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= 021032
(318 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>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 = 45.1 bits (105), Expect = 5e-05, Method: Composition-based stats.
Identities = 19/64 (29%), Positives = 38/64 (59%)
Query: 246 TIEVVIPQLYMAHVYGENNSNLSHIRQISGANVVVNDPKPGATEGVVMVSGTSDQMRAAQ 305
T +V IP+ + G+ + IR SGA++ +++P G+ + ++ ++GT DQ++ AQ
Sbjct: 8 TTQVTIPKDLAGSIIGKGGQRIKQIRHESGASIKIDEPLEGSEDRIITITGTQDQIQNAQ 67
Query: 306 SLIH 309
L+
Sbjct: 68 YLLQ 71
Score = 34.7 bits (78), Expect = 0.074, Method: Composition-based stats.
Identities = 18/78 (23%), Positives = 41/78 (52%), Gaps = 5/78 (6%)
Query: 25 GQAVVARLLVHSQQIGCLLGRGGHIVSEMRRATGASIRVFPKDQAPRCGSPHDEIVQVIG 84
G + ++ + G ++G+GG + ++R +GASI++ P GS D I+ + G
Sbjct: 4 GPIITTQVTIPKDLAGSIIGKGGQRIKQIRHESGASIKI----DEPLEGS-EDRIITITG 58
Query: 85 NYHSVQDALFHITSRLRE 102
+Q+A + + + +++
Sbjct: 59 TQDQIQNAQYLLQNSVKQ 76
>pdb|1J5K|A Chain A, Complex Of The Kh3 Domain Of Hnrnp K With A
Single_stranded 10mer Dna Oligonucleotide
Length = 89
Score = 44.7 bits (104), Expect = 6e-05, Method: Composition-based stats.
Identities = 19/64 (29%), Positives = 38/64 (59%)
Query: 246 TIEVVIPQLYMAHVYGENNSNLSHIRQISGANVVVNDPKPGATEGVVMVSGTSDQMRAAQ 305
T +V IP+ + G+ + IR SGA++ +++P G+ + ++ ++GT DQ++ AQ
Sbjct: 15 TTQVTIPKDLAGSIIGKGGQRIKQIRHESGASIKIDEPLEGSEDRIITITGTQDQIQNAQ 74
Query: 306 SLIH 309
L+
Sbjct: 75 YLLQ 78
Score = 34.3 bits (77), Expect = 0.088, Method: Composition-based stats.
Identities = 18/78 (23%), Positives = 41/78 (52%), Gaps = 5/78 (6%)
Query: 25 GQAVVARLLVHSQQIGCLLGRGGHIVSEMRRATGASIRVFPKDQAPRCGSPHDEIVQVIG 84
G + ++ + G ++G+GG + ++R +GASI++ P GS D I+ + G
Sbjct: 11 GPIITTQVTIPKDLAGSIIGKGGQRIKQIRHESGASIKI----DEPLEGS-EDRIITITG 65
Query: 85 NYHSVQDALFHITSRLRE 102
+Q+A + + + +++
Sbjct: 66 TQDQIQNAQYLLQNSVKQ 83
>pdb|1WVN|A Chain A, Crsytal Structure Of Domain 3 Of Human Alpha Polyc Binding
Protein
Length = 82
Score = 44.3 bits (103), Expect = 1e-04, Method: Composition-based stats.
Identities = 22/68 (32%), Positives = 41/68 (60%)
Query: 243 TSTTIEVVIPQLYMAHVYGENNSNLSHIRQISGANVVVNDPKPGATEGVVMVSGTSDQMR 302
+ TT E+ IP + + G +N++ IRQ+SGA + + +P G++ V ++G++ +
Sbjct: 4 SQTTHELTIPNNLIGCIIGRQGANINEIRQMSGAQIKIANPVEGSSGRQVTITGSAASIS 63
Query: 303 AAQSLIHA 310
AQ LI+A
Sbjct: 64 LAQYLINA 71
Score = 33.9 bits (76), Expect = 0.13, Method: Composition-based stats.
Identities = 23/76 (30%), Positives = 40/76 (52%), Gaps = 5/76 (6%)
Query: 25 GQAVVARLLVHSQQIGCLLGRGGHIVSEMRRATGASIRVFPKDQAPRCGSPHDEIVQVIG 84
G L + + IGC++GR G ++E+R+ +GA I++ P GS + V + G
Sbjct: 3 GSQTTHELTIPNNLIGCIIGRQGANINEIRQMSGAQIKI----ANPVEGSSGRQ-VTITG 57
Query: 85 NYHSVQDALFHITSRL 100
+ S+ A + I +RL
Sbjct: 58 SAASISLAQYLINARL 73
>pdb|1KHM|A Chain A, C-Terminal Kh Domain Of Hnrnp K (Kh3)
Length = 89
Score = 43.9 bits (102), Expect = 1e-04, Method: Composition-based stats.
Identities = 19/64 (29%), Positives = 38/64 (59%)
Query: 246 TIEVVIPQLYMAHVYGENNSNLSHIRQISGANVVVNDPKPGATEGVVMVSGTSDQMRAAQ 305
T +V IP+ + G+ + IR SGA++ +++P G+ + ++ ++GT DQ++ AQ
Sbjct: 15 TTQVTIPKDLARSIIGKGGQRIKQIRHESGASIKIDEPLEGSEDRIITITGTQDQIQNAQ 74
Query: 306 SLIH 309
L+
Sbjct: 75 YLLQ 78
Score = 31.2 bits (69), Expect = 0.77, Method: Composition-based stats.
Identities = 16/61 (26%), Positives = 35/61 (57%), Gaps = 5/61 (8%)
Query: 42 LLGRGGHIVSEMRRATGASIRVFPKDQAPRCGSPHDEIVQVIGNYHSVQDALFHITSRLR 101
++G+GG + ++R +GASI++ P GS D I+ + G +Q+A + + + ++
Sbjct: 28 IIGKGGQRIKQIRHESGASIKI----DEPLEGS-EDRIITITGTQDQIQNAQYLLQNSVK 82
Query: 102 E 102
+
Sbjct: 83 Q 83
>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 = 42.4 bits (98), Expect = 3e-04, Method: Composition-based stats.
Identities = 20/66 (30%), Positives = 39/66 (59%)
Query: 244 STTIEVVIPQLYMAHVYGENNSNLSHIRQISGANVVVNDPKPGATEGVVMVSGTSDQMRA 303
+T+ E+ IP + + G + ++ IRQ SGA + + +P G+T+ V ++G++ +
Sbjct: 4 TTSHELTIPNDLIGCIIGRQGAKINEIRQXSGAQIKIANPVEGSTDRQVTITGSAASISL 63
Query: 304 AQSLIH 309
AQ LI+
Sbjct: 64 AQYLIN 69
Score = 36.2 bits (82), Expect = 0.027, Method: Composition-based stats.
Identities = 24/76 (31%), Positives = 39/76 (51%), Gaps = 5/76 (6%)
Query: 25 GQAVVARLLVHSQQIGCLLGRGGHIVSEMRRATGASIRVFPKDQAPRCGSPHDEIVQVIG 84
Q L + + IGC++GR G ++E+R+ +GA I++ P GS D V + G
Sbjct: 2 AQTTSHELTIPNDLIGCIIGRQGAKINEIRQXSGAQIKI----ANPVEGST-DRQVTITG 56
Query: 85 NYHSVQDALFHITSRL 100
+ S+ A + I RL
Sbjct: 57 SAASISLAQYLINVRL 72
>pdb|2JZX|A Chain A, Pcbp2 Kh1-Kh2 Domains
Length = 160
Score = 38.1 bits (87), Expect = 0.006, Method: Compositional matrix adjust.
Identities = 21/74 (28%), Positives = 39/74 (52%), Gaps = 7/74 (9%)
Query: 31 RLLVHSQQIGCLLGRGGHIVSEMRRATGASIRVFPKDQAPRCGSPHDEIVQVIGNYHSVQ 90
RLL+H +++G ++G+ G V +MR +GA I + G+ + I+ + G +++
Sbjct: 8 RLLMHGKEVGSIIGKKGESVKKMREESGARINISE-------GNCPERIITLAGPTNAIF 60
Query: 91 DALFHITSRLRETI 104
A I +L E I
Sbjct: 61 KAFAMIIDKLEEDI 74
Score = 36.6 bits (83), Expect = 0.017, Method: Compositional matrix adjust.
Identities = 23/76 (30%), Positives = 40/76 (52%), Gaps = 4/76 (5%)
Query: 28 VVARLLVHSQQIGCLLGRGGHIVSEMRRATGASIRVFPKDQAPRCGSPHDEIVQVIGNYH 87
V RL+V + Q G L+G+GG + E+R +TGA ++V D P + + + + G
Sbjct: 89 VTLRLVVPASQCGSLIGKGGCKIKEIRESTGAQVQV-AGDMLP---NSTERAITIAGIPQ 144
Query: 88 SVQDALFHITSRLRET 103
S+ + + I + ET
Sbjct: 145 SIIECVKQICVVMLET 160
Score = 28.9 bits (63), Expect = 3.6, Method: Compositional matrix adjust.
Identities = 15/52 (28%), Positives = 27/52 (51%), Gaps = 1/52 (1%)
Query: 246 TIEVVIPQLYMAHVYGENNSNLSHIRQISGANV-VVNDPKPGATEGVVMVSG 296
T+ +V+P + G+ + IR+ +GA V V D P +TE + ++G
Sbjct: 90 TLRLVVPASQCGSLIGKGGCKIKEIRESTGAQVQVAGDMLPNSTERAITIAG 141
>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 = 37.4 bits (85), Expect = 0.010, Method: Composition-based stats.
Identities = 20/74 (27%), Positives = 38/74 (51%), Gaps = 7/74 (9%)
Query: 31 RLLVHSQQIGCLLGRGGHIVSEMRRATGASIRVFPKDQAPRCGSPHDEIVQVIGNYHSVQ 90
RLL+H +++G ++G+ G V +R +GA I + G+ + I+ + G +++
Sbjct: 6 RLLMHGKEVGSIIGKKGESVKRIREESGARINISE-------GNSPERIITLTGPTNAIF 58
Query: 91 DALFHITSRLRETI 104
A I +L E I
Sbjct: 59 KAFAMIIDKLEEDI 72
>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 = 37.0 bits (84), Expect = 0.014, Method: Composition-based stats.
Identities = 20/74 (27%), Positives = 38/74 (51%), Gaps = 7/74 (9%)
Query: 31 RLLVHSQQIGCLLGRGGHIVSEMRRATGASIRVFPKDQAPRCGSPHDEIVQVIGNYHSVQ 90
RLL+H +++G ++G+ G V +R +GA I + G+ + I+ + G +++
Sbjct: 6 RLLMHGKEVGSIIGKKGESVKRIREESGARINISE-------GNCPERIITLTGPTNAIF 58
Query: 91 DALFHITSRLRETI 104
A I +L E I
Sbjct: 59 KAFAMIIDKLEEDI 72
>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 = 34.3 bits (77), Expect = 0.082, Method: Composition-based stats.
Identities = 19/72 (26%), Positives = 36/72 (50%), Gaps = 7/72 (9%)
Query: 31 RLLVHSQQIGCLLGRGGHIVSEMRRATGASIRVFPKDQAPRCGSPHDEIVQVIGNYHSVQ 90
RLL H +++G ++G+ G V + R +GA I + G+ + I+ + G +++
Sbjct: 8 RLLXHGKEVGSIIGKKGESVKKXREESGARINISE-------GNCPERIITLAGPTNAIF 60
Query: 91 DALFHITSRLRE 102
A I +L E
Sbjct: 61 KAFAXIIDKLEE 72
>pdb|1X4N|A Chain A, Solution Structure Of Kh Domain In Fuse Binding Protein 1
Length = 92
Score = 34.3 bits (77), Expect = 0.10, Method: Compositional matrix adjust.
Identities = 23/77 (29%), Positives = 38/77 (49%), Gaps = 10/77 (12%)
Query: 39 IGCLLGRGGHIVSEMRRATGASIRVFPKDQAPRCGSPHDEIVQVIGNYHSVQDALFHITS 98
+G ++GRGG +S +++ +G I++ AP G + + G SVQ A
Sbjct: 26 VGFIIGRGGEQISRIQQESGCKIQI-----APDSGGLPERSCMLTGTPESVQSA-----K 75
Query: 99 RLRETIFPMKRPGPNNG 115
RL + I R GP++G
Sbjct: 76 RLLDQIVEKGRSGPSSG 92
>pdb|2ANR|A Chain A, Crystal Structure (Ii) Of Nova-1 Kh1KH2 DOMAIN TANDEM WITH
25NT RNA Hairpin
Length = 178
Score = 33.5 bits (75), Expect = 0.15, Method: Compositional matrix adjust.
Identities = 18/69 (26%), Positives = 36/69 (52%), Gaps = 7/69 (10%)
Query: 247 IEVVIPQLYMAHVYGENNSNLSHIRQISGANVVVNDPK---PGATEGVVMVSGTSDQMRA 303
++V+IP + G+ + +++ +GA + ++ K PG TE V ++ GT + + A
Sbjct: 8 LKVLIPSYAAGSIIGKGGQTIVQLQKETGATIKLSKSKDFYPGTTERVCLIQGTIEALNA 67
Query: 304 AQSLIHAFI 312
+H FI
Sbjct: 68 ----VHGFI 72
Score = 31.2 bits (69), Expect = 0.75, Method: Compositional matrix adjust.
Identities = 10/33 (30%), Positives = 24/33 (72%)
Query: 31 RLLVHSQQIGCLLGRGGHIVSEMRRATGASIRV 63
++L+ S G ++G+GG + ++++ TGA+I++
Sbjct: 9 KVLIPSYAAGSIIGKGGQTIVQLQKETGATIKL 41
Score = 27.7 bits (60), Expect = 8.6, Method: Compositional matrix adjust.
Identities = 18/79 (22%), Positives = 39/79 (49%), Gaps = 3/79 (3%)
Query: 24 PGQAVVARLLVHSQQIGCLLGRGGHIVSEMRRATGASIRVFPKDQAPRCGSPHDEIVQVI 83
P +A +++V + G ++G+GG V + +GA +++ Q P + + +V V
Sbjct: 100 PDRANQVKIIVPNSTAGLIIGKGGATVKAIXEQSGAWVQL---SQKPDGINLQNRVVTVS 156
Query: 84 GNYHSVQDALFHITSRLRE 102
G + A+ I +++E
Sbjct: 157 GEPEQNRKAVELIIQKIQE 175
>pdb|2ANN|A Chain A, Crystal Structure (I) Of Nova-1 Kh1KH2 DOMAIN TANDEM WITH
25 NT RNA Hairpin
Length = 178
Score = 33.5 bits (75), Expect = 0.17, Method: Compositional matrix adjust.
Identities = 18/69 (26%), Positives = 36/69 (52%), Gaps = 7/69 (10%)
Query: 247 IEVVIPQLYMAHVYGENNSNLSHIRQISGANVVVNDPK---PGATEGVVMVSGTSDQMRA 303
++V+IP + G+ + +++ +GA + ++ K PG TE V ++ GT + + A
Sbjct: 8 LKVLIPSYAAGSIIGKGGQTIVQLQKETGATIKLSKSKDFYPGTTERVCLIQGTIEALNA 67
Query: 304 AQSLIHAFI 312
+H FI
Sbjct: 68 ----VHGFI 72
Score = 31.2 bits (69), Expect = 0.81, Method: Compositional matrix adjust.
Identities = 10/33 (30%), Positives = 24/33 (72%)
Query: 31 RLLVHSQQIGCLLGRGGHIVSEMRRATGASIRV 63
++L+ S G ++G+GG + ++++ TGA+I++
Sbjct: 9 KVLIPSYAAGSIIGKGGQTIVQLQKETGATIKL 41
Score = 27.7 bits (60), Expect = 9.8, Method: Compositional matrix adjust.
Identities = 18/79 (22%), Positives = 39/79 (49%), Gaps = 3/79 (3%)
Query: 24 PGQAVVARLLVHSQQIGCLLGRGGHIVSEMRRATGASIRVFPKDQAPRCGSPHDEIVQVI 83
P +A +++V + G ++G+GG V + +GA +++ Q P + + +V V
Sbjct: 100 PDRANQVKIIVPNSTAGLIIGKGGATVKAIMEQSGAWVQL---SQKPDGINLQNRVVTVS 156
Query: 84 GNYHSVQDALFHITSRLRE 102
G + A+ I +++E
Sbjct: 157 GEPEQNRKAVELIIQKIQE 175
>pdb|1J4W|A Chain A, Complex Of The Kh3 And Kh4 Domains Of Fbp With A
Single_stranded 29mer Dna Oligonucleotide From The Fuse
Element Of The C-Myc Oncogene
Length = 174
Score = 30.4 bits (67), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 18/63 (28%), Positives = 30/63 (47%), Gaps = 5/63 (7%)
Query: 39 IGCLLGRGGHIVSEMRRATGASIRVFPKDQAPRCGSPHDEIVQVIGNYHSVQDALFHITS 98
+G ++GR G ++ +++ G I+ P D G+ + I Q+ G Q A IT
Sbjct: 14 VGIVIGRNGEMIKKIQNDAGVRIQFKPDD-----GTTPERIAQITGPPDRAQHAAEIITD 68
Query: 99 RLR 101
LR
Sbjct: 69 LLR 71
>pdb|1DT4|A Chain A, Crystal Structure Of Nova-1 Kh3 K-Homology Rna-Binding
Domain
Length = 73
Score = 30.0 bits (66), Expect = 1.7, Method: Composition-based stats.
Identities = 15/65 (23%), Positives = 32/65 (49%), Gaps = 3/65 (4%)
Query: 247 IEVVIPQLYMAHVYGENNSNLSHIRQISGANVVVNDPK---PGATEGVVMVSGTSDQMRA 303
+E+ +P+ + + G+ L ++++G + ++ PG V ++GT +A
Sbjct: 5 VEIAVPENLVGAILGKGGKTLVEYQELTGCRIQISKKGEFLPGTRNRKVTITGTPAATQA 64
Query: 304 AQSLI 308
AQ LI
Sbjct: 65 AQYLI 69
Score = 29.6 bits (65), Expect = 2.1, Method: Composition-based stats.
Identities = 19/72 (26%), Positives = 33/72 (45%), Gaps = 2/72 (2%)
Query: 29 VARLLVHSQQIGCLLGRGGHIVSEMRRATGASIRVFPKDQAPRCGSPHDEIVQVIGNYHS 88
V + V +G +LG+GG + E + TG I++ K + + V + G +
Sbjct: 4 VVEIAVPENLVGAILGKGGKTLVEYQELTGCRIQISKKGEF--LPGTRNRKVTITGTPAA 61
Query: 89 VQDALFHITSRL 100
Q A + IT R+
Sbjct: 62 TQAAQYLITQRI 73
>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 = 29.3 bits (64), Expect = 2.8, Method: Composition-based stats.
Identities = 15/65 (23%), Positives = 33/65 (50%), Gaps = 3/65 (4%)
Query: 247 IEVVIPQLYMAHVYGENNSNLSHIRQISGANVVVNDPK---PGATEGVVMVSGTSDQMRA 303
+E+ +P+ + + G+ L ++++GA + ++ PG V ++G+ +A
Sbjct: 5 VEIAVPENLVGAILGKGGKTLVEYQELTGARIQISKKGEFLPGTRNRRVTITGSPAATQA 64
Query: 304 AQSLI 308
AQ LI
Sbjct: 65 AQYLI 69
Score = 27.7 bits (60), Expect = 8.1, Method: Composition-based stats.
Identities = 17/62 (27%), Positives = 32/62 (51%), Gaps = 2/62 (3%)
Query: 39 IGCLLGRGGHIVSEMRRATGASIRVFPKDQAPRCGSPHDEIVQVIGNYHSVQDALFHITS 98
+G +LG+GG + E + TGA I++ K + + V + G+ + Q A + I+
Sbjct: 14 VGAILGKGGKTLVEYQELTGARIQISKKGEF--LPGTRNRRVTITGSPAATQAAQYLISQ 71
Query: 99 RL 100
R+
Sbjct: 72 RV 73
>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 = 29.3 bits (64), Expect = 3.0, Method: Composition-based stats.
Identities = 15/65 (23%), Positives = 33/65 (50%), Gaps = 3/65 (4%)
Query: 247 IEVVIPQLYMAHVYGENNSNLSHIRQISGANVVVNDPK---PGATEGVVMVSGTSDQMRA 303
+E+ +P+ + + G+ L ++++GA + ++ PG V ++G+ +A
Sbjct: 5 VEMAVPENLVGAILGKGGKTLVEYQELTGARIQISKKGEFLPGTRNRRVTITGSPAATQA 64
Query: 304 AQSLI 308
AQ LI
Sbjct: 65 AQYLI 69
Score = 28.5 bits (62), Expect = 4.8, Method: Composition-based stats.
Identities = 18/72 (25%), Positives = 35/72 (48%), Gaps = 2/72 (2%)
Query: 29 VARLLVHSQQIGCLLGRGGHIVSEMRRATGASIRVFPKDQAPRCGSPHDEIVQVIGNYHS 88
+ + V +G +LG+GG + E + TGA I++ K + + V + G+ +
Sbjct: 4 LVEMAVPENLVGAILGKGGKTLVEYQELTGARIQISKKGEF--LPGTRNRRVTITGSPAA 61
Query: 89 VQDALFHITSRL 100
Q A + I+ R+
Sbjct: 62 TQAAQYLISQRV 73
>pdb|2GQF|A Chain A, Crystal Structure Of Flavoprotein Hi0933 From Haemophilus
Influenzae Rd
Length = 401
Score = 28.9 bits (63), Expect = 3.7, Method: Compositional matrix adjust.
Identities = 13/33 (39%), Positives = 21/33 (63%), Gaps = 2/33 (6%)
Query: 155 GMGPSQPFDHQAAFSHGMDPMVPPNSDRIPFPY 187
G+G + PF +Q A G+ P++PP + +PF Y
Sbjct: 171 GLGAT-PFGYQIAEQFGI-PVIPPRASLVPFTY 201
>pdb|2OPU|A Chain A, Solution Nmr Structure Of The First Domain Of Ksrp
Length = 89
Score = 28.9 bits (63), Expect = 3.7, Method: Compositional matrix adjust.
Identities = 19/66 (28%), Positives = 35/66 (53%), Gaps = 8/66 (12%)
Query: 39 IGCLLGRGGHIVSEMRRATGASIRVFPKDQAPRCGSPHDEIVQVIGNYHSVQDA---LFH 95
+G ++GRGG ++++++ +G +++ +P G + V + G SVQ A L
Sbjct: 27 VGLIIGRGGEQINKIQQDSGCKVQI-----SPDSGGLPERSVSLTGAPESVQKAKMMLDD 81
Query: 96 ITSRLR 101
I SR R
Sbjct: 82 IVSRGR 87
>pdb|1WE8|A Chain A, Solution Structure Of Kh Domain In Protein Bab28342
Length = 104
Score = 28.5 bits (62), Expect = 5.2, Method: Composition-based stats.
Identities = 20/79 (25%), Positives = 36/79 (45%), Gaps = 5/79 (6%)
Query: 235 SGNHAAILTSTTI---EVVIPQLYMAHVYGENNSNLSHIRQISGANVVVNDPKPGA--TE 289
S + ILT T ++ +PQ + + G + I + SGA + + G
Sbjct: 2 SSGSSGILTENTPVFEQLSVPQRSVGRIIGRGGETIRSICKASGAKITCDKESEGTLLLS 61
Query: 290 GVVMVSGTSDQMRAAQSLI 308
++ +SGT ++ AA+ LI
Sbjct: 62 RLIKISGTQKEVAAAKHLI 80
>pdb|2HH2|A Chain A, Solution Structure Of The Fourth Kh Domain Of Ksrp
Length = 107
Score = 28.1 bits (61), Expect = 7.1, Method: Compositional matrix adjust.
Identities = 16/68 (23%), Positives = 33/68 (48%), Gaps = 2/68 (2%)
Query: 34 VHSQQIGCLLGRGGHIVSEMRRATGASIRVFPKDQAPRCGSPHDEIVQVIGNYHSVQDAL 93
+ + + G ++GRGG V + + TGA + + Q P G P+ ++ + G+ + A
Sbjct: 13 IPTHKCGLVIGRGGENVKAINQQTGAFVEI--SRQLPPNGDPNFKLFIIRGSPQQIDHAK 70
Query: 94 FHITSRLR 101
I ++
Sbjct: 71 QLIEEKIE 78
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 0.136 0.420
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 9,901,617
Number of Sequences: 62578
Number of extensions: 422595
Number of successful extensions: 861
Number of sequences better than 100.0: 22
Number of HSP's better than 100.0 without gapping: 18
Number of HSP's successfully gapped in prelim test: 4
Number of HSP's that attempted gapping in prelim test: 821
Number of HSP's gapped (non-prelim): 41
length of query: 318
length of database: 14,973,337
effective HSP length: 99
effective length of query: 219
effective length of database: 8,778,115
effective search space: 1922407185
effective search space used: 1922407185
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 51 (24.3 bits)