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= psy6444
(88 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3ZWL|B Chain B, Structure Of Eukaryotic Translation Initiation Factor
Eif3i Complex With Eif3b C-Terminus (655-700)
pdb|3ZWL|D Chain D, Structure Of Eukaryotic Translation Initiation Factor
Eif3i Complex With Eif3b C-Terminus (655-700)
Length = 369
Score = 41.6 bits (96), Expect = 1e-04, Method: Composition-based stats.
Identities = 20/68 (29%), Positives = 36/68 (52%), Gaps = 5/68 (7%)
Query: 2 ASIRQIPLTCSGHTRPVVHLAFSDITESGYFLISACKDGKPMLRQGDTGDWIGTFEGHKG 61
+ ++ I LT GH RP+ + ++ + G L S KD + G+ +GT +GH G
Sbjct: 21 SHMKAIKLT--GHERPLTQVKYN---KEGDLLFSCSKDSSASVWYSLNGERLGTLDGHTG 75
Query: 62 CVWGVDIN 69
+W +D++
Sbjct: 76 TIWSIDVD 83
>pdb|3ODT|A Chain A, Crystal Structure Of Wd40 Beta Propeller Domain Of Doa1
pdb|3ODT|B Chain B, Crystal Structure Of Wd40 Beta Propeller Domain Of Doa1
Length = 313
Score = 30.8 bits (68), Expect = 0.19, Method: Compositional matrix adjust.
Identities = 20/51 (39%), Positives = 27/51 (52%), Gaps = 4/51 (7%)
Query: 14 HTRPVVHLAFSDITESGYFLISACKDGKPMLRQGDTGDWIGTFEGHKGCVW 64
H V HLA + + G+F IS DG L TGD + T+EGH+ V+
Sbjct: 183 HNDVVRHLA---VVDDGHF-ISCSNDGLIKLVDXHTGDVLRTYEGHESFVY 229
>pdb|2YMU|A Chain A, Structure Of A Highly Repetitive Propeller Structure
pdb|2YMU|B Chain B, Structure Of A Highly Repetitive Propeller Structure
Length = 577
Score = 30.0 bits (66), Expect = 0.35, Method: Composition-based stats.
Identities = 19/61 (31%), Positives = 29/61 (47%), Gaps = 4/61 (6%)
Query: 6 QIPLTCSGHTRPVVHLAFSDITESGYFLISACKDGKPMLRQGDTGDWIGTFEGHKGCVWG 65
Q+ T +GH+ V +AFS ++ I++ D K + G + T GH VWG
Sbjct: 89 QLLQTLTGHSSSVRGVAFSPDGQT----IASASDDKTVKLWNRNGQLLQTLTGHSSSVWG 144
Query: 66 V 66
V
Sbjct: 145 V 145
Score = 30.0 bits (66), Expect = 0.35, Method: Composition-based stats.
Identities = 19/61 (31%), Positives = 29/61 (47%), Gaps = 4/61 (6%)
Query: 6 QIPLTCSGHTRPVVHLAFSDITESGYFLISACKDGKPMLRQGDTGDWIGTFEGHKGCVWG 65
Q+ T +GH+ V +AFS ++ I++ D K + G + T GH VWG
Sbjct: 376 QLLQTLTGHSSSVRGVAFSPDGQT----IASASDDKTVKLWNRNGQLLQTLTGHSSSVWG 431
Query: 66 V 66
V
Sbjct: 432 V 432
Score = 30.0 bits (66), Expect = 0.35, Method: Composition-based stats.
Identities = 19/61 (31%), Positives = 29/61 (47%), Gaps = 4/61 (6%)
Query: 6 QIPLTCSGHTRPVVHLAFSDITESGYFLISACKDGKPMLRQGDTGDWIGTFEGHKGCVWG 65
Q+ T +GH+ V +AFS ++ I++ D K + G + T GH VWG
Sbjct: 499 QLLQTLTGHSSSVRGVAFSPDGQT----IASASDDKTVKLWNRNGQLLQTLTGHSSSVWG 554
Query: 66 V 66
V
Sbjct: 555 V 555
Score = 29.6 bits (65), Expect = 0.39, Method: Composition-based stats.
Identities = 19/61 (31%), Positives = 29/61 (47%), Gaps = 4/61 (6%)
Query: 6 QIPLTCSGHTRPVVHLAFSDITESGYFLISACKDGKPMLRQGDTGDWIGTFEGHKGCVWG 65
Q+ T +GH+ V +AFS ++ I++ D K + G + T GH VWG
Sbjct: 130 QLLQTLTGHSSSVWGVAFSPDGQT----IASASDDKTVKLWNRNGQLLQTLTGHSSSVWG 185
Query: 66 V 66
V
Sbjct: 186 V 186
Score = 29.6 bits (65), Expect = 0.47, Method: Composition-based stats.
Identities = 19/61 (31%), Positives = 29/61 (47%), Gaps = 4/61 (6%)
Query: 6 QIPLTCSGHTRPVVHLAFSDITESGYFLISACKDGKPMLRQGDTGDWIGTFEGHKGCVWG 65
Q+ T +GH+ V +AFS ++ I++ D K + G + T GH VWG
Sbjct: 294 QLLQTLTGHSSSVWGVAFSPDGQT----IASASDDKTVKLWNRNGQHLQTLTGHSSSVWG 349
Query: 66 V 66
V
Sbjct: 350 V 350
Score = 28.1 bits (61), Expect = 1.4, Method: Composition-based stats.
Identities = 18/61 (29%), Positives = 28/61 (45%), Gaps = 4/61 (6%)
Query: 6 QIPLTCSGHTRPVVHLAFSDITESGYFLISACKDGKPMLRQGDTGDWIGTFEGHKGCVWG 65
Q+ T +GH+ V +AF ++ I++ D K + G + T GH VWG
Sbjct: 253 QLLQTLTGHSSSVNGVAFRPDGQT----IASASDDKTVKLWNRNGQLLQTLTGHSSSVWG 308
Query: 66 V 66
V
Sbjct: 309 V 309
Score = 25.4 bits (54), Expect = 9.2, Method: Composition-based stats.
Identities = 16/54 (29%), Positives = 24/54 (44%), Gaps = 4/54 (7%)
Query: 13 GHTRPVVHLAFSDITESGYFLISACKDGKPMLRQGDTGDWIGTFEGHKGCVWGV 66
H+ V +AFS ++ I++ D K + G + T GH VWGV
Sbjct: 14 AHSSSVRGVAFSPDGQT----IASASDDKTVKLWNRNGQLLQTLTGHSSSVWGV 63
>pdb|1VYH|C Chain C, Paf-Ah Holoenzyme: Lis1ALFA2
pdb|1VYH|D Chain D, Paf-Ah Holoenzyme: Lis1ALFA2
pdb|1VYH|G Chain G, Paf-Ah Holoenzyme: Lis1ALFA2
pdb|1VYH|H Chain H, Paf-Ah Holoenzyme: Lis1ALFA2
pdb|1VYH|K Chain K, Paf-Ah Holoenzyme: Lis1ALFA2
pdb|1VYH|L Chain L, Paf-Ah Holoenzyme: Lis1ALFA2
pdb|1VYH|O Chain O, Paf-Ah Holoenzyme: Lis1ALFA2
pdb|1VYH|P Chain P, Paf-Ah Holoenzyme: Lis1ALFA2
pdb|1VYH|S Chain S, Paf-Ah Holoenzyme: Lis1ALFA2
pdb|1VYH|T Chain T, Paf-Ah Holoenzyme: Lis1ALFA2
Length = 410
Score = 28.1 bits (61), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 16/58 (27%), Positives = 27/58 (46%), Gaps = 3/58 (5%)
Query: 12 SGHTRPVVHLAFSDITESGYFLISACKDGKPMLRQGDTGDWIGTFEGHKGCVWGVDIN 69
SGH PV + F + ++SA +D + +TGD+ T +GH V + +
Sbjct: 105 SGHRSPVTRVIFHPVFS---VMVSASEDATIKVWDYETGDFERTLKGHTDSVQDISFD 159
>pdb|1R5M|A Chain A, Crystal Structure Of The C-Terminal Wd40 Domain Of Sif2
Length = 425
Score = 27.3 bits (59), Expect = 2.1, Method: Composition-based stats.
Identities = 16/47 (34%), Positives = 22/47 (46%), Gaps = 3/47 (6%)
Query: 13 GHTRPVVHLAFSDITESGYFLISACKDGKPMLRQGDTGDWIGTFEGH 59
GH P+ L F+D + L+SA DG + G G+ F GH
Sbjct: 245 GHHGPISVLEFNDTNK---LLLSASDDGTLRIWHGGNGNSQNCFYGH 288
>pdb|3JRO|A Chain A, Nup84-Nup145c-Sec13 Edge Element Of The Npc Lattice
Length = 753
Score = 27.3 bits (59), Expect = 2.2, Method: Composition-based stats.
Identities = 11/22 (50%), Positives = 14/22 (63%)
Query: 46 QGDTGDWIGTFEGHKGCVWGVD 67
+G+T I T GH+G VW VD
Sbjct: 39 EGETHKLIDTLTGHEGPVWRVD 60
>pdb|3JRP|A Chain A, Sec13 With Nup145c (Aa109-179) Insertion Blade
Length = 379
Score = 26.6 bits (57), Expect = 3.6, Method: Composition-based stats.
Identities = 11/22 (50%), Positives = 14/22 (63%)
Query: 46 QGDTGDWIGTFEGHKGCVWGVD 67
+G+T I T GH+G VW VD
Sbjct: 41 EGETHKLIDTLTGHEGPVWRVD 62
>pdb|2PM6|B Chain B, Crystal Structure Of Yeast Sec1331 EDGE ELEMENT OF THE
Copii Vesicular Coat, Native Version
pdb|2PM6|D Chain D, Crystal Structure Of Yeast Sec1331 EDGE ELEMENT OF THE
Copii Vesicular Coat, Native Version
pdb|3IKO|A Chain A, Crystal Structure Of The Heterotrimeric
Sec13-Nup145c-Nup84 Nucleoporin Complex
pdb|3IKO|D Chain D, Crystal Structure Of The Heterotrimeric
Sec13-Nup145c-Nup84 Nucleoporin Complex
pdb|3IKO|G Chain G, Crystal Structure Of The Heterotrimeric
Sec13-Nup145c-Nup84 Nucleoporin Complex
pdb|3MZK|A Chain A, Sec13SEC16 COMPLEX, S.CEREVISIAE
pdb|3MZK|D Chain D, Sec13SEC16 COMPLEX, S.CEREVISIAE
pdb|3MZL|A Chain A, Sec13SEC31 EDGE ELEMENT, LOOP DELETION MUTANT
pdb|3MZL|C Chain C, Sec13SEC31 EDGE ELEMENT, LOOP DELETION MUTANT
pdb|3MZL|E Chain E, Sec13SEC31 EDGE ELEMENT, LOOP DELETION MUTANT
pdb|3MZL|G Chain G, Sec13SEC31 EDGE ELEMENT, LOOP DELETION MUTANT
Length = 297
Score = 26.2 bits (56), Expect = 4.3, Method: Composition-based stats.
Identities = 11/22 (50%), Positives = 14/22 (63%)
Query: 46 QGDTGDWIGTFEGHKGCVWGVD 67
+G+T I T GH+G VW VD
Sbjct: 39 EGETHKLIDTLTGHEGPVWRVD 60
>pdb|2PM9|B Chain B, Crystal Structure Of Yeast Sec1331 VERTEX ELEMENT OF THE
Copii Vesicular Coat
Length = 297
Score = 26.2 bits (56), Expect = 4.3, Method: Composition-based stats.
Identities = 11/22 (50%), Positives = 14/22 (63%)
Query: 46 QGDTGDWIGTFEGHKGCVWGVD 67
+G+T I T GH+G VW VD
Sbjct: 39 EGETHKLIDTLTGHEGPVWRVD 60
>pdb|2PM7|B Chain B, Crystal Structure Of Yeast Sec1331 EDGE ELEMENT OF THE
Copii Vesicular Coat, Selenomethionine Version
pdb|2PM7|D Chain D, Crystal Structure Of Yeast Sec1331 EDGE ELEMENT OF THE
Copii Vesicular Coat, Selenomethionine Version
Length = 297
Score = 26.2 bits (56), Expect = 4.3, Method: Composition-based stats.
Identities = 11/22 (50%), Positives = 14/22 (63%)
Query: 46 QGDTGDWIGTFEGHKGCVWGVD 67
+G+T I T GH+G VW VD
Sbjct: 39 EGETHKLIDTLTGHEGPVWRVD 60
>pdb|2OVP|B Chain B, Structure Of The Skp1-Fbw7 Complex
pdb|2OVQ|B Chain B, Structure Of The Skp1-Fbw7-Cyclinedegc Complex
pdb|2OVR|B Chain B, Structure Of The Skp1-Fbw7-Cyclinedegn Complex
Length = 445
Score = 25.4 bits (54), Expect = 7.6, Method: Compositional matrix adjust.
Identities = 17/59 (28%), Positives = 26/59 (44%), Gaps = 5/59 (8%)
Query: 10 TCSGHTRPVVHLAFSDITESGYFLISACKDGKPMLRQGDTGDWIGTFEGHKGCVWGVDI 68
T GHT V L F G ++S D + +TG+ I T GH+ G+++
Sbjct: 274 TLQGHTNRVYSLQFD-----GIHVVSGSLDTSIRVWDVETGNCIHTLTGHQSLTSGMEL 327
>pdb|3IZB|AA Chain a, Localization Of The Small Subunit Ribosomal Proteins Into
A 6.1 A Cryo-Em Map Of Saccharomyces Cerevisiae
Translating 80s Ribosome
pdb|3O2Z|T Chain T, Yeast 80s Ribosome. This Entry Consists Of The 40s Subunit
Of The First 80s In The Asymmetric Unit.
pdb|3O30|T Chain T, Yeast 80s Ribosome. This Entry Consists Of The 40s Subunit
Of The Second 80s In The Asymmetric Unit.
pdb|3U5C|GG Chain g, The Structure Of The Eukaryotic Ribosome At 3.0 A
Resolution. This Entry Contains Proteins Of The 40s
Subunit, Ribosome A
pdb|3U5G|GG Chain g, The Structure Of The Eukaryotic Ribosome At 3.0 A
Resolution. This Entry Contains Proteins Of The 40s
Subunit, Ribosome B
Length = 319
Score = 25.4 bits (54), Expect = 9.2, Method: Composition-based stats.
Identities = 16/44 (36%), Positives = 21/44 (47%)
Query: 26 ITESGYFLISACKDGKPMLRQGDTGDWIGTFEGHKGCVWGVDIN 69
+T G + +SA D L TG+ F GHK V VDI+
Sbjct: 73 LTADGAYALSASWDKTLRLWDVATGETYQRFVGHKSDVMSVDID 116
>pdb|3RFH|A Chain A, Crystal Structure Of The Yeast Rack1 Dimer In Space Group
P21
pdb|3RFH|B Chain B, Crystal Structure Of The Yeast Rack1 Dimer In Space Group
P21
pdb|3RFH|C Chain C, Crystal Structure Of The Yeast Rack1 Dimer In Space Group
P21
pdb|3RFH|D Chain D, Crystal Structure Of The Yeast Rack1 Dimer In Space Group
P21
Length = 319
Score = 25.0 bits (53), Expect = 9.6, Method: Composition-based stats.
Identities = 16/44 (36%), Positives = 21/44 (47%)
Query: 26 ITESGYFLISACKDGKPMLRQGDTGDWIGTFEGHKGCVWGVDIN 69
+T G + +SA D L TG+ F GHK V VDI+
Sbjct: 73 LTADGAYALSASWDKTLRLWDVATGETYQRFVGHKSDVMSVDID 116
>pdb|3RFG|A Chain A, Crystal Structure Of The Yeast Rack1 Dimer In Space Group
P63
pdb|3RFG|B Chain B, Crystal Structure Of The Yeast Rack1 Dimer In Space Group
P63
Length = 319
Score = 25.0 bits (53), Expect = 9.6, Method: Composition-based stats.
Identities = 16/44 (36%), Positives = 21/44 (47%)
Query: 26 ITESGYFLISACKDGKPMLRQGDTGDWIGTFEGHKGCVWGVDIN 69
+T G + +SA D L TG+ F GHK V VDI+
Sbjct: 73 LTADGAYALSASWDKTLRLWDVATGETYQRFVGHKSDVMSVDID 116
>pdb|1TRJ|A Chain A, Homology Model Of Yeast Rack1 Protein Fitted Into 11.7a
Cryo-em Map Of Yeast 80s Ribosome
Length = 314
Score = 25.0 bits (53), Expect = 9.7, Method: Composition-based stats.
Identities = 16/44 (36%), Positives = 21/44 (47%)
Query: 26 ITESGYFLISACKDGKPMLRQGDTGDWIGTFEGHKGCVWGVDIN 69
+T G + +SA D L TG+ F GHK V VDI+
Sbjct: 73 LTADGAYALSASWDKTLRLWDVATGETYQRFVGHKSDVMSVDID 116
>pdb|3JYV|R Chain R, Structure Of The 40s Rrna And Proteins And PE TRNA FOR
EUKARYOTIC Ribosome Based On Cryo-Em Map Of Thermomyces
Lanuginosus Ribosome At 8.9a Resolution
Length = 313
Score = 25.0 bits (53), Expect = 9.7, Method: Composition-based stats.
Identities = 16/44 (36%), Positives = 21/44 (47%)
Query: 26 ITESGYFLISACKDGKPMLRQGDTGDWIGTFEGHKGCVWGVDIN 69
+T G + +SA D L TG+ F GHK V VDI+
Sbjct: 67 LTADGAYALSASWDKTLRLWDVATGETYQRFVGHKSDVMSVDID 110
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
0.323 0.141 0.469
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 2,418,064
Number of Sequences: 62578
Number of extensions: 85940
Number of successful extensions: 229
Number of sequences better than 100.0: 17
Number of HSP's better than 100.0 without gapping: 14
Number of HSP's successfully gapped in prelim test: 3
Number of HSP's that attempted gapping in prelim test: 207
Number of HSP's gapped (non-prelim): 27
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 ( 7.5 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 45 (21.9 bits)