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= 044181
(178 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 = 34.3 bits (77), Expect = 0.037, Method: Compositional matrix adjust.
Identities = 14/26 (53%), Positives = 17/26 (65%)
Query: 88 PKTHECSVCGLEFAIGQALGGHMRRH 113
P+++ CS C EF QALGGHM H
Sbjct: 4 PRSYTCSFCKREFRSAQALGGHMNVH 29
Score = 30.4 bits (67), Expect = 0.55, Method: Compositional matrix adjust.
Identities = 13/25 (52%), Positives = 16/25 (64%)
Query: 43 RAFECKTCNRQFPSFQALGGHRASH 67
R++ C C R+F S QALGGH H
Sbjct: 5 RSYTCSFCKREFRSAQALGGHMNVH 29
>pdb|2KMK|A Chain A, Gfi-1 Zinc Fingers 3-5 Complexed With Dna
Length = 82
Score = 30.8 bits (68), Expect = 0.46, Method: Compositional matrix adjust.
Identities = 23/80 (28%), Positives = 32/80 (40%), Gaps = 10/80 (12%)
Query: 44 AFECKTCNRQFPSFQALGGHRASHK--KPRFTDGNGGVDMQQLPIKPKT--------HEC 93
+F+CK C + F L H H +P G Q+ +K T H+C
Sbjct: 1 SFDCKICGKSFKRSSTLSTHLLIHSDTRPYPCQYCGKRFHQKSDMKKHTFIHTGEKPHKC 60
Query: 94 SVCGLEFAIGQALGGHMRRH 113
VCG F+ L H R+H
Sbjct: 61 QVCGKAFSQSSNLITHSRKH 80
>pdb|3OF5|A Chain A, Crystal Structure Of A Dethiobiotin Synthetase From
Francisella Tularensis Subsp. Tularensis Schu S4
pdb|3OF5|B Chain B, Crystal Structure Of A Dethiobiotin Synthetase From
Francisella Tularensis Subsp. Tularensis Schu S4
Length = 228
Score = 30.4 bits (67), Expect = 0.56, Method: Compositional matrix adjust.
Identities = 18/68 (26%), Positives = 30/68 (44%), Gaps = 5/68 (7%)
Query: 30 FNAVNGVNTMAAGRAFEC-----KTCNRQFPSFQALGGHRASHKKPRFTDGNGGVDMQQL 84
N +N N AG C K + Q + + L G++ S K R D +D+ ++
Sbjct: 161 INELNRHNIKLAGWIANCNDSNIKYIDEQINTIEELSGYKCSAKISRNADYLDFIDLSKI 220
Query: 85 PIKPKTHE 92
I P+ +E
Sbjct: 221 LISPEENE 228
>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 = 28.1 bits (61), Expect = 2.7, Method: Composition-based stats.
Identities = 13/25 (52%), Positives = 16/25 (64%)
Query: 89 KTHECSVCGLEFAIGQALGGHMRRH 113
K +ECSVCG F+ Q+L H R H
Sbjct: 11 KPYECSVCGKAFSHRQSLSVHQRIH 35
>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 = 28.1 bits (61), Expect = 2.7, Method: Composition-based stats.
Identities = 14/36 (38%), Positives = 20/36 (55%), Gaps = 2/36 (5%)
Query: 81 MQQLPI-KPKTHECSVCGLEFAIGQALGGHMRR-HR 114
M+ PI P ++ C+VC F+ AL H+R HR
Sbjct: 106 MKVTPIVNPSSYVCNVCNARFSTMSALSEHLRSDHR 141
>pdb|1P0C|A Chain A, Crystal Structure Of The Nadp(H)-Dependent Vertebrate
Alcohol Dehydrogenase (Adh8)
pdb|1P0C|B Chain B, Crystal Structure Of The Nadp(H)-Dependent Vertebrate
Alcohol Dehydrogenase (Adh8)
pdb|1P0F|A Chain A, Crystal Structure Of The Binary Complex: Nadp(H)-Dependent
Vertebrate Alcohol Dehydrogenase (Adh8) With The
Cofactor Nadp
pdb|1P0F|B Chain B, Crystal Structure Of The Binary Complex: Nadp(H)-Dependent
Vertebrate Alcohol Dehydrogenase (Adh8) With The
Cofactor Nadp
Length = 373
Score = 28.1 bits (61), Expect = 2.7, Method: Compositional matrix adjust.
Identities = 21/71 (29%), Positives = 28/71 (39%), Gaps = 8/71 (11%)
Query: 18 ANCLMFLSHGRGFNAVNGVNTMAAGRAFECKTCNRQFPSFQALGGHRA----SHKKPRF- 72
+ C +F G GF+A+ G A R T +FP LG + KP +
Sbjct: 193 STCAVFGLGGVGFSAIVGCKAAGASRIIGVGTHKDKFPKAIELGATECLNPKDYDKPIYE 252
Query: 73 ---TDGNGGVD 80
NGGVD
Sbjct: 253 VICEKTNGGVD 263
>pdb|3K1Q|C Chain C, Backbone Model Of An Aquareovirus Virion By Cryo-Electron
Microscopy And Bioinformatics
Length = 1196
Score = 28.1 bits (61), Expect = 2.7, Method: Composition-based stats.
Identities = 14/36 (38%), Positives = 20/36 (55%), Gaps = 2/36 (5%)
Query: 81 MQQLPI-KPKTHECSVCGLEFAIGQALGGHMRR-HR 114
M+ PI P ++ C+VC F+ AL H+R HR
Sbjct: 88 MKVTPIVNPSSYVCNVCNARFSTMSALSEHLRSDHR 123
>pdb|2EOZ|A Chain A, Solution Structure Of The C2h2 Type Zinc Finger (Region
809- 841) Of Human Zinc Finger Protein 473
Length = 46
Score = 27.7 bits (60), Expect = 4.1, Method: Compositional matrix adjust.
Identities = 12/32 (37%), Positives = 16/32 (50%)
Query: 89 KTHECSVCGLEFAIGQALGGHMRRHRAAGLHG 120
K + C+VCG F + L H+R H L G
Sbjct: 11 KPYSCNVCGKAFVLSAHLNQHLRVHTQETLSG 42
>pdb|2EOS|A Chain A, Solution Structure Of The C2h2 Type Zinc Finger (Region
626- 654) Of Human B-Cell Lymphoma 6 Protein
Length = 42
Score = 26.9 bits (58), Expect = 6.1, Method: Composition-based stats.
Identities = 11/29 (37%), Positives = 15/29 (51%)
Query: 89 KTHECSVCGLEFAIGQALGGHMRRHRAAG 117
K + C +CG F Q L H+R H +G
Sbjct: 10 KPYPCEICGTRFRHLQTLKSHLRIHTGSG 38
>pdb|2I13|A Chain A, Aart, A Six Finger Zinc Finger Designed To Recognize Ann
Triplets
pdb|2I13|B Chain B, Aart, A Six Finger Zinc Finger Designed To Recognize Ann
Triplets
Length = 190
Score = 26.9 bits (58), Expect = 6.1, Method: Compositional matrix adjust.
Identities = 20/81 (24%), Positives = 31/81 (38%), Gaps = 10/81 (12%)
Query: 43 RAFECKTCNRQFPSFQALGGHRASH--KKP--------RFTDGNGGVDMQQLPIKPKTHE 92
+ + C C + F L H+ +H +KP F+D Q+ K ++
Sbjct: 20 KPYACPECGKSFSRSDHLAEHQRTHTGEKPYKCPECGKSFSDKKDLTRHQRTHTGEKPYK 79
Query: 93 CSVCGLEFAIGQALGGHMRRH 113
C CG F+ L H R H
Sbjct: 80 CPECGKSFSQRANLRAHQRTH 100
Score = 26.6 bits (57), Expect = 7.6, Method: Compositional matrix adjust.
Identities = 21/86 (24%), Positives = 33/86 (38%), Gaps = 10/86 (11%)
Query: 38 TMAAGRAFECKTCNRQFPSFQALGGHRASH--KKP--------RFTDGNGGVDMQQLPIK 87
T + + C C + F L H+ +H +KP F+ + Q+
Sbjct: 99 THTGEKPYACPECGKSFSQLAHLRAHQRTHTGEKPYKCPECGKSFSREDNLHTHQRTHTG 158
Query: 88 PKTHECSVCGLEFAIGQALGGHMRRH 113
K ++C CG F+ AL H R H
Sbjct: 159 EKPYKCPECGKSFSRRDALNVHQRTH 184
>pdb|1MEY|C Chain C, Crystal Structure Of A Designed Zinc Finger Protein Bound
To Dna
pdb|1MEY|F Chain F, Crystal Structure Of A Designed Zinc Finger Protein Bound
To Dna
pdb|1MEY|G Chain G, Crystal Structure Of A Designed Zinc Finger Protein Bound
To Dna
Length = 87
Score = 26.6 bits (57), Expect = 7.9, Method: Compositional matrix adjust.
Identities = 19/82 (23%), Positives = 33/82 (40%), Gaps = 10/82 (12%)
Query: 43 RAFECKTCNRQFPSFQALGGHRASH--KKP--------RFTDGNGGVDMQQLPIKPKTHE 92
+ ++C C + F L H+ +H +KP F+ + Q+ K ++
Sbjct: 3 KPYKCPECGKSFSQSSNLQKHQRTHTGEKPYKCPECGKSFSQSSDLQKHQRTHTGEKPYK 62
Query: 93 CSVCGLEFAIGQALGGHMRRHR 114
C CG F+ L H R H+
Sbjct: 63 CPECGKSFSRSDHLSRHQRTHQ 84
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 0.135 0.411
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 5,321,566
Number of Sequences: 62578
Number of extensions: 209696
Number of successful extensions: 636
Number of sequences better than 100.0: 34
Number of HSP's better than 100.0 without gapping: 16
Number of HSP's successfully gapped in prelim test: 18
Number of HSP's that attempted gapping in prelim test: 585
Number of HSP's gapped (non-prelim): 52
length of query: 178
length of database: 14,973,337
effective HSP length: 92
effective length of query: 86
effective length of database: 9,216,161
effective search space: 792589846
effective search space used: 792589846
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: 48 (23.1 bits)