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= 009695
(528 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2JZX|A Chain A, Pcbp2 Kh1-Kh2 Domains
Length = 160
Score = 40.0 bits (92), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 36/134 (26%), Positives = 61/134 (45%), Gaps = 16/134 (11%)
Query: 274 VALRMLFSGWTASGIIGKRGAIVRSLQNASGALISFAAPLTKSGERVVTISALEYLDTRH 333
+ +R+L G IIGK+G V+ ++ SGA I+ + ER++T++
Sbjct: 5 LTIRLLMHGKEVGSIIGKKGESVKKMREESGARINISE--GNCPERIITLAG-------- 54
Query: 334 SPVQNAAVLVFARSVEVEGQQGFSSGENKGDA----VAVSILVGADFVGCLTGSGSSAVS 389
P NA FA ++ + SS N A V + ++V A G L G G +
Sbjct: 55 -PT-NAIFKAFAMIIDKLEEDISSSMTNSTAASRPPVTLRLVVPASQCGSLIGKGGCKIK 112
Query: 390 EMEDVTGTDIKLVG 403
E+ + TG +++ G
Sbjct: 113 EIRESTGAQVQVAG 126
Score = 29.3 bits (64), Expect = 5.1, Method: Compositional matrix adjust.
Identities = 16/54 (29%), Positives = 29/54 (53%), Gaps = 1/54 (1%)
Query: 274 VALRMLFSGWTASGIIGKRGAIVRSLQNASGALISFAAP-LTKSGERVVTISAL 326
V LR++ +IGK G ++ ++ ++GA + A L S ER +TI+ +
Sbjct: 89 VTLRLVVPASQCGSLIGKGGCKIKEIRESTGAQVQVAGDMLPNSTERAITIAGI 142
>pdb|2ANR|A Chain A, Crystal Structure (Ii) Of Nova-1 Kh1KH2 DOMAIN TANDEM WITH
25NT RNA Hairpin
Length = 178
Score = 35.8 bits (81), Expect = 0.061, Method: Compositional matrix adjust.
Identities = 44/181 (24%), Positives = 74/181 (40%), Gaps = 27/181 (14%)
Query: 276 LRMLFSGWTASGIIGKRGAIVRSLQNASGALISFAAP---LTKSGERVVTIS-ALEYLDT 331
L++L + A IIGK G + LQ +GA I + + ERV I +E L+
Sbjct: 8 LKVLIPSYAAGSIIGKGGQTIVQLQKETGATIKLSKSKDFYPGTTERVCLIQGTIEALNA 67
Query: 332 RHSPVQNAAVLVFARSVEVEGQQGFSSGE-----------NKGDAVAVSILVGADFVGCL 380
H F E Q + E N A V I+V G +
Sbjct: 68 VHG---------FIAEKIREXPQNVAKTEPVSILQPQTTVNPDRANQVKIIVPNSTAGLI 118
Query: 381 TGSGSSAVSEMEDVTGTDIKLVGGEQVLGCAAQNDVVIQISGEYKNVQNALSEVVGRLRH 440
G G + V + + +G ++L ++ G QN VV +SGE + + A+ ++ +++
Sbjct: 119 IGKGGATVKAIXEQSGAWVQL--SQKPDGINLQNRVVT-VSGEPEQNRKAVELIIQKIQE 175
Query: 441 N 441
+
Sbjct: 176 D 176
>pdb|1J5K|A Chain A, Complex Of The Kh3 Domain Of Hnrnp K With A
Single_stranded 10mer Dna Oligonucleotide
Length = 89
Score = 35.4 bits (80), Expect = 0.077, Method: Composition-based stats.
Identities = 20/59 (33%), Positives = 32/59 (54%), Gaps = 6/59 (10%)
Query: 285 ASGIIGKRGAIVRSLQNASGALISFAAPLTKSGERVVTISALEYLDTRHSPVQNAAVLV 343
A IIGK G ++ +++ SGA I PL S +R++TI+ + +QNA L+
Sbjct: 25 AGSIIGKGGQRIKQIRHESGASIKIDEPLEGSEDRIITITGTQ------DQIQNAQYLL 77
Score = 30.8 bits (68), Expect = 2.1, Method: Composition-based stats.
Identities = 19/74 (25%), Positives = 33/74 (44%), Gaps = 5/74 (6%)
Query: 357 SSGENKGDAVAVSILVGADFVGCLTGSGSSAVSEMEDVTGTDIKLVGGEQVLGCAAQNDV 416
S G+ G + + + D G + G G + ++ +G IK+ E + G D
Sbjct: 5 SYGDLGGPIITTQVTIPKDLAGSIIGKGGQRIKQIRHESGASIKI--DEPLEG---SEDR 59
Query: 417 VIQISGEYKNVQNA 430
+I I+G +QNA
Sbjct: 60 IITITGTQDQIQNA 73
>pdb|1ZZI|A Chain A, Crystal Structure Analysis Of The Third Kh Domain Of Hnrnp
K In Complex With Ssdna
pdb|1ZZI|B Chain B, Crystal Structure Analysis Of The Third Kh Domain Of Hnrnp
K In Complex With Ssdna
pdb|1ZZJ|A Chain A, Structure Of The Third Kh Domain Of Hnrnp K In Complex
With 15-Mer Ssdna
pdb|1ZZJ|B Chain B, Structure Of The Third Kh Domain Of Hnrnp K In Complex
With 15-Mer Ssdna
pdb|1ZZJ|C Chain C, Structure Of The Third Kh Domain Of Hnrnp K In Complex
With 15-Mer Ssdna
pdb|1ZZK|A Chain A, Crystal Structure Of The Third Kh Domain Of Hnrnp K At
0.95a Resolution
Length = 82
Score = 35.4 bits (80), Expect = 0.077, Method: Composition-based stats.
Identities = 20/59 (33%), Positives = 32/59 (54%), Gaps = 6/59 (10%)
Query: 285 ASGIIGKRGAIVRSLQNASGALISFAAPLTKSGERVVTISALEYLDTRHSPVQNAAVLV 343
A IIGK G ++ +++ SGA I PL S +R++TI+ + +QNA L+
Sbjct: 18 AGSIIGKGGQRIKQIRHESGASIKIDEPLEGSEDRIITITGTQ------DQIQNAQYLL 70
Score = 28.9 bits (63), Expect = 7.1, Method: Composition-based stats.
Identities = 17/68 (25%), Positives = 30/68 (44%), Gaps = 5/68 (7%)
Query: 363 GDAVAVSILVGADFVGCLTGSGSSAVSEMEDVTGTDIKLVGGEQVLGCAAQNDVVIQISG 422
G + + + D G + G G + ++ +G IK+ E + G D +I I+G
Sbjct: 4 GPIITTQVTIPKDLAGSIIGKGGQRIKQIRHESGASIKI--DEPLEG---SEDRIITITG 58
Query: 423 EYKNVQNA 430
+QNA
Sbjct: 59 TQDQIQNA 66
>pdb|2ANN|A Chain A, Crystal Structure (I) Of Nova-1 Kh1KH2 DOMAIN TANDEM WITH
25 NT RNA Hairpin
Length = 178
Score = 35.4 bits (80), Expect = 0.079, Method: Compositional matrix adjust.
Identities = 45/182 (24%), Positives = 76/182 (41%), Gaps = 29/182 (15%)
Query: 276 LRMLFSGWTASGIIGKRGAIVRSLQNASGALISFAAP---LTKSGERVVTIS-ALEYLDT 331
L++L + A IIGK G + LQ +GA I + + ERV I +E L+
Sbjct: 8 LKVLIPSYAAGSIIGKGGQTIVQLQKETGATIKLSKSKDFYPGTTERVCLIQGTIEALNA 67
Query: 332 RHSPV--------QNAA----VLVFARSVEVEGQQGFSSGENKGDAVAVSILVGADFVGC 379
H + QN A V + V N A V I+V G
Sbjct: 68 VHGFIAEKIREMPQNVAKTEPVSILQPQTTV----------NPDRANQVKIIVPNSTAGL 117
Query: 380 LTGSGSSAVSEMEDVTGTDIKLVGGEQVLGCAAQNDVVIQISGEYKNVQNALSEVVGRLR 439
+ G G + V + + +G ++L ++ G QN VV +SGE + + A+ ++ +++
Sbjct: 118 IIGKGGATVKAIMEQSGAWVQL--SQKPDGINLQNRVVT-VSGEPEQNRKAVELIIQKIQ 174
Query: 440 HN 441
+
Sbjct: 175 ED 176
>pdb|1KHM|A Chain A, C-Terminal Kh Domain Of Hnrnp K (Kh3)
Length = 89
Score = 35.0 bits (79), Expect = 0.098, Method: Composition-based stats.
Identities = 20/59 (33%), Positives = 32/59 (54%), Gaps = 6/59 (10%)
Query: 285 ASGIIGKRGAIVRSLQNASGALISFAAPLTKSGERVVTISALEYLDTRHSPVQNAAVLV 343
A IIGK G ++ +++ SGA I PL S +R++TI+ + +QNA L+
Sbjct: 25 ARSIIGKGGQRIKQIRHESGASIKIDEPLEGSEDRIITITGTQ------DQIQNAQYLL 77
>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 = 33.5 bits (75), Expect = 0.28, Method: Composition-based stats.
Identities = 17/52 (32%), Positives = 30/52 (57%), Gaps = 2/52 (3%)
Query: 274 VALRMLFSGWTASGIIGKRGAIVRSLQNASGALISFAAPLTKSGERVVTISA 325
+ +R+L G IIGK+G V+ ++ SGA I+ + S ER++T++
Sbjct: 3 LTIRLLMHGKEVGSIIGKKGESVKRIREESGARINISE--GNSPERIITLTG 52
>pdb|2P2R|A Chain A, Crystal Structure Of The Third Kh Domain Of Human Poly(C)-
Binding Protein-2 In Complex With C-Rich Strand Of Human
Telomeric Dna
Length = 76
Score = 33.5 bits (75), Expect = 0.34, Method: Composition-based stats.
Identities = 16/38 (42%), Positives = 24/38 (63%)
Query: 288 IIGKRGAIVRSLQNASGALISFAAPLTKSGERVVTISA 325
IIG++GA + ++ SGA I A P+ S +R VTI+
Sbjct: 19 IIGRQGAKINEIRQXSGAQIKIANPVEGSTDRQVTITG 56
>pdb|1WVN|A Chain A, Crsytal Structure Of Domain 3 Of Human Alpha Polyc Binding
Protein
Length = 82
Score = 31.6 bits (70), Expect = 1.2, Method: Composition-based stats.
Identities = 16/38 (42%), Positives = 23/38 (60%)
Query: 288 IIGKRGAIVRSLQNASGALISFAAPLTKSGERVVTISA 325
IIG++GA + ++ SGA I A P+ S R VTI+
Sbjct: 20 IIGRQGANINEIRQMSGAQIKIANPVEGSSGRQVTITG 57
>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 = 31.2 bits (69), Expect = 1.4, Method: Composition-based stats.
Identities = 16/52 (30%), Positives = 29/52 (55%), Gaps = 2/52 (3%)
Query: 274 VALRMLFSGWTASGIIGKRGAIVRSLQNASGALISFAAPLTKSGERVVTISA 325
+ +R+L G IIGK+G V+ ++ SGA I+ + ER++T++
Sbjct: 3 LTIRLLMHGKEVGSIIGKKGESVKRIREESGARINISE--GNCPERIITLTG 52
>pdb|2AXY|A Chain A, Crystal Structure Of Kh1 Domain Of Human Poly(C)-Binding
Protein-2 With C-Rich Strand Of Human Telomeric Dna
pdb|2AXY|B Chain B, Crystal Structure Of Kh1 Domain Of Human Poly(C)-Binding
Protein-2 With C-Rich Strand Of Human Telomeric Dna
pdb|2AXY|C Chain C, Crystal Structure Of Kh1 Domain Of Human Poly(C)-Binding
Protein-2 With C-Rich Strand Of Human Telomeric Dna
pdb|2AXY|D Chain D, Crystal Structure Of Kh1 Domain Of Human Poly(C)-Binding
Protein-2 With C-Rich Strand Of Human Telomeric Dna
pdb|2PQU|A Chain A, Crystal Structure Of Kh1 Domain Of Human Pcbp2 Complexed
To Single- Stranded 12-Mer Telomeric Dna
pdb|2PQU|B Chain B, Crystal Structure Of Kh1 Domain Of Human Pcbp2 Complexed
To Single- Stranded 12-Mer Telomeric Dna
pdb|2PQU|C Chain C, Crystal Structure Of Kh1 Domain Of Human Pcbp2 Complexed
To Single- Stranded 12-Mer Telomeric Dna
pdb|2PQU|D Chain D, Crystal Structure Of Kh1 Domain Of Human Pcbp2 Complexed
To Single- Stranded 12-Mer Telomeric Dna
pdb|2PY9|A Chain A, Protein-Rna Interaction Involving Kh1 Domain From Human
Poly(C)-Binding Protein-2
pdb|2PY9|B Chain B, Protein-Rna Interaction Involving Kh1 Domain From Human
Poly(C)-Binding Protein-2
pdb|2PY9|C Chain C, Protein-Rna Interaction Involving Kh1 Domain From Human
Poly(C)-Binding Protein-2
pdb|2PY9|D Chain D, Protein-Rna Interaction Involving Kh1 Domain From Human
Poly(C)-Binding Protein-2
Length = 73
Score = 29.3 bits (64), Expect = 5.1, Method: Composition-based stats.
Identities = 16/52 (30%), Positives = 28/52 (53%), Gaps = 2/52 (3%)
Query: 274 VALRMLFSGWTASGIIGKRGAIVRSLQNASGALISFAAPLTKSGERVVTISA 325
+ +R+L G IIGK+G V+ + SGA I+ + ER++T++
Sbjct: 5 LTIRLLXHGKEVGSIIGKKGESVKKXREESGARINISE--GNCPERIITLAG 54
>pdb|2FHB|A Chain A, Crystal Structure Analysis Of Klebsiella Pneumoniae
Pullulanase Complexed With Maltose
pdb|2FHC|A Chain A, Crystal Structure Analysis Of Klebsiella Pneumoniae
Pullulanase Complexed With Maltotriose
pdb|2FHF|A Chain A, Crystal Structure Analysis Of Klebsiella Pneumoniae
Pullulanase Complexed With Maltotetraose
Length = 1083
Score = 28.9 bits (63), Expect = 7.9, Method: Compositional matrix adjust.
Identities = 29/112 (25%), Positives = 51/112 (45%), Gaps = 6/112 (5%)
Query: 212 NRPIEKVFYSNSS----DPHREFFPHLSLVPPLTGNPSDNASEFHSSSADADR--DHPGL 265
N+PI +++YS+SS D + EF + P T N + H +S A + D +
Sbjct: 194 NKPIVRLYYSHSSKVAADSNGEFSDKYVKLTPTTVNQQVSMRFPHLASYPAFKLPDDVNV 253
Query: 266 DKKGRKQEVALRMLFSGWTASGIIGKRGAIVRSLQNASGALISFAAPLTKSG 317
D+ + + VA+ G +S + ++ A+ +S+ A LT SG
Sbjct: 254 DELLQGETVAIAAESDGILSSATQVQTAGVLDDTYAAAAEALSYGAQLTDSG 305
>pdb|2FH8|A Chain A, Crystal Structure Analysis Of Klebsiella Pneumoniae
Pullulanase Complexed With Isomaltose
Length = 922
Score = 28.9 bits (63), Expect = 8.2, Method: Compositional matrix adjust.
Identities = 29/112 (25%), Positives = 51/112 (45%), Gaps = 6/112 (5%)
Query: 212 NRPIEKVFYSNSS----DPHREFFPHLSLVPPLTGNPSDNASEFHSSSADADR--DHPGL 265
N+PI +++YS+SS D + EF + P T N + H +S A + D +
Sbjct: 33 NKPIVRLYYSHSSKVAADSNGEFSDKYVKLTPTTVNQQVSMRFPHLASYPAFKLPDDVNV 92
Query: 266 DKKGRKQEVALRMLFSGWTASGIIGKRGAIVRSLQNASGALISFAAPLTKSG 317
D+ + + VA+ G +S + ++ A+ +S+ A LT SG
Sbjct: 93 DELLQGETVAIAAESDGILSSATQVQTAGVLDDTYAAAAEALSYGAQLTDSG 144
>pdb|2FH6|A Chain A, Crystal Structure Analysis Of Klebsiella Pneumoniae
Pullulanase Complexed With Glucose
Length = 920
Score = 28.5 bits (62), Expect = 8.5, Method: Compositional matrix adjust.
Identities = 29/112 (25%), Positives = 51/112 (45%), Gaps = 6/112 (5%)
Query: 212 NRPIEKVFYSNSS----DPHREFFPHLSLVPPLTGNPSDNASEFHSSSADADR--DHPGL 265
N+PI +++YS+SS D + EF + P T N + H +S A + D +
Sbjct: 31 NKPIVRLYYSHSSKVAADSNGEFSDKYVKLTPTTVNQQVSMRFPHLASYPAFKLPDDVNV 90
Query: 266 DKKGRKQEVALRMLFSGWTASGIIGKRGAIVRSLQNASGALISFAAPLTKSG 317
D+ + + VA+ G +S + ++ A+ +S+ A LT SG
Sbjct: 91 DELLQGETVAIAAESDGILSSATQVQTAGVLDDTYAAAAEALSYGAQLTDSG 142
>pdb|2FGZ|A Chain A, Crystal Structure Analysis Of Apo Pullulanase From
Klebsiella Pneumoniae
Length = 926
Score = 28.5 bits (62), Expect = 8.8, Method: Compositional matrix adjust.
Identities = 29/112 (25%), Positives = 51/112 (45%), Gaps = 6/112 (5%)
Query: 212 NRPIEKVFYSNSS----DPHREFFPHLSLVPPLTGNPSDNASEFHSSSADADR--DHPGL 265
N+PI +++YS+SS D + EF + P T N + H +S A + D +
Sbjct: 37 NKPIVRLYYSHSSKVAADSNGEFSDKYVKLTPTTVNQQVSMRFPHLASYPAFKLPDDVNV 96
Query: 266 DKKGRKQEVALRMLFSGWTASGIIGKRGAIVRSLQNASGALISFAAPLTKSG 317
D+ + + VA+ G +S + ++ A+ +S+ A LT SG
Sbjct: 97 DELLQGETVAIAAESDGILSSATQVQTAGVLDDTYAAAAEALSYGAQLTDSG 148
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
0.319 0.135 0.399
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 13,519,976
Number of Sequences: 62578
Number of extensions: 491134
Number of successful extensions: 1060
Number of sequences better than 100.0: 21
Number of HSP's better than 100.0 without gapping: 8
Number of HSP's successfully gapped in prelim test: 13
Number of HSP's that attempted gapping in prelim test: 1040
Number of HSP's gapped (non-prelim): 29
length of query: 528
length of database: 14,973,337
effective HSP length: 103
effective length of query: 425
effective length of database: 8,527,803
effective search space: 3624316275
effective search space used: 3624316275
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: 54 (25.4 bits)