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= 007465
(603 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1WGP|A Chain A, Solution Structure Of The Cnmp-Binding Domain From
Arabidopsis Thaliana Cyclic Nucleotide-Regulated Ion
Channel
Length = 137
Score = 87.4 bits (215), Expect = 2e-17, Method: Composition-based stats.
Identities = 48/117 (41%), Positives = 73/117 (62%), Gaps = 6/117 (5%)
Query: 425 FGKWRKALLDDLCEFVKPVVFMENSYIVPEGGSIDKMVFVVQGNLLTYNSEGITAAPPNT 484
F + LLD +CE +KP +F E SY+V EG +++M+F+++G L + ++G + N
Sbjct: 14 FENMDERLLDAICERLKPCLFTEKSYLVREGDPVNEMLFIIRGRLESVTTDGGRSGFYNR 73
Query: 485 DNY-DCNICGEELVAWAQDACTRTDSSSSALPISTITIQALTKVEAFILMADDLKNV 540
+ + CG+EL+ WA D S S LP ST T++ALT+VEAF L+AD+LK V
Sbjct: 74 SLLKEGDFCGDELLTWALDP-----KSGSNLPSSTRTVKALTEVEAFALIADELKFV 125
>pdb|2PTM|A Chain A, Structure And Rearrangements In The Carboxy-Terminal
Region Of Spih Channels
Length = 198
Score = 43.1 bits (100), Expect = 4e-04, Method: Composition-based stats.
Identities = 29/136 (21%), Positives = 61/136 (44%)
Query: 357 RQKEKELEQWLPFRKLSQNLQQQIKYHLHSWDETRNFNIENLVYNLPEDLGRDIXXXXXX 416
R+K K++E+++ +RKL +L+ +I + + F+ ++ + E + +D+
Sbjct: 11 REKLKQVEEYMQYRKLPSHLRNKILDYYEYRYRGKMFDERHIFREVSESIRQDVANYNCR 70
Query: 417 XXXXXXXXFGKWRKALLDDLCEFVKPVVFMENSYIVPEGGSIDKMVFVVQGNLLTYNSEG 476
F + + ++ VF Y++ EG D+M F+ QG + S+G
Sbjct: 71 DLVASVPFFVGADSNFVTRVVTLLEFEVFQPADYVIQEGTFGDRMFFIQQGIVDIIMSDG 130
Query: 477 ITAAPPNTDNYDCNIC 492
+ A + +Y IC
Sbjct: 131 VIATSLSDGSYFGEIC 146
>pdb|3U0Z|A Chain A, Tetramerization Dynamics Of The C-Terminus Underlies
Isoform-Specific Camp-Gating In Hcn Channels
pdb|3U0Z|B Chain B, Tetramerization Dynamics Of The C-Terminus Underlies
Isoform-Specific Camp-Gating In Hcn Channels
Length = 210
Score = 41.6 bits (96), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 28/112 (25%), Positives = 53/112 (47%), Gaps = 2/112 (1%)
Query: 357 RQKEKELEQWLPFRKLSQNLQQQIK-YHLHSWDETRNFNIENLVYNLPEDLGRDIXXXXX 415
++K K++EQ++ F KL +++Q+I Y+ H + + + F+ EN++ L + L +I
Sbjct: 15 QEKYKQVEQYMSFHKLPADMRQKIHDYYEHRY-QGKIFDEENILSELNDPLREEIVNFNC 73
Query: 416 XXXXXXXXXFGKWRKALLDDLCEFVKPVVFMENSYIVPEGGSIDKMVFVVQG 467
F + + ++ VF YI+ EG KM F+ G
Sbjct: 74 RKLVATMPLFANADPNFVTAMLSKLRFEVFQPGDYIIREGAVGKKMYFIQHG 125
>pdb|3U11|A Chain A, Tetramerization Dynamics Of The C-Terminus Underlies
Isoform-Specific Camp-Gating In Hcn Channels
pdb|3U11|B Chain B, Tetramerization Dynamics Of The C-Terminus Underlies
Isoform-Specific Camp-Gating In Hcn Channels
Length = 210
Score = 40.8 bits (94), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 42/192 (21%), Positives = 85/192 (44%), Gaps = 7/192 (3%)
Query: 357 RQKEKELEQWLPFRKLSQNLQQQIK-YHLHSWDETRNFNIENLVYNLPEDLGRDIXXXXX 415
++K K++EQ++ F KL + +Q+I Y+ H + + + F+ E+++ L E L +I
Sbjct: 15 QEKYKQVEQYMSFHKLPPDTRQRIHDYYEHRY-QGKMFDEESILGELSEPLREEIINFNX 73
Query: 416 XXXXXXXXXFGKWRKALLDDLCEFVKPVVFMENSYIVPEGGSIDKMVFVVQGNLLTYNSE 475
F + + ++ VF YI+ E G+I K ++ +Q +++ ++
Sbjct: 74 RKLVASMPLFANADPNFVTSMLTKLRFEVFQPGDYIIRE-GTIGKKMYFIQHGVVSVLTK 132
Query: 476 GITAAPPNTDNYDCNICGEELVAWAQDACTRTDSSSSALPISTITIQALTKVEAFILMAD 535
G +Y IC L + A R D+ +S + +E + +M
Sbjct: 133 GNKETKLADGSYFGEIC--LLTRGRRTASVRADTYCRLYSLSVDNFNEV--LEEYPMMRR 188
Query: 536 DLKNVLLIKHNR 547
+ V L + +R
Sbjct: 189 AFETVALDRLDR 200
>pdb|3OTF|A Chain A, Structural Basis For The Camp-Dependent Gating In Human
Hcn4 Channel
Length = 220
Score = 40.0 bits (92), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 43/200 (21%), Positives = 86/200 (43%), Gaps = 7/200 (3%)
Query: 349 SGSILEGMRQKEKELEQWLPFRKLSQNLQQQIK-YHLHSWDETRNFNIENLVYNLPEDLG 407
S S ++K K++EQ++ F KL + +Q+I Y+ H + + + F+ E+++ L E L
Sbjct: 1 SDSSRRQYQEKYKQVEQYMSFHKLPPDTRQRIHDYYEHRY-QGKMFDEESILGELSEPLR 59
Query: 408 RDIXXXXXXXXXXXXXXFGKWRKALLDDLCEFVKPVVFMENSYIVPEGGSIDKMVFVVQG 467
+I F + + ++ VF YI+ E G+I K ++ +Q
Sbjct: 60 EEIINFNCRKLVASMPLFANADPNFVTSMLTKLRFEVFQPGDYIIRE-GTIGKKMYFIQH 118
Query: 468 NLLTYNSEGITAAPPNTDNYDCNICGEELVAWAQDACTRTDSSSSALPISTITIQALTKV 527
+++ ++G +Y IC L + A R D+ +S + +
Sbjct: 119 GVVSVLTKGNKETKLADGSYFGEICL--LTRGRRTASVRADTYCRLYSLSVDNFNEV--L 174
Query: 528 EAFILMADDLKNVLLIKHNR 547
E + +M + V L + +R
Sbjct: 175 EEYPMMRRAFETVALDRLDR 194
>pdb|4HBN|A Chain A, Crystal Structure Of The Human Hcn4 Channel C-terminus
Carrying The S672r Mutation
Length = 205
Score = 39.7 bits (91), Expect = 0.005, Method: Compositional matrix adjust.
Identities = 43/200 (21%), Positives = 86/200 (43%), Gaps = 7/200 (3%)
Query: 349 SGSILEGMRQKEKELEQWLPFRKLSQNLQQQIK-YHLHSWDETRNFNIENLVYNLPEDLG 407
S S ++K K++EQ++ F KL + +Q+I Y+ H + + + F+ E+++ L E L
Sbjct: 1 SDSSRRQYQEKYKQVEQYMSFHKLPPDTRQRIHDYYEHRY-QGKMFDEESILGELSEPLR 59
Query: 408 RDIXXXXXXXXXXXXXXFGKWRKALLDDLCEFVKPVVFMENSYIVPEGGSIDKMVFVVQG 467
+I F + + ++ VF YI+ E G+I K ++ +Q
Sbjct: 60 EEIINFNCRKLVASMPLFANADPNFVTSMLTKLRFEVFQPGDYIIRE-GTIGKKMYFIQH 118
Query: 468 NLLTYNSEGITAAPPNTDNYDCNICGEELVAWAQDACTRTDSSSSALPISTITIQALTKV 527
+++ ++G +Y IC L + A R D+ +S + +
Sbjct: 119 GVVSVLTKGNKETKLADGSYFGEICL--LTRGRRTARVRADTYCRLYSLSVDNFNEV--L 174
Query: 528 EAFILMADDLKNVLLIKHNR 547
E + +M + V L + +R
Sbjct: 175 EEYPMMRRAFETVALDRLDR 194
>pdb|1Q3E|A Chain A, Hcn2j 443-645 In The Presence Of Cgmp
pdb|1Q3E|B Chain B, Hcn2j 443-645 In The Presence Of Cgmp
Length = 207
Score = 37.7 bits (86), Expect = 0.019, Method: Compositional matrix adjust.
Identities = 42/203 (20%), Positives = 88/203 (43%), Gaps = 11/203 (5%)
Query: 350 GSILEGMR----QKEKELEQWLPFRKLSQNLQQQIK-YHLHSWDETRNFNIENLVYNLPE 404
GS ++ R +K K++EQ++ F KL + +Q+I Y+ H + + + F+ ++++ L
Sbjct: 1 GSAMDSSRRQYQEKYKQVEQYMSFHKLPADFRQKIHDYYEHRY-QGKMFDEDSILGELNG 59
Query: 405 DLGRDIXXXXXXXXXXXXXXFGKWRKALLDDLCEFVKPVVFMENSYIVPEGGSIDKMVFV 464
L +I F + + +K VF YI+ E G+I K ++
Sbjct: 60 PLREEIVNFNCRKLVASMPLFANADPNFVTAMLTKLKFEVFQPGDYIIRE-GTIGKKMYF 118
Query: 465 VQGNLLTYNSEGITAAPPNTDNYDCNICGEELVAWAQDACTRTDSSSSALPISTITIQAL 524
+Q +++ ++G + +Y IC L + A R D+ +S +
Sbjct: 119 IQHGVVSVLTKGNKEMKLSDGSYFGEIC--LLTRGRRTASVRADTYCRLYSLSVDNFNEV 176
Query: 525 TKVEAFILMADDLKNVLLIKHNR 547
+E + +M + V + + +R
Sbjct: 177 --LEEYPMMRRAFETVAIDRLDR 197
>pdb|3FFQ|A Chain A, Hcn2i 443-640 Apo-State
pdb|3FFQ|B Chain B, Hcn2i 443-640 Apo-State
Length = 202
Score = 37.7 bits (86), Expect = 0.019, Method: Compositional matrix adjust.
Identities = 42/203 (20%), Positives = 88/203 (43%), Gaps = 11/203 (5%)
Query: 350 GSILEGMR----QKEKELEQWLPFRKLSQNLQQQIK-YHLHSWDETRNFNIENLVYNLPE 404
GS ++ R +K K++EQ++ F KL + +Q+I Y+ H + + + F+ ++++ L
Sbjct: 1 GSAMDSSRRQYQEKYKQVEQYMSFHKLPADFRQKIHDYYEHRY-QGKMFDEDSILGELNG 59
Query: 405 DLGRDIXXXXXXXXXXXXXXFGKWRKALLDDLCEFVKPVVFMENSYIVPEGGSIDKMVFV 464
L +I F + + +K VF YI+ E G+I K ++
Sbjct: 60 PLREEIVNFNCRKLVASMPLFANADPNFVTAMLTKLKFEVFQPGDYIIRE-GTIGKKMYF 118
Query: 465 VQGNLLTYNSEGITAAPPNTDNYDCNICGEELVAWAQDACTRTDSSSSALPISTITIQAL 524
+Q +++ ++G + +Y IC L + A R D+ +S +
Sbjct: 119 IQHGVVSVLTKGNKEMKLSDGSYFGEIC--LLTRGRRTASVRADTYCRLYSLSVDNFNEV 176
Query: 525 TKVEAFILMADDLKNVLLIKHNR 547
+E + +M + V + + +R
Sbjct: 177 --LEEYPMMRRAFETVAIDRLDR 197
>pdb|2Q0A|A Chain A, Structure And Rearrangements In The Carboxy-Terminal
Region Of Spih Channels
pdb|2Q0A|B Chain B, Structure And Rearrangements In The Carboxy-Terminal
Region Of Spih Channels
Length = 200
Score = 37.0 bits (84), Expect = 0.031, Method: Compositional matrix adjust.
Identities = 39/192 (20%), Positives = 84/192 (43%), Gaps = 7/192 (3%)
Query: 357 RQKEKELEQWLPFRKLSQNLQQQIK-YHLHSWDETRNFNIENLVYNLPEDLGRDIXXXXX 415
++K K++EQ++ F KL + +Q+I Y+ H + + + F+ ++++ L L +I
Sbjct: 10 QEKYKQVEQYMSFHKLPADFRQKIHDYYEHRY-QGKMFDEDSILGELNGPLREEIVNFNC 68
Query: 416 XXXXXXXXXFGKWRKALLDDLCEFVKPVVFMENSYIVPEGGSIDKMVFVVQGNLLTYNSE 475
F + + +K VF YI+ E G+I K ++ +Q +++ ++
Sbjct: 69 RKLVASMPLFANADPNFVTAMLTKLKFEVFQPGDYIIRE-GTIGKKMYFIQHGVVSVLTK 127
Query: 476 GITAAPPNTDNYDCNICGEELVAWAQDACTRTDSSSSALPISTITIQALTKVEAFILMAD 535
G + +Y IC L + A R D+ +S + +E + +M
Sbjct: 128 GNKEMKLSDGSYFGEIC--LLTRGRRTASVRADTYCRLYSLSVDNFNEV--LEEYPMMRR 183
Query: 536 DLKNVLLIKHNR 547
+ V + + +R
Sbjct: 184 AFETVAIDRLDR 195
>pdb|3U10|A Chain A, Tetramerization Dynamics Of The C-Terminus Underlies
Isoform-Specific Camp-Gating In Hcn Channels
Length = 210
Score = 37.0 bits (84), Expect = 0.033, Method: Compositional matrix adjust.
Identities = 39/192 (20%), Positives = 84/192 (43%), Gaps = 7/192 (3%)
Query: 357 RQKEKELEQWLPFRKLSQNLQQQIK-YHLHSWDETRNFNIENLVYNLPEDLGRDIXXXXX 415
++K K++EQ++ F KL + +Q+I Y+ H + + + F+ ++++ L L +I
Sbjct: 15 QEKYKQVEQYMSFHKLPADFRQKIHDYYEHRY-QGKMFDEDSILGELNGPLREEIVNFNC 73
Query: 416 XXXXXXXXXFGKWRKALLDDLCEFVKPVVFMENSYIVPEGGSIDKMVFVVQGNLLTYNSE 475
F + + +K VF YI+ E G+I K ++ +Q +++ ++
Sbjct: 74 RKLVASMPLFANADPNFVTAMLTKLKFEVFQPGDYIIRE-GTIGKKMYFIQHGVVSVLTK 132
Query: 476 GITAAPPNTDNYDCNICGEELVAWAQDACTRTDSSSSALPISTITIQALTKVEAFILMAD 535
G + +Y IC L + A R D+ +S + +E + +M
Sbjct: 133 GNKEMKLSDGSYFGEIC--LLTRGRRTASVRADTYCRLYSLSVDNFNEV--LEEYPMMRR 188
Query: 536 DLKNVLLIKHNR 547
+ V + + +R
Sbjct: 189 AFETVAIDRLDR 200
>pdb|3BPZ|A Chain A, Hcn2-I 443-460 E502k In The Presence Of Camp
pdb|3BPZ|B Chain B, Hcn2-I 443-460 E502k In The Presence Of Camp
pdb|3BPZ|C Chain C, Hcn2-I 443-460 E502k In The Presence Of Camp
pdb|3BPZ|D Chain D, Hcn2-I 443-460 E502k In The Presence Of Camp
Length = 202
Score = 37.0 bits (84), Expect = 0.034, Method: Compositional matrix adjust.
Identities = 42/203 (20%), Positives = 87/203 (42%), Gaps = 11/203 (5%)
Query: 350 GSILEGMR----QKEKELEQWLPFRKLSQNLQQQIK-YHLHSWDETRNFNIENLVYNLPE 404
GS ++ R +K K++EQ++ F KL + +Q+I Y+ H + + + F+ ++++ L
Sbjct: 1 GSAMDSSRRQYQEKYKQVEQYMSFHKLPADFRQKIHDYYEHRY-QGKMFDEDSILGELNG 59
Query: 405 DLGRDIXXXXXXXXXXXXXXFGKWRKALLDDLCEFVKPVVFMENSYIVPEGGSIDKMVFV 464
L I F + + +K VF YI+ E G+I K ++
Sbjct: 60 PLREKIVNFNCRKLVASMPLFANADPNFVTAMLTKLKFEVFQPGDYIIRE-GTIGKKMYF 118
Query: 465 VQGNLLTYNSEGITAAPPNTDNYDCNICGEELVAWAQDACTRTDSSSSALPISTITIQAL 524
+Q +++ ++G + +Y IC L + A R D+ +S +
Sbjct: 119 IQHGVVSVLTKGNKEMKLSDGSYFGEIC--LLTRGRRTASVRADTYCRLYSLSVDNFNEV 176
Query: 525 TKVEAFILMADDLKNVLLIKHNR 547
+E + +M + V + + +R
Sbjct: 177 --LEEYPMMRRAFETVAIDRLDR 197
>pdb|3ETQ|A Chain A, X-Ray Structure Of Cysteine-Free Fragment Of Mhcn2 C-
Terminal Region From Amino Acids 443-630 Including
C508n, C584s, And C601s Mutations
pdb|3ETQ|B Chain B, X-Ray Structure Of Cysteine-Free Fragment Of Mhcn2 C-
Terminal Region From Amino Acids 443-630 Including
C508n, C584s, And C601s Mutations
Length = 204
Score = 35.4 bits (80), Expect = 0.086, Method: Compositional matrix adjust.
Identities = 42/196 (21%), Positives = 84/196 (42%), Gaps = 15/196 (7%)
Query: 357 RQKEKELEQWLPFRKLSQNLQQQIK-YHLHSWDETRNFNIENLVYNLPEDLGRDIXXXXX 415
++K K++EQ++ F KL + +Q+I Y+ H + + + F+ ++++ L L +I
Sbjct: 14 QEKYKQVEQYMSFHKLPADFRQKIHDYYEHRY-QGKMFDEDSILGELNGPLREEIVNFNN 72
Query: 416 XXXXXXXXXFGKWRKALLDDLCEFVKPVVFMENSYIVPEGGSIDKMVFVVQG--NLLTYN 473
F + + +K VF YI+ EG KM F+ G ++LT
Sbjct: 73 RKLVASMPLFANADPNFVTAMLTKLKFEVFQPGDYIIREGTIGKKMYFIQHGVVSVLTKG 132
Query: 474 SEGITAAPPNTDNYDCNICGE--ELVAWAQDACTRTDSSSSALPISTITIQALTKVEAFI 531
++ + + D + GE L + A R D+ S +S + +E +
Sbjct: 133 NKEMKLS-------DGSYFGEISLLTRGRRTASVRADTYSRLYSLSVDNFNEV--LEEYP 183
Query: 532 LMADDLKNVLLIKHNR 547
+M + V + + +R
Sbjct: 184 MMRRAFETVAIDRLDR 199
>pdb|1Q43|A Chain A, Hcn2i 443-640 In The Presence Of Camp, Selenomethionine
Derivative
pdb|1Q43|B Chain B, Hcn2i 443-640 In The Presence Of Camp, Selenomethionine
Derivative
pdb|1Q5O|A Chain A, Hcn2j 443-645 In The Presence Of Camp, Selenomethionine
Derivative
Length = 207
Score = 34.7 bits (78), Expect = 0.16, Method: Compositional matrix adjust.
Identities = 38/165 (23%), Positives = 72/165 (43%), Gaps = 9/165 (5%)
Query: 350 GSILEGMR----QKEKELEQWLPFRKLSQNLQQQIK-YHLHSWDETRNFNIENLVYNLPE 404
GS ++ R +K K++EQ+ F KL + +Q+I Y+ H + + + F+ ++++ L
Sbjct: 1 GSAMDSSRRQYQEKYKQVEQYXSFHKLPADFRQKIHDYYEHRY-QGKXFDEDSILGELNG 59
Query: 405 DLGRDIXXXXXXXXXXXXXXFGKWRKALLDDLCEFVKPVVFMENSYIVPEGGSIDKMVFV 464
L +I F + +K VF YI+ E G+I K +
Sbjct: 60 PLREEIVNFNCRKLVASXPLFANADPNFVTAXLTKLKFEVFQPGDYIIRE-GTIGKKXYF 118
Query: 465 VQGNLLTYNSEGITAAPPNTDNYDCNICGEELVAWAQDACTRTDS 509
+Q +++ ++G + +Y IC L + A R D+
Sbjct: 119 IQHGVVSVLTKGNKEXKLSDGSYFGEIC--LLTRGRRTASVRADT 161
>pdb|3H3P|L Chain L, Crystal Structure Of Hiv Epitope-scaffold 4e10 Fv Complex
pdb|3H3P|M Chain M, Crystal Structure Of Hiv Epitope-scaffold 4e10 Fv Complex
pdb|3LH2|L Chain L, Crystal Structure Of Hiv Epitope-Scaffold
4e10_1vi7a_s0_002_n 4e10 Fv Complex
pdb|3LH2|M Chain M, Crystal Structure Of Hiv Epitope-Scaffold
4e10_1vi7a_s0_002_n 4e10 Fv Complex
pdb|3LH2|O Chain O, Crystal Structure Of Hiv Epitope-Scaffold
4e10_1vi7a_s0_002_n 4e10 Fv Complex
pdb|3LH2|N Chain N, Crystal Structure Of Hiv Epitope-Scaffold
4e10_1vi7a_s0_002_n 4e10 Fv Complex
pdb|3LHP|L Chain L, Crystal Structure Of Hiv Epitope-Scaffold
4e10_d0_1isea_004_n 4e10 Fv Complex
pdb|3LHP|M Chain M, Crystal Structure Of Hiv Epitope-Scaffold
4e10_d0_1isea_004_n 4e10 Fv Complex
Length = 114
Score = 30.8 bits (68), Expect = 2.3, Method: Composition-based stats.
Identities = 15/29 (51%), Positives = 22/29 (75%), Gaps = 3/29 (10%)
Query: 286 VETKDFKRRLYYCFRWGVQSLSSFGQGLQ 314
+E +DF +YYC ++G QSLS+FGQG +
Sbjct: 81 LEPEDFA--VYYCQQYG-QSLSTFGQGTK 106
>pdb|1TZG|L Chain L, Crystal Structure Of Hiv-1 Neutralizing Human Fab 4e10 In
Complex With A 13-residue Peptide Containing The 4e10
Epitope On Gp41
pdb|1TZG|M Chain M, Crystal Structure Of Hiv-1 Neutralizing Human Fab 4e10 In
Complex With A 13-residue Peptide Containing The 4e10
Epitope On Gp41
pdb|2FX7|L Chain L, Crystal Structure Of Hiv-1 Neutralizing Human Fab 4e10 In
Complex With A 16-Residue Peptide Encompassing The 4e10
Epitope On Gp41
pdb|2FX8|L Chain L, Crystal Structure Of Hiv-1 Neutralizing Human Fab 4e10 In
Complex With An Aib-Induced Peptide Encompassing The
4e10 Epitope On Gp41
pdb|2FX8|M Chain M, Crystal Structure Of Hiv-1 Neutralizing Human Fab 4e10 In
Complex With An Aib-Induced Peptide Encompassing The
4e10 Epitope On Gp41
pdb|2FX8|N Chain N, Crystal Structure Of Hiv-1 Neutralizing Human Fab 4e10 In
Complex With An Aib-Induced Peptide Encompassing The
4e10 Epitope On Gp41
pdb|2FX8|O Chain O, Crystal Structure Of Hiv-1 Neutralizing Human Fab 4e10 In
Complex With An Aib-Induced Peptide Encompassing The
4e10 Epitope On Gp41
pdb|2FX9|L Chain L, Crystal Structure Of Hiv-1 Neutralizing Human Fab 4e10 In
Complex With A Thioether-Linked Peptide Encompassing The
4e10 Epitope On Gp41
pdb|2FX9|M Chain M, Crystal Structure Of Hiv-1 Neutralizing Human Fab 4e10 In
Complex With A Thioether-Linked Peptide Encompassing The
4e10 Epitope On Gp41
Length = 214
Score = 30.4 bits (67), Expect = 3.2, Method: Compositional matrix adjust.
Identities = 15/29 (51%), Positives = 22/29 (75%), Gaps = 3/29 (10%)
Query: 286 VETKDFKRRLYYCFRWGVQSLSSFGQGLQ 314
+E +DF +YYC ++G QSLS+FGQG +
Sbjct: 79 LEPEDFA--VYYCQQYG-QSLSTFGQGTK 104
>pdb|3PO3|S Chain S, Arrested Rna Polymerase Ii Reactivation Intermediate
Length = 178
Score = 30.0 bits (66), Expect = 3.4, Method: Composition-based stats.
Identities = 15/47 (31%), Positives = 25/47 (53%), Gaps = 5/47 (10%)
Query: 472 YNSEGITAAPPNTDNYDCNICGEELVAWAQDACTRTDSSSSALPIST 518
YN++G T TD + C C E+ V++ Q + S+A P++T
Sbjct: 123 YNAQGATIERSVTDRFTCGKCKEKKVSYYQ-----LQTRSAAAPLTT 164
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
0.324 0.138 0.428
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 17,066,447
Number of Sequences: 62578
Number of extensions: 678332
Number of successful extensions: 1630
Number of sequences better than 100.0: 18
Number of HSP's better than 100.0 without gapping: 6
Number of HSP's successfully gapped in prelim test: 12
Number of HSP's that attempted gapping in prelim test: 1620
Number of HSP's gapped (non-prelim): 18
length of query: 603
length of database: 14,973,337
effective HSP length: 104
effective length of query: 499
effective length of database: 8,465,225
effective search space: 4224147275
effective search space used: 4224147275
T: 11
A: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.6 bits)
S2: 54 (25.4 bits)