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= 040148
(88 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3EH2|A Chain A, Crystal Structure Of The Human Copii-Coat Protein Sec24c
pdb|3EH2|B Chain B, Crystal Structure Of The Human Copii-Coat Protein Sec24c
pdb|3EH2|C Chain C, Crystal Structure Of The Human Copii-Coat Protein Sec24c
Length = 766
Score = 48.1 bits (113), Expect = 1e-06, Method: Composition-based stats.
Identities = 24/67 (35%), Positives = 41/67 (61%), Gaps = 2/67 (2%)
Query: 20 DNPLSKKFNDVVNEMRRERCSYLRPRSC-QEGDLSGMFSSKMIEDKN-PNGPSYFEFLVQ 77
DNPLSKK +++ +R +R Y++ QE + +F ++EDK+ G SY +FL
Sbjct: 697 DNPLSKKVRGLIDSLRAQRSRYMKLTVVKQEDKMEMLFKHFLVEDKSLSGGASYVDFLCH 756
Query: 78 IHREIQK 84
+H+EI++
Sbjct: 757 MHKEIRQ 763
Score = 28.9 bits (63), Expect = 0.69, Method: Composition-based stats.
Identities = 10/13 (76%), Positives = 12/13 (92%)
Query: 2 DRGNCSPRYMRCT 14
D+GN SPRY+RCT
Sbjct: 37 DQGNASPRYIRCT 49
>pdb|3EGD|B Chain B, Crystal Structure Of The Mammalian Copii-Coat Protein
Sec23a24A COMPLEXED WITH THE SNARE PROTEIN SEC22 AND
BOUND To The Transport Signal Sequence Of Vesicular
Stomatitis Virus Glycoprotein
pdb|3EGX|B Chain B, Crystal Structure Of The Mammalian Copii-Coat Protein
Sec23a24A COMPLEXED WITH THE SNARE PROTEIN SEC22B AND
Bound To The Transport Signal Sequence Of The Snare
Protein Bet1
Length = 748
Score = 35.8 bits (81), Expect = 0.006, Method: Compositional matrix adjust.
Identities = 22/95 (23%), Positives = 41/95 (43%), Gaps = 15/95 (15%)
Query: 5 NCSPRYMRCTIGQQ--------------YDNPLSKKFNDVVNEMRRERCSY-LRPRSCQE 49
NC+ ++ +G Q D P S + ++ +R +R + + E
Sbjct: 654 NCTQNFLSQVLGVQNYASIPQPMTDLPELDTPESARIIAFISWLREQRPFFPILYVIADE 713
Query: 50 GDLSGMFSSKMIEDKNPNGPSYFEFLVQIHREIQK 84
+ F MIED+ + SY+EFL+ I +++ K
Sbjct: 714 SPMKANFLQNMIEDRTESALSYYEFLLHIQQQVNK 748
>pdb|2NUP|B Chain B, Crystal Structure Of The Human Sec23a24A HETERODIMER,
Complexed With The Snare Protein Sec22b
pdb|2NUT|B Chain B, Crystal Structure Of The Human Sec23a24A HETERODIMER,
Complexed With The Snare Protein Sec22b
Length = 753
Score = 33.9 bits (76), Expect = 0.024, Method: Compositional matrix adjust.
Identities = 22/95 (23%), Positives = 41/95 (43%), Gaps = 15/95 (15%)
Query: 5 NCSPRYMRCTIGQQ--------------YDNPLSKKFNDVVNEMRRERCSY-LRPRSCQE 49
NC+ ++ +G Q D P S + ++ +R +R + + E
Sbjct: 659 NCTQNFLSQVLGVQNYASIPQPMTDLPELDTPESARIIAFISWLREQRPFFPILYVIRDE 718
Query: 50 GDLSGMFSSKMIEDKNPNGPSYFEFLVQIHREIQK 84
+ F MIED+ + SY+EFL+ I +++ K
Sbjct: 719 SPMKANFLQNMIEDRTESALSYYEFLLHIQQQVNK 753
>pdb|1SJI|A Chain A, Comparing Skeletal And Cardiac Calsequestrin Structures
And Their Calcium Binding: A Proposed Mechanism For
Coupled Calcium Binding And Protein Polymerization
pdb|1SJI|B Chain B, Comparing Skeletal And Cardiac Calsequestrin Structures
And Their Calcium Binding: A Proposed Mechanism For
Coupled Calcium Binding And Protein Polymerization
Length = 350
Score = 32.7 bits (73), Expect = 0.058, Method: Composition-based stats.
Identities = 21/73 (28%), Positives = 33/73 (45%), Gaps = 4/73 (5%)
Query: 20 DNPLSKK-FNDVVNEMRRERCSYLRPR---SCQEGDLSGMFSSKMIEDKNPNGPSYFEFL 75
D P +++ + V E +R LRP E DL+G+ E +P+G + E L
Sbjct: 208 DKPYTEEELVEFVKEHQRPTLRRLRPEDMFETWEDDLNGIHIVAFAERSDPDGYEFLEIL 267
Query: 76 VQIHREIQKKPSL 88
Q+ R+ P L
Sbjct: 268 KQVARDNTDNPDL 280
>pdb|2VAF|A Chain A, Crystal Structure Of Human Cardiac Calsequestrin
Length = 378
Score = 32.3 bits (72), Expect = 0.064, Method: Composition-based stats.
Identities = 19/63 (30%), Positives = 28/63 (44%), Gaps = 3/63 (4%)
Query: 29 DVVNEMRRERCSYLRPRS---CQEGDLSGMFSSKMIEDKNPNGPSYFEFLVQIHREIQKK 85
+ V E +R LRP E DL+G+ E +P+G + E L Q+ R+
Sbjct: 218 EFVKEHQRPTLRRLRPEEMFETWEDDLNGIHIVAFAEKSDPDGYEFLEILKQVARDNTDN 277
Query: 86 PSL 88
P L
Sbjct: 278 PDL 280
>pdb|1A8Y|A Chain A, Crystal Structure Of Calsequestrin From Rabbit Skeletal
Muscle Sarcoplasmic Reticulum At 2.4 A Resolution
pdb|3US3|A Chain A, Recombinant Rabbit Skeletal Calsequestrin-Mpd Complex
pdb|3V1W|A Chain A, Molecular Basis For Multiple Ligand Binding Of
Calsequestrin And Potential Inhibition By Caffeine And
Gallocatecin
Length = 367
Score = 30.4 bits (67), Expect = 0.23, Method: Composition-based stats.
Identities = 20/73 (27%), Positives = 33/73 (45%), Gaps = 4/73 (5%)
Query: 20 DNPLSKK-FNDVVNEMRRERCSYLRPRS---CQEGDLSGMFSSKMIEDKNPNGPSYFEFL 75
D P S++ + V E RR L+P S E D+ G+ E+ +P+G + E L
Sbjct: 210 DKPNSEEEIVNFVEEHRRSTLRKLKPESMYETWEDDMDGIHIVAFAEEADPDGYEFLEIL 269
Query: 76 VQIHREIQKKPSL 88
+ ++ P L
Sbjct: 270 KSVAQDNTDNPDL 282
>pdb|3TRQ|A Chain A, Crystal Structure Of Native Rabbit Skeletal Calsequestrin
pdb|3TRP|A Chain A, Crystal Structure Of Recombinant Rabbit Skeletal
Calsequestrin
Length = 353
Score = 30.4 bits (67), Expect = 0.23, Method: Composition-based stats.
Identities = 20/73 (27%), Positives = 33/73 (45%), Gaps = 4/73 (5%)
Query: 20 DNPLSKK-FNDVVNEMRRERCSYLRPRS---CQEGDLSGMFSSKMIEDKNPNGPSYFEFL 75
D P S++ + V E RR L+P S E D+ G+ E+ +P+G + E L
Sbjct: 210 DKPNSEEEIVNFVEEHRRSTLRKLKPESMYETWEDDMDGIHIVAFAEEADPDGYEFLEIL 269
Query: 76 VQIHREIQKKPSL 88
+ ++ P L
Sbjct: 270 KSVAQDNTDNPDL 282
>pdb|3UOM|A Chain A, Ca2+ Complex Of Human Skeletal Calsequestrin
pdb|3UOM|B Chain B, Ca2+ Complex Of Human Skeletal Calsequestrin
pdb|3UOM|C Chain C, Ca2+ Complex Of Human Skeletal Calsequestrin
pdb|3UOM|D Chain D, Ca2+ Complex Of Human Skeletal Calsequestrin
pdb|3UOM|E Chain E, Ca2+ Complex Of Human Skeletal Calsequestrin
pdb|3UOM|F Chain F, Ca2+ Complex Of Human Skeletal Calsequestrin
Length = 362
Score = 30.0 bits (66), Expect = 0.37, Method: Composition-based stats.
Identities = 20/73 (27%), Positives = 34/73 (46%), Gaps = 4/73 (5%)
Query: 20 DNPLSKK-FNDVVNEMRRERCSYLRPRS---CQEGDLSGMFSSKMIEDKNPNGPSYFEFL 75
D P S++ + V E RR L+P S E D+ G+ E+ +P+G + E L
Sbjct: 210 DKPNSEEEIVNFVEEHRRSTLRKLKPESMYETWEDDMDGIHIVAFAEEADPDGFEFLETL 269
Query: 76 VQIHREIQKKPSL 88
+ ++ + P L
Sbjct: 270 KAVAQDNTENPDL 282
>pdb|1DP4|A Chain A, Dimerized Hormone Binding Domain Of The Atrial Natriuretic
Peptide Receptor
pdb|1DP4|C Chain C, Dimerized Hormone Binding Domain Of The Atrial Natriuretic
Peptide Receptor
pdb|1T34|A Chain A, Rotation Mechanism For Transmembrane Signaling By The
Atrial Natriuretic Peptide Receptor
pdb|1T34|B Chain B, Rotation Mechanism For Transmembrane Signaling By The
Atrial Natriuretic Peptide Receptor
pdb|3A3K|A Chain A, Reversibly Bound Chloride In The Atrial Natriuretic
Peptide Receptor Hormone-Binding Domain
pdb|3A3K|B Chain B, Reversibly Bound Chloride In The Atrial Natriuretic
Peptide Receptor Hormone-Binding Domain
Length = 435
Score = 28.1 bits (61), Expect = 1.4, Method: Composition-based stats.
Identities = 12/29 (41%), Positives = 17/29 (58%)
Query: 57 SSKMIEDKNPNGPSYFEFLVQIHREIQKK 85
++K+I K P+ P Y EFL Q+ KK
Sbjct: 276 AAKIITYKEPDNPEYLEFLKQLKLLADKK 304
>pdb|3EH1|A Chain A, Crystal Structure Of The Human Copii-Coat Protein Sec24b
Length = 751
Score = 27.3 bits (59), Expect = 2.1, Method: Composition-based stats.
Identities = 11/29 (37%), Positives = 18/29 (62%)
Query: 56 FSSKMIEDKNPNGPSYFEFLVQIHREIQK 84
F +IED+ SY+EFL+ + ++I K
Sbjct: 723 FFQHLIEDRTEAAFSYYEFLLHVQQQICK 751
>pdb|3EFO|B Chain B, Crystal Structure Of The Mammalian Copii-Coat Protein
Sec2324 BOUND TO THE TRANSPORT SIGNAL SEQUENCE OF
SYNTAXIN 5
pdb|3EG9|B Chain B, Crystal Structure Of The Mammalian Copii-Coat Protein
Sec2324 BOUND TO THE TRANSPORT SIGNAL SEQUENCE OF
MEMBRIN
Length = 770
Score = 27.3 bits (59), Expect = 2.5, Method: Compositional matrix adjust.
Identities = 9/13 (69%), Positives = 12/13 (92%)
Query: 2 DRGNCSPRYMRCT 14
D+GN SPR++RCT
Sbjct: 41 DQGNASPRFIRCT 53
Score = 26.9 bits (58), Expect = 2.9, Method: Compositional matrix adjust.
Identities = 18/71 (25%), Positives = 38/71 (53%), Gaps = 2/71 (2%)
Query: 14 TIGQQYDNPLSKKFNDVVNEMRRERCSYLRPRSCQEGDLSGM-FSSKMIEDKNP-NGPSY 71
T+ + NP S++ ++ ++++R ++ ++ + M F ++EDK G SY
Sbjct: 695 TLLPEVGNPYSQQLRMIMGIIQQKRPYSMKLTIVKQREQPEMVFRQFLVEDKGLYGGSSY 754
Query: 72 FEFLVQIHREI 82
+FL +H+EI
Sbjct: 755 VDFLCCVHKEI 765
>pdb|3Q7R|A Chain A, 1.6a Resolution Structure Of The Chxr Receiver Domain
From Chlamydia Trachomatis
pdb|3Q7R|B Chain B, 1.6a Resolution Structure Of The Chxr Receiver Domain
From Chlamydia Trachomatis
pdb|3Q7S|A Chain A, 2.1a Resolution Structure Of The Chxr Receiver Domain
Containing I3c From Chlamydia Trachomatis
pdb|3Q7S|B Chain B, 2.1a Resolution Structure Of The Chxr Receiver Domain
Containing I3c From Chlamydia Trachomatis
pdb|3Q7T|A Chain A, 2.15a Resolution Structure (I41 Form) Of The Chxr
Receiver Domain From Chlamydia Trachomatis
pdb|3Q7T|B Chain B, 2.15a Resolution Structure (I41 Form) Of The Chxr
Receiver Domain From Chlamydia Trachomatis
Length = 121
Score = 26.2 bits (56), Expect = 5.2, Method: Compositional matrix adjust.
Identities = 11/18 (61%), Positives = 11/18 (61%)
Query: 8 PRYMRCTIGQQYDNPLSK 25
P RCTIGQQY LS
Sbjct: 34 PEEYRCTIGQQYKQELSA 51
>pdb|3G6T|A Chain A, Gr Gamma Dna-Binding Domain:fkbp5 16bp Complex-34
pdb|3G6T|B Chain B, Gr Gamma Dna-Binding Domain:fkbp5 16bp Complex-34
Length = 91
Score = 25.8 bits (55), Expect = 6.3, Method: Compositional matrix adjust.
Identities = 11/50 (22%), Positives = 28/50 (56%)
Query: 4 GNCSPRYMRCTIGQQYDNPLSKKFNDVVNEMRRERCSYLRPRSCQEGDLS 53
G+C + R G+Q++ + + + +++++RR+ C R R C + ++
Sbjct: 23 GSCKVFFKRAVEGRQHNYLCAGRNDCIIDKIRRKNCPACRYRKCLQAGMN 72
>pdb|1HRA|A Chain A, The Solution Structure Of The Human Retinoic Acid
Receptor- Beta Dna-Binding Domain
Length = 80
Score = 25.4 bits (54), Expect = 8.0, Method: Compositional matrix adjust.
Identities = 11/26 (42%), Positives = 16/26 (61%)
Query: 28 NDVVNEMRRERCSYLRPRSCQEGDLS 53
N V+N++ R RC Y R + C E +S
Sbjct: 49 NCVINKVTRNRCQYCRLQKCFEVGMS 74
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
0.320 0.136 0.417
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 2,734,690
Number of Sequences: 62578
Number of extensions: 91252
Number of successful extensions: 179
Number of sequences better than 100.0: 24
Number of HSP's better than 100.0 without gapping: 12
Number of HSP's successfully gapped in prelim test: 12
Number of HSP's that attempted gapping in prelim test: 161
Number of HSP's gapped (non-prelim): 29
length of query: 88
length of database: 14,973,337
effective HSP length: 56
effective length of query: 32
effective length of database: 11,468,969
effective search space: 367007008
effective search space used: 367007008
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: 45 (21.9 bits)