR 360
+ +++ +A+NL+I LR + EE+C A+ + LP + ++ L++ PT E LR
Sbjct: 84 VTLLEANRAKNLAITLRKAGRSAEEICRAIHTFDLQTLPVDFVECLMRFLPTEAEVKLLR 143
Query: 361 LFNGE---LSQLGPAERFLKALVDIPFSFKRLEALLFMCTLQEEVSATKESFEILEVACK 417
+ E L +L +RF+ + +R+ + F+ Q+ + + A
Sbjct: 144 QYERERQPLEELAAEDRFMLLFSKVERLTQRMAGMAFLGNFQDNLQMLTPQLNAIIAASA 203
Query: 418 ELRNSRLFLKLLEAVLKTGNRMNDGTFRGGAQAFKLDTLLKLSDVKGVDGKTTLLHFV 475
+++S+ ++LE +L GN MN RG FKL +L L D K D K TLLHF+
Sbjct: 204 SVKSSQKLKQMLEIILALGNYMNSSK-RGAVYGFKLQSLDLLLDTKSTDRKMTLLHFI 260
>pdb|1Y64|B Chain B, Bni1p Formin Homology 2 Domain Complexed With Atp-actin
Length = 443
Score = 39.3 bits (90), Expect = 0.007, Method: Compositional matrix adjust.
Identities = 25/88 (28%), Positives = 41/88 (46%), Gaps = 2/88 (2%)
Query: 388 RLEALLFMCTLQEEVSATKESFEILEVACKELRNSRLFLKLLEAVLKTGNRMNDGTFRGG 447
R+ AL + + + E + ++ A L+ S + +L GN MND +
Sbjct: 202 RMRALTVVTSYEREYNELLAKLRKVDKAVSALQESDNLRNVFNVILAVGNFMNDTS--KQ 259
Query: 448 AQAFKLDTLLKLSDVKGVDGKTTLLHFV 475
AQ FKL TL +L+ +K T L++V
Sbjct: 260 AQGFKLSTLQRLTFIKDTTNSMTFLNYV 287
>pdb|1UX4|A Chain A, Crystal Structures Of A Formin Homology-2 Domain Reveal A
Tethered-Dimer Architecture
pdb|1UX4|B Chain B, Crystal Structures Of A Formin Homology-2 Domain Reveal A
Tethered-Dimer Architecture
Length = 410
Score = 39.3 bits (90), Expect = 0.008, Method: Compositional matrix adjust.
Identities = 25/88 (28%), Positives = 41/88 (46%), Gaps = 2/88 (2%)
Query: 388 RLEALLFMCTLQEEVSATKESFEILEVACKELRNSRLFLKLLEAVLKTGNRMNDGTFRGG 447
R+ AL + + + E + ++ A L+ S + +L GN MND +
Sbjct: 173 RMRALTVVTSYEREYNELLAKLRKVDKAVSALQESDNLRNVFNVILAVGNFMNDTS--KQ 230
Query: 448 AQAFKLDTLLKLSDVKGVDGKTTLLHFV 475
AQ FKL TL +L+ +K T L++V
Sbjct: 231 AQGFKLSTLQRLTFIKDTTNSMTFLNYV 258
>pdb|1UX5|A Chain A, Crystal Structures Of A Formin Homology-2 Domain Reveal A
Flexibly Tethered Dimer Architecture
Length = 411
Score = 39.3 bits (90), Expect = 0.008, Method: Compositional matrix adjust.
Identities = 27/102 (26%), Positives = 49/102 (48%), Gaps = 3/102 (2%)
Query: 375 FLKALVDI-PFSFKRLEALLFMCTLQEEVSATKESFEILEVACKELRNSRLFLKLLEAVL 433
+L+ +V++ + R+ AL + + + E + ++ A L+ S + +L
Sbjct: 165 YLQLMVNLESYWGSRMRALTVVTSYEREYNELLAKLRKVDKAVSALQESDNLRNVFNVIL 224
Query: 434 KTGNRMNDGTFRGGAQAFKLDTLLKLSDVKGVDGKTTLLHFV 475
GN MND + AQ FKL TL +L+ +K T L++V
Sbjct: 225 AVGNFMNDTS--KQAQGFKLSTLQRLTFIKDTTNSMTFLNYV 264
>pdb|3LTI|A Chain A, Crystal Structure Of The Escherichia Coli Rna Polymerase
Beta Subunit Beta2-Betai4 Domains
Length = 296
Score = 30.4 bits (67), Expect = 3.8, Method: Compositional matrix adjust.
Identities = 17/50 (34%), Positives = 27/50 (54%), Gaps = 7/50 (14%)
Query: 306 IDQKKAQNLSIMLRALNVTLEEVCDALLE-------GNELPAELIQTLLK 348
ID+++ +I+LRALN T E++ D E N+L EL+ L+
Sbjct: 51 IDRRRKLPATIILRALNYTTEQILDLFFEKVIFEIRDNKLQXELVPERLR 100
>pdb|3IYD|C Chain C, Three-Dimensional Em Structure Of An Intact
Activator-Dependent Transcription Initiation Complex
pdb|4IGC|C Chain C, X-ray Crystal Structure Of Escherichia Coli Sigma70
Holoenzyme
pdb|4IGC|H Chain H, X-ray Crystal Structure Of Escherichia Coli Sigma70
Holoenzyme
Length = 1342
Score = 29.3 bits (64), Expect = 6.8, Method: Compositional matrix adjust.
Identities = 17/50 (34%), Positives = 27/50 (54%), Gaps = 7/50 (14%)
Query: 306 IDQKKAQNLSIMLRALNVTLEEVCDALLE-------GNELPAELIQTLLK 348
ID+++ +I+LRALN T E++ D E N+L EL+ L+
Sbjct: 198 IDRRRKLPATIILRALNYTTEQILDLFFEKVIFEIRDNKLQMELVPERLR 247
>pdb|3LU0|C Chain C, Molecular Model Of Escherichia Coli Core Rna Polymerase
Length = 1342
Score = 29.3 bits (64), Expect = 7.1, Method: Compositional matrix adjust.
Identities = 17/50 (34%), Positives = 27/50 (54%), Gaps = 7/50 (14%)
Query: 306 IDQKKAQNLSIMLRALNVTLEEVCDALLE-------GNELPAELIQTLLK 348
ID+++ +I+LRALN T E++ D E N+L EL+ L+
Sbjct: 198 IDRRRKLPATIILRALNYTTEQILDLFFEKVIFEIRDNKLQMELVPERLR 247
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
0.315 0.133 0.375
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 15,823,334
Number of Sequences: 62578
Number of extensions: 581256
Number of successful extensions: 991
Number of sequences better than 100.0: 13
Number of HSP's better than 100.0 without gapping: 6
Number of HSP's successfully gapped in prelim test: 7
Number of HSP's that attempted gapping in prelim test: 969
Number of HSP's gapped (non-prelim): 19
length of query: 699
length of database: 14,973,337
effective HSP length: 106
effective length of query: 593
effective length of database: 8,340,069
effective search space: 4945660917
effective search space used: 4945660917
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (22.0 bits)
S2: 55 (25.8 bits)