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= 015913
(398 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1WXW|A Chain A, Crystal Structure Of Tt1595, A Putative Sam-Dependent
Methyltransferase From Thermus Thermophillus Hb8
pdb|1WXW|B Chain B, Crystal Structure Of Tt1595, A Putative Sam-Dependent
Methyltransferase From Thermus Thermophillus Hb8
pdb|1WXW|C Chain C, Crystal Structure Of Tt1595, A Putative Sam-Dependent
Methyltransferase From Thermus Thermophillus Hb8
pdb|1WXW|D Chain D, Crystal Structure Of Tt1595, A Putative Sam-Dependent
Methyltransferase From Thermus Thermophillus Hb8
pdb|1WXX|A Chain A, Crystal Structure Of Tt1595, A Putative Sam-Dependent
Methyltransferase From Thermus Thermophillus Hb8
pdb|1WXX|B Chain B, Crystal Structure Of Tt1595, A Putative Sam-Dependent
Methyltransferase From Thermus Thermophillus Hb8
pdb|1WXX|C Chain C, Crystal Structure Of Tt1595, A Putative Sam-Dependent
Methyltransferase From Thermus Thermophillus Hb8
pdb|1WXX|D Chain D, Crystal Structure Of Tt1595, A Putative Sam-Dependent
Methyltransferase From Thermus Thermophillus Hb8
Length = 382
Score = 31.6 bits (70), Expect = 0.84, Method: Compositional matrix adjust.
Identities = 27/76 (35%), Positives = 34/76 (44%), Gaps = 5/76 (6%)
Query: 210 ASDLRVLNSALTRRNKL--QVPEGKYYLVDNKYANMPGFIAPY---QAVSYHTNQTTTGY 264
A+ L L AL RR + Q PEG Y LV + +PG + Y AV T G
Sbjct: 70 AALLENLAQALARREAVLRQDPEGGYRLVHAEGDLLPGLVVDYYAGHAVVQATAHAWEGL 129
Query: 265 HPQDAKELFNQRHSLL 280
PQ A+ L S+L
Sbjct: 130 LPQVAEALRPHVQSVL 145
>pdb|2CWW|A Chain A, Crystal Structure Of Thermus Thermophilus Ttha1280, A
Putative Sam- Dependent Rna Methyltransferase, In
Complex With S-Adenosyl-L- Homocysteine
pdb|2CWW|B Chain B, Crystal Structure Of Thermus Thermophilus Ttha1280, A
Putative Sam- Dependent Rna Methyltransferase, In
Complex With S-Adenosyl-L- Homocysteine
Length = 382
Score = 31.6 bits (70), Expect = 0.84, Method: Compositional matrix adjust.
Identities = 27/76 (35%), Positives = 34/76 (44%), Gaps = 5/76 (6%)
Query: 210 ASDLRVLNSALTRRNKL--QVPEGKYYLVDNKYANMPGFIAPY---QAVSYHTNQTTTGY 264
A+ L L AL RR + Q PEG Y LV + +PG + Y AV T G
Sbjct: 70 AALLENLAQALARREAVLRQDPEGGYRLVHAEGDLLPGLVVDYYAGHAVVQATAHAWEGL 129
Query: 265 HPQDAKELFNQRHSLL 280
PQ A+ L S+L
Sbjct: 130 LPQVAEALRPHVQSVL 145
>pdb|1TEY|A Chain A, Nmr Structure Of Human Histone Chaperone, Asf1a
pdb|2IIJ|A Chain A, Structure Of Human Asf1a In Complex With Histone H3
Length = 158
Score = 30.0 bits (66), Expect = 2.2, Method: Compositional matrix adjust.
Identities = 29/111 (26%), Positives = 45/111 (40%), Gaps = 5/111 (4%)
Query: 159 GAVDGIHIPVMVGVDEQGPFRNKSGL-LSQNVLAACSFDLKFHYVLAGWEGSASDLRVLN 217
GA+ + + +V +D PF N ++ + S DL++ + G S +VL+
Sbjct: 1 GAMAKVQVNNVVVLDNPSPFYNPFQFEITFECIEDLSEDLEWKIIYVGSAESEEYDQVLD 60
Query: 218 SALTRRNKLQVPEGKYYLVDNKYANMPGFIAPYQAVSYHTNQTTTGYHPQD 268
S L VP G++ V A PG I AV T Y Q+
Sbjct: 61 SVLVG----PVPAGRHMFVFQADAPNPGLIPDADAVGVTVVLITCTYRGQE 107
>pdb|3PND|A Chain A, Fad Binding By Apbe Protein From Salmonella Enterica: A
New Class Of Fad Binding Proteins
pdb|3PND|B Chain B, Fad Binding By Apbe Protein From Salmonella Enterica: A
New Class Of Fad Binding Proteins
pdb|3PND|C Chain C, Fad Binding By Apbe Protein From Salmonella Enterica: A
New Class Of Fad Binding Proteins
pdb|3PND|D Chain D, Fad Binding By Apbe Protein From Salmonella Enterica: A
New Class Of Fad Binding Proteins
Length = 337
Score = 30.0 bits (66), Expect = 2.5, Method: Compositional matrix adjust.
Identities = 19/61 (31%), Positives = 28/61 (45%), Gaps = 4/61 (6%)
Query: 316 ACALHNYIQRE-KPDDWLFRMYEQDTLLPM---AESLLPLEGEQPIVHVDTRALEFGFQT 371
A L IQ + DDWL Y+ D+ L + SL P + + + T AL G +T
Sbjct: 38 AAELQTKIQTQLDADDWLLSTYKNDSALMRFNHSRSLAPWPVSEAMADIVTSALRIGAKT 97
Query: 372 E 372
+
Sbjct: 98 D 98
>pdb|1SZZ|A Chain A, Crystal Structure Of Peptide Deformylase From Leptospira
Interrogans Complexed With Inhibitor Actinonin
pdb|1SZZ|B Chain B, Crystal Structure Of Peptide Deformylase From Leptospira
Interrogans Complexed With Inhibitor Actinonin
pdb|1SZZ|C Chain C, Crystal Structure Of Peptide Deformylase From Leptospira
Interrogans Complexed With Inhibitor Actinonin
pdb|1SZZ|D Chain D, Crystal Structure Of Peptide Deformylase From Leptospira
Interrogans Complexed With Inhibitor Actinonin
pdb|1SZZ|E Chain E, Crystal Structure Of Peptide Deformylase From Leptospira
Interrogans Complexed With Inhibitor Actinonin
pdb|1SZZ|F Chain F, Crystal Structure Of Peptide Deformylase From Leptospira
Interrogans Complexed With Inhibitor Actinonin
pdb|1SZZ|G Chain G, Crystal Structure Of Peptide Deformylase From Leptospira
Interrogans Complexed With Inhibitor Actinonin
pdb|1SZZ|H Chain H, Crystal Structure Of Peptide Deformylase From Leptospira
Interrogans Complexed With Inhibitor Actinonin
Length = 177
Score = 30.0 bits (66), Expect = 2.6, Method: Compositional matrix adjust.
Identities = 17/42 (40%), Positives = 23/42 (54%), Gaps = 1/42 (2%)
Query: 135 PPGPDVPPEISLDPRLYPYFKDCVGAVDG-IHIPVMVGVDEQ 175
P PDVP I L+P + P KD G +G + +P M G E+
Sbjct: 72 PGTPDVPERIILNPVITPLTKDTSGFWEGCLSVPGMRGYVER 113
>pdb|1Y6H|A Chain A, Crystal Structure Of Lipdf
pdb|1Y6H|B Chain B, Crystal Structure Of Lipdf
pdb|1SV2|A Chain A, Crystal Structure Of Peptide Deformylase From Leptospira
Interrogans (lipdf) At Ph7.5
pdb|1SV2|B Chain B, Crystal Structure Of Peptide Deformylase From Leptospira
Interrogans (lipdf) At Ph7.5
pdb|1VEV|A Chain A, Crystal Structure Of Peptide Deformylase From Leptospira
Interrogans (Lipdf) At Ph6.5
pdb|1VEV|B Chain B, Crystal Structure Of Peptide Deformylase From Leptospira
Interrogans (Lipdf) At Ph6.5
pdb|1VEY|A Chain A, Crystal Structure Of Peptide Deformylase From Leptospira
Interrogans (Lipdf) At Ph7.0
pdb|1VEY|B Chain B, Crystal Structure Of Peptide Deformylase From Leptospira
Interrogans (Lipdf) At Ph7.0
pdb|1VEZ|A Chain A, Crystal Structure Of Peptide Deformylase From Leptospira
Interrogans(lipdf) At Ph8.0
pdb|1VEZ|B Chain B, Crystal Structure Of Peptide Deformylase From Leptospira
Interrogans(lipdf) At Ph8.0
Length = 177
Score = 29.6 bits (65), Expect = 2.9, Method: Compositional matrix adjust.
Identities = 17/42 (40%), Positives = 23/42 (54%), Gaps = 1/42 (2%)
Query: 135 PPGPDVPPEISLDPRLYPYFKDCVGAVDG-IHIPVMVGVDEQ 175
P PDVP I L+P + P KD G +G + +P M G E+
Sbjct: 72 PGTPDVPERIILNPVITPLTKDTSGFWEGCLSVPGMRGYVER 113
>pdb|1L9Z|H Chain H, Thermus Aquaticus Rna Polymerase HoloenzymeFORK-Junction
Promoter Dna Complex At 6.5 A Resolution
Length = 438
Score = 29.3 bits (64), Expect = 3.9, Method: Compositional matrix adjust.
Identities = 21/62 (33%), Positives = 29/62 (46%), Gaps = 8/62 (12%)
Query: 14 DEKDGVYGNHIPKELNHNLPSNGMKFVDEVLNGQSERCLENFRMDKKVFYKLCDILQSKG 73
DEKD YG+ IP E NLPS +L+ + E+ L + + KL KG
Sbjct: 338 DEKDSFYGDFIPDE---NLPSPVEAAAQSLLSEELEKALSKLSEREAMVLKL-----RKG 389
Query: 74 LL 75
L+
Sbjct: 390 LI 391
>pdb|1S72|I Chain I, Refined Crystal Structure Of The Haloarcula Marismortui
Large Ribosomal Subunit At 2.4 Angstrom Resolution
pdb|1YHQ|I Chain I, Crystal Structure Of Azithromycin Bound To The G2099a
Mutant 50s Ribosomal Subunit Of Haloarcula Marismortui
pdb|1YI2|I Chain I, Crystal Structure Of Erythromycin Bound To The G2099a
Mutant 50s Ribosomal Subunit Of Haloarcula Marismortui
pdb|1YIJ|I Chain I, Crystal Structure Of Telithromycin Bound To The G2099a
Mutant 50s Ribosomal Subunit Of Haloarcula Marismortui
pdb|1YIT|I Chain I, Crystal Structure Of Virginiamycin M And S Bound To The
50s Ribosomal Subunit Of Haloarcula Marismortui
pdb|1YJ9|I Chain I, Crystal Structure Of The Mutant 50s Ribosomal Subunit Of
Haloarcula Marismortui Containing A Three Residue
Deletion In L22
pdb|1YJN|I Chain I, Crystal Structure Of Clindamycin Bound To The G2099a
Mutant 50s Ribosomal Subunit Of Haloarcula Marismortui
pdb|1YJW|I Chain I, Crystal Structure Of Quinupristin Bound To The G2099a
Mutant 50s Ribosomal Subunit Of Haloarcula Marismortui
pdb|1VQ4|I Chain I, The Structure Of The Transition State Analogue "daa" Bound
To The Large Ribosomal Subunit Of Haloarcula Marismortui
pdb|1VQ5|I Chain I, The Structure Of The Transition State Analogue "raa" Bound
To The Large Ribosomal Subunit Of Haloarcula Marismortui
pdb|1VQ6|I Chain I, The Structure Of C-Hpmn And Cca-Phe-Cap-Bio Bound To The
Large Ribosomal Subunit Of Haloarcula Marismortui
pdb|1VQ7|I Chain I, The Structure Of The Transition State Analogue "dca" Bound
To The Large Ribosomal Subunit Of Haloarcula Marismortui
pdb|1VQ8|I Chain I, The Structure Of Ccda-Phe-Cap-Bio And The Antibiotic
Sparsomycin Bound To The Large Ribosomal Subunit Of
Haloarcula Marismortui
pdb|1VQ9|I Chain I, The Structure Of Cca-Phe-Cap-Bio And The Antibiotic
Sparsomycin Bound To The Large Ribosomal Subunit Of
Haloarcula Marismortui
pdb|1VQK|I Chain I, The Structure Of Ccda-Phe-Cap-Bio Bound To The A Site Of
The Ribosomal Subunit Of Haloarcula Marismortui
pdb|1VQL|I Chain I, The Structure Of The Transition State Analogue "dcsn"
Bound To The Large Ribosomal Subunit Of Haloarcula
Marismortui
pdb|1VQM|I Chain I, The Structure Of The Transition State Analogue "dan" Bound
To The Large Ribosomal Subunit Of Haloarcula Marismortui
pdb|1VQN|I Chain I, The Structure Of Cc-hpmn And Cca-phe-cap-bio Bound To The
Large Ribosomal Subunit Of Haloarcula Marismortui
pdb|1VQO|I Chain I, The Structure Of Ccpmn Bound To The Large Ribosomal
Subunit Haloarcula Marismortui
pdb|1VQP|I Chain I, The Structure Of The Transition State Analogue "rap" Bound
To The Large Ribosomal Subunit Of Haloarcula Marismortui
pdb|2OTL|I Chain I, Girodazole Bound To The Large Subunit Of Haloarcula
Marismortui
pdb|2QA4|I Chain I, A More Complete Structure Of The The L7L12 STALK OF THE
Haloarcula Marismortui 50s Large Ribosomal Subunit
pdb|3CC2|I Chain I, The Refined Crystal Structure Of The Haloarcula
Marismortui Large Ribosomal Subunit At 2.4 Angstrom
Resolution With Rrna Sequence For The 23s Rrna And
Genome-Derived Sequences For R-Proteins
pdb|3CC4|I Chain I, Co-Crystal Structure Of Anisomycin Bound To The 50s
Ribosomal Subunit
pdb|3CC7|I Chain I, Structure Of Anisomycin Resistant 50s Ribosomal Subunit:
23s Rrna Mutation C2487u
pdb|3CCE|I Chain I, Structure Of Anisomycin Resistant 50s Ribosomal Subunit:
23s Rrna Mutation U2535a
pdb|3CCJ|I Chain I, Structure Of Anisomycin Resistant 50s Ribosomal Subunit:
23s Rrna Mutation C2534u
pdb|3CCL|I Chain I, Structure Of Anisomycin Resistant 50s Ribosomal Subunit:
23s Rrna Mutation U2535c. Density For Anisomycin Is
Visible But Not Included In Model.
pdb|3CCM|I Chain I, Structure Of Anisomycin Resistant 50s Ribosomal Subunit:
23s Rrna Mutation G2611u
pdb|3CCQ|I Chain I, Structure Of Anisomycin Resistant 50s Ribosomal Subunit:
23s Rrna Mutation A2488u
pdb|3CCR|I Chain I, Structure Of Anisomycin Resistant 50s Ribosomal Subunit:
23s Rrna Mutation A2488c. Density For Anisomycin Is
Visible But Not Included In The Model.
pdb|3CCS|I Chain I, Structure Of Anisomycin Resistant 50s Ribosomal Subunit:
23s Rrna Mutation G2482a
pdb|3CCU|I Chain I, Structure Of Anisomycin Resistant 50s Ribosomal Subunit:
23s Rrna Mutation G2482c
pdb|3CCV|I Chain I, Structure Of Anisomycin Resistant 50s Ribosomal Subunit:
23s Rrna Mutation G2616a
pdb|3CD6|I Chain I, Co-cystal Of Large Ribosomal Subunit Mutant G2616a With
Cc-puromycin
pdb|3CMA|I Chain I, The Structure Of Cca And Cca-Phe-Cap-Bio Bound To The
Large Ribosomal Subunit Of Haloarcula Marismortui
pdb|3CME|I Chain I, The Structure Of Ca And Cca-Phe-Cap-Bio Bound To The Large
Ribosomal Subunit Of Haloarcula Marismortui
pdb|2QEX|I Chain I, Negamycin Binds To The Wall Of The Nascent Chain Exit
Tunnel Of The 50s Ribosomal Subunit
pdb|3I55|I Chain I, Co-Crystal Structure Of Mycalamide A Bound To The Large
Ribosomal Subunit
pdb|3I56|I Chain I, Co-Crystal Structure Of Triacetyloleandomcyin Bound To The
Large Ribosomal Subunit
Length = 162
Score = 29.3 bits (64), Expect = 4.2, Method: Compositional matrix adjust.
Identities = 20/68 (29%), Positives = 30/68 (44%), Gaps = 9/68 (13%)
Query: 126 MAISLDFFQP-----PGPDVPPEISLDP----RLYPYFKDCVGAVDGIHIPVMVGVDEQG 176
MA +++ P PGP + PE+ P + D A DG +PV V D+ G
Sbjct: 1 MAGTIEVLVPGGEANPGPPLGPELGPTPVDVQAVVQEINDQTAAFDGTEVPVTVKYDDDG 60
Query: 177 PFRNKSGL 184
F + G+
Sbjct: 61 SFEIEVGV 68
>pdb|1L9U|H Chain H, Thermus Aquaticus Rna Polymerase Holoenzyme At 4 A
Resolution
pdb|1L9U|Q Chain Q, Thermus Aquaticus Rna Polymerase Holoenzyme At 4 A
Resolution
Length = 332
Score = 28.9 bits (63), Expect = 5.0, Method: Compositional matrix adjust.
Identities = 21/62 (33%), Positives = 29/62 (46%), Gaps = 8/62 (12%)
Query: 14 DEKDGVYGNHIPKELNHNLPSNGMKFVDEVLNGQSERCLENFRMDKKVFYKLCDILQSKG 73
DEKD YG+ IP E NLPS +L+ + E+ L + + KL KG
Sbjct: 232 DEKDSFYGDFIPDE---NLPSPVEAAAQSLLSEELEKALSKLSEREAMVLKL-----RKG 283
Query: 74 LL 75
L+
Sbjct: 284 LI 285
>pdb|2OTJ|I Chain I, 13-Deoxytedanolide Bound To The Large Subunit Of
Haloarcula Marismortui
Length = 161
Score = 28.9 bits (63), Expect = 5.7, Method: Compositional matrix adjust.
Identities = 17/53 (32%), Positives = 24/53 (45%), Gaps = 4/53 (7%)
Query: 136 PGPDVPPEISLDP----RLYPYFKDCVGAVDGIHIPVMVGVDEQGPFRNKSGL 184
PGP + PE+ P + D A DG +PV V D+ G F + G+
Sbjct: 15 PGPPLGPELGPTPVDVQAVVQEINDQTAAFDGTEVPVTVKYDDDGSFEIEVGV 67
>pdb|2I32|A Chain A, Structure Of A Human Asf1a-Hira Complex And Insights Into
Specificity Of Histone Chaperone Complex Assembly
pdb|2I32|B Chain B, Structure Of A Human Asf1a-Hira Complex And Insights Into
Specificity Of Histone Chaperone Complex Assembly
Length = 182
Score = 28.9 bits (63), Expect = 5.9, Method: Compositional matrix adjust.
Identities = 30/117 (25%), Positives = 48/117 (41%), Gaps = 8/117 (6%)
Query: 153 YFKDCVGAVDGIHIPVMVGVDEQGPFRNKSGL-LSQNVLAACSFDLKFHYVLAGWEGSAS 211
YF+ G++ + + +V +D PF N ++ + S DL++ + G S
Sbjct: 21 YFQ---GSMAKVQVNNVVVLDNPSPFYNPFQFEITFECIEDLSEDLEWKIIYVGSAESEE 77
Query: 212 DLRVLNSALTRRNKLQVPEGKYYLVDNKYANMPGFIAPYQAVSYHTNQTTTGYHPQD 268
+VL+S L VP G++ V A PG I AV T Y Q+
Sbjct: 78 YDQVLDSVLVG----PVPAGRHMFVFQADAPNPGLIPDADAVGVTVVLITCTYRGQE 130
>pdb|3TKT|A Chain A, Crystal Structure Of Cyp108d1 From Novosphingobium
Aromaticivorans Dsm12444
Length = 450
Score = 28.1 bits (61), Expect = 9.9, Method: Compositional matrix adjust.
Identities = 15/54 (27%), Positives = 27/54 (50%)
Query: 260 TTTGYHPQDAKELFNQRHSLLRNATDRIFGALKERFPILLSAPPYPLQTQVKLV 313
T + P++ L + + A DR+ GA +E + L A PYPL ++++
Sbjct: 139 TQDWFMPKNLARLDGEIRKIANEAIDRMLGAGEEGDFMALVAAPYPLHVVMQIL 192
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 0.138 0.416
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 12,180,036
Number of Sequences: 62578
Number of extensions: 511061
Number of successful extensions: 1281
Number of sequences better than 100.0: 14
Number of HSP's better than 100.0 without gapping: 1
Number of HSP's successfully gapped in prelim test: 13
Number of HSP's that attempted gapping in prelim test: 1280
Number of HSP's gapped (non-prelim): 14
length of query: 398
length of database: 14,973,337
effective HSP length: 101
effective length of query: 297
effective length of database: 8,652,959
effective search space: 2569928823
effective search space used: 2569928823
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 52 (24.6 bits)