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= 038914
(570 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 = 41.2 bits (95), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 42/192 (21%), Positives = 77/192 (40%), Gaps = 12/192 (6%)
Query: 354 NLYRKMLSKGIR--PTVVTYHTLFLGLFEVHQVEHALKLFDEMRRNHVAANTYIYTT--F 409
NL RK K I+ P + L + + V AL+L+DE RRN V + Y Y +
Sbjct: 11 NLSRKAKKKAIQQSPEALLKQKLDM-CSKKGDVLEALRLYDEARRNGVQLSQYHYNVLLY 69
Query: 410 IDGLCK-------NGYIVKAVELFRTLRILKYELNIVSYNCLIDGLCKHGRLEIAWELFS 462
+ L + N + + ++F+ + + K N ++ E+A+++
Sbjct: 70 VCSLAEAATESSPNPGLSRGFDIFKQMIVDKVVPNEATFTNGARLAVAKDDPEMAFDMVK 129
Query: 463 SLPRVGLMADVVTYNIMIHGLCNDGQMDKAHGLFLDMEAKGLEPNFVIFNTLMLGFIRNN 522
+ G+ + +Y + G C G DKA+ + M + P L+ +
Sbjct: 130 QMKAFGIQPRLRSYGPALFGFCRKGDADKAYEVDAHMVESEVVPEEPELAALLKVSMDTK 189
Query: 523 ETSKVIELLHRM 534
KV + L R+
Sbjct: 190 NADKVYKTLQRL 201
Score = 33.5 bits (75), Expect = 0.32, Method: Compositional matrix adjust.
Identities = 20/75 (26%), Positives = 34/75 (45%)
Query: 250 LFIEMMDQGVQPNVVTFTVIMDELCKNGKMDGASRLLELMILRGVKPDTSTYNTLIDGYC 309
+F +M+ V PN TFT + A +++ M G++P +Y + G+C
Sbjct: 92 IFKQMIVDKVVPNEATFTNGARLAVAKDDPEMAFDMVKQMKAFGIQPRLRSYGPALFGFC 151
Query: 310 LTGKIDRARELFVSM 324
G D+A E+ M
Sbjct: 152 RKGDADKAYEVDAHM 166
>pdb|4G23|A Chain A, Crystal Structure Of Proteinaceous Rnase P 1 (Prorp1) From
A. Thaliana With Mn
pdb|4G25|A Chain A, Crystal Structure Of Proteinaceous Rnase P 1 (Prorp1) From
A. Thaliana, Semet Substituted Form With Sr
Length = 501
Score = 35.0 bits (79), Expect = 0.13, Method: Compositional matrix adjust.
Identities = 35/151 (23%), Positives = 59/151 (39%), Gaps = 12/151 (7%)
Query: 354 NLYRKMLSKGIR--PTVVTYHTLFLGLFEVHQVEHALKLFDEMRRNHVAANTYIYTT--F 409
NL RK K I+ P + L + V AL+L+DE RRN V + Y Y +
Sbjct: 11 NLSRKAKKKAIQQSPEALLKQKLDX-CSKKGDVLEALRLYDEARRNGVQLSQYHYNVLLY 69
Query: 410 IDGLCK-------NGYIVKAVELFRTLRILKYELNIVSYNCLIDGLCKHGRLEIAWELFS 462
+ L + N + + ++F+ + K N ++ E A++
Sbjct: 70 VCSLAEAATESSPNPGLSRGFDIFKQXIVDKVVPNEATFTNGARLAVAKDDPEXAFDXVK 129
Query: 463 SLPRVGLMADVVTYNIMIHGLCNDGQMDKAH 493
G+ + +Y + G C G DKA+
Sbjct: 130 QXKAFGIQPRLRSYGPALFGFCRKGDADKAY 160
>pdb|1F3R|B Chain B, Complex Between Fv Antibody Fragment And An Analogue Of
The Main Immunogenic Region Of The Acetylcholine
Receptor
Length = 257
Score = 32.3 bits (72), Expect = 0.81, Method: Compositional matrix adjust.
Identities = 18/54 (33%), Positives = 27/54 (50%), Gaps = 5/54 (9%)
Query: 19 KLKESLRLTVKDRASLETFLRERFKSSGEG-----DITTITPNDALCVFDYMLN 67
KL E+ +L + + SL+T + RF SG G I+++ P D F Y N
Sbjct: 177 KLGEAPKLLIYNTNSLQTGIPSRFSGSGSGTDYTLTISSLQPEDVATYFCYQYN 230
>pdb|2ILR|A Chain A, Crystal Structure Of Human Fanconi Anemia Protein E C-
Terminal Domain
Length = 264
Score = 31.6 bits (70), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 17/60 (28%), Positives = 33/60 (55%), Gaps = 4/60 (6%)
Query: 219 MKDENINPNAVTYTSLICGFCYANDWNEAKHLFIE-MMDQGVQPNVVTFTVIMDELCKNG 277
+K E++ P+A L+ G W E L ++ ++++ V+ F+V+M++LCK G
Sbjct: 152 VKMESLEPDAQV---LMLGQILELPWKEETFLVLQSLLERQVEMTPEKFSVLMEKLCKKG 208
>pdb|1FN4|A Chain A, Crystal Structure Of Fab198, An Efficient Protector Of
Acetylcholine Receptor Against Myasthenogenic
Antibodies
pdb|1FN4|C Chain C, Crystal Structure Of Fab198, An Efficient Protector Of
Acetylcholine Receptor Against Myasthenogenic
Antibodies
Length = 211
Score = 31.6 bits (70), Expect = 1.3, Method: Compositional matrix adjust.
Identities = 18/54 (33%), Positives = 27/54 (50%), Gaps = 5/54 (9%)
Query: 19 KLKESLRLTVKDRASLETFLRERFKSSGEG-----DITTITPNDALCVFDYMLN 67
KL E+ +L + + SL+T + RF SG G I+++ P D F Y N
Sbjct: 39 KLGEAPKLLIYNTNSLQTGIPSRFSGSGSGTDYTLTISSLQPEDVATYFCYQYN 92
>pdb|2DJ6|A Chain A, Crystal Structure Of 6-Pyruvoyl Tetrahydrobiopterin
Synthase From Pyrococcus Horikoshii Ot3
pdb|2DJ6|B Chain B, Crystal Structure Of 6-Pyruvoyl Tetrahydrobiopterin
Synthase From Pyrococcus Horikoshii Ot3
pdb|2DJ6|C Chain C, Crystal Structure Of 6-Pyruvoyl Tetrahydrobiopterin
Synthase From Pyrococcus Horikoshii Ot3
pdb|2DTT|A Chain A, Crystal Structure Of 6-Pyruvoyl Tetrahydrobiopterin
Synthase From Pyrococcus Horikoshii Ot3 Complexed With
(1'r,2's)-Biopterin
pdb|2DTT|B Chain B, Crystal Structure Of 6-Pyruvoyl Tetrahydrobiopterin
Synthase From Pyrococcus Horikoshii Ot3 Complexed With
(1'r,2's)-Biopterin
pdb|2DTT|C Chain C, Crystal Structure Of 6-Pyruvoyl Tetrahydrobiopterin
Synthase From Pyrococcus Horikoshii Ot3 Complexed With
(1'r,2's)-Biopterin
pdb|2DTT|D Chain D, Crystal Structure Of 6-Pyruvoyl Tetrahydrobiopterin
Synthase From Pyrococcus Horikoshii Ot3 Complexed With
(1'r,2's)-Biopterin
pdb|2DTT|E Chain E, Crystal Structure Of 6-Pyruvoyl Tetrahydrobiopterin
Synthase From Pyrococcus Horikoshii Ot3 Complexed With
(1'r,2's)-Biopterin
pdb|2DTT|F Chain F, Crystal Structure Of 6-Pyruvoyl Tetrahydrobiopterin
Synthase From Pyrococcus Horikoshii Ot3 Complexed With
(1'r,2's)-Biopterin
Length = 115
Score = 28.9 bits (63), Expect = 7.8, Method: Composition-based stats.
Identities = 16/52 (30%), Positives = 28/52 (53%), Gaps = 2/52 (3%)
Query: 386 HALKLFDEMRRNHVAANTYIYTTFIDGLCKNGYIVKAVELFRTLRILKYELN 437
HA+K+ D H +T+ I+G KNGY++ +EL + + + EL+
Sbjct: 15 HAVKVGDHWEDVH--GHTFFLEVAIEGEIKNGYVMDFLELRKIVEEITKELD 64
>pdb|3JYV|G Chain G, 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 = 186
Score = 28.9 bits (63), Expect = 8.7, Method: Composition-based stats.
Identities = 13/43 (30%), Positives = 26/43 (60%), Gaps = 1/43 (2%)
Query: 512 NTLMLGFIRNNETSKVIELL-HRMDMRNVMPDASTLSIVVDLL 553
N+LM+ N + K + ++ H +D+ NV+ D + + +VVD +
Sbjct: 56 NSLMMNGRNNGKKLKAVRIIKHTLDIINVLTDQNPIQVVVDAI 98
>pdb|1S1H|G Chain G, Structure Of The Ribosomal 80s-Eef2-Sordarin Complex From
Yeast Obtained By Docking Atomic Models For Rna And
Protein Components Into A 11.7 A Cryo-Em Map. This File,
1s1h, Contains 40s Subunit. The 60s Ribosomal Subunit Is
In File 1s1i.
pdb|2NOQ|F Chain F, Structure Of Ribosome-Bound Cricket Paralysis Virus Ires
Rna
Length = 150
Score = 28.5 bits (62), Expect = 9.3, Method: Composition-based stats.
Identities = 13/43 (30%), Positives = 26/43 (60%), Gaps = 1/43 (2%)
Query: 512 NTLMLGFIRNNETSKVIELL-HRMDMRNVMPDASTLSIVVDLL 553
N+LM+ N + K + ++ H +D+ NV+ D + + +VVD +
Sbjct: 20 NSLMMNGRNNGKKLKAVRIIKHTLDIINVLTDQNPIQVVVDAI 62
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 0.139 0.415
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 16,333,585
Number of Sequences: 62578
Number of extensions: 670228
Number of successful extensions: 1728
Number of sequences better than 100.0: 11
Number of HSP's better than 100.0 without gapping: 1
Number of HSP's successfully gapped in prelim test: 10
Number of HSP's that attempted gapping in prelim test: 1711
Number of HSP's gapped (non-prelim): 22
length of query: 570
length of database: 14,973,337
effective HSP length: 104
effective length of query: 466
effective length of database: 8,465,225
effective search space: 3944794850
effective search space used: 3944794850
T: 11
A: 40
X1: 16 ( 7.5 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (22.0 bits)
S2: 54 (25.4 bits)