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= 044131
(784 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|4G24|A Chain A, Crystal Structure Of Proteinaceous Rnase P 1 (Prorp1) From
A. Thaliana With Mn
pdb|4G26|A Chain A, Crystal Structure Of Proteinaceous Rnase P 1 (Prorp1) From
A. Thaliana With Ca
Length = 501
Score = 33.1 bits (74), Expect = 0.57, Method: Compositional matrix adjust.
Identities = 22/61 (36%), Positives = 32/61 (52%), Gaps = 11/61 (18%)
Query: 492 GHGLEALQLFSEMLHSGIRPSGVTFLSVLYACS----------HAGLVREGDEIFQSMIH 541
G LEAL+L+ E +G++ S + +LY CS + GL R G +IF+ MI
Sbjct: 40 GDVLEALRLYDEARRNGVQLSQYHYNVLLYVCSLAEAATESSPNPGLSR-GFDIFKQMIV 98
Query: 542 D 542
D
Sbjct: 99 D 99
>pdb|3KD7|A Chain A, Designed Tpr Module (Ctpr390) In Complex With Its
Peptide-Ligand (Hsp90 Peptide)
pdb|3KD7|B Chain B, Designed Tpr Module (Ctpr390) In Complex With Its
Peptide-Ligand (Hsp90 Peptide)
pdb|3KD7|C Chain C, Designed Tpr Module (Ctpr390) In Complex With Its
Peptide-Ligand (Hsp90 Peptide)
pdb|3KD7|D Chain D, Designed Tpr Module (Ctpr390) In Complex With Its
Peptide-Ligand (Hsp90 Peptide)
pdb|3KD7|E Chain E, Designed Tpr Module (Ctpr390) In Complex With Its
Peptide-Ligand (Hsp90 Peptide)
Length = 125
Score = 32.0 bits (71), Expect = 1.5, Method: Composition-based stats.
Identities = 26/88 (29%), Positives = 38/88 (43%), Gaps = 2/88 (2%)
Query: 549 AEHYACMVDILGRAGQLEKALEFI-KGLAVEPGPA-VWGALLGACMIHKDTNLARVASEK 606
AE + + + + G +KA+E+ K L ++P A W L A D A +K
Sbjct: 9 AEAWKNLGNAYYKQGDYQKAIEYYQKALELDPNNASAWYNLGNAYYKQGDYQKAIEYYQK 68
Query: 607 LFELDPENVGYHVLLSNIYSAERDYLQA 634
ELDP N N Y + DY +A
Sbjct: 69 ALELDPNNAKAWYRRGNAYYKQGDYQKA 96
>pdb|1NA0|A Chain A, Design Of Stable Alpha-Helical Arrays From An Idealized
Tpr Motif
pdb|1NA0|B Chain B, Design Of Stable Alpha-Helical Arrays From An Idealized
Tpr Motif
Length = 125
Score = 31.6 bits (70), Expect = 1.6, Method: Composition-based stats.
Identities = 25/81 (30%), Positives = 36/81 (44%), Gaps = 2/81 (2%)
Query: 561 RAGQLEKALEFI-KGLAVEPGPA-VWGALLGACMIHKDTNLARVASEKLFELDPENVGYH 618
+ G ++A+E+ K L ++P A W L A D + A +K ELDP N
Sbjct: 21 KQGDYDEAIEYYQKALELDPNNAEAWYNLGNAYYKQGDYDEAIEYYQKALELDPNNAEAW 80
Query: 619 VLLSNIYSAERDYLQAATVRQ 639
L N Y + DY +A Q
Sbjct: 81 YNLGNAYYKQGDYDEAIEYYQ 101
>pdb|3C2P|A Chain A, X-Ray Crystal Structure Of The N4 Mini-Vrnap P1 Promoter
Complex
pdb|3C2P|B Chain B, X-Ray Crystal Structure Of The N4 Mini-Vrnap P1 Promoter
Complex
pdb|3C3L|A Chain A, X-Ray Crystal Structure Of The N4 Mini-Vrnap P2 Promoter
Complex
pdb|3C3L|B Chain B, X-Ray Crystal Structure Of The N4 Mini-Vrnap P2 Promoter
Complex
pdb|3C46|A Chain A, X-Ray Crystal Structure Of The N4 Mini-Vrnap P2_7a
Promoter Complex Soaked With Mgcl2
pdb|3C46|B Chain B, X-Ray Crystal Structure Of The N4 Mini-Vrnap P2_7a
Promoter Complex Soaked With Mgcl2
pdb|3Q24|A Chain A, X-Ray Crystal Structure Of The N4 Mini-Vrnap And P2_7a
Promoter Transcription Initiation Complex With Pppgpg
And Pyrophosphate: Product Complex
pdb|3Q24|B Chain B, X-Ray Crystal Structure Of The N4 Mini-Vrnap And P2_7a
Promoter Transcription Initiation Complex With Pppgpg
And Pyrophosphate: Product Complex
Length = 1117
Score = 31.2 bits (69), Expect = 2.4, Method: Compositional matrix adjust.
Identities = 28/108 (25%), Positives = 44/108 (40%), Gaps = 11/108 (10%)
Query: 218 PAVAEVQELRLGMEIQCLGLKLGFHDHVYVLTGLVSFYSKCGEVERAELLFRDIVRPDLI 277
PAV E Q LK YV T +V FY G+ EL+ + +L+
Sbjct: 332 PAVRNTPE-------QKAALKAEQATEFYVHTPMVQFYETLGKDRILELMGAGTLNKELL 384
Query: 278 SCNAMISGYTCNGKTESSLRLFRQLLASAERVNS-STIVGLIPVFYPF 324
+ N + GK S + QL + E+V + S + +P+ Y +
Sbjct: 385 NDN---HAKSLEGKNRSVEDSYNQLFSVIEQVRAQSEDISTVPIHYAY 429
>pdb|3Q22|A Chain A, X-Ray Crystal Structure Of The N4 Mini-Vrnap And P2_7a
Promoter Transcription Initiation Complex With Gtp And
Magnesium: Substrate Complex I
pdb|3Q22|B Chain B, X-Ray Crystal Structure Of The N4 Mini-Vrnap And P2_7a
Promoter Transcription Initiation Complex With Gtp And
Magnesium: Substrate Complex I
pdb|3Q23|A Chain A, X-Ray Crystal Structure Of The N4 Mini-Vrnap And P2_7a
Promoter Transcription Initiation Complex With Gmpcpp
And Manganese: Sustrate Complex Ii
pdb|3Q23|B Chain B, X-Ray Crystal Structure Of The N4 Mini-Vrnap And P2_7a
Promoter Transcription Initiation Complex With Gmpcpp
And Manganese: Sustrate Complex Ii
pdb|3Q0A|A Chain A, X-Ray Crystal Structure Of The Transcription Initiation
Complex Of The N4 Mini-Vrnap With P2 Promoter: Mismatch
Complex
pdb|3Q0A|B Chain B, X-Ray Crystal Structure Of The Transcription Initiation
Complex Of The N4 Mini-Vrnap With P2 Promoter: Mismatch
Complex
pdb|4FF1|A Chain A, N4 Mini-vrnap Transcription Initiation Complex, 1 Min
After Soaking Gtp, Atp And Mn
pdb|4FF1|B Chain B, N4 Mini-vrnap Transcription Initiation Complex, 1 Min
After Soaking Gtp, Atp And Mn
pdb|4FF2|A Chain A, N4 Mini-vrnap Transcription Initiation Complex, 2 Min
After Soaking Gtp, Atp And Mn
pdb|4FF2|B Chain B, N4 Mini-vrnap Transcription Initiation Complex, 2 Min
After Soaking Gtp, Atp And Mn
pdb|4FF3|A Chain A, N4 Mini-vrnap Transcription Initiation Complex, 3 Min
After Soaking Gtp, Atp And Mn
pdb|4FF3|B Chain B, N4 Mini-vrnap Transcription Initiation Complex, 3 Min
After Soaking Gtp, Atp And Mn
pdb|4FF4|A Chain A, N4 Mini-vrnap Transcription Initiation Complex, 4 Min
After Soaking Gtp, Atp And Mn
pdb|4FF4|B Chain B, N4 Mini-vrnap Transcription Initiation Complex, 4 Min
After Soaking Gtp, Atp And Mn
Length = 1118
Score = 31.2 bits (69), Expect = 2.4, Method: Compositional matrix adjust.
Identities = 28/108 (25%), Positives = 44/108 (40%), Gaps = 11/108 (10%)
Query: 218 PAVAEVQELRLGMEIQCLGLKLGFHDHVYVLTGLVSFYSKCGEVERAELLFRDIVRPDLI 277
PAV E Q LK YV T +V FY G+ EL+ + +L+
Sbjct: 332 PAVRNTPE-------QKAALKAEQATEFYVHTPMVQFYETLGKDRILELMGAGTLNKELL 384
Query: 278 SCNAMISGYTCNGKTESSLRLFRQLLASAERVNS-STIVGLIPVFYPF 324
+ N + GK S + QL + E+V + S + +P+ Y +
Sbjct: 385 NDN---HAKSLEGKNRSVEDSYNQLFSVIEQVRAQSEDISTVPIHYAY 429
>pdb|2PO4|A Chain A, X-Ray Crystal Structure Of Polymerase Domain Of The
Bacteriophage N4 Virion Rna Polymerase
Length = 1104
Score = 31.2 bits (69), Expect = 2.4, Method: Compositional matrix adjust.
Identities = 28/108 (25%), Positives = 44/108 (40%), Gaps = 11/108 (10%)
Query: 218 PAVAEVQELRLGMEIQCLGLKLGFHDHVYVLTGLVSFYSKCGEVERAELLFRDIVRPDLI 277
PAV E Q LK YV T +V FY G+ EL+ + +L+
Sbjct: 320 PAVRNTPE-------QKAALKAEQATEFYVHTPMVQFYETLGKDRILELMGAGTLNKELL 372
Query: 278 SCNAMISGYTCNGKTESSLRLFRQLLASAERVNS-STIVGLIPVFYPF 324
+ N + GK S + QL + E+V + S + +P+ Y +
Sbjct: 373 NDN---HAKSLEGKNRSVEDSYNQLFSVIEQVRAQSEDISTVPIHYAY 417
>pdb|1JSH|A Chain A, Crystal Structure Of H9 Haemagglutinin Complexed With
Lsta Receptor Analog
pdb|1JSI|A Chain A, Crystal Structure Of H9 Haemagglutinin Bound To Lstc
Receptor Analog
pdb|1JSD|A Chain A, Crystal Structure Of Swine H9 Haemagglutinin
Length = 319
Score = 30.8 bits (68), Expect = 3.4, Method: Compositional matrix adjust.
Identities = 17/54 (31%), Positives = 25/54 (46%), Gaps = 2/54 (3%)
Query: 21 TQSQLTQTHAQIIIHGFQNDLSTVTKLAHRLSDFKATCYARALFFSIPKPDLFL 74
T++ + THA+ ++H N + T L H L TC L + P DL L
Sbjct: 20 TETNVPVTHAKELLHTSHNGMLCATNLGHPL--ILDTCTIEGLIYGNPSCDLLL 71
>pdb|2NUH|A Chain A, Crystal Structure Of Cuta From The Phytopathgen Bacterium
Xylella Fastidiosa
Length = 118
Score = 29.3 bits (64), Expect = 9.5, Method: Composition-based stats.
Identities = 18/74 (24%), Positives = 36/74 (48%), Gaps = 6/74 (8%)
Query: 255 YSKCGEVERAELLFRDIVRPDLISCNAMISG----YTCNGKTESSLRLFRQLLASAERVN 310
+S C ++ AE++ R +V+ L +C + G Y GK E++ + QLL V+
Sbjct: 9 FSTCPDLPSAEIISRVLVQERLAACVTQLPGAVSTYRWQGKIETTQEI--QLLIKTNAVH 66
Query: 311 SSTIVGLIPVFYPF 324
+ + + +P+
Sbjct: 67 VNAAITRLCALHPY 80
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
0.322 0.135 0.406
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 21,903,803
Number of Sequences: 62578
Number of extensions: 845236
Number of successful extensions: 2380
Number of sequences better than 100.0: 8
Number of HSP's better than 100.0 without gapping: 0
Number of HSP's successfully gapped in prelim test: 8
Number of HSP's that attempted gapping in prelim test: 2379
Number of HSP's gapped (non-prelim): 11
length of query: 784
length of database: 14,973,337
effective HSP length: 107
effective length of query: 677
effective length of database: 8,277,491
effective search space: 5603861407
effective search space used: 5603861407
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (22.0 bits)
S2: 55 (25.8 bits)