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= 031032
(167 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2BL5|A Chain A, Solution Structure Of The Kh-Qua2 Region Of The Xenopus
Star-Gsg Quaking Protein
Length = 140
Score = 134 bits (336), Expect = 3e-32, Method: Compositional matrix adjust.
Identities = 58/122 (47%), Positives = 92/122 (75%)
Query: 22 RLEIPVDTYPNFNFVGRLLGPRGNSLKRVEATTGCRVYIRGKGSIKDPDKEDKLRGRPGY 81
+L +PV YP+FNFVGR+LGPRG + K++EA TGC++ +RGKGS++D KE++ RG+P +
Sbjct: 5 KLYVPVKEYPDFNFVGRILGPRGLTAKQLEAETGCKIMVRGKGSMRDKKKEEQNRGKPNW 64
Query: 82 EHLNDPLHILIEADLPANIVDIRLRQAQEIIEELLKPVDESQDYIKRQQLRELAMLNSNF 141
EHLN+ LH+LI + N +++L++A E +++LL P E +D +K+ +L ELA+LN +
Sbjct: 65 EHLNEDLHVLITVEDAQNRAELKLKRAVEEVKKLLVPAAEGEDSLKKMKLMELAILNGTY 124
Query: 142 RE 143
R+
Sbjct: 125 RD 126
>pdb|1K1G|A Chain A, Structural Basis For Recognition Of The Intron Branch Site
Rna By Splicing Factor 1
Length = 131
Score = 87.0 bits (214), Expect = 5e-18, Method: Compositional matrix adjust.
Identities = 54/129 (41%), Positives = 76/129 (58%), Gaps = 16/129 (12%)
Query: 22 RLEIPVDTYPNFNFVGRLLGPRGNSLKRVEATTGCRVYIRGKGSIKDPDKEDKLRGRPGY 81
++ IP D YP NFVG L+GPRGN+LK +E ++ IRGKGS+ KE K+ GR
Sbjct: 10 KVMIPQDEYPEINFVGLLIGPRGNTLKNIEKECNAKIMIRGKGSV----KEGKV-GRKDG 64
Query: 82 EHL---NDPLHILIEADLPANIVDIRLRQAQEIIEELLK---PVDESQDYIKRQQLRELA 135
+ L ++PLH L+ A+ N+ ++A E I +LK E Q+ +++ QLRELA
Sbjct: 65 QMLPGEDEPLHALVTANTMENV-----KKAVEQIRNILKQGIETPEDQNDLRKMQLRELA 119
Query: 136 MLNSNFRED 144
LN RED
Sbjct: 120 RLNGTLRED 128
>pdb|2YQR|A Chain A, Solution Structure Of The Kh Domain In Kiaa0907 Protein
Length = 119
Score = 38.5 bits (88), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 27/90 (30%), Positives = 44/90 (48%), Gaps = 13/90 (14%)
Query: 31 PNFNFVGRLLGPRGNSLKRVEATTGCRVYIRGKGSIKDPDKEDKLRGRPGYEHLNDPLHI 90
P FN ++ GP + L+ ++ TG +V++RGKGS + GR +E P++I
Sbjct: 25 PTFNVKEKVEGPGCSYLQHIQIETGAKVFLRGKGS----GCIEPASGREAFE----PMYI 76
Query: 91 LIEADLPANIVDIRLRQAQEIIEELLKPVD 120
I P L A+++ E LL+ V
Sbjct: 77 YISHPKPEG-----LAAAKKLCENLLQTVH 101
>pdb|1DT4|A Chain A, Crystal Structure Of Nova-1 Kh3 K-Homology Rna-Binding
Domain
Length = 73
Score = 31.6 bits (70), Expect = 0.21, Method: Compositional matrix adjust.
Identities = 14/31 (45%), Positives = 18/31 (58%)
Query: 34 NFVGRLLGPRGNSLKRVEATTGCRVYIRGKG 64
N VG +LG G +L + TGCR+ I KG
Sbjct: 12 NLVGAILGKGGKTLVEYQELTGCRIQISKKG 42
>pdb|1E3H|A Chain A, Semet Derivative Of Streptomyces Antibioticus PnpaseGPSI
Enzyme
Length = 757
Score = 30.8 bits (68), Expect = 0.33, Method: Composition-based stats.
Identities = 16/61 (26%), Positives = 32/61 (52%), Gaps = 12/61 (19%)
Query: 6 QSAPASPSSYTVKRILRLEIPVDTYPNFNFVGRLLGPRGNSLKRVEATTGCRVYIRGKGS 65
+ +P +P RI+ ++IPVD +G ++GP+ + +++ TG + I G+
Sbjct: 591 EXSPNAP------RIITVKIPVDK------IGEVIGPKRQXINQIQEDTGAEITIEDDGT 638
Query: 66 I 66
I
Sbjct: 639 I 639
>pdb|1E3P|A Chain A, Tungstate Derivative Of Streptomyces Antibioticus Pnpase
Gpsi Enzyme
Length = 757
Score = 30.8 bits (68), Expect = 0.39, Method: Compositional matrix adjust.
Identities = 14/48 (29%), Positives = 27/48 (56%), Gaps = 6/48 (12%)
Query: 19 RILRLEIPVDTYPNFNFVGRLLGPRGNSLKRVEATTGCRVYIRGKGSI 66
RI+ ++IPVD +G ++GP+ + +++ TG + I G+I
Sbjct: 598 RIITVKIPVDK------IGEVIGPKRQMINQIQEDTGAEITIEDDGTI 639
>pdb|1DU5|A Chain A, The Crystal Structure Of Zeamatin.
pdb|1DU5|B Chain B, The Crystal Structure Of Zeamatin
Length = 206
Score = 29.6 bits (65), Expect = 0.90, Method: Compositional matrix adjust.
Identities = 13/39 (33%), Positives = 20/39 (51%)
Query: 38 RLLGPRGNSLKRVEATTGCRVYIRGKGSIKDPDKEDKLR 76
R+ P G + R+ A TGC+ G+GS + D L+
Sbjct: 33 RITAPAGTTAARIWARTGCKFDASGRGSCRTGDCGGVLQ 71
>pdb|1DTJ|A Chain A, Crystal Structure Of Nova-2 Kh3 K-Homology Rna-Binding
Domain
pdb|1DTJ|B Chain B, Crystal Structure Of Nova-2 Kh3 K-Homology Rna-Binding
Domain
pdb|1DTJ|C Chain C, Crystal Structure Of Nova-2 Kh3 K-Homology Rna-Binding
Domain
pdb|1DTJ|D Chain D, Crystal Structure Of Nova-2 Kh3 K-Homology Rna-Binding
Domain
Length = 76
Score = 27.7 bits (60), Expect = 2.9, Method: Compositional matrix adjust.
Identities = 13/31 (41%), Positives = 17/31 (54%)
Query: 34 NFVGRLLGPRGNSLKRVEATTGCRVYIRGKG 64
N VG +LG G +L + TG R+ I KG
Sbjct: 12 NLVGAILGKGGKTLVEYQELTGARIQISKKG 42
>pdb|1EC6|A Chain A, Crystal Structure Of Nova-2 Kh3 K-Homology Rna-Binding
Domain Bound To 20-Mer Rna Hairpin
pdb|1EC6|B Chain B, Crystal Structure Of Nova-2 Kh3 K-Homology Rna-Binding
Domain Bound To 20-Mer Rna Hairpin
Length = 87
Score = 27.7 bits (60), Expect = 3.0, Method: Compositional matrix adjust.
Identities = 13/31 (41%), Positives = 17/31 (54%)
Query: 34 NFVGRLLGPRGNSLKRVEATTGCRVYIRGKG 64
N VG +LG G +L + TG R+ I KG
Sbjct: 12 NLVGAILGKGGKTLVEYQELTGARIQISKKG 42
>pdb|3VKE|A Chain A, Contribution Of The First K-Homology Domain Of
Poly(C)-Binding Protein 1 To Its Affinity And
Specificity For C-Rich Oligonucleotides
pdb|3VKE|B Chain B, Contribution Of The First K-Homology Domain Of
Poly(C)-Binding Protein 1 To Its Affinity And
Specificity For C-Rich Oligonucleotides
pdb|3VKE|C Chain C, Contribution Of The First K-Homology Domain Of
Poly(C)-Binding Protein 1 To Its Affinity And
Specificity For C-Rich Oligonucleotides
pdb|3VKE|D Chain D, Contribution Of The First K-Homology Domain Of
Poly(C)-Binding Protein 1 To Its Affinity And
Specificity For C-Rich Oligonucleotides
Length = 76
Score = 27.3 bits (59), Expect = 3.8, Method: Compositional matrix adjust.
Identities = 10/25 (40%), Positives = 17/25 (68%)
Query: 36 VGRLLGPRGNSLKRVEATTGCRVYI 60
VG ++G +G S+KR+ +G R+ I
Sbjct: 14 VGSIIGKKGESVKRIREESGARINI 38
>pdb|2DGR|A Chain A, Solution Structure Of The Second Kh Domain In Ring
Finger And Kh Domain Containing Protein 1
Length = 83
Score = 26.9 bits (58), Expect = 4.7, Method: Compositional matrix adjust.
Identities = 13/37 (35%), Positives = 22/37 (59%), Gaps = 2/37 (5%)
Query: 33 FNFVGRLLGPRGNSLKRVEATTGCRVYIRGKGSIKDP 69
+ VG ++GP+G ++KR++ T YI G K+P
Sbjct: 18 YRVVGLVVGPKGATIKRIQQRT--HTYIVTPGRDKEP 52
>pdb|2I0W|A Chain A, Crystal Structure Analysis Of Np24-I, A Thaumatin-Like
Protein
Length = 207
Score = 26.6 bits (57), Expect = 6.3, Method: Compositional matrix adjust.
Identities = 11/35 (31%), Positives = 17/35 (48%)
Query: 42 PRGNSLKRVEATTGCRVYIRGKGSIKDPDKEDKLR 76
PRG + R+ TGC G+G+ + D L+
Sbjct: 37 PRGTKMARIWGRTGCNFNAAGRGTCQTGDCGGVLQ 71
>pdb|1ZTG|A Chain A, Human Alpha Polyc Binding Protein Kh1
pdb|1ZTG|B Chain B, Human Alpha Polyc Binding Protein Kh1
pdb|1ZTG|C Chain C, Human Alpha Polyc Binding Protein Kh1
pdb|1ZTG|D Chain D, Human Alpha Polyc Binding Protein Kh1
Length = 74
Score = 26.6 bits (57), Expect = 6.8, Method: Compositional matrix adjust.
Identities = 10/25 (40%), Positives = 17/25 (68%)
Query: 36 VGRLLGPRGNSLKRVEATTGCRVYI 60
VG ++G +G S+KR+ +G R+ I
Sbjct: 14 VGSIIGKKGESVKRIREESGARINI 38
>pdb|2I1J|A Chain A, Moesin From Spodoptera Frugiperda At 2.1 Angstroms
Resolution
pdb|2I1K|A Chain A, Moesin From Spodoptera Frugiperda Reveals The Coiled-Coil
Domain At 3.0 Angstrom Resolution
Length = 575
Score = 26.2 bits (56), Expect = 8.4, Method: Compositional matrix adjust.
Identities = 35/121 (28%), Positives = 52/121 (42%), Gaps = 16/121 (13%)
Query: 26 PVDT-YPNFNFVGRLLGPRGNSLKRVEATT--GCRVYIRGKG-------SIKDPDKEDKL 75
P+D P+F F PR KR+ A +Y+R + +K +E+KL
Sbjct: 259 PIDKKAPDFVF----FAPRVRVNKRILALCMGNHELYMRRRKPDTIDVQQMKAQAREEKL 314
Query: 76 RGRPGYEHLNDPLHILIEADLPANIVDIRLRQAQEIIEELLKPVDESQDYIKR--QQLRE 133
+ E L + A+ RLRQ QE +E + E+QD I R +QLR+
Sbjct: 315 AKQAQREKLQLEIAARERAEKKQQEYQDRLRQMQEEMERSQANLLEAQDMILRLEEQLRQ 374
Query: 134 L 134
L
Sbjct: 375 L 375
>pdb|1I5P|A Chain A, Insecticidal Crystal Protein Cry2aa
Length = 633
Score = 26.2 bits (56), Expect = 9.4, Method: Composition-based stats.
Identities = 15/58 (25%), Positives = 28/58 (48%), Gaps = 3/58 (5%)
Query: 8 APASPSSYTVKRILRLEIPVDTYPNFNFVGRLLGPRGNSLKRVEATTGCRVYIRGKGS 65
AP + +T+ I ++ T F+ G +G+SL+ ++ T R +RG G+
Sbjct: 487 APEDYTGFTISPIHATQVNNQTR---TFISEKFGNQGDSLRFEQSNTTARYTLRGNGN 541
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
0.316 0.136 0.394
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 5,454,621
Number of Sequences: 62578
Number of extensions: 229765
Number of successful extensions: 533
Number of sequences better than 100.0: 25
Number of HSP's better than 100.0 without gapping: 12
Number of HSP's successfully gapped in prelim test: 13
Number of HSP's that attempted gapping in prelim test: 520
Number of HSP's gapped (non-prelim): 25
length of query: 167
length of database: 14,973,337
effective HSP length: 92
effective length of query: 75
effective length of database: 9,216,161
effective search space: 691212075
effective search space used: 691212075
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.6 bits)
S2: 48 (23.1 bits)