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= 033161
(126 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2K2E|A Chain A, Solution Nmr Structure Of Bordetella Pertussis Protein
Bp2786, A Mth938-Like Domain. Northeast Structural
Genomics Consortium Target Ber31
Length = 158
Score = 55.5 bits (132), Expect = 8e-09, Method: Compositional matrix adjust.
Identities = 29/62 (46%), Positives = 41/62 (66%)
Query: 64 PEILILGCGRYIEPVNPELRQFIRSTGMKLEAIDSRNAASTYNILNEEGRIVAAALLPYG 123
PE+L++G GR + PE + + + G+ +EA+D++ AA TYNIL EGR V ALLP G
Sbjct: 89 PEVLLVGTGRRQHLLGPEQVRPLLAMGVGVEAMDTQAAARTYNILMAEGRRVVVALLPDG 148
Query: 124 VS 125
S
Sbjct: 149 DS 150
>pdb|3CPK|A Chain A, Crystal Structure Of The Q7w7n7_borpa Protein From
Bordetella Parapertussis. Northeast Structural Genomics
Consortium Target Ber31
Length = 150
Score = 55.1 bits (131), Expect = 9e-09, Method: Compositional matrix adjust.
Identities = 29/62 (46%), Positives = 40/62 (64%)
Query: 64 PEILILGCGRYIEPVNPELRQFIRSTGMKLEAIDSRNAASTYNILNEEGRIVAAALLPYG 123
PE+L++G GR + PE + + + G+ +EA D++ AA TYNIL EGR V ALLP G
Sbjct: 89 PEVLLVGTGRRQHLLGPEQVRPLLAXGVGVEAXDTQAAARTYNILXAEGRRVVVALLPDG 148
Query: 124 VS 125
S
Sbjct: 149 DS 150
>pdb|2FVT|A Chain A, Nmr Structure Of The Rpa2829 Protein From Rhodopseudomonas
Palustris: Northeast Structural Genomics Target Rpr43
Length = 135
Score = 49.3 bits (116), Expect = 5e-07, Method: Compositional matrix adjust.
Identities = 33/108 (30%), Positives = 55/108 (50%), Gaps = 2/108 (1%)
Query: 14 SFASKGFTVNGVQYEGSLLCIGNLLLSWTPKKFSEITPNCLS-IFQLVRPIPEILILGCG 72
++ GF G+ ++GSLL + + + W K +I L +F I + LI+G G
Sbjct: 18 AYGKGGFYFAGMSHQGSLLFLPDAVWGWDVTKPEQIDRYSLQRVFDNANAI-DTLIVGTG 76
Query: 73 RYIEPVNPELRQFIRSTGMKLEAIDSRNAASTYNILNEEGRIVAAALL 120
+ +LR+ +R + L+ + + A TYNI+ E R VAAAL+
Sbjct: 77 ADVWIAPRQLREALRGVNVVLDTMQTGPAIRTYNIMIGERRRVAAALI 124
>pdb|2GM2|A Chain A, Nmr Structure Of Xanthomonas Campestris Xcc1710: Northeast
Structural Genomics Consortium Target Xcr35
Length = 132
Score = 37.0 bits (84), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 25/95 (26%), Positives = 46/95 (48%), Gaps = 2/95 (2%)
Query: 31 LLCIGNLLLSWTPKKFSEITPNCLSIFQLVRPIPEILILGCGRYIEPVNPELRQFIRSTG 90
+L L+ W ++ P + + P +++LG G + + ++ + G
Sbjct: 34 ILMPDELVEHWPVPSLGQLQPAHMDAVLALNPA--VILLGTGERQQFPSTDVLAACLTRG 91
Query: 91 MKLEAIDSRNAASTYNILNEEGRIVAAALLPYGVS 125
+ LEA+ + AA TYN+L EGR VA A++ G+
Sbjct: 92 IGLEAMTNAAAARTYNVLASEGRRVALAMIVGGLE 126
>pdb|2FI9|A Chain A, The Crystal Structure Of An Outer Membrane Protein From
The Bartonella Henselae
Length = 128
Score = 32.7 bits (73), Expect = 0.051, Method: Compositional matrix adjust.
Identities = 27/126 (21%), Positives = 51/126 (40%), Gaps = 31/126 (24%)
Query: 10 SPRISFASKGFTVNGVQYEGSLLCIGNLLLSWTPKKFSEITPNCLSIFQLVRPIP----- 64
+P ++ + GF + + GS++CI P+ + + P+P
Sbjct: 16 APIDAYGNGGFRFADMSHRGSIICI----------------PSGIYGIDMTGPVPTQEDI 59
Query: 65 ----------EILILGCGRYIEPVNPELRQFIRSTGMKLEAIDSRNAASTYNILNEEGRI 114
E+L++G G + + ELR + + + + + A T+N+L E R
Sbjct: 60 SRVLEESDQIEVLLIGTGVELLRLPEELRVLLWEKRISSDTMSTGAAVRTFNVLLAEDRA 119
Query: 115 VAAALL 120
VAA L
Sbjct: 120 VAALLF 125
>pdb|1J8F|A Chain A, Human Sirt2 Histone Deacetylase
Length = 323
Score = 29.6 bits (65), Expect = 0.43, Method: Compositional matrix adjust.
Identities = 16/39 (41%), Positives = 21/39 (53%), Gaps = 3/39 (7%)
Query: 33 CIGNLLLSWTPKK-FSEITPNCLSIFQLVRPIPEILILG 70
C LSW +K FSE+TP C LV+ P+I+ G
Sbjct: 167 CRHEYPLSWMKEKIFSEVTPKCEDCQSLVK--PDIVFFG 203
>pdb|1J8F|C Chain C, Human Sirt2 Histone Deacetylase
pdb|1J8F|B Chain B, Human Sirt2 Histone Deacetylase
Length = 323
Score = 29.6 bits (65), Expect = 0.44, Method: Compositional matrix adjust.
Identities = 16/39 (41%), Positives = 21/39 (53%), Gaps = 3/39 (7%)
Query: 33 CIGNLLLSWTPKK-FSEITPNCLSIFQLVRPIPEILILG 70
C LSW +K FSE+TP C LV+ P+I+ G
Sbjct: 167 CRHEYPLSWMKEKIFSEVTPKCEDCQSLVK--PDIVFFG 203
>pdb|3EFM|A Chain A, Structure Of The Alcaligin Outer Membrane Recepteur Faua
From Bordetella Pertussis
Length = 707
Score = 29.3 bits (64), Expect = 0.64, Method: Composition-based stats.
Identities = 10/26 (38%), Positives = 20/26 (76%)
Query: 4 SISLTMSPRISFASKGFTVNGVQYEG 29
S++ + S R SF+++GFT++ Q++G
Sbjct: 81 SVTRSDSNRYSFSARGFTIDNFQFDG 106
>pdb|1OI1|A Chain A, Crystal Structure Of The Mbt Domains Of Human Scml2
pdb|2VYT|A Chain A, The Mbt Repeats Of Human Scml2 Bind To Peptides Containing
Mono Methylated Lysine.
pdb|2VYT|B Chain B, The Mbt Repeats Of Human Scml2 Bind To Peptides Containing
Mono Methylated Lysine
Length = 221
Score = 27.7 bits (60), Expect = 1.6, Method: Compositional matrix adjust.
Identities = 14/25 (56%), Positives = 15/25 (60%), Gaps = 2/25 (8%)
Query: 76 EPVNPELRQFIRSTGMKLEAIDSRN 100
EP P L F GMKLEAID +N
Sbjct: 141 EPPKPPLNNF--KVGMKLEAIDKKN 163
>pdb|4EDU|A Chain A, The Mbt Repeats Of Human Scml2 In A Complex With Histone
H2a Peptide
Length = 215
Score = 27.7 bits (60), Expect = 1.6, Method: Compositional matrix adjust.
Identities = 14/25 (56%), Positives = 15/25 (60%), Gaps = 2/25 (8%)
Query: 76 EPVNPELRQFIRSTGMKLEAIDSRN 100
EP P L F GMKLEAID +N
Sbjct: 135 EPPKPPLNNF--KVGMKLEAIDKKN 157
>pdb|2BIV|A Chain A, Crystal Structure Of The Wild-Type Mbt Domains Of Human
Scml2
pdb|2BIV|B Chain B, Crystal Structure Of The Wild-Type Mbt Domains Of Human
Scml2
pdb|2BIV|C Chain C, Crystal Structure Of The Wild-Type Mbt Domains Of Human
Scml2
Length = 243
Score = 27.7 bits (60), Expect = 1.7, Method: Compositional matrix adjust.
Identities = 14/25 (56%), Positives = 15/25 (60%), Gaps = 2/25 (8%)
Query: 76 EPVNPELRQFIRSTGMKLEAIDSRN 100
EP P L F GMKLEAID +N
Sbjct: 163 EPPKPPLNNF--KVGMKLEAIDKKN 185
>pdb|2R57|A Chain A, Crystal Structure Of The Two Mbt Repeats From Sex-Comb On
Midleg (Scm)
pdb|2R58|A Chain A, Crystal Structure Of The Two Mbt Repeats From Sex-Comb On
Midleg (Scm) In Complex With Di-Methyl Lysine
pdb|2R5A|A Chain A, Crystal Structure Of The Two Mbt Repeats From Sex-Comb On
Midleg (Scm) In Complex With Methyl Lysine
pdb|2R5M|A Chain A, Crystal Structure Of The Two Mbt Repeats From Sex-Comb On
Midleg (Scm) In Complex With Peptide R-(Me)k-S
Length = 265
Score = 26.6 bits (57), Expect = 3.5, Method: Compositional matrix adjust.
Identities = 14/31 (45%), Positives = 17/31 (54%), Gaps = 2/31 (6%)
Query: 74 YIEPVNPELRQFIRSTGMKLEAIDSRNAAST 104
+ + NP F GMKLEA+D RN ST
Sbjct: 24 FKQAQNPPNNDF--KIGMKLEALDPRNVTST 52
>pdb|2GY9|R Chain R, Structure Of The 30s Subunit Of A Pre-Translocational E.
Coli Ribosome Obtained By Fitting Atomic Models For Rna
And Protein Components Into Cryo-Em Map Emd-1056
pdb|2GYB|R Chain R, Structure Of The 30s Subunit Of A Secm-Stalled E. Coli
Ribosome Complex Obtained By Fitting Atomic Models For
Rna And Protein Components Into Cryo-Em Map Emd-1143
Length = 69
Score = 26.6 bits (57), Expect = 3.7, Method: Compositional matrix adjust.
Identities = 12/33 (36%), Positives = 20/33 (60%)
Query: 83 RQFIRSTGMKLEAIDSRNAASTYNILNEEGRIV 115
R+F R T ++ ID ++ A+ N + E G+IV
Sbjct: 2 RKFCRFTAEGVQEIDYKDIATLKNYITESGKIV 34
>pdb|1VS5|R Chain R, Crystal Structure Of The Bacterial Ribosome From
Escherichia Coli In Complex With The Antibiotic
Kasugamyin At 3.5a Resolution. This File Contains The
30s Subunit Of One 70s Ribosome. The Entire Crystal
Structure Contains Two 70s Ribosomes And Is Described In
Remark 400.
pdb|1VS7|R Chain R, Crystal Structure Of The Bacterial Ribosome From
Escherichia Coli In Complex With The Antibiotic
Kasugamyin At 3.5a Resolution. This File Contains The
30s Subunit Of One 70s Ribosome. The Entire Crystal
Structure Contains Two 70s Ribosomes And Is Described In
Remark 400.
pdb|3I1M|R Chain R, Crystal Structure Of The E. Coli 70s Ribosome In An
Intermediate State Of Ratcheting
pdb|3I1O|R Chain R, Crystal Structure Of The E. Coli 70s Ribosome In An
Intermediate State Of Ratcheting
pdb|3I1Q|R Chain R, Crystal Structure Of The E. Coli 70s Ribosome In An
Intermediate State Of Ratcheting
pdb|3I1S|R Chain R, Crystal Structure Of The E. Coli 70s Ribosome In An
Intermediate State Of Ratcheting
pdb|3I1Z|R Chain R, Crystal Structure Of The E. Coli 70s Ribosome In An
Intermediate State Of Ratcheting
pdb|3I21|R Chain R, Crystal Structure Of The E. Coli 70s Ribosome In An
Intermediate State Of Ratcheting
pdb|3KC4|R Chain R, Ribosome-Secy Complex. This Entry 3kc4 Contains 30s
Ribosomal Subnit. The 50s Ribosomal Subunit Can Be Found
In Pdb Entry 3kcr
pdb|3OR9|R Chain R, Crystal Structure Of The E. Coli Ribosome Bound To
Cem-101. This File Contains The 30s Subunit Of The First
70s Ribosome.
pdb|3ORA|R Chain R, Crystal Structure Of The E. Coli Ribosome Bound To
Cem-101. This File Contains The 30s Subunit Of The
Second 70s Ribosome.
pdb|3IZV|V Chain V, Structural Insights Into Cognate Vs. Near-Cognate
Discrimination During Decoding. This Entry Contains The
Small Subunit Of A Ribosome Programmed With A
Near-Cognate Codon, AT-Site Trna, P-Site Trna, Mrna And
Ef-Tu
pdb|3IZW|V Chain V, Structural Insights Into Cognate Vs. Near-Cognate
Discrimination During Decoding.This Entry Contains The
Small Subunit Of A Ribosome Programmed With A Cognate
Codon, AT-Site Trna, P-Site Trna, Mrna And Ef-Tu
pdb|3SFS|R Chain R, Crystal Structure Of Release Factor Rf3 Trapped In The Gtp
State On A Rotated Conformation Of The Ribosome
pdb|3UOQ|R Chain R, Crystal Structure Of Release Factor Rf3 Trapped In The Gtp
State On A Rotated Conformation Of The Ribosome (Without
Viomycin)
pdb|4GAQ|R Chain R, Allosteric Control Of The Ribosome By Small-Molecule
Antibiotics
pdb|4GAS|R Chain R, Allosteric Control Of The Ribosome By Small-Molecule
Antibiotics
Length = 75
Score = 26.6 bits (57), Expect = 4.1, Method: Compositional matrix adjust.
Identities = 12/33 (36%), Positives = 20/33 (60%)
Query: 83 RQFIRSTGMKLEAIDSRNAASTYNILNEEGRIV 115
R+F R T ++ ID ++ A+ N + E G+IV
Sbjct: 8 RKFCRFTAEGVQEIDYKDIATLKNYITESGKIV 40
>pdb|1P6G|R Chain R, Real Space Refined Coordinates Of The 30s Subunit Fitted
Into The Low Resolution Cryo-Em Map Of The Ef-G.Gtp
State Of E. Coli 70s Ribosome
pdb|1P87|R Chain R, Real Space Refined Coordinates Of The 30s Subunit Fitted
Into The Low Resolution Cryo-Em Map Of The
Initiation-Like State Of E. Coli 70s Ribosome
pdb|2AVY|R Chain R, Crystal Structure Of The Bacterial Ribosome From
Escherichia Coli At 3.5 A Resolution. This File Contains
The 30s Subunit Of One 70s Ribosome. The Entire Crystal
Structure Contains Two 70s Ribosomes And Is Described In
Remark 400.
pdb|2AW7|R Chain R, Crystal Structure Of The Bacterial Ribosome From
Escherichia Coli At 3.5 A Resolution. This File Contains
The 30s Subunit Of The Second 70s Ribosome. The Entire
Crystal Structure Contains Two 70s Ribosomes And Is
Described In Remark 400.
pdb|2I2P|R Chain R, Crystal Structure Of Ribosome With Messenger Rna And The
Anticodon Stem-Loop Of P-Site Trna. This File Contains
The 30s Subunit Of One 70s Ribosome. The Entire Crystal
Structure Contains Two 70s Ribosomes And Is Described In
Remark 400.
pdb|2I2U|R Chain R, Crystal Structure Of Ribosome With Messenger Rna And The
Anticodon Stem-Loop Of P-Site Trna. This File Contains
The 30s Subunit Of One 70s Ribosome. The Entire Crystal
Structure Contains Two 70s Ribosomes And Is Described In
Remark 400.
pdb|2QOU|R Chain R, Crystal Structure Of The Bacterial Ribosome From
Escherichia Coli In Complex With Spectinomycin. This
File Contains The 30s Subunit Of The First 70s Ribosome,
With Spectinomycin Bound. The Entire Crystal Structure
Contains Two 70s Ribosomes.
pdb|2QOW|R Chain R, Crystal Structure Of The Bacterial Ribosome From
Escherichia Coli In Complex With Spectinomycin. This
File Contains The 30s Subunit Of The Second 70s
Ribosome, With Spectinomycin Bound. The Entire Crystal
Structure Contains Two 70s Ribosomes.
pdb|2QOY|R Chain R, Crystal Structure Of The Bacterial Ribosome From
Escherichia Coli In Complex With Spectinomycin And
Neomycin. This File Contains The 30s Subunit Of The
First 70s Ribosome, With Spectinomycin And Neomycin
Bound. The Entire Crystal Structure Contains Two 70s
Ribosomes.
pdb|2QP0|R Chain R, Crystal Structure Of The Bacterial Ribosome From
Escherichia Coli In Complex With Spectinomycin And
Neomycin. This File Contains The 30s Subunit Of The
Second 70s Ribosome, With Spectinomycin And Neomycin
Bound. The Entire Crystal Structure Contains Two 70s
Ribosomes.
pdb|2QAL|R Chain R, Crystal Structure Of The Bacterial Ribosome From
Escherichia Coli In Complex With Neomycin. This File
Contains The 30s Subunit Of The First 70s Ribosome, With
Neomycin Bound. The Entire Crystal Structure Contains
Two 70s Ribosomes And Is Described In Remark 400.
pdb|2QAN|R Chain R, Crystal Structure Of The Bacterial Ribosome From
Escherichia Coli In Complex With Neomycin. This File
Contains The 30s Subunit Of The Second 70s Ribosome,
With Neomycin Bound. The Entire Crystal Structure
Contains Two 70s Ribosomes And Is Described In Remark
400.
pdb|2QB9|R Chain R, Crystal Structure Of The Bacterial Ribosome From
Escherichia Coli In Complex With Gentamicin. This File
Contains The 30s Subunit Of The First 70s Ribosome, With
Gentamicin Bound. The Entire Crystal Structure Contains
Two 70s Ribosomes And Is Described In Remark 400.
pdb|2QBB|R Chain R, Crystal Structure Of The Bacterial Ribosome From
Escherichia Coli In Complex With Gentamicin. This File
Contains The 30s Subunit Of The Second 70s Ribosome,
With Gentamicin Bound. The Entire Crystal Structure
Contains Two 70s Ribosomes And Is Described In Remark
400.
pdb|2QBD|R Chain R, Crystal Structure Of The Bacterial Ribosome From
Escherichia Coli In Complex With Ribosome Recycling
Factor (Rrf). This File Contains The 30s Subunit Of The
First 70s Ribosome. The Entire Crystal Structure
Contains Two 70s Ribosomes And Is Described In Remark
400.
pdb|2QBF|R Chain R, Crystal Structure Of The Bacterial Ribosome From
Escherichia Coli In Complex With Ribosome Recycling
Factor (Rrf). This File Contains The 30s Subunit Of The
Second 70s Ribosome. The Entire Crystal Structure
Contains Two 70s Ribosomes And Is Described In Remark
400.
pdb|2QBH|R Chain R, Crystal Structure Of The Bacterial Ribosome From
Escherichia Coli In Complex With Gentamicin And Ribosome
Recycling Factor (Rrf). This File Contains The 30s
Subunit Of The First 70s Ribosome, With Gentamicin
Bound. The Entire Crystal Structure Contains Two 70s
Ribosomes And Is Described In Remark 400.
pdb|2QBJ|R Chain R, Crystal Structure Of The Bacterial Ribosome From
Escherichia Coli In Complex With Gentamicin And Ribosome
Recycling Factor (Rrf). This File Contains The 30s
Subunit Of The Second 70s Ribosome, With Gentamicin
Bound. The Entire Crystal Structure Contains Two 70s
Ribosomes And Is Described In Remark 400.
pdb|2Z4K|R Chain R, Crystal Structure Of The Bacterial Ribosome From
Escherichia Coli In Complex With Paromomycin And
Ribosome Recycling Factor (Rrf). This File Contains The
30s Subunit Of The First 70s Ribosome, With Paromomycin
Bound. The Entire Crystal Structure Contains Two 70s
Ribosomes And Is Described In Remark 400.
pdb|2Z4M|R Chain R, Crystal Structure Of The Bacterial Ribosome From
Escherichia Coli In Complex With Paromomycin And
Ribosome Recycling Factor (Rrf). This File Contains The
30s Subunit Of The Second 70s Ribosome, With Paromomycin
Bound. The Entire Crystal Structure Contains Two 70s
Ribosomes And Is Described In Remark 400.
pdb|2VHO|R Chain R, Structure Of Pdf Binding Helix In Complex With The
Ribosome (Part 3 Of 4)
pdb|2VHP|R Chain R, Structure Of Pdf Binding Helix In Complex With The
Ribosome (Part 4 Of 4)
pdb|3DF1|R Chain R, Crystal Structure Of The Bacterial Ribosome From
Escherichia Coli In Complex With Hygromycin B. This File
Contains The 30s Subunit Of The First 70s Ribosome, With
Hygromycin B Bound. The Entire Crystal Structure
Contains Two 70s Ribosomes.
pdb|3DF3|R Chain R, Crystal Structure Of The Bacterial Ribosome From
Escherichia Coli In Complex With Hygromycin B. This File
Contains The 30s Subunit Of The Second 70s Ribosome,
With Hygromycin B Bound. The Entire Crystal Structure
Contains Two 70s Ribosomes.
pdb|3J00|R Chain R, Structure Of The Ribosome-Secye Complex In The Membrane
Environment
pdb|4ADV|R Chain R, Structure Of The E. Coli Methyltransferase Ksga Bound To
The E. Coli 30s Ribosomal Subunit
pdb|3J0U|U Chain U, Structural Characterization Of Mrna-Trna Translocation
Intermediates (30s Ribosome Of Class2 Of The Six
Classes)
pdb|3J0V|U Chain U, Structural Characterization Of Mrna-Trna Translocation
Intermediates (30s Ribosome Of Class 4a Of The Six
Classes)
pdb|3J0X|U Chain U, Structural Characterization Of Mrna-Trna Translocation
Intermediates (30s Ribosome Of Class 4b Of The Six
Classes)
pdb|3J0Z|U Chain U, Structural Characterization Of Mrna-Trna Translocation
Intermediates (30s Ribosome Of Class 5 Of The Six
Classes)
pdb|3J10|U Chain U, Structural Characterization Of Mrna-Trna Translocation
Intermediates (30s Ribosome Of Class 6 Of The Six
Classes)
pdb|3J13|T Chain T, Structural Characterization Of Mrna-Trna Translocation
Intermediates (30s Ribosome Of Class 3 Of The Six
Classes)
Length = 74
Score = 26.6 bits (57), Expect = 4.2, Method: Compositional matrix adjust.
Identities = 12/33 (36%), Positives = 20/33 (60%)
Query: 83 RQFIRSTGMKLEAIDSRNAASTYNILNEEGRIV 115
R+F R T ++ ID ++ A+ N + E G+IV
Sbjct: 7 RKFCRFTAEGVQEIDYKDIATLKNYITESGKIV 39
>pdb|3J16|B Chain B, Models Of Ribosome-Bound Dom34p And Rli1p And Their
Ribosomal Binding Partners
Length = 608
Score = 25.8 bits (55), Expect = 5.7, Method: Composition-based stats.
Identities = 11/36 (30%), Positives = 21/36 (58%)
Query: 64 PEILILGCGRYIEPVNPELRQFIRSTGMKLEAIDSR 99
PE L+ GC R+++ +N R+ S ++ +DS+
Sbjct: 554 PESLLTGCNRFLKNLNVTFRRDPNSFRPRINKLDSQ 589
>pdb|3M1D|A Chain A, Structure Of Bir1 From Ciap1
pdb|3M1D|B Chain B, Structure Of Bir1 From Ciap1
Length = 85
Score = 25.8 bits (55), Expect = 6.1, Method: Compositional matrix adjust.
Identities = 17/52 (32%), Positives = 25/52 (48%), Gaps = 5/52 (9%)
Query: 14 SFASKGFTVNGVQYEGSLLCIGNLLLSW----TP-KKFSEITPNCLSIFQLV 60
S A GF GV + C G +L +W +P +K ++ P+C I LV
Sbjct: 32 SLARAGFYYTGVNDKVKCFCCGLMLDNWKLGDSPIQKHKQLYPSCSFIQNLV 83
>pdb|3IGH|X Chain X, Crystal Structure Of An Uncharacterized Metal-Dependent
Hydrolase From Pyrococcus Horikoshii Ot3
Length = 486
Score = 25.8 bits (55), Expect = 6.3, Method: Composition-based stats.
Identities = 14/48 (29%), Positives = 23/48 (47%), Gaps = 4/48 (8%)
Query: 72 GRYIEPVNPELRQFIRSTGMKLEAIDSRNAASTYNILNE----EGRIV 115
G+Y+ P + + GM LE +D R A S ++ +GRI+
Sbjct: 56 GKYVMPAFFDSHLHLDELGMSLEMVDLRGAKSIEELIQRLKRGKGRII 103
>pdb|1T47|A Chain A, Structure Of Fe2-Hppd Bound To Ntbc
pdb|1T47|B Chain B, Structure Of Fe2-Hppd Bound To Ntbc
Length = 381
Score = 25.4 bits (54), Expect = 8.6, Method: Composition-based stats.
Identities = 10/26 (38%), Positives = 16/26 (61%)
Query: 98 SRNAASTYNILNEEGRIVAAALLPYG 123
+R+ A Y + +E G +V AA+ YG
Sbjct: 122 ARSVAEPYELKDEHGTVVLAAIATYG 147
>pdb|1XT9|A Chain A, Crystal Structure Of Den1 In Complex With Nedd8
Length = 212
Score = 25.4 bits (54), Expect = 9.2, Method: Compositional matrix adjust.
Identities = 14/53 (26%), Positives = 24/53 (45%), Gaps = 6/53 (11%)
Query: 70 GCGRYIEPVNPELRQFIRST------GMKLEAIDSRNAASTYNILNEEGRIVA 116
C ++ ++PE+ QFI+ T M LE +D N + +N+ A
Sbjct: 46 DCSDHVSFISPEVTQFIKCTSNPAEIAMFLEPLDLPNKRVVFLAINDNSNQAA 98
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 0.137 0.400
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 3,465,394
Number of Sequences: 62578
Number of extensions: 126447
Number of successful extensions: 357
Number of sequences better than 100.0: 25
Number of HSP's better than 100.0 without gapping: 15
Number of HSP's successfully gapped in prelim test: 10
Number of HSP's that attempted gapping in prelim test: 340
Number of HSP's gapped (non-prelim): 29
length of query: 126
length of database: 14,973,337
effective HSP length: 87
effective length of query: 39
effective length of database: 9,529,051
effective search space: 371632989
effective search space used: 371632989
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)