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= 012818
(456 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 = 44.7 bits (104), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 28/96 (29%), Positives = 48/96 (50%), Gaps = 2/96 (2%)
Query: 144 EGTPEEQAEFMKEIESFYRENALEF-KPPKFYGEPLNCLKLWRAVVRLGGYEVVTASKLW 202
+G P+ + EF+ ++ SF ++ + P + L+ L+ V GG V KLW
Sbjct: 30 DGDPKRK-EFLDDLFSFMQKRGTPVNRIPIMAKQVLDLFMLYVLVTEKGGLVEVINKKLW 88
Query: 203 RQVGESFHPPKTCTTVSWTFRIFYEKALLEYEKHKR 238
R++ + + P + T+ ++T R Y K L YE KR
Sbjct: 89 REITKGLNLPTSITSAAFTLRTQYMKYLYPYECEKR 124
>pdb|1C20|A Chain A, Solution Structure Of The Dna-Binding Domain From The Dead
Ringer Protein
Length = 128
Score = 43.1 bits (100), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 25/91 (27%), Positives = 46/91 (50%), Gaps = 1/91 (1%)
Query: 149 EQAEFMKEIESFYRENALEF-KPPKFYGEPLNCLKLWRAVVRLGGYEVVTASKLWRQVGE 207
++ EF+ ++ SF ++ + P L+ +L+ V+ GG V KLW+++ +
Sbjct: 22 KRKEFLDDLFSFMQKRGTPINRLPIMAKSVLDLYELYNLVIARGGLVDVINKKLWQEIIK 81
Query: 208 SFHPPKTCTTVSWTFRIFYEKALLEYEKHKR 238
H P + T+ ++T R Y K L YE K+
Sbjct: 82 GLHLPSSITSAAFTLRTQYMKYLYPYECEKK 112
>pdb|1KQQ|A Chain A, Solution Structure Of The Dead Ringer Arid-Dna Complex
Length = 139
Score = 43.1 bits (100), Expect = 4e-04, Method: Compositional matrix adjust.
Identities = 25/91 (27%), Positives = 45/91 (49%), Gaps = 1/91 (1%)
Query: 149 EQAEFMKEIESFYRENALEF-KPPKFYGEPLNCLKLWRAVVRLGGYEVVTASKLWRQVGE 207
++ EF+ ++ SF ++ + P L+ +L+ V+ GG V KLW+++ +
Sbjct: 24 KRKEFLDDLFSFMQKRGTPINRLPIMAKSVLDLYELYNLVIARGGLVDVINKKLWQEIIK 83
Query: 208 SFHPPKTCTTVSWTFRIFYEKALLEYEKHKR 238
H P + T+ + T R Y K L YE K+
Sbjct: 84 GLHLPSSITSAALTLRTQYMKYLYPYECEKK 114
>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 = 39.7 bits (91), Expect = 0.004, Method: Composition-based stats.
Identities = 25/100 (25%), Positives = 50/100 (50%), Gaps = 2/100 (2%)
Query: 148 EEQAEFMKEIESFYRENALEFKPPKFYG-EPLNCLKLWRAVVRLGGYEVVTASKLWRQVG 206
+EQA F+ + + +E + + G + +N +++A +LGGYE +TA + W+ +
Sbjct: 3 DEQA-FLVALYKYMKERKTPIERIPYLGFKQINLWTMFQAAQKLGGYETITARRQWKHIY 61
Query: 207 ESFHPPKTCTTVSWTFRIFYEKALLEYEKHKRLSGELQLP 246
+ T+ + R YE+ +L YE+ + + LP
Sbjct: 62 DELGGNPGSTSAATCTRRHYERLILPYERFIKGEEDKPLP 101
>pdb|2YQE|A Chain A, Solution Structure Of The Arid Domain Of Jarid1d Protein
Length = 100
Score = 37.4 bits (85), Expect = 0.017, Method: Composition-based stats.
Identities = 20/82 (24%), Positives = 35/82 (42%), Gaps = 1/82 (1%)
Query: 153 FMKEIESFYRENALEFKPPKFYGEPLNCLKLWRAVVRLGGYEVVTASKLWRQVGESFHPP 212
++ +I F+ K P + L+ L + V+ GGYE + + W +V + H P
Sbjct: 14 YLDQIAKFWEIQGSSLKIPNVERKILDLYSLSKIVIEEGGYEAICKDRRWARVAQRLHYP 73
Query: 213 KTCTTVSWTFRIFYEKALLEYE 234
+ R YE+ + YE
Sbjct: 74 PG-KNIGSLLRSHYERIIYPYE 94
>pdb|2JRZ|A Chain A, Solution Structure Of The BrightARID DOMAIN FROM THE HUMAN
Jarid1c Protein
Length = 117
Score = 34.3 bits (77), Expect = 0.14, Method: Compositional matrix adjust.
Identities = 22/95 (23%), Positives = 39/95 (41%), Gaps = 3/95 (3%)
Query: 144 EGTPEEQAEFMKEIESFYRENALEFKPPKFYGEPLNCLKLWRAVVRLGGYEVVTASKLWR 203
E + ++ +I F+ K P L+ L + VV GGYE + + W
Sbjct: 6 EAQTRVKLNYLDQIAKFWEIQGSSLKIPNVERRILDLYSLSKIVVEEGGYEAICKDRRWA 65
Query: 204 QVGESF-HPPKTCTTVSWTFRIFYEKALLEYEKHK 237
+V + +PP + R YE+ + YE ++
Sbjct: 66 RVAQRLNYPPG--KNIGSLLRSHYERIVYPYEMYQ 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 = 32.3 bits (72), Expect = 0.52, Method: Compositional matrix adjust.
Identities = 23/91 (25%), Positives = 36/91 (39%), Gaps = 1/91 (1%)
Query: 144 EGTPEEQAEFMKEIESFYRENALEFKPPKFYGEPLNCLKLWRAVVRLGGYEVVTASKLWR 203
E + F+ +I F+ K P + L+ L R V GG E T + W
Sbjct: 10 EAKTRVKLNFLDQIAKFWELQGSSLKIPMVERKALDLYTLHRIVQEEGGMEQTTKDRKWA 69
Query: 204 QVGESFHPPKTCTTVSWTFRIFYEKALLEYE 234
+V P + +V T + YE+ L +E
Sbjct: 70 KVANRMQYP-SSKSVGATLKAHYERILHPFE 99
>pdb|2JXJ|A Chain A, Nmr Structure Of The Arid Domain From The Histone H3k4
Demethylase Rbp2
Length = 96
Score = 32.3 bits (72), Expect = 0.55, Method: Compositional matrix adjust.
Identities = 23/87 (26%), Positives = 40/87 (45%), Gaps = 5/87 (5%)
Query: 150 QAEFMKEIESFYRENALEFKPPKFYGEPLNCLKLWRAVVRLGGYEVVTASKLWRQVGE-- 207
+ +F+ ++ F+ K P + L+ L + V GG+E+VT K W +VG
Sbjct: 8 RLDFLDQLAKFWELQGSTLKIPVVERKILDLYALSKIVASKGGFEMVTKEKKWSKVGSRL 67
Query: 208 SFHPPKTCTTVSWTFRIFYEKALLEYE 234
+ P K ++ + YE+ L YE
Sbjct: 68 GYLPGKGTGSL---LKSHYERILYPYE 91
>pdb|2RQ5|A Chain A, Solution Structure Of The At-Rich Interaction Domain
(Arid) Of JumonjiJARID2
Length = 121
Score = 31.6 bits (70), Expect = 0.89, Method: Composition-based stats.
Identities = 22/78 (28%), Positives = 35/78 (44%), Gaps = 5/78 (6%)
Query: 171 PKFYGEPLNCLKLWRAVVRLGGYEVVTASKLWRQVGESFHPPKTCTTVSWTFRIFYEKAL 230
P G L+ +R + +GG + VT K W ++ + PKT + Y + L
Sbjct: 35 PLIGGCELDLACFFRLINEMGGMQQVTDLKKWNKLADMLRIPKTAQDRLAKLQEAYCQYL 94
Query: 231 LEY-----EKHKRLSGEL 243
L Y E+H+RL E+
Sbjct: 95 LSYDSLSPEEHRRLEKEV 112
>pdb|2EQY|A Chain A, Solution Structure Of The Arid Domain Of Jarid1b Protein
Length = 122
Score = 30.4 bits (67), Expect = 2.1, Method: Compositional matrix adjust.
Identities = 23/96 (23%), Positives = 38/96 (39%), Gaps = 5/96 (5%)
Query: 140 GEADEGTPEEQAEFMKEIESFYRENALEFKPPKFYGEPLNCLKLWRAVVRLGGYEVVTAS 199
G + E + F+ +I ++ K P + L+ +L + V GG+ VV
Sbjct: 4 GSSGEAQTRVKLNFLDQIAKYWELQGSTLKIPHVERKILDLFQLNKLVAEEGGFAVVCKD 63
Query: 200 KLWRQVGE--SFHPPKTCTTVSWTFRIFYEKALLEY 233
+ W ++ F P K V R YE+ L Y
Sbjct: 64 RKWTKIATKMGFAPGK---AVGSHIRGHYERILNPY 96
>pdb|3SOP|A Chain A, Crystal Structure Of Human Septin 3 Gtpase Domain
pdb|3SOP|B Chain B, Crystal Structure Of Human Septin 3 Gtpase Domain
Length = 270
Score = 28.1 bits (61), Expect = 9.7, Method: Compositional matrix adjust.
Identities = 14/40 (35%), Positives = 22/40 (55%)
Query: 139 MGEADEGTPEEQAEFMKEIESFYRENALEFKPPKFYGEPL 178
+ +AD T EE++EF + + N +EF P K + E L
Sbjct: 147 IAKADTMTLEEKSEFKQRVRKELEVNGIEFYPQKEFDEDL 186
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 0.130 0.382
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 14,063,277
Number of Sequences: 62578
Number of extensions: 597545
Number of successful extensions: 1088
Number of sequences better than 100.0: 18
Number of HSP's better than 100.0 without gapping: 13
Number of HSP's successfully gapped in prelim test: 5
Number of HSP's that attempted gapping in prelim test: 1071
Number of HSP's gapped (non-prelim): 20
length of query: 456
length of database: 14,973,337
effective HSP length: 102
effective length of query: 354
effective length of database: 8,590,381
effective search space: 3040994874
effective search space used: 3040994874
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: 53 (25.0 bits)