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= 044013
(153 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2L1O|A Chain A, Zinc To Cadmium Replacement In The A. Thaliana Superman
Cys2his2 Zinc Finger Induces Structural Rearrangements
Of Typical Dna Base Determinant Positions
pdb|1NJQ|A Chain A, Nmr Structure Of The Single Qalggh Zinc Finger Domain
From Arabidopsis Thaliana Superman Protein
Length = 39
Score = 46.2 bits (108), Expect = 8e-06, Method: Compositional matrix adjust.
Identities = 19/25 (76%), Positives = 21/25 (84%)
Query: 24 RSYECVFCKRGFTTAQALGGHMNIH 48
RSY C FCKR F +AQALGGHMN+H
Sbjct: 5 RSYTCSFCKREFRSAQALGGHMNVH 29
>pdb|2LT7|A Chain A, Solution Nmr Structure Of Kaiso Zinc Finger Dna Binding
Domain In Complex With Kaiso Binding Site Dna
pdb|4F6M|A Chain A, Crystal Structure Of Kaiso Zinc Finger Dna Binding
Domain In Complex With Kaiso Binding Site Dna
pdb|4F6N|A Chain A, Crystal Structure Of Kaiso Zinc Finger Dna Binding
Protein In Complex With Methylated Cpg Site Dna
Length = 133
Score = 29.6 bits (65), Expect = 0.66, Method: Compositional matrix adjust.
Identities = 15/40 (37%), Positives = 19/40 (47%), Gaps = 2/40 (5%)
Query: 11 KSSSDDETDAGT-GRSYE-CVFCKRGFTTAQALGGHMNIH 48
K DD + GR Y C+ CKR + +L H NIH
Sbjct: 6 KVKHDDHYELIVDGRVYYICIVCKRSYVCLTSLRRHFNIH 45
>pdb|4DGW|A Chain A, Crystal Structure Of The Sf3a Splicing Factor Complex Of
U2 Snrnp
Length = 402
Score = 29.3 bits (64), Expect = 0.93, Method: Compositional matrix adjust.
Identities = 12/31 (38%), Positives = 17/31 (54%), Gaps = 2/31 (6%)
Query: 28 CVFCKRGFTTAQALGGHM--NIHRKDRAKNR 56
C FC R F T+ H+ IH+K+ +K R
Sbjct: 295 CPFCSRWFKTSSVFESHLVGKIHKKNESKRR 325
>pdb|2Q8A|L Chain L, Structure Of The Malaria Antigen Ama1 In Complex With A
Growth- Inhibitory Antibody
pdb|2Q8B|L Chain L, Structure Of The Malaria Antigen Ama1 In Complex With A
Growth- Inhibitory Antibody
Length = 214
Score = 28.5 bits (62), Expect = 1.5, Method: Compositional matrix adjust.
Identities = 14/40 (35%), Positives = 23/40 (57%), Gaps = 5/40 (12%)
Query: 30 FCKRGFTTAQALGG--HMNIHRKDRAKNR---PPSSSSIS 64
FC++GF++ + GG + I+R D A PPSS ++
Sbjct: 87 FCQQGFSSPRTFGGGTKLEINRADAAPTVSIFPPSSEQLT 126
>pdb|2XZM|2 Chain 2, Crystal Structure Of The Eukaryotic 40s Ribosomal
Subunit In Complex With Initiation Factor 1. This File
Contains The 40s Subunit And Initiation Factor For
Molecule 1
pdb|2XZN|2 Chain 2, Crystal Structure Of The Eukaryotic 40s Ribosomal
Subunit In Complex With Initiation Factor 1. This File
Contains The 40s Subunit And Initiation Factor For
Molecule 2
Length = 208
Score = 27.3 bits (59), Expect = 3.1, Method: Compositional matrix adjust.
Identities = 14/32 (43%), Positives = 20/32 (62%), Gaps = 2/32 (6%)
Query: 39 QALGGHMNIHRKDRA--KNRPPSSSSISDKLT 68
+A GG M +HRK RA K RP S + ++ + T
Sbjct: 12 RATGGRMPVHRKKRAFEKGRPISMTKLTTQST 43
>pdb|2EMI|A Chain A, Solution Structure Of The C2h2 Type Zinc Finger (Region
547- 579) Of Human Zinc Finger Protein 484
Length = 46
Score = 26.9 bits (58), Expect = 4.0, Method: Compositional matrix adjust.
Identities = 11/29 (37%), Positives = 14/29 (48%)
Query: 24 RSYECVFCKRGFTTAQALGGHMNIHRKDR 52
R YEC C + F L H IHR ++
Sbjct: 11 RHYECSECGKAFIQKSTLSMHQRIHRGEK 39
>pdb|3K1Q|C Chain C, Backbone Model Of An Aquareovirus Virion By Cryo-Electron
Microscopy And Bioinformatics
Length = 1196
Score = 26.9 bits (58), Expect = 4.7, Method: Composition-based stats.
Identities = 18/57 (31%), Positives = 24/57 (42%), Gaps = 9/57 (15%)
Query: 25 SYECVFCKRGFTTAQALGGHMNIHRKDRAKN---RPPSSSSISDKLTFFPSPSTWDD 78
SY C C F+T AL H+ +D A P +++I LT WDD
Sbjct: 98 SYVCNVCNARFSTMSALSEHLRSDHRDDASTLLATPMINNAIRSFLT------AWDD 148
>pdb|2EML|A Chain A, Solution Structure Of The C2h2 Type Zinc Finger (Region
752- 784) Of Human Zinc Finger Protein 28 Homolog
Length = 46
Score = 26.9 bits (58), Expect = 4.7, Method: Compositional matrix adjust.
Identities = 10/25 (40%), Positives = 14/25 (56%)
Query: 24 RSYECVFCKRGFTTAQALGGHMNIH 48
+ YEC C + F+ Q+L H IH
Sbjct: 11 KPYECSVCGKAFSHRQSLSVHQRIH 35
>pdb|2EMZ|A Chain A, Solution Structure Of The C2h2 Type Zinc Finger (Region
628- 660) Of Human Zinc Finger Protein 95 Homolog
Length = 46
Score = 26.9 bits (58), Expect = 4.9, Method: Compositional matrix adjust.
Identities = 14/37 (37%), Positives = 20/37 (54%), Gaps = 2/37 (5%)
Query: 24 RSYECVFCKRGFTTAQALGGHMNIHRKDRAKNRPPSS 60
R ++C C +GF L GH+ +H R K+ PSS
Sbjct: 11 RPFKCNECGKGFGRRSHLAGHLRLH--SREKSSGPSS 45
>pdb|3IYL|X Chain X, Atomic Cryoem Structure Of A Nonenveloped Virus Suggests
How Penetration Protein Is Primed For Cell Entry
pdb|3IYL|Y Chain Y, Atomic Cryoem Structure Of A Nonenveloped Virus Suggests
How Penetration Protein Is Primed For Cell Entry
Length = 1214
Score = 26.9 bits (58), Expect = 5.0, Method: Composition-based stats.
Identities = 18/57 (31%), Positives = 24/57 (42%), Gaps = 9/57 (15%)
Query: 25 SYECVFCKRGFTTAQALGGHMNIHRKDRAKN---RPPSSSSISDKLTFFPSPSTWDD 78
SY C C F+T AL H+ +D A P +++I LT WDD
Sbjct: 116 SYVCNVCNARFSTMSALSEHLRSDHRDDASTLLATPMINNAIRSFLT------AWDD 166
>pdb|2LVR|A Chain A, Solution Structure Of Miz-1 Zinc Finger 8
Length = 30
Score = 26.2 bits (56), Expect = 8.3, Method: Composition-based stats.
Identities = 10/29 (34%), Positives = 16/29 (55%)
Query: 24 RSYECVFCKRGFTTAQALGGHMNIHRKDR 52
+ Y C+ C+R F AL H+ IH ++
Sbjct: 2 KPYVCIHCQRQFADPGALQRHVRIHTGEK 30
>pdb|2EM5|A Chain A, Solution Structure Of The C2h2 Type Zinc Finger (Region
768- 800) Of Human Zinc Finger Protein 95 Homolog
Length = 46
Score = 26.2 bits (56), Expect = 8.8, Method: Compositional matrix adjust.
Identities = 14/39 (35%), Positives = 21/39 (53%), Gaps = 4/39 (10%)
Query: 24 RSYECVFCKRGFTTAQALGGHMNIHRKDRAKNRPPSSSS 62
+S++C C RGFT L H+N H++ +P SS
Sbjct: 11 KSHQCHECGRGFT----LKSHLNQHQRIHTGEKPSGPSS 45
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
0.311 0.128 0.395
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 4,991,987
Number of Sequences: 62578
Number of extensions: 196554
Number of successful extensions: 388
Number of sequences better than 100.0: 40
Number of HSP's better than 100.0 without gapping: 18
Number of HSP's successfully gapped in prelim test: 22
Number of HSP's that attempted gapping in prelim test: 366
Number of HSP's gapped (non-prelim): 43
length of query: 153
length of database: 14,973,337
effective HSP length: 90
effective length of query: 63
effective length of database: 9,341,317
effective search space: 588502971
effective search space used: 588502971
T: 11
A: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.8 bits)
S2: 47 (22.7 bits)