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= 009739
(527 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2KK0|A Chain A, Solution Structure Of Dead Ringer-Like Protein 1 (At-Rich
Interactive Domain-Containing Protein 3a) From Homo
Sapiens, Northeast Structural Genomics Consortium (Nesg)
Target Hr4394c
Length = 145
Score = 39.7 bits (91), Expect = 0.005, Method: Composition-based stats.
Identities = 22/67 (32%), Positives = 34/67 (50%)
Query: 257 PKFYGEGLNCLKLWRAVTRLGGYEKVTSCKLWRQVGESFKPPKTCTTVSWTFRGFYEKAL 316
P + L+ L+ VT GG +V + KLWR++ + P + T+ ++T R Y K L
Sbjct: 57 PIMAKQVLDLFMLYVLVTEKGGLVEVINKKLWREITKGLNLPTSITSAAFTLRTQYMKYL 116
Query: 317 LDYERHK 323
YE K
Sbjct: 117 YPYECEK 123
>pdb|1IG6|A Chain A, Human Mrf-2 Domain, Nmr, 11 Structures
pdb|2OEH|A Chain A, Determination Of The Three-Dimensional Structure Of The
Mrf2-Dna Complex Using Paramagnetic Spin Labeling
Length = 107
Score = 38.5 bits (88), Expect = 0.010, Method: Composition-based stats.
Identities = 19/69 (27%), Positives = 35/69 (50%)
Query: 264 LNCLKLWRAVTRLGGYEKVTSCKLWRQVGESFKPPKTCTTVSWTFRGFYEKALLDYERHK 323
+N +++A +LGGYE +T+ + W+ + + T+ + R YE+ +L YER
Sbjct: 33 INLWTMFQAAQKLGGYETITARRQWKHIYDELGGNPGSTSAATCTRRHYERLILPYERFI 92
Query: 324 TSGGELSLP 332
+ LP
Sbjct: 93 KGEEDKPLP 101
>pdb|1C20|A Chain A, Solution Structure Of The Dna-Binding Domain From The Dead
Ringer Protein
Length = 128
Score = 36.2 bits (82), Expect = 0.048, Method: Composition-based stats.
Identities = 23/74 (31%), Positives = 37/74 (50%), Gaps = 3/74 (4%)
Query: 264 LNCLKLWRAVTRLGGYEKVTSCKLWRQVGESFKPPKTCTTVSWTFRGFYEKALLDYERHK 323
L+ +L+ V GG V + KLW+++ + P + T+ ++T R Y K L YE K
Sbjct: 52 LDLYELYNLVIARGGLVDVINKKLWQEIIKGLHLPSSITSAAFTLRTQYMKYLYPYECEK 111
Query: 324 TSGGELSLPVASQS 337
+ LS P Q+
Sbjct: 112 KN---LSTPAELQA 122
>pdb|1KQQ|A Chain A, Solution Structure Of The Dead Ringer Arid-Dna Complex
Length = 139
Score = 35.0 bits (79), Expect = 0.090, Method: Composition-based stats.
Identities = 23/74 (31%), Positives = 36/74 (48%), Gaps = 3/74 (4%)
Query: 264 LNCLKLWRAVTRLGGYEKVTSCKLWRQVGESFKPPKTCTTVSWTFRGFYEKALLDYERHK 323
L+ +L+ V GG V + KLW+++ + P + T+ + T R Y K L YE K
Sbjct: 54 LDLYELYNLVIARGGLVDVINKKLWQEIIKGLHLPSSITSAALTLRTQYMKYLYPYECEK 113
Query: 324 TSGGELSLPVASQS 337
+ LS P Q+
Sbjct: 114 KN---LSTPAELQA 124
>pdb|2RQ5|A Chain A, Solution Structure Of The At-Rich Interaction Domain
(Arid) Of JumonjiJARID2
Length = 121
Score = 31.6 bits (70), Expect = 1.00, Method: Composition-based stats.
Identities = 17/64 (26%), Positives = 30/64 (46%)
Query: 257 PKFYGEGLNCLKLWRAVTRLGGYEKVTSCKLWRQVGESFKPPKTCTTVSWTFRGFYEKAL 316
P G L+ +R + +GG ++VT K W ++ + + PKT + Y + L
Sbjct: 35 PLIGGCELDLACFFRLINEMGGMQQVTDLKKWNKLADMLRIPKTAQDRLAKLQEAYCQYL 94
Query: 317 LDYE 320
L Y+
Sbjct: 95 LSYD 98
>pdb|2LM1|A Chain A, Solution Nmr Structure Of Lysine-Specific Demethylase Lid
From Drosophila Melanogaster, Northeast Structural
Genomics Consortium Target Fr824d
Length = 107
Score = 30.8 bits (68), Expect = 1.8, Method: Compositional matrix adjust.
Identities = 24/84 (28%), Positives = 38/84 (45%), Gaps = 2/84 (2%)
Query: 246 FFRDRSMEFKPPKFYGEGLNCLKLWRAVTRLGGYEKVTSCKLWRQVGESFKPPKTCTTVS 305
F+ + K P + L+ L R V GG E+ T + W +V + P + +V
Sbjct: 26 FWELQGSSLKIPMVERKALDLYTLHRIVQEEGGMEQTTKDRKWAKVANRMQYP-SSKSVG 84
Query: 306 WTFRGFYEKALLDYERHKTSGGEL 329
T + YE+ L +E + TSG L
Sbjct: 85 ATLKAHYERILHPFEVY-TSGKVL 107
>pdb|1R5Z|A Chain A, Crystal Structure Of Subunit C Of V-Atpase
pdb|1R5Z|B Chain B, Crystal Structure Of Subunit C Of V-Atpase
pdb|1R5Z|C Chain C, Crystal Structure Of Subunit C Of V-Atpase
pdb|1V9M|A Chain A, Crystal Structure Of The C Subunit Of V-Type Atpase From
Thermus Thermophilus
pdb|3J0J|M Chain M, Fitted Atomic Models Of Thermus Thermophilus V-Atpase
Subunits Into Cryo-Em Map
Length = 323
Score = 29.6 bits (65), Expect = 4.4, Method: Compositional matrix adjust.
Identities = 18/38 (47%), Positives = 21/38 (55%), Gaps = 4/38 (10%)
Query: 450 FEVYALVPGLLREEVRVQS----DPAGRLVISGEPEHP 483
FE L+PG LREEV Q+ DPAG + P HP
Sbjct: 109 FEEVLLLPGTLREEVWRQAYEAQDPAGMAQVLAVPGHP 146
>pdb|2JRZ|A Chain A, Solution Structure Of The BrightARID DOMAIN FROM THE HUMAN
Jarid1c Protein
Length = 117
Score = 29.3 bits (64), Expect = 5.3, Method: Composition-based stats.
Identities = 21/84 (25%), Positives = 34/84 (40%), Gaps = 2/84 (2%)
Query: 246 FFRDRSMEFKPPKFYGEGLNCLKLWRAVTRLGGYEKVTSCKLWRQVGESFKPPKTCTTVS 305
F+ + K P L+ L + V GGYE + + W +V + P +
Sbjct: 22 FWEIQGSSLKIPNVERRILDLYSLSKIVVEEGGYEAICKDRRWARVAQRLNYPPG-KNIG 80
Query: 306 WTFRGFYEKALLDYERHKTSGGEL 329
R YE+ + YE ++ SG L
Sbjct: 81 SLLRSHYERIVYPYEMYQ-SGANL 103
>pdb|3PQA|A Chain A, Crystal Structure Of Glyceraldehyde-3-Phosphate
Dehydrogenase Gapn From Methanocaldococcus Jannaschii
Dsm 2661
pdb|3PQA|B Chain B, Crystal Structure Of Glyceraldehyde-3-Phosphate
Dehydrogenase Gapn From Methanocaldococcus Jannaschii
Dsm 2661
pdb|3PQA|C Chain C, Crystal Structure Of Glyceraldehyde-3-Phosphate
Dehydrogenase Gapn From Methanocaldococcus Jannaschii
Dsm 2661
pdb|3PQA|D Chain D, Crystal Structure Of Glyceraldehyde-3-Phosphate
Dehydrogenase Gapn From Methanocaldococcus Jannaschii
Dsm 2661
pdb|3RHD|A Chain A, Crystal Structure Of Glyceraldehyde-3-Phosphate
Dehydrogenase Gapn From Methanocaldococcus Jannaschii
Dsm 2661 Complexed With Nadp
pdb|3RHD|B Chain B, Crystal Structure Of Glyceraldehyde-3-Phosphate
Dehydrogenase Gapn From Methanocaldococcus Jannaschii
Dsm 2661 Complexed With Nadp
pdb|3RHD|C Chain C, Crystal Structure Of Glyceraldehyde-3-Phosphate
Dehydrogenase Gapn From Methanocaldococcus Jannaschii
Dsm 2661 Complexed With Nadp
pdb|3RHD|D Chain D, Crystal Structure Of Glyceraldehyde-3-Phosphate
Dehydrogenase Gapn From Methanocaldococcus Jannaschii
Dsm 2661 Complexed With Nadp
Length = 486
Score = 29.3 bits (64), Expect = 6.0, Method: Compositional matrix adjust.
Identities = 34/129 (26%), Positives = 60/129 (46%), Gaps = 12/129 (9%)
Query: 389 QKCEKQLKSRGLIKRKKPSYMELAVKAARTKTSKSQL-DVAVVDLGPPADWVKINVQRTK 447
+K ++ +K+ + KR Y L A + K K +L + +D G P ++ V+R+
Sbjct: 44 EKYKEVMKNLPITKR----YNILMNIAKQIKEKKEELAKILAIDAGKPIKQARVEVERSI 99
Query: 448 DCFEVYALVPGLLREEVRVQSDPAGRLVISGEPEHPDNPWG-VTPFKKVVSLPA-RIDPH 505
F++ A R+EV D RL+ + P G +TPF ++L A +I P
Sbjct: 100 GTFKLAAFYVKEHRDEVIPSDD---RLIFT--RREPVGIVGAITPFNFPLNLSAHKIAPA 154
Query: 506 LTSAVVTLH 514
+ + V +H
Sbjct: 155 IATGNVIVH 163
>pdb|2JXJ|A Chain A, Nmr Structure Of The Arid Domain From The Histone H3k4
Demethylase Rbp2
Length = 96
Score = 28.9 bits (63), Expect = 6.8, Method: Composition-based stats.
Identities = 22/77 (28%), Positives = 34/77 (44%), Gaps = 5/77 (6%)
Query: 246 FFRDRSMEFKPPKFYGEGLNCLKLWRAVTRLGGYEKVTSCKLWRQVGE--SFKPPKTCTT 303
F+ + K P + L+ L + V GG+E VT K W +VG + P K +
Sbjct: 18 FWELQGSTLKIPVVERKILDLYALSKIVASKGGFEMVTKEKKWSKVGSRLGYLPGKGTGS 77
Query: 304 VSWTFRGFYEKALLDYE 320
+ + YE+ L YE
Sbjct: 78 L---LKSHYERILYPYE 91
>pdb|2YQE|A Chain A, Solution Structure Of The Arid Domain Of Jarid1d Protein
Length = 100
Score = 28.9 bits (63), Expect = 6.9, Method: Composition-based stats.
Identities = 18/79 (22%), Positives = 32/79 (40%), Gaps = 1/79 (1%)
Query: 246 FFRDRSMEFKPPKFYGEGLNCLKLWRAVTRLGGYEKVTSCKLWRQVGESFKPPKTCTTVS 305
F+ + K P + L+ L + V GGYE + + W +V + P +
Sbjct: 21 FWEIQGSSLKIPNVERKILDLYSLSKIVIEEGGYEAICKDRRWARVAQRLHYPPG-KNIG 79
Query: 306 WTFRGFYEKALLDYERHKT 324
R YE+ + YE ++
Sbjct: 80 SLLRSHYERIIYPYEMFQS 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
0.310 0.128 0.372
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 13,995,460
Number of Sequences: 62578
Number of extensions: 514357
Number of successful extensions: 807
Number of sequences better than 100.0: 12
Number of HSP's better than 100.0 without gapping: 5
Number of HSP's successfully gapped in prelim test: 7
Number of HSP's that attempted gapping in prelim test: 802
Number of HSP's gapped (non-prelim): 12
length of query: 527
length of database: 14,973,337
effective HSP length: 103
effective length of query: 424
effective length of database: 8,527,803
effective search space: 3615788472
effective search space used: 3615788472
T: 11
A: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.7 bits)
S2: 54 (25.4 bits)