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= 033350
(121 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 = 37.0 bits (84), Expect = 0.003, Method: Composition-based stats.
Identities = 17/68 (25%), Positives = 34/68 (50%), Gaps = 3/68 (4%)
Query: 1 MLIYPRMMAVHTLFSEEADGSLTTPIIPLTSEHITEDGIFLLENGEDALIYIGDRVNSYI 60
+ YPR++ L + + P + + E ++ I+LLENG + +++G V +
Sbjct: 617 VFFYPRLLP---LTKSPVESTTEPPAVRASEERLSNGDIYLLENGLNLFLWVGASVQQGV 673
Query: 61 LDQLFGIS 68
+ LF +S
Sbjct: 674 VQSLFSVS 681
>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 = 36.2 bits (82), Expect = 0.005, Method: Compositional matrix adjust.
Identities = 13/44 (29%), Positives = 25/44 (56%)
Query: 25 PIIPLTSEHITEDGIFLLENGEDALIYIGDRVNSYILDQLFGIS 68
PI+ L+ E ++ DG FL++ G ++++G L Q+ G+
Sbjct: 629 PILQLSVEKLSRDGAFLMDAGSVLMLWVGKNCTQNFLSQVLGVQ 672
>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 = 36.2 bits (82), Expect = 0.005, Method: Compositional matrix adjust.
Identities = 13/44 (29%), Positives = 25/44 (56%)
Query: 25 PIIPLTSEHITEDGIFLLENGEDALIYIGDRVNSYILDQLFGIS 68
PI+ L+ E ++ DG FL++ G ++++G L Q+ G+
Sbjct: 624 PILQLSVEKLSRDGAFLMDAGSVLMLWVGKNCTQNFLSQVLGVQ 667
>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 = 35.4 bits (80), Expect = 0.009, Method: Composition-based stats.
Identities = 15/67 (22%), Positives = 35/67 (52%), Gaps = 3/67 (4%)
Query: 1 MLIYPRMMAVHTLFSEEADGSLTTPIIPLTSEHITEDGIFLLENGEDALIYIGDRVNSYI 60
+ YP+++ +HTL + ++ + + ++E+GIFLL NG +++G +
Sbjct: 621 LFFYPQLLPIHTL---DVKSTMLPAAVRCSESRLSEEGIFLLANGLHMFLWLGVSSPPEL 677
Query: 61 LDQLFGI 67
+ +F +
Sbjct: 678 IQGIFNV 684
>pdb|3EH1|A Chain A, Crystal Structure Of The Human Copii-Coat Protein Sec24b
Length = 751
Score = 30.0 bits (66), Expect = 0.39, Method: Compositional matrix adjust.
Identities = 11/42 (26%), Positives = 25/42 (59%)
Query: 25 PIIPLTSEHITEDGIFLLENGEDALIYIGDRVNSYILDQLFG 66
P+ L++E +T +G FL++ G I++G ++ ++ + G
Sbjct: 627 PLQKLSAEKLTREGAFLMDCGSVFYIWVGKGCDNNFIEDVLG 668
>pdb|1LFW|A Chain A, Crystal Structure Of Pepv
Length = 470
Score = 28.9 bits (63), Expect = 0.74, Method: Composition-based stats.
Identities = 26/77 (33%), Positives = 35/77 (45%), Gaps = 9/77 (11%)
Query: 36 EDGIFLLENGEDALIYIGDRVNSYILDQLFGISLTRFSPQVVFVHGSGP-ITPMSVSYSS 94
E GIF LE D Y+LD+ T +PQV SGP + + ++Y S
Sbjct: 186 EQGIFTLEFS----FKNDDTKGDYVLDKFKAGIATNVTPQVTRATISGPDLEAVKLAYES 241
Query: 95 F----DLDGSCLVLTES 107
F +LDGS + ES
Sbjct: 242 FLADKELDGSFEINDES 258
>pdb|3IZR|EE Chain e, Localization Of The Large Subunit Ribosomal Proteins Into
A 5.5 A Cryo-Em Map Of Triticum Aestivum Translating 80s
Ribosome
Length = 244
Score = 28.9 bits (63), Expect = 0.75, Method: Compositional matrix adjust.
Identities = 15/51 (29%), Positives = 24/51 (47%), Gaps = 5/51 (9%)
Query: 4 YPRMMAVHTLFSEEADGSLTTPIIPLTSEHITEDGIFLLENGEDALIYIGD 54
YP + +V L + G L IPL + + E+G+ G+ +I I D
Sbjct: 140 YPNLKSVRELIYKRGYGKLNKQRIPLANNKVIEEGL-----GKHNIICIED 185
>pdb|1PCX|A Chain A, Crystal Structure Of The Copii Coat Subunit, Sec24,
Complexed With A Peptide From The Snare Protein Bet1
pdb|1PD0|A Chain A, Crystal Structure Of The Copii Coat Subunit, Sec24,
Complexed With A Peptide From The Snare Protein Sed5
(Yeast Syntaxin-5)
pdb|1PD1|A Chain A, Crystal Structure Of The Copii Coat Subunit, Sec24,
Complexed With A Peptide Containing The Dxe Cargo
Sorting Signal Of Yeast Sys1 Protein
Length = 810
Score = 28.9 bits (63), Expect = 0.86, Method: Compositional matrix adjust.
Identities = 22/76 (28%), Positives = 39/76 (51%), Gaps = 13/76 (17%)
Query: 3 IYPRMMAVHTLFSE----------EADGSLTTPI-IPLTSEHITEDGIFLLENGEDALIY 51
IYP + ++H + E EA G++ P I TS G++L++NG + ++
Sbjct: 636 IYPDVYSLHDMADEAGLPVQTEDGEATGTIVLPQPINATSSLFERYGLYLIDNGNELFLW 695
Query: 52 I-GDRVNSYILDQLFG 66
+ GD V + + D +FG
Sbjct: 696 MGGDAVPALVFD-VFG 710
>pdb|1M2V|B Chain B, Crystal Structure Of The Yeast Sec2324 HETERODIMER
Length = 926
Score = 28.5 bits (62), Expect = 0.89, Method: Compositional matrix adjust.
Identities = 22/76 (28%), Positives = 39/76 (51%), Gaps = 13/76 (17%)
Query: 3 IYPRMMAVHTLFSE----------EADGSLTTPI-IPLTSEHITEDGIFLLENGEDALIY 51
IYP + ++H + E EA G++ P I TS G++L++NG + ++
Sbjct: 752 IYPDVYSLHDMADEAGLPVQTEDGEATGTIVLPQPINATSSLFERYGLYLIDNGNELFLW 811
Query: 52 I-GDRVNSYILDQLFG 66
+ GD V + + D +FG
Sbjct: 812 MGGDAVPALVFD-VFG 826
>pdb|3VTA|A Chain A, Crystal Structure Of Cucumisin, A Subtilisin-Like
Endoprotease From Cucumis Melo L
pdb|3VTA|B Chain B, Crystal Structure Of Cucumisin, A Subtilisin-Like
Endoprotease From Cucumis Melo L
Length = 621
Score = 26.9 bits (58), Expect = 3.3, Method: Composition-based stats.
Identities = 9/18 (50%), Positives = 13/18 (72%)
Query: 71 RFSPQVVFVHGSGPITPM 88
RF+PQ F +GSG + P+
Sbjct: 454 RFNPQAEFAYGSGHVNPL 471
>pdb|4GL2|A Chain A, Structural Basis For Dsrna Duplex Backbone Recognition By
Mda5
pdb|4GL2|B Chain B, Structural Basis For Dsrna Duplex Backbone Recognition By
Mda5
Length = 699
Score = 26.2 bits (56), Expect = 4.8, Method: Composition-based stats.
Identities = 11/28 (39%), Positives = 18/28 (64%)
Query: 27 IPLTSEHITEDGIFLLENGEDALIYIGD 54
I +++ I E+ + LENGEDA + + D
Sbjct: 109 IIISTAQILENSLLNLENGEDAGVQLSD 136
>pdb|3B6E|A Chain A, Crystal Structure Of Human Dech-Box Rna Helicase Mda5
(Melanoma Differentiation-Associated Protein 5),
Dech-Domain
Length = 216
Score = 25.8 bits (55), Expect = 5.8, Method: Compositional matrix adjust.
Identities = 11/28 (39%), Positives = 18/28 (64%)
Query: 27 IPLTSEHITEDGIFLLENGEDALIYIGD 54
I +++ I E+ + LENGEDA + + D
Sbjct: 135 IIISTAQILENSLLNLENGEDAGVQLSD 162
>pdb|2LLF|A Chain A, Sixth Gelsolin-like Domain Of Villin In 5 Mm Cacl2
Length = 107
Score = 25.8 bits (55), Expect = 5.9, Method: Compositional matrix adjust.
Identities = 10/36 (27%), Positives = 19/36 (52%)
Query: 22 LTTPIIPLTSEHITEDGIFLLENGEDALIYIGDRVN 57
L T I+ T + + E+ ++LL+ + +IG N
Sbjct: 14 LATEIVDFTQDDLDENDVYLLDTWDQIFFWIGKGAN 49
>pdb|3FG7|A Chain A, The Crystal Structure Of Villin Domain 6
pdb|3FG7|B Chain B, The Crystal Structure Of Villin Domain 6
Length = 398
Score = 25.8 bits (55), Expect = 6.2, Method: Composition-based stats.
Identities = 15/57 (26%), Positives = 25/57 (43%), Gaps = 4/57 (7%)
Query: 1 MLIYPRMMAVHTLFSEEADGSLTTPIIPLTSEHITEDGIFLLENGEDALIYIGDRVN 57
++I PR+ S + L T I + + ED +FLL+ + +IG N
Sbjct: 279 LVITPRLFEC----SNKTGRFLATEIPDFNQDDLEEDDVFLLDVWDQVFFWIGKHAN 331
>pdb|3EPU|A Chain A, Crystal Structure Of Stm2138, A Novel Virulence
Chaperone In Salmonella
pdb|3EPU|B Chain B, Crystal Structure Of Stm2138, A Novel Virulence
Chaperone In Salmonella
Length = 144
Score = 25.8 bits (55), Expect = 6.4, Method: Compositional matrix adjust.
Identities = 11/42 (26%), Positives = 26/42 (61%)
Query: 40 FLLENGEDALIYIGDRVNSYILDQLFGISLTRFSPQVVFVHG 81
F L+ D++++ +R+ S+I+D + I LT + + + ++G
Sbjct: 12 FSLKLNTDSIVFDENRLCSFIIDNRYRILLTSTNSEYIMIYG 53
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
0.321 0.139 0.403
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 3,645,928
Number of Sequences: 62578
Number of extensions: 141448
Number of successful extensions: 291
Number of sequences better than 100.0: 17
Number of HSP's better than 100.0 without gapping: 11
Number of HSP's successfully gapped in prelim test: 6
Number of HSP's that attempted gapping in prelim test: 280
Number of HSP's gapped (non-prelim): 17
length of query: 121
length of database: 14,973,337
effective HSP length: 83
effective length of query: 38
effective length of database: 9,779,363
effective search space: 371615794
effective search space used: 371615794
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)