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= 004933
(723 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2YPD|A Chain A, Crystal Structure Of The Jumonji Domain Of Human Jumonji
Domain Containing 1c Protein
pdb|2YPD|B Chain B, Crystal Structure Of The Jumonji Domain Of Human Jumonji
Domain Containing 1c Protein
Length = 392
Score = 94.7 bits (234), Expect = 2e-19, Method: Compositional matrix adjust.
Identities = 55/143 (38%), Positives = 81/143 (56%), Gaps = 5/143 (3%)
Query: 571 GALWDIFRRQDVPKLEAYLRKHFKEFRHVYCSPVEQVIHPIHDQCFYXXXXXXXXXXXXF 630
GALW I+ +DV K+ +L+K KE + + P PI DQ +Y +
Sbjct: 233 GALWHIYAGKDVDKIREFLQKISKE-QGLEVLPEHD---PIRDQSWYVNKKLRQRLLEEY 288
Query: 631 GVEPWTFEQKLGEAVFIPAGCPHQVRNLKSCTKVAVDFVSPENVDECLRLTKEFRLLPKN 690
GV T Q LG+A+ +PAG HQV+N SC +V DFVSPE++ E LT+E RLL K
Sbjct: 289 GVRTCTLIQFLGDAIVLPAGALHQVQNFHSCIQVTEDFVSPEHLVESFHLTQELRLL-KE 347
Query: 691 HRAREDKLEIKKMILYAVAQAIK 713
+DKL++K ++ +AV + ++
Sbjct: 348 EINYDDKLQVKNILYHAVKEMVR 370
Score = 87.4 bits (215), Expect = 2e-17, Method: Compositional matrix adjust.
Identities = 54/175 (30%), Positives = 92/175 (52%), Gaps = 14/175 (8%)
Query: 301 FQKHWIKGEPVIVRNVLDKVTGLSWEPMVMWRALCENVDSEVSSKMSEVKAIDCLASCEV 360
F++ W +G+P +V V K+ + +W+A E++ + +++ ++C S
Sbjct: 27 FKECWKQGQPAVVSGVHKKMN------ISLWKA--ESISLDFGDHQADL--LNCKDSIIS 76
Query: 361 EISTRQFFKGYTQ-GRTYDNFWPE--MLKLKDWPPSDKFEDLMPRHCDEFISALPFQEYS 417
+ ++F+ G+ + + N E +LKLKDWP + F+ +MP ++ + +LP EY
Sbjct: 77 NANVKEFWDGFEEVSKRQKNKSGETVVLKLKDWPSGEDFKTMMPARYEDLLKSLPLPEYC 136
Query: 418 DPRAGILNLAVKLPSGVLKPDLGPKTYIAYGVAEELGRGDSVTKLHCDMSDAVNI 472
+P G NLA LP ++PDLGP+ AYGV T LH ++SD VNI
Sbjct: 137 NPE-GKFNLASHLPGFFVRPDLGPRLCSAYGVVAAKDHDIGTTNLHIEVSDVVNI 190
>pdb|3LD8|A Chain A, Structure Of Jmjd6 And Fab Fragments
pdb|3LDB|A Chain A, Structure Of Jmjd6 Complexd With Alpha-Ketoglutarate And
Fab Fragment
Length = 334
Score = 35.0 bits (79), Expect = 0.15, Method: Compositional matrix adjust.
Identities = 20/62 (32%), Positives = 27/62 (43%), Gaps = 9/62 (14%)
Query: 639 QKLGEAVFIPAGCPHQVRNLKSCTKVAVDFVSPENVDECLRLT---------KEFRLLPK 689
QK GE VF+P G H V NL + + +F S N T K +R+L +
Sbjct: 259 QKPGETVFVPGGWWHVVLNLDTTIAITQNFASSTNFPVVWHKTVRGRPKLSRKWYRILKQ 318
Query: 690 NH 691
H
Sbjct: 319 EH 320
>pdb|3K2O|A Chain A, Structure Of An Oxygenase
pdb|3K2O|B Chain B, Structure Of An Oxygenase
Length = 336
Score = 34.7 bits (78), Expect = 0.17, Method: Compositional matrix adjust.
Identities = 20/62 (32%), Positives = 27/62 (43%), Gaps = 9/62 (14%)
Query: 639 QKLGEAVFIPAGCPHQVRNLKSCTKVAVDFVSPENVDECLRLT---------KEFRLLPK 689
QK GE VF+P G H V NL + + +F S N T K +R+L +
Sbjct: 260 QKPGETVFVPGGWWHVVLNLDTTIAITQNFASSTNFPVVWHKTVRGRPKLSRKWYRILKQ 319
Query: 690 NH 691
H
Sbjct: 320 EH 321
>pdb|1S3I|A Chain A, Crystal Structure Of The N Terminal Hydrolase Domain Of
10- Formyltetrahydrofolate Dehydrogenase
Length = 310
Score = 31.2 bits (69), Expect = 2.1, Method: Compositional matrix adjust.
Identities = 16/39 (41%), Positives = 21/39 (53%)
Query: 525 DTDVSEINDSELLPSGIRGEFKMSRDEMQGTAFTCPHSE 563
D VS + + L P GI+G + R +GTA CP SE
Sbjct: 157 DDTVSTLYNRFLFPEGIKGMVQAVRLIAEGTAPRCPQSE 195
>pdb|3G65|A Chain A, Crystal Structure Of The Human Rad9-Rad1-Hus1 Dna Damage
Checkpoint Complex
Length = 296
Score = 30.8 bits (68), Expect = 3.0, Method: Compositional matrix adjust.
Identities = 18/62 (29%), Positives = 29/62 (46%)
Query: 643 EAVFIPAGCPHQVRNLKSCTKVAVDFVSPENVDECLRLTKEFRLLPKNHRAREDKLEIKK 702
+AVF PA CPH +R AV SP + L + + R++ +++ E K
Sbjct: 133 QAVFDPASCPHMLRAPARVLGEAVLPFSPALAEVTLGIGRGRRVILRSYHEEEADSTAKA 192
Query: 703 MI 704
M+
Sbjct: 193 MV 194
>pdb|3GGR|A Chain A, Crystal Structure Of The Human Rad9-Hus1-Rad1 Complex
Length = 270
Score = 30.4 bits (67), Expect = 3.4, Method: Compositional matrix adjust.
Identities = 18/62 (29%), Positives = 29/62 (46%)
Query: 643 EAVFIPAGCPHQVRNLKSCTKVAVDFVSPENVDECLRLTKEFRLLPKNHRAREDKLEIKK 702
+AVF PA CPH +R AV SP + L + + R++ +++ E K
Sbjct: 133 QAVFDPASCPHMLRAPARVLGEAVLPFSPALAEVTLGIGRGRRVILRSYHEEEADSTAKA 192
Query: 703 MI 704
M+
Sbjct: 193 MV 194
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
0.320 0.136 0.426
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 21,534,636
Number of Sequences: 62578
Number of extensions: 900700
Number of successful extensions: 2034
Number of sequences better than 100.0: 9
Number of HSP's better than 100.0 without gapping: 6
Number of HSP's successfully gapped in prelim test: 3
Number of HSP's that attempted gapping in prelim test: 2024
Number of HSP's gapped (non-prelim): 10
length of query: 723
length of database: 14,973,337
effective HSP length: 106
effective length of query: 617
effective length of database: 8,340,069
effective search space: 5145822573
effective search space used: 5145822573
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: 55 (25.8 bits)