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= 007545
(599 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 = 89.7 bits (221), Expect = 4e-18, Method: Composition-based stats.
Identities = 48/126 (38%), Positives = 81/126 (64%), Gaps = 7/126 (5%)
Query: 418 LKEVPMLQRMDEQRMNAILYHFNLVPYTQGMFLVQEGNPVNKLQLIVVG--GDTLSWSST 475
++ VP+ + MDE+ ++AI +T+ +LV+EG+PVN++ I+ G +
Sbjct: 8 VRRVPLFENMDERLLDAICERLKPCLFTEKSYLVREGDPVNEMLFIIRGRLESVTTDGGR 67
Query: 476 SVFTPR---KDGEFCGEELVSWAVDQQSDSSTVFPRSTRTVEAVTQVDAFSIEAGDLKEF 532
S F R K+G+FCG+EL++WA+D +S S+ P STRTV+A+T+V+AF++ A +LK
Sbjct: 68 SGFYNRSLLKEGDFCGDELLTWALDPKSGSN--LPSSTRTVKALTEVEAFALIADELKFV 125
Query: 533 VNQCRQ 538
+Q R+
Sbjct: 126 ASQFRR 131
>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 = 39.7 bits (91), Expect = 0.005, Method: Compositional matrix adjust.
Identities = 31/132 (23%), Positives = 61/132 (46%), Gaps = 4/132 (3%)
Query: 359 QEVEMWRLFHVLSDNLKQKIRKYCQSVFQGTEGFNLHQFFNDLPPELSFAMKHELCLPVL 418
++VE + FH L +++QKI Y + +QG + F+ ++L L + + C ++
Sbjct: 19 KQVEQYMSFHKLPADMRQKIHDYYEHRYQG-KIFDEENILSELNDPLREEIVNFNCRKLV 77
Query: 419 KEVPMLQRMDEQRMNAILYHFNLVPYTQGMFLVQEGNPVNKLQLIVVG-GDTLSWSSTSV 477
+P+ D + A+L + G ++++EG K+ I G ++ SS +
Sbjct: 78 ATMPLFANADPNFVTAMLSKLRFEVFQPGDYIIREGAVGKKMYFIQHGVAGVITKSSKEM 137
Query: 478 FTPRKDGEFCGE 489
DG + GE
Sbjct: 138 --KLTDGSYFGE 147
>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 = 38.9 bits (89), Expect = 0.008, Method: Compositional matrix adjust.
Identities = 32/150 (21%), Positives = 61/150 (40%), Gaps = 14/150 (9%)
Query: 346 GNSERKIRKSSQMQEVEMWRLFHVLSDNLKQKIRKYCQSVFQGTEGFNLHQFFNDLPPEL 405
G+ + + + ++VE + FH L + +QKI Y + +QG + F+ +L L
Sbjct: 1 GSDSSRRQYQEKYKQVEQYMSFHKLPADFRQKIHDYYEHRYQG-KMFDEDSILGELNGPL 59
Query: 406 SFAMKHELCLPVLKEVPMLQRMDEQRMNAILYHFNLVPYTQGMFLVQEGNPVNKLQLI-- 463
+ + C ++ +P+ D + A+L + G ++++EG K+ I
Sbjct: 60 REEIVNFNCRKLVASMPLFANADPNFVTAMLTKLKFEVFQPGDYIIREGTIGKKMYFIQH 119
Query: 464 ------VVGGDTLSWSSTSVFTPRKDGEFC 487
G + S S F GE C
Sbjct: 120 GVVSVLTKGNKEMKLSDGSYF-----GEIC 144
>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 = 38.5 bits (88), Expect = 0.010, Method: Compositional matrix adjust.
Identities = 31/140 (22%), Positives = 57/140 (40%), Gaps = 14/140 (10%)
Query: 356 SQMQEVEMWRLFHVLSDNLKQKIRKYCQSVFQGTEGFNLHQFFNDLPPELSFAMKHELCL 415
+ ++VE + FH L + +QKI Y + +QG + F+ +L L + + C
Sbjct: 13 EKYKQVEQYMSFHKLPADFRQKIHDYYEHRYQG-KMFDEDSILGELNGPLREKIVNFNCR 71
Query: 416 PVLKEVPMLQRMDEQRMNAILYHFNLVPYTQGMFLVQEGNPVNKLQLI--------VVGG 467
++ +P+ D + A+L + G ++++EG K+ I G
Sbjct: 72 KLVASMPLFANADPNFVTAMLTKLKFEVFQPGDYIIREGTIGKKMYFIQHGVVSVLTKGN 131
Query: 468 DTLSWSSTSVFTPRKDGEFC 487
+ S S F GE C
Sbjct: 132 KEMKLSDGSYF-----GEIC 146
>pdb|3FFQ|A Chain A, Hcn2i 443-640 Apo-State
pdb|3FFQ|B Chain B, Hcn2i 443-640 Apo-State
Length = 202
Score = 38.5 bits (88), Expect = 0.011, Method: Compositional matrix adjust.
Identities = 31/140 (22%), Positives = 57/140 (40%), Gaps = 14/140 (10%)
Query: 356 SQMQEVEMWRLFHVLSDNLKQKIRKYCQSVFQGTEGFNLHQFFNDLPPELSFAMKHELCL 415
+ ++VE + FH L + +QKI Y + +QG + F+ +L L + + C
Sbjct: 13 EKYKQVEQYMSFHKLPADFRQKIHDYYEHRYQG-KMFDEDSILGELNGPLREEIVNFNCR 71
Query: 416 PVLKEVPMLQRMDEQRMNAILYHFNLVPYTQGMFLVQEGNPVNKLQLI--------VVGG 467
++ +P+ D + A+L + G ++++EG K+ I G
Sbjct: 72 KLVASMPLFANADPNFVTAMLTKLKFEVFQPGDYIIREGTIGKKMYFIQHGVVSVLTKGN 131
Query: 468 DTLSWSSTSVFTPRKDGEFC 487
+ S S F GE C
Sbjct: 132 KEMKLSDGSYF-----GEIC 146
>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 = 38.5 bits (88), Expect = 0.011, Method: Compositional matrix adjust.
Identities = 31/140 (22%), Positives = 57/140 (40%), Gaps = 14/140 (10%)
Query: 356 SQMQEVEMWRLFHVLSDNLKQKIRKYCQSVFQGTEGFNLHQFFNDLPPELSFAMKHELCL 415
+ ++VE + FH L + +QKI Y + +QG + F+ +L L + + C
Sbjct: 13 EKYKQVEQYMSFHKLPADFRQKIHDYYEHRYQG-KMFDEDSILGELNGPLREEIVNFNCR 71
Query: 416 PVLKEVPMLQRMDEQRMNAILYHFNLVPYTQGMFLVQEGNPVNKLQLI--------VVGG 467
++ +P+ D + A+L + G ++++EG K+ I G
Sbjct: 72 KLVASMPLFANADPNFVTAMLTKLKFEVFQPGDYIIREGTIGKKMYFIQHGVVSVLTKGN 131
Query: 468 DTLSWSSTSVFTPRKDGEFC 487
+ S S F GE C
Sbjct: 132 KEMKLSDGSYF-----GEIC 146
>pdb|3U10|A Chain A, Tetramerization Dynamics Of The C-Terminus Underlies
Isoform-Specific Camp-Gating In Hcn Channels
Length = 210
Score = 38.5 bits (88), Expect = 0.012, Method: Compositional matrix adjust.
Identities = 31/140 (22%), Positives = 57/140 (40%), Gaps = 14/140 (10%)
Query: 356 SQMQEVEMWRLFHVLSDNLKQKIRKYCQSVFQGTEGFNLHQFFNDLPPELSFAMKHELCL 415
+ ++VE + FH L + +QKI Y + +QG + F+ +L L + + C
Sbjct: 16 EKYKQVEQYMSFHKLPADFRQKIHDYYEHRYQG-KMFDEDSILGELNGPLREEIVNFNCR 74
Query: 416 PVLKEVPMLQRMDEQRMNAILYHFNLVPYTQGMFLVQEGNPVNKLQLI--------VVGG 467
++ +P+ D + A+L + G ++++EG K+ I G
Sbjct: 75 KLVASMPLFANADPNFVTAMLTKLKFEVFQPGDYIIREGTIGKKMYFIQHGVVSVLTKGN 134
Query: 468 DTLSWSSTSVFTPRKDGEFC 487
+ S S F GE C
Sbjct: 135 KEMKLSDGSYF-----GEIC 149
>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 = 37.4 bits (85), Expect = 0.027, Method: Compositional matrix adjust.
Identities = 36/181 (19%), Positives = 67/181 (37%), Gaps = 21/181 (11%)
Query: 356 SQMQEVEMWRLFHVLSDNLKQKIRKYCQSVFQGTEGFNLHQFFNDLPPELSFAMKHELCL 415
+ ++VE + FH L + +QKI Y + +QG + F+ +L L + + C
Sbjct: 13 EKYKQVEQYXSFHKLPADFRQKIHDYYEHRYQG-KXFDEDSILGELNGPLREEIVNFNCR 71
Query: 416 PVLKEVPMLQRMDEQRMNAILYHFNLVPYTQGMFLVQEGNPVNKLQLIVVGGDTLSWSST 475
++ P+ D + A L + G ++++EG + K + G +
Sbjct: 72 KLVASXPLFANADPNFVTAXLTKLKFEVFQPGDYIIREGT-IGKKXYFIQHGVVSVLTKG 130
Query: 476 SVFTPRKDGEFCGE-------------------ELVSWAVDQQSDSSTVFPRSTRTVEAV 516
+ DG + GE L S +VD ++ +P R E V
Sbjct: 131 NKEXKLSDGSYFGEICLLTRGRRTASVRADTYCRLYSLSVDNFNEVLEEYPXXRRAFETV 190
Query: 517 T 517
Sbjct: 191 A 191
>pdb|4HBN|A Chain A, Crystal Structure Of The Human Hcn4 Channel C-terminus
Carrying The S672r Mutation
Length = 205
Score = 37.0 bits (84), Expect = 0.028, Method: Compositional matrix adjust.
Identities = 28/134 (20%), Positives = 60/134 (44%), Gaps = 2/134 (1%)
Query: 356 SQMQEVEMWRLFHVLSDNLKQKIRKYCQSVFQGTEGFNLHQFFNDLPPELSFAMKHELCL 415
+ ++VE + FH L + +Q+I Y + +QG + F+ +L L + + C
Sbjct: 10 EKYKQVEQYMSFHKLPPDTRQRIHDYYEHRYQG-KMFDEESILGELSEPLREEIINFNCR 68
Query: 416 PVLKEVPMLQRMDEQRMNAILYHFNLVPYTQGMFLVQEGNPVNKLQLIVVGGDTLSWSST 475
++ +P+ D + ++L + G ++++EG K+ I G ++ +
Sbjct: 69 KLVASMPLFANADPNFVTSMLTKLRFEVFQPGDYIIREGTIGKKMYFIQHGVVSV-LTKG 127
Query: 476 SVFTPRKDGEFCGE 489
+ T DG + GE
Sbjct: 128 NKETKLADGSYFGE 141
>pdb|3OTF|A Chain A, Structural Basis For The Camp-Dependent Gating In Human
Hcn4 Channel
Length = 220
Score = 37.0 bits (84), Expect = 0.033, Method: Compositional matrix adjust.
Identities = 28/134 (20%), Positives = 60/134 (44%), Gaps = 2/134 (1%)
Query: 356 SQMQEVEMWRLFHVLSDNLKQKIRKYCQSVFQGTEGFNLHQFFNDLPPELSFAMKHELCL 415
+ ++VE + FH L + +Q+I Y + +QG + F+ +L L + + C
Sbjct: 10 EKYKQVEQYMSFHKLPPDTRQRIHDYYEHRYQG-KMFDEESILGELSEPLREEIINFNCR 68
Query: 416 PVLKEVPMLQRMDEQRMNAILYHFNLVPYTQGMFLVQEGNPVNKLQLIVVGGDTLSWSST 475
++ +P+ D + ++L + G ++++EG K+ I G ++ +
Sbjct: 69 KLVASMPLFANADPNFVTSMLTKLRFEVFQPGDYIIREGTIGKKMYFIQHGVVSV-LTKG 127
Query: 476 SVFTPRKDGEFCGE 489
+ T DG + GE
Sbjct: 128 NKETKLADGSYFGE 141
>pdb|2PTM|A Chain A, Structure And Rearrangements In The Carboxy-Terminal
Region Of Spih Channels
Length = 198
Score = 35.0 bits (79), Expect = 0.12, Method: Composition-based stats.
Identities = 28/143 (19%), Positives = 64/143 (44%), Gaps = 3/143 (2%)
Query: 347 NSERKIRKSSQMQEVEMWRLFHVLSDNLKQKIRKYCQSVFQGTEGFNLHQFFNDLPPELS 406
+S R+ R+ ++++VE + + L +L+ KI Y + ++G + F+ F ++ +
Sbjct: 5 SSSRQYRE--KLKQVEEYMQYRKLPSHLRNKILDYYEYRYRG-KMFDERHIFREVSESIR 61
Query: 407 FAMKHELCLPVLKEVPMLQRMDEQRMNAILYHFNLVPYTQGMFLVQEGNPVNKLQLIVVG 466
+ + C ++ VP D + ++ + +++QEG +++ I G
Sbjct: 62 QDVANYNCRDLVASVPFFVGADSNFVTRVVTLLEFEVFQPADYVIQEGTFGDRMFFIQQG 121
Query: 467 GDTLSWSSTSVFTPRKDGEFCGE 489
+ S + T DG + GE
Sbjct: 122 IVDIIMSDGVIATSLSDGSYFGE 144
>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 = 33.1 bits (74), Expect = 0.45, Method: Compositional matrix adjust.
Identities = 26/127 (20%), Positives = 57/127 (44%), Gaps = 13/127 (10%)
Query: 346 GNSERKIRKSSQMQEVEMWRLFHVLSDNLKQKIRKYCQSVFQGTEGFNLHQFFND--LPP 403
G+ + + + ++VE + FH L + +QKI Y + +QG + F++ +
Sbjct: 5 GSDSSRRQYQEKYKQVEQYMSFHKLPADFRQKIHDYYEHRYQG-------KMFDEDSILG 57
Query: 404 ELSFAMKHELC----LPVLKEVPMLQRMDEQRMNAILYHFNLVPYTQGMFLVQEGNPVNK 459
EL+ ++ E+ ++ +P+ D + A+L + G ++++EG K
Sbjct: 58 ELNGPLREEIVNFNNRKLVASMPLFANADPNFVTAMLTKLKFEVFQPGDYIIREGTIGKK 117
Query: 460 LQLIVVG 466
+ I G
Sbjct: 118 MYFIQHG 124
>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 = 32.7 bits (73), Expect = 0.57, Method: Compositional matrix adjust.
Identities = 27/131 (20%), Positives = 58/131 (44%), Gaps = 2/131 (1%)
Query: 359 QEVEMWRLFHVLSDNLKQKIRKYCQSVFQGTEGFNLHQFFNDLPPELSFAMKHELCLPVL 418
++VE + FH L + +Q+I Y + +QG + F+ +L L + + ++
Sbjct: 19 KQVEQYMSFHKLPPDTRQRIHDYYEHRYQG-KMFDEESILGELSEPLREEIINFNXRKLV 77
Query: 419 KEVPMLQRMDEQRMNAILYHFNLVPYTQGMFLVQEGNPVNKLQLIVVGGDTLSWSSTSVF 478
+P+ D + ++L + G ++++EG K+ I G ++ + +
Sbjct: 78 ASMPLFANADPNFVTSMLTKLRFEVFQPGDYIIREGTIGKKMYFIQHGVVSV-LTKGNKE 136
Query: 479 TPRKDGEFCGE 489
T DG + GE
Sbjct: 137 TKLADGSYFGE 147
>pdb|1J93|A Chain A, Crystal Structure And Substrate Binding Modeling Of The
Uroporphyrinogen-Iii Decarboxylase From Nicotiana
Tabacum: Implications For The Catalytic Mechanism
Length = 353
Score = 29.6 bits (65), Expect = 4.9, Method: Compositional matrix adjust.
Identities = 28/115 (24%), Positives = 46/115 (40%), Gaps = 8/115 (6%)
Query: 323 TITGAVFIPFHLWNVMQFLQHINGNSERKIRKSSQMQEVEMWRLFHVLSDNLKQKIRKYC 382
+ G V PF L + + + G S + K ++ E ++ H L + KY
Sbjct: 146 AVLGFVGAPFTLASYV-----VEGGSSKNFTKIKRLAFAEP-KVLHALLQKFATSMAKYI 199
Query: 383 QSVFQGTEGFNLHQFFNDLPPELSFAMKHELCLPVLKEVPMLQRMDEQRMNAILY 437
+ +Q G Q F+ ELS E LP LK++ ++ + ILY
Sbjct: 200 R--YQADSGAQAVQIFDSWATELSPVDFEEFSLPYLKQIVDSVKLTHPNLPLILY 252
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
0.327 0.138 0.440
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 16,640,670
Number of Sequences: 62578
Number of extensions: 642497
Number of successful extensions: 1408
Number of sequences better than 100.0: 17
Number of HSP's better than 100.0 without gapping: 1
Number of HSP's successfully gapped in prelim test: 16
Number of HSP's that attempted gapping in prelim test: 1394
Number of HSP's gapped (non-prelim): 27
length of query: 599
length of database: 14,973,337
effective HSP length: 104
effective length of query: 495
effective length of database: 8,465,225
effective search space: 4190286375
effective search space used: 4190286375
T: 11
A: 40
X1: 15 ( 7.1 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.7 bits)
S2: 54 (25.4 bits)