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= 039012
(876 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2J1D|G Chain G, Crystallization Of Hdaam1 C-Terminal Fragment
Length = 483
Score = 74.3 bits (181), Expect = 2e-13, Method: Compositional matrix adjust.
Identities = 62/253 (24%), Positives = 108/253 (42%), Gaps = 16/253 (6%)
Query: 417 LKPFFWDKVLASPDHAMVWHEISSGSF-----------QFNEEMIESLFGYKPATKSRNE 465
LK F W K+ + VW EI F+ + F +K +
Sbjct: 15 LKSFNWSKLPENKLEGTVWTEIDDTKVFKILDLEDLERTFSAYQRQQDFFVNSNSKQKEA 74
Query: 466 CGKSNSVSSESSAQYIQIIDTRKAQNLSIILRALNLTSEEVVDAXXXXXXXXXXXXXXXX 525
+++SS+ + + +ID R+AQN +I+L L L+++E+ A
Sbjct: 75 DAIDDTLSSKLKVKELSVIDGRRAQNCNILLSRLKLSNDEIKRAILTMDEQEDLPKDMLE 134
Query: 526 KMAPTTDEELKLRLF---PGDISQLGPAERFLKTLVDIPFAFKRIESLIFMGSHQEDMSS 582
++ E+ + L ++ ++ A+RFL + I +R++SL F E ++
Sbjct: 135 QLLKFVPEKSDIDLLEEHKHELDRMAKADRFLFEMSRINHYQQRLQSLYFKKKFAERVAE 194
Query: 583 IKDSFKTLEVACDXXXXXXXXXXXXEAVLKTGNRMNDGTYRGGAQAFKLDTLLKLADVKG 642
+K + + + E VL GN MN G RG A FK+ +L K+AD K
Sbjct: 195 VKPKVEAIRSGSEEVFRSGALKQLLEVVLAFGNYMNKGQ-RGNAYGFKISSLNKIADTKS 253
Query: 643 T-DGKTTLLHFVV 654
+ D TLLH+++
Sbjct: 254 SIDKNITLLHYLI 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 = 73.9 bits (180), Expect = 4e-13, Method: Compositional matrix adjust.
Identities = 62/253 (24%), Positives = 108/253 (42%), Gaps = 16/253 (6%)
Query: 417 LKPFFWDKVLASPDHAMVWHEISSGSF-----------QFNEEMIESLFGYKPATKSRNE 465
LK F W K+ + VW EI F+ + F +K +
Sbjct: 17 LKSFNWSKLPENKLEGTVWTEIDDTKVFKILDLEDLERTFSAYQRQQDFFVNSNSKQKEA 76
Query: 466 CGKSNSVSSESSAQYIQIIDTRKAQNLSIILRALNLTSEEVVDAXXXXXXXXXXXXXXXX 525
+++SS+ + + +ID R+AQN +I+L L L+++E+ A
Sbjct: 77 DAIDDTLSSKLKVKELSVIDGRRAQNCNILLSRLKLSNDEIKRAILTMDEQEDLPKDMLE 136
Query: 526 KMAPTTDEELKLRLF---PGDISQLGPAERFLKTLVDIPFAFKRIESLIFMGSHQEDMSS 582
++ E+ + L ++ ++ A+RFL + I +R++SL F E ++
Sbjct: 137 QLLKFVPEKSDIDLLEEHKHELDRMAKADRFLFEMSRINHYQQRLQSLYFKKKFAERVAE 196
Query: 583 IKDSFKTLEVACDXXXXXXXXXXXXEAVLKTGNRMNDGTYRGGAQAFKLDTLLKLADVKG 642
+K + + + E VL GN MN G RG A FK+ +L K+AD K
Sbjct: 197 VKPKVEAIRSGSEEVFRSGALKQLLEVVLAFGNYMNKGQ-RGNAYGFKISSLNKIADTKS 255
Query: 643 T-DGKTTLLHFVV 654
+ D TLLH+++
Sbjct: 256 SIDKNITLLHYLI 268
>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 = 70.1 bits (170), Expect = 5e-12, Method: Compositional matrix adjust.
Identities = 93/462 (20%), Positives = 162/462 (35%), Gaps = 57/462 (12%)
Query: 422 WDKVLASP-DHAMVWHEISSGSFQFNEEMIESLFGYKPATKSR-----NECGKSNSVSSE 475
W K +A W ++ F+ NE + + TK+ E G+ +
Sbjct: 34 WSKFVAEDLSQDCFWTKVKEDRFENNELFAKLTLAFSAQTKTSKAKKDQEGGEEKKSVQK 93
Query: 476 SSAQYIQIIDTRKAQNLSIILRALNLTSEEV--VDAXXXXXXXXXXXXXXXXKMAPTTDE 533
+ ++++D++ AQNLSI L + + +E+ V K P ++
Sbjct: 94 KKVKELKVLDSKTAQNLSIFLGSFRMPYQEIKNVILEVNEAVLTESMIQNLIKQMPEPEQ 153
Query: 534 ELKLRLFPGDISQLGPAERFLKTLVDIPFAFKRIESLIFMGSHQEDMSSIKDSFKTLEVA 593
L + L +E+F + +P R+ +++F E + +IK ++ A
Sbjct: 154 LKMLSELKEEYDDLAESEQFGVVMGTVPRLRPRLNAILFKLQFSEQVENIKPEIVSVTAA 213
Query: 594 CDXXXXXXXXXXXXEAVLKTGNRMNDGTYRGGAQAFKLDTLLKLADVKGTDGKTTLLHFV 653
C+ E L GN MN G+ GA F + L KL D K D K TLLHF+
Sbjct: 214 CEELRKSENFSSLLELTLLVGNYMNAGSRNAGAFGFNISFLCKLRDTKSADQKMTLLHFL 273
Query: 654 VQEIIRSEGIXXXXXXXXXXXXXXXXLKSEEFVEDSSPQSAEKYSILGLQVVSGLSTELE 713
E E+ P+ V EL
Sbjct: 274 A-----------------------------ELCENDHPE------------VLKFPDELA 292
Query: 714 DVKKAAVIDADXXXXXXXXXXXXXXXXXXFLDTEMKNKDEKTEFYNVVTKFLERAETDIA 773
V+KA+ + A+ + DEK +F +T F++ A+
Sbjct: 293 HVEKASRVSAENLQKSLDQMKKQIADVERDVQNFPAATDEKDKFVEKMTSFVKDAQEQYN 352
Query: 774 WLLEEEKRIMALVKSTADYFHGNSGKDEGLRLFTIVRDFLIMLDKSCKQVKITTKPSRTS 833
L + L K DYF + K F + +F M ++ K+ + +
Sbjct: 353 KLRMMHSNMETLYKELGDYFVFDPKKLSVEEFFMDLHNFRNMFLQAVKENQKRRETEEKM 412
Query: 834 RKETLTSSPSRENRQPSSDMRQKLFPAIEDRRMDFSSSDDES 875
R+ L + + R R++L +D ++ DE+
Sbjct: 413 RRAKLAKEKAEKERLEKQQKREQL--------IDMNAEGDET 446
>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 = 69.3 bits (168), Expect = 1e-11, Method: Compositional matrix adjust.
Identities = 93/462 (20%), Positives = 162/462 (35%), Gaps = 57/462 (12%)
Query: 422 WDKVLASP-DHAMVWHEISSGSFQFNEEMIESLFGYKPATKSR-----NECGKSNSVSSE 475
W K +A W ++ F+ NE + + TK+ E G+ +
Sbjct: 15 WSKFVAEDLSQDCFWTKVKEDRFENNELFAKLTLAFSAQTKTSKAKKDQEGGEEKKSVQK 74
Query: 476 SSAQYIQIIDTRKAQNLSIILRALNLTSEEV--VDAXXXXXXXXXXXXXXXXKMAPTTDE 533
+ ++++D++ AQNLSI L + + +E+ V K P ++
Sbjct: 75 KKVKELKVLDSKTAQNLSIFLGSFRMPYQEIKNVILEVNEAVLTESMIQNLIKQMPEPEQ 134
Query: 534 ELKLRLFPGDISQLGPAERFLKTLVDIPFAFKRIESLIFMGSHQEDMSSIKDSFKTLEVA 593
L + L +E+F + +P R+ +++F E + +IK ++ A
Sbjct: 135 LKMLSELKEEYDDLAESEQFGVVMGTVPRLRPRLNAILFKLQFSEQVENIKPEIVSVTAA 194
Query: 594 CDXXXXXXXXXXXXEAVLKTGNRMNDGTYRGGAQAFKLDTLLKLADVKGTDGKTTLLHFV 653
C+ E L GN MN G+ GA F + L KL D K D K TLLHF+
Sbjct: 195 CEELRKSENFSSLLELTLLVGNYMNAGSRNAGAFGFNISFLCKLRDTKSADQKMTLLHFL 254
Query: 654 VQEIIRSEGIXXXXXXXXXXXXXXXXLKSEEFVEDSSPQSAEKYSILGLQVVSGLSTELE 713
E E+ P+ V EL
Sbjct: 255 A-----------------------------ELCENDHPE------------VLKFPDELA 273
Query: 714 DVKKAAVIDADXXXXXXXXXXXXXXXXXXFLDTEMKNKDEKTEFYNVVTKFLERAETDIA 773
V+KA+ + A+ + DEK +F +T F++ A+
Sbjct: 274 HVEKASRVSAENLQKSLDQMKKQIADVERDVQNFPAATDEKDKFVEKMTSFVKDAQEQYN 333
Query: 774 WLLEEEKRIMALVKSTADYFHGNSGKDEGLRLFTIVRDFLIMLDKSCKQVKITTKPSRTS 833
L + L K DYF + K F + +F M ++ K+ + +
Sbjct: 334 KLRMMHSNMETLYKELGDYFVFDPKKLSVEEFFMDLHNFRNMFLQAVKENQKRRETEEKM 393
Query: 834 RKETLTSSPSRENRQPSSDMRQKLFPAIEDRRMDFSSSDDES 875
R+ L + + R R++L +D ++ DE+
Sbjct: 394 RRAKLAKEKAEKERLEKQQKREQL--------IDMNAEGDET 427
>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 = 66.2 bits (160), Expect = 6e-11, Method: Compositional matrix adjust.
Identities = 48/193 (24%), Positives = 85/193 (44%), Gaps = 8/193 (4%)
Query: 466 CGKSNSVSSESSAQYIQIIDTRKAQNLSIILRALNLTSEEVVDAXXXXXXXX--XXXXXX 523
C K+ + ++ +A + +++ +A+NL+I LR ++EE+ A
Sbjct: 71 CSKNKT--AQKAASKVTLLEANRAKNLAITLRKAGRSAEEICRAIHTFDLQTLPVDFVEC 128
Query: 524 XXKMAPTTDEELKLRLFPGD---ISQLGPAERFLKTLVDIPFAFKRIESLIFMGSHQEDM 580
+ PT E LR + + + +L +RF+ + +R+ + F+G+ Q+++
Sbjct: 129 LMRFLPTEAEVKLLRQYERERQPLEELAAEDRFMLLFSKVERLTQRMAGMAFLGNFQDNL 188
Query: 581 SSIKDSFKTLEVACDXXXXXXXXXXXXEAVLKTGNRMNDGTYRGGAQAFKLDTLLKLADV 640
+ + A E +L GN MN + RG FKL +L L D
Sbjct: 189 QMLTPQLNAIIAASASVKSSQKLKQMLEIILALGNYMN-SSKRGAVYGFKLQSLDLLLDT 247
Query: 641 KGTDGKTTLLHFV 653
K TD K TLLHF+
Sbjct: 248 KSTDRKMTLLHFI 260
>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 = 64.7 bits (156), Expect = 2e-10, Method: Compositional matrix adjust.
Identities = 46/173 (26%), Positives = 72/173 (41%), Gaps = 2/173 (1%)
Query: 485 DTRKAQNLSIILRALNLTSEEV--VDAXXXXXXXXXXXXXXXXKMAPTTDEELKLRLFPG 542
D++ AQNLSI L + + +E+ V K P ++ L
Sbjct: 13 DSKTAQNLSIFLGSFRMPYQEIKNVILEVNEAVLTESMIQNLIKQMPEPEQLKMLSELKE 72
Query: 543 DISQLGPAERFLKTLVDIPFAFKRIESLIFMGSHQEDMSSIKDSFKTLEVACDXXXXXXX 602
+ L +E+F + +P R+ +++F E + +IK ++ AC+
Sbjct: 73 EYDDLAESEQFGVVMGTVPRLRPRLNAILFKLQFSEQVENIKPEIVSVTAACEELRKSEN 132
Query: 603 XXXXXEAVLKTGNRMNDGTYRGGAQAFKLDTLLKLADVKGTDGKTTLLHFVVQ 655
E L GN MN G+ GA F + L KL D K D K TLLHF+ +
Sbjct: 133 FSSLLELTLLVGNYMNAGSRNAGAFGFNISFLCKLRDTKSADQKMTLLHFLAE 185
>pdb|1Y64|B Chain B, Bni1p Formin Homology 2 Domain Complexed With Atp-actin
Length = 443
Score = 40.4 bits (93), Expect = 0.005, Method: Compositional matrix adjust.
Identities = 27/108 (25%), Positives = 54/108 (50%), Gaps = 4/108 (3%)
Query: 553 FLKTLVDI-PFAFKRIESLIFMGSHQEDMSSIKDSFKTLEVACDXXXXXXXXXXXXEAVL 611
+L+ +V++ + R+ +L + S++ + + + + ++ A +L
Sbjct: 188 YLQLMVNLESYWGSRMRALTVVTSYEREYNELLAKLRKVDKAVSALQESDNLRNVFNVIL 247
Query: 612 KTGNRMNDGTYRGGAQAFKLDTLLKLADVKGTDGKTTLLHFVVQEIIR 659
GN MND + + AQ FKL TL +L +K T T L++ V++I+R
Sbjct: 248 AVGNFMNDTSKQ--AQGFKLSTLQRLTFIKDTTNSMTFLNY-VEKIVR 292
>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 = 39.7 bits (91), Expect = 0.007, Method: Compositional matrix adjust.
Identities = 27/108 (25%), Positives = 54/108 (50%), Gaps = 4/108 (3%)
Query: 553 FLKTLVDI-PFAFKRIESLIFMGSHQEDMSSIKDSFKTLEVACDXXXXXXXXXXXXEAVL 611
+L+ +V++ + R+ +L + S++ + + + + ++ A +L
Sbjct: 159 YLQLMVNLESYWGSRMRALTVVTSYEREYNELLAKLRKVDKAVSALQESDNLRNVFNVIL 218
Query: 612 KTGNRMNDGTYRGGAQAFKLDTLLKLADVKGTDGKTTLLHFVVQEIIR 659
GN MND + + AQ FKL TL +L +K T T L++ V++I+R
Sbjct: 219 AVGNFMNDTSKQ--AQGFKLSTLQRLTFIKDTTNSMTFLNY-VEKIVR 263
>pdb|1UX5|A Chain A, Crystal Structures Of A Formin Homology-2 Domain Reveal A
Flexibly Tethered Dimer Architecture
Length = 411
Score = 39.7 bits (91), Expect = 0.007, Method: Compositional matrix adjust.
Identities = 27/108 (25%), Positives = 54/108 (50%), Gaps = 4/108 (3%)
Query: 553 FLKTLVDI-PFAFKRIESLIFMGSHQEDMSSIKDSFKTLEVACDXXXXXXXXXXXXEAVL 611
+L+ +V++ + R+ +L + S++ + + + + ++ A +L
Sbjct: 165 YLQLMVNLESYWGSRMRALTVVTSYEREYNELLAKLRKVDKAVSALQESDNLRNVFNVIL 224
Query: 612 KTGNRMNDGTYRGGAQAFKLDTLLKLADVKGTDGKTTLLHFVVQEIIR 659
GN MND + + AQ FKL TL +L +K T T L++ V++I+R
Sbjct: 225 AVGNFMNDTSKQ--AQGFKLSTLQRLTFIKDTTNSMTFLNY-VEKIVR 269
>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 = 30.0 bits (66), Expect = 5.8, Method: Compositional matrix adjust.
Identities = 13/25 (52%), Positives = 19/25 (76%)
Query: 484 IDTRKAQNLSIILRALNLTSEEVVD 508
ID R+ +IILRALN T+E+++D
Sbjct: 198 IDRRRKLPATIILRALNYTTEQILD 222
>pdb|3LU0|C Chain C, Molecular Model Of Escherichia Coli Core Rna Polymerase
Length = 1342
Score = 30.0 bits (66), Expect = 5.8, Method: Compositional matrix adjust.
Identities = 13/25 (52%), Positives = 19/25 (76%)
Query: 484 IDTRKAQNLSIILRALNLTSEEVVD 508
ID R+ +IILRALN T+E+++D
Sbjct: 198 IDRRRKLPATIILRALNYTTEQILD 222
>pdb|3LTI|A Chain A, Crystal Structure Of The Escherichia Coli Rna Polymerase
Beta Subunit Beta2-Betai4 Domains
Length = 296
Score = 29.6 bits (65), Expect = 7.4, Method: Compositional matrix adjust.
Identities = 13/25 (52%), Positives = 19/25 (76%)
Query: 484 IDTRKAQNLSIILRALNLTSEEVVD 508
ID R+ +IILRALN T+E+++D
Sbjct: 51 IDRRRKLPATIILRALNYTTEQILD 75
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 0.131 0.369
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 18,275,110
Number of Sequences: 62578
Number of extensions: 560740
Number of successful extensions: 1318
Number of sequences better than 100.0: 12
Number of HSP's better than 100.0 without gapping: 9
Number of HSP's successfully gapped in prelim test: 3
Number of HSP's that attempted gapping in prelim test: 1297
Number of HSP's gapped (non-prelim): 17
length of query: 876
length of database: 14,973,337
effective HSP length: 107
effective length of query: 769
effective length of database: 8,277,491
effective search space: 6365390579
effective search space used: 6365390579
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: 56 (26.2 bits)