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= 022898
(290 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>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 = 42.7 bits (99), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 22/60 (36%), Positives = 36/60 (60%), Gaps = 3/60 (5%)
Query: 176 AGAIIGKGGVNSKQICRQTGAKLSIRDH---EADPNLRNIELEGSFEQIKQASAMVRELI 232
G IIGKGG K I +Q+GA++ ++ + ADPN++ + G+ +QI A ++ E I
Sbjct: 115 TGLIIGKGGETIKSISQQSGARIELQRNPPPNADPNMKLFTIRGTPQQIDYARQLIEEKI 174
>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 = 42.4 bits (98), Expect = 3e-04, Method: Composition-based stats.
Identities = 22/64 (34%), Positives = 38/64 (59%)
Query: 166 TAKISVDASLAGAIIGKGGVNSKQICRQTGAKLSIRDHEADPNLRNIELEGSFEQIKQAS 225
T ++++ LAG+IIGKGG KQI ++GA + I + R I + G+ +QI+ A
Sbjct: 8 TTQVTIPKDLAGSIIGKGGQRIKQIRHESGASIKIDEPLEGSEDRIITITGTQDQIQNAQ 67
Query: 226 AMVR 229
+++
Sbjct: 68 YLLQ 71
>pdb|1J5K|A Chain A, Complex Of The Kh3 Domain Of Hnrnp K With A
Single_stranded 10mer Dna Oligonucleotide
Length = 89
Score = 42.4 bits (98), Expect = 3e-04, Method: Composition-based stats.
Identities = 22/64 (34%), Positives = 38/64 (59%)
Query: 166 TAKISVDASLAGAIIGKGGVNSKQICRQTGAKLSIRDHEADPNLRNIELEGSFEQIKQAS 225
T ++++ LAG+IIGKGG KQI ++GA + I + R I + G+ +QI+ A
Sbjct: 15 TTQVTIPKDLAGSIIGKGGQRIKQIRHESGASIKIDEPLEGSEDRIITITGTQDQIQNAQ 74
Query: 226 AMVR 229
+++
Sbjct: 75 YLLQ 78
>pdb|2HH2|A Chain A, Solution Structure Of The Fourth Kh Domain Of Ksrp
Length = 107
Score = 41.2 bits (95), Expect = 6e-04, Method: Compositional matrix adjust.
Identities = 24/66 (36%), Positives = 34/66 (51%), Gaps = 3/66 (4%)
Query: 170 SVDASLAGAIIGKGGVNSKQICRQTGAKLSIRDH---EADPNLRNIELEGSFEQIKQASA 226
S+ G +IG+GG N K I +QTGA + I DPN + + GS +QI A
Sbjct: 12 SIPTHKCGLVIGRGGENVKAINQQTGAFVEISRQLPPNGDPNFKLFIIRGSPQQIDHAKQ 71
Query: 227 MVRELI 232
++ E I
Sbjct: 72 LIEEKI 77
>pdb|1M9O|A Chain A, Nmr Structure Of The First Zinc Binding Domain Of
Nup475TTPTIS11
Length = 77
Score = 39.3 bits (90), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 17/35 (48%), Positives = 25/35 (71%), Gaps = 1/35 (2%)
Query: 254 SSNFKTKLCGNFAK-GSCTFGDRCHFAHGAAELRK 287
SS +KT+LC +++ G C +G +C FAHG ELR+
Sbjct: 7 SSRYKTELCRTYSESGRCRYGAKCQFAHGLGELRQ 41
Score = 32.7 bits (73), Expect = 0.21, Method: Compositional matrix adjust.
Identities = 14/29 (48%), Positives = 18/29 (62%), Gaps = 1/29 (3%)
Query: 257 FKTKLCGNFA-KGSCTFGDRCHFAHGAAE 284
+KT+LC F +G C +G RCHF H E
Sbjct: 48 YKTELCHKFKLQGRCPYGSRCHFIHNPTE 76
Score = 30.0 bits (66), Expect = 1.6, Method: Compositional matrix adjust.
Identities = 12/30 (40%), Positives = 18/30 (60%)
Query: 95 VKSRMCNRLNSAEGCKFGDKCHFAHGEWEL 124
K+ +C + + C++G KC FAHG EL
Sbjct: 10 YKTELCRTYSESGRCRYGAKCQFAHGLGEL 39
Score = 29.6 bits (65), Expect = 2.2, Method: Compositional matrix adjust.
Identities = 11/24 (45%), Positives = 15/24 (62%)
Query: 33 KSKPCTKFFSTAGCPFGESCHFLH 56
K++ C KF CP+G CHF+H
Sbjct: 49 KTELCHKFKLQGRCPYGSRCHFIH 72
Score = 27.7 bits (60), Expect = 7.9, Method: Compositional matrix adjust.
Identities = 20/91 (21%), Positives = 32/91 (35%), Gaps = 25/91 (27%)
Query: 33 KSKPCTKFFSTAGCPFGESCHFLHYFPGGYNAVAQMMNLPQAVPAPSRNMAVPPPASNGP 92
K++ C + + C +G C F H + L QA P
Sbjct: 11 KTELCRTYSESGRCRYGAKCQFAH----------GLGELRQANRHPK------------- 47
Query: 93 TVVKSRMCNRLNSAEGCKFGDKCHFAHGEWE 123
K+ +C++ C +G +CHF H E
Sbjct: 48 --YKTELCHKFKLQGRCPYGSRCHFIHNPTE 76
>pdb|1KHM|A Chain A, C-Terminal Kh Domain Of Hnrnp K (Kh3)
Length = 89
Score = 38.9 bits (89), Expect = 0.003, Method: Composition-based stats.
Identities = 21/64 (32%), Positives = 37/64 (57%)
Query: 166 TAKISVDASLAGAIIGKGGVNSKQICRQTGAKLSIRDHEADPNLRNIELEGSFEQIKQAS 225
T ++++ LA +IIGKGG KQI ++GA + I + R I + G+ +QI+ A
Sbjct: 15 TTQVTIPKDLARSIIGKGGQRIKQIRHESGASIKIDEPLEGSEDRIITITGTQDQIQNAQ 74
Query: 226 AMVR 229
+++
Sbjct: 75 YLLQ 78
>pdb|1RGO|A Chain A, Structural Basis For Recognition Of The Mrna Class Ii Au-
Rich Element By The Tandem Zinc Finger Domain Of Tis11d
Length = 70
Score = 38.5 bits (88), Expect = 0.005, Method: Compositional matrix adjust.
Identities = 17/34 (50%), Positives = 25/34 (73%), Gaps = 1/34 (2%)
Query: 254 SSNFKTKLCGNFAK-GSCTFGDRCHFAHGAAELR 286
S+ +KT+LC F + G+C +G++C FAHG ELR
Sbjct: 1 STRYKTELCRPFEESGTCKYGEKCQFAHGFHELR 34
Score = 33.1 bits (74), Expect = 0.16, Method: Compositional matrix adjust.
Identities = 14/32 (43%), Positives = 19/32 (59%)
Query: 93 TVVKSRMCNRLNSAEGCKFGDKCHFAHGEWEL 124
T K+ +C + CK+G+KC FAHG EL
Sbjct: 2 TRYKTELCRPFEESGTCKYGEKCQFAHGFHEL 33
Score = 31.6 bits (70), Expect = 0.49, Method: Compositional matrix adjust.
Identities = 15/30 (50%), Positives = 18/30 (60%), Gaps = 1/30 (3%)
Query: 256 NFKTKLCGNFAK-GSCTFGDRCHFAHGAAE 284
+KT+LC F G C +G RCHF H A E
Sbjct: 41 KYKTELCRTFHTIGFCPYGPRCHFIHNADE 70
Score = 31.6 bits (70), Expect = 0.51, Method: Compositional matrix adjust.
Identities = 19/87 (21%), Positives = 34/87 (39%), Gaps = 25/87 (28%)
Query: 33 KSKPCTKFFSTAGCPFGESCHFLHYFPGGYNAVAQMMNLPQAVPAPSRNMAVPPPASNGP 92
K++ C F + C +GE C F H G++ + + P+
Sbjct: 5 KTELCRPFEESGTCKYGEKCQFAH----GFHELRSLTRHPK------------------- 41
Query: 93 TVVKSRMCNRLNSAEGCKFGDKCHFAH 119
K+ +C ++ C +G +CHF H
Sbjct: 42 --YKTELCRTFHTIGFCPYGPRCHFIH 66
>pdb|2ANN|A Chain A, Crystal Structure (I) Of Nova-1 Kh1KH2 DOMAIN TANDEM WITH
25 NT RNA Hairpin
Length = 178
Score = 37.7 bits (86), Expect = 0.008, Method: Compositional matrix adjust.
Identities = 25/68 (36%), Positives = 36/68 (52%), Gaps = 2/68 (2%)
Query: 167 AKISVDASLAGAIIGKGGVNSKQICRQTGAKLSIRDHEADPNLRN--IELEGSFEQIKQA 224
KI V S AG IIGKGG K I Q+GA + + NL+N + + G EQ ++A
Sbjct: 106 VKIIVPNSTAGLIIGKGGATVKAIMEQSGAWVQLSQKPDGINLQNRVVTVSGEPEQNRKA 165
Query: 225 SAMVRELI 232
++ + I
Sbjct: 166 VELIIQKI 173
Score = 28.9 bits (63), Expect = 3.1, Method: Compositional matrix adjust.
Identities = 19/68 (27%), Positives = 34/68 (50%), Gaps = 3/68 (4%)
Query: 168 KISVDASLAGAIIGKGGVNSKQICRQTGAKLSI---RDHEADPNLRNIELEGSFEQIKQA 224
K+ + + AG+IIGKGG Q+ ++TGA + + +D R ++G+ E +
Sbjct: 9 KVLIPSYAAGSIIGKGGQTIVQLQKETGATIKLSKSKDFYPGTTERVCLIQGTIEALNAV 68
Query: 225 SAMVRELI 232
+ E I
Sbjct: 69 HGFIAEKI 76
>pdb|2ANR|A Chain A, Crystal Structure (Ii) Of Nova-1 Kh1KH2 DOMAIN TANDEM WITH
25NT RNA Hairpin
Length = 178
Score = 37.4 bits (85), Expect = 0.010, Method: Compositional matrix adjust.
Identities = 25/68 (36%), Positives = 36/68 (52%), Gaps = 2/68 (2%)
Query: 167 AKISVDASLAGAIIGKGGVNSKQICRQTGAKLSIRDHEADPNLRN--IELEGSFEQIKQA 224
KI V S AG IIGKGG K I Q+GA + + NL+N + + G EQ ++A
Sbjct: 106 VKIIVPNSTAGLIIGKGGATVKAIXEQSGAWVQLSQKPDGINLQNRVVTVSGEPEQNRKA 165
Query: 225 SAMVRELI 232
++ + I
Sbjct: 166 VELIIQKI 173
Score = 29.3 bits (64), Expect = 3.0, Method: Compositional matrix adjust.
Identities = 19/68 (27%), Positives = 34/68 (50%), Gaps = 3/68 (4%)
Query: 168 KISVDASLAGAIIGKGGVNSKQICRQTGAKLSI---RDHEADPNLRNIELEGSFEQIKQA 224
K+ + + AG+IIGKGG Q+ ++TGA + + +D R ++G+ E +
Sbjct: 9 KVLIPSYAAGSIIGKGGQTIVQLQKETGATIKLSKSKDFYPGTTERVCLIQGTIEALNAV 68
Query: 225 SAMVRELI 232
+ E I
Sbjct: 69 HGFIAEKI 76
>pdb|1X4M|A Chain A, Solution Structure Of Kh Domain In Far Upstream Element
Binding Protein 1
Length = 94
Score = 36.2 bits (82), Expect = 0.024, Method: Composition-based stats.
Identities = 26/70 (37%), Positives = 39/70 (55%), Gaps = 8/70 (11%)
Query: 168 KISVDASLAGAIIGKGGVNSKQICRQTGAKLSI-----RDHEADPNLRNIELEGSFEQIK 222
+I + AS AG +IGKGG KQ+ + G K+ + ++ AD LR + G +++
Sbjct: 18 EIMIPASKAGLVIGKGGETIKQLQERAGVKMVMIQDGPQNTGADKPLR---ITGDPYKVQ 74
Query: 223 QASAMVRELI 232
QA MV ELI
Sbjct: 75 QAKEMVLELI 84
>pdb|3KRM|A Chain A, Imp1 Kh34
pdb|3KRM|B Chain B, Imp1 Kh34
pdb|3KRM|C Chain C, Imp1 Kh34
Length = 163
Score = 35.4 bits (80), Expect = 0.036, Method: Compositional matrix adjust.
Identities = 24/75 (32%), Positives = 40/75 (53%), Gaps = 2/75 (2%)
Query: 169 ISVDASLAGAIIGKGGVNSKQICRQTGAKLSI-RDHEADPNLRNI-ELEGSFEQIKQASA 226
I V AS AG +IGKGG ++ T A++ + RD D N + I ++ G F + A
Sbjct: 89 IRVPASAAGRVIGKGGKTVNELQNLTAAEVVVPRDQTPDENDQVIVKIIGHFYASQMAQR 148
Query: 227 MVRELIVRIGPAHAK 241
+R+++ ++ H K
Sbjct: 149 KIRDILAQVKQQHQK 163
>pdb|2OPU|A Chain A, Solution Nmr Structure Of The First Domain Of Ksrp
Length = 89
Score = 34.7 bits (78), Expect = 0.065, Method: Composition-based stats.
Identities = 19/69 (27%), Positives = 36/69 (52%)
Query: 166 TAKISVDASLAGAIIGKGGVNSKQICRQTGAKLSIRDHEADPNLRNIELEGSFEQIKQAS 225
T + V + G IIG+GG +I + +G K+ I R++ L G+ E +++A
Sbjct: 17 TEEYRVPDGMVGLIIGRGGEQINKIQQDSGCKVQISPDSGGLPERSVSLTGAPESVQKAK 76
Query: 226 AMVRELIVR 234
M+ +++ R
Sbjct: 77 MMLDDIVSR 85
>pdb|1WE8|A Chain A, Solution Structure Of Kh Domain In Protein Bab28342
Length = 104
Score = 34.3 bits (77), Expect = 0.072, Method: Compositional matrix adjust.
Identities = 21/66 (31%), Positives = 39/66 (59%), Gaps = 4/66 (6%)
Query: 168 KISVDASLAGAIIGKGGVNSKQICRQTGAKLSIRDHEADPNL---RNIELEGSFEQIKQA 224
++SV G IIG+GG + IC+ +GAK++ D E++ L R I++ G+ +++ A
Sbjct: 18 QLSVPQRSVGRIIGRGGETIRSICKASGAKITC-DKESEGTLLLSRLIKISGTQKEVAAA 76
Query: 225 SAMVRE 230
++ E
Sbjct: 77 KHLILE 82
>pdb|2OPV|A Chain A, Solution Nmr Structure Of The Second Domain Of Ksrp
Length = 85
Score = 33.9 bits (76), Expect = 0.11, Method: Composition-based stats.
Identities = 21/67 (31%), Positives = 39/67 (58%), Gaps = 2/67 (2%)
Query: 168 KISVDASLAGAIIGKGGVNSKQICRQTGAKLS-IRDHEADPNL-RNIELEGSFEQIKQAS 225
+I + A AG +IGKGG KQ+ + G K+ I+D + N+ + + + G +++QA
Sbjct: 17 EIMIPAGKAGLVIGKGGETIKQLQERAGVKMILIQDGSQNTNVDKPLRIIGDPYKVQQAC 76
Query: 226 AMVRELI 232
MV +++
Sbjct: 77 EMVMDIL 83
>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 = 33.1 bits (74), Expect = 0.18, Method: Composition-based stats.
Identities = 24/79 (30%), Positives = 39/79 (49%), Gaps = 3/79 (3%)
Query: 168 KISVDASLAGAIIGKGGVNSKQICRQTGAKLSI-RDHEADPNLRN--IELEGSFEQIKQA 224
+I+V +L GAI+GKGG + TGA++ I + E P RN + + GS + A
Sbjct: 6 EIAVPENLVGAILGKGGKTLVEYQELTGARIQISKKGEFLPGTRNRRVTITGSPAATQAA 65
Query: 225 SAMVRELIVRIGPAHAKNP 243
++ + + A NP
Sbjct: 66 QYLISQRVTYEQGVRASNP 84
>pdb|2JVZ|A Chain A, Solution Nmr Structure Of The Second And Third Kh Domains
Of Ksrp
Length = 164
Score = 32.3 bits (72), Expect = 0.31, Method: Compositional matrix adjust.
Identities = 21/69 (30%), Positives = 39/69 (56%), Gaps = 2/69 (2%)
Query: 166 TAKISVDASLAGAIIGKGGVNSKQICRQTGAKLS-IRDHEADPNL-RNIELEGSFEQIKQ 223
+I + A AG +IGKGG KQ+ + G K+ I+D + N+ + + + G +++Q
Sbjct: 3 VQEIMIPAGKAGLVIGKGGETIKQLQERAGVKMILIQDGSQNTNVDKPLRIIGDPYKVQQ 62
Query: 224 ASAMVRELI 232
A MV +++
Sbjct: 63 ACEMVMDIL 71
>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 = 32.0 bits (71), Expect = 0.37, Method: Composition-based stats.
Identities = 21/63 (33%), Positives = 35/63 (55%), Gaps = 2/63 (3%)
Query: 166 TAKISVDASLAGAIIGKGGVNSKQICRQTGAKLSIRDHEADPNLRNIELEGSFEQIKQAS 225
T ++ + G+IIGK G + K+I ++GA+++I E + R I L G I +A
Sbjct: 4 TIRLLMHGKEVGSIIGKKGESVKRIREESGARINIS--EGNSPERIITLTGPTNAIFKAF 61
Query: 226 AMV 228
AM+
Sbjct: 62 AMI 64
>pdb|1WVN|A Chain A, Crsytal Structure Of Domain 3 Of Human Alpha Polyc Binding
Protein
Length = 82
Score = 31.2 bits (69), Expect = 0.71, Method: Composition-based stats.
Identities = 17/63 (26%), Positives = 34/63 (53%)
Query: 166 TAKISVDASLAGAIIGKGGVNSKQICRQTGAKLSIRDHEADPNLRNIELEGSFEQIKQAS 225
T ++++ +L G IIG+ G N +I + +GA++ I + + R + + GS I A
Sbjct: 7 THELTIPNNLIGCIIGRQGANINEIRQMSGAQIKIANPVEGSSGRQVTITGSAASISLAQ 66
Query: 226 AMV 228
++
Sbjct: 67 YLI 69
>pdb|2JZX|A Chain A, Pcbp2 Kh1-Kh2 Domains
Length = 160
Score = 30.8 bits (68), Expect = 0.86, Method: Compositional matrix adjust.
Identities = 23/70 (32%), Positives = 36/70 (51%), Gaps = 5/70 (7%)
Query: 166 TAKISVDASLAGAIIGKGGVNSKQICRQTGAKLSIR-DHEADPNLRNIELEG----SFEQ 220
T ++ V AS G++IGKGG K+I TGA++ + D + R I + G E
Sbjct: 90 TLRLVVPASQCGSLIGKGGCKIKEIRESTGAQVQVAGDMLPNSTERAITIAGIPQSIIEC 149
Query: 221 IKQASAMVRE 230
+KQ ++ E
Sbjct: 150 VKQICVVMLE 159
>pdb|2D9M|A Chain A, Solution Structure Of Ccch Type Zinc-Finger Domain 3 In
Zinc Finger Ccch-Type Domain Containing 7a
Length = 69
Score = 30.4 bits (67), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 12/27 (44%), Positives = 17/27 (62%)
Query: 261 LCGNFAKGSCTFGDRCHFAHGAAELRK 287
+C + G+C G+ C FAHG AEL +
Sbjct: 22 ICDRYMNGTCPEGNSCKFAHGNAELHE 48
>pdb|1X4N|A Chain A, Solution Structure Of Kh Domain In Fuse Binding Protein 1
Length = 92
Score = 29.6 bits (65), Expect = 1.8, Method: Composition-based stats.
Identities = 20/75 (26%), Positives = 38/75 (50%), Gaps = 2/75 (2%)
Query: 166 TAKISVDASLAGAIIGKGGVNSKQICRQTGAKLSIRDHEADPNLRNIELEGSFEQIKQAS 225
T + V + G IIG+GG +I +++G K+ I R+ L G+ E ++ A
Sbjct: 16 TEEYKVPDGMVGFIIGRGGEQISRIQQESGCKIQIAPDSGGLPERSCMLTGTPESVQSAK 75
Query: 226 AMVRELIV--RIGPA 238
++ +++ R GP+
Sbjct: 76 RLLDQIVEKGRSGPS 90
>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 = 29.6 bits (65), Expect = 2.1, Method: Composition-based stats.
Identities = 20/68 (29%), Positives = 36/68 (52%), Gaps = 3/68 (4%)
Query: 168 KISVDASLAGAIIGKGGVNSKQICRQTGAKLSI-RDHEADPNLRN--IELEGSFEQIKQA 224
+++V +L GAI+GKGG + TGA++ I + E P RN + + GS + A
Sbjct: 6 EMAVPENLVGAILGKGGKTLVEYQELTGARIQISKKGEFLPGTRNRRVTITGSPAATQAA 65
Query: 225 SAMVRELI 232
++ + +
Sbjct: 66 QYLISQRV 73
>pdb|2F7L|A Chain A, Crystal Structure Of Sulfolobus Tokodaii
PhosphomannomutasePHOSPHOGLUCOMUTASE
pdb|2F7L|B Chain B, Crystal Structure Of Sulfolobus Tokodaii
PhosphomannomutasePHOSPHOGLUCOMUTASE
Length = 455
Score = 28.5 bits (62), Expect = 4.0, Method: Compositional matrix adjust.
Identities = 15/57 (26%), Positives = 30/57 (52%)
Query: 183 GGVNSKQICRQTGAKLSIRDHEADPNLRNIELEGSFEQIKQASAMVRELIVRIGPAH 239
G +++ + R G K+ + DP + E +F+ +K+ + +V+ L V +G AH
Sbjct: 184 GALSTPLVARALGCKIYTINGNLDPLFSARQPEPTFDSLKETAEVVKTLKVDLGVAH 240
>pdb|1DT4|A Chain A, Crystal Structure Of Nova-1 Kh3 K-Homology Rna-Binding
Domain
Length = 73
Score = 28.5 bits (62), Expect = 4.6, Method: Composition-based stats.
Identities = 20/68 (29%), Positives = 35/68 (51%), Gaps = 3/68 (4%)
Query: 168 KISVDASLAGAIIGKGGVNSKQICRQTGAKLSI-RDHEADPNLRN--IELEGSFEQIKQA 224
+I+V +L GAI+GKGG + TG ++ I + E P RN + + G+ + A
Sbjct: 6 EIAVPENLVGAILGKGGKTLVEYQELTGCRIQISKKGEFLPGTRNRKVTITGTPAATQAA 65
Query: 225 SAMVRELI 232
++ + I
Sbjct: 66 QYLITQRI 73
>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 = 28.1 bits (61), Expect = 5.4, Method: Composition-based stats.
Identities = 15/61 (24%), Positives = 30/61 (49%)
Query: 168 KISVDASLAGAIIGKGGVNSKQICRQTGAKLSIRDHEADPNLRNIELEGSFEQIKQASAM 227
++++ L G IIG+ G +I + +GA++ I + R + + GS I A +
Sbjct: 8 ELTIPNDLIGCIIGRQGAKINEIRQXSGAQIKIANPVEGSTDRQVTITGSAASISLAQYL 67
Query: 228 V 228
+
Sbjct: 68 I 68
>pdb|2D9N|A Chain A, Solution Structure Of Ccch Type Zinc-Finger Domain 2 In
Cleavage And Polyadenylation Specificity Factor
Length = 77
Score = 28.1 bits (61), Expect = 5.5, Method: Composition-based stats.
Identities = 12/27 (44%), Positives = 17/27 (62%)
Query: 254 SSNFKTKLCGNFAKGSCTFGDRCHFAH 280
SS KT +C ++ +G C GD+C F H
Sbjct: 5 SSGEKTVVCKHWLRGLCKKGDQCEFLH 31
>pdb|3TXS|A Chain A, Crystal Structure Of Phage 44rr Small Terminase Gp16
pdb|3TXS|B Chain B, Crystal Structure Of Phage 44rr Small Terminase Gp16
pdb|3TXS|C Chain C, Crystal Structure Of Phage 44rr Small Terminase Gp16
pdb|3TXS|D Chain D, Crystal Structure Of Phage 44rr Small Terminase Gp16
Length = 94
Score = 28.1 bits (61), Expect = 5.8, Method: Composition-based stats.
Identities = 14/59 (23%), Positives = 29/59 (49%)
Query: 193 QTGAKLSIRDHEADPNLRNIELEGSFEQIKQASAMVRELIVRIGPAHAKNPATAGSAAH 251
Q A L +RD ++PN R I+ + +E +++ ++++ + +N A S H
Sbjct: 1 QVYAPLVLRDPVSNPNNRKIDQDDDYELVRRNMHYQSQMLLDMAKIALENAKNADSPRH 59
>pdb|2RHK|C Chain C, Crystal Structure Of Influenza A Ns1a Protein In Complex
With F2f3 Fragment Of Human Cellular Factor Cpsf30,
Northeast Structural Genomics Targets Or8c And Hr6309a
pdb|2RHK|D Chain D, Crystal Structure Of Influenza A Ns1a Protein In Complex
With F2f3 Fragment Of Human Cellular Factor Cpsf30,
Northeast Structural Genomics Targets Or8c And Hr6309a
Length = 72
Score = 28.1 bits (61), Expect = 6.3, Method: Composition-based stats.
Identities = 10/23 (43%), Positives = 15/23 (65%)
Query: 258 KTKLCGNFAKGSCTFGDRCHFAH 280
KT +C ++ +G C GD+C F H
Sbjct: 15 KTVVCKHWLRGLCKKGDQCEFLH 37
>pdb|4II1|A Chain A, Crystal Structure Of The Zinc Finger Of Zgpat
pdb|4II1|B Chain B, Crystal Structure Of The Zinc Finger Of Zgpat
pdb|4II1|C Chain C, Crystal Structure Of The Zinc Finger Of Zgpat
pdb|4II1|D Chain D, Crystal Structure Of The Zinc Finger Of Zgpat
Length = 167
Score = 27.7 bits (60), Expect = 7.5, Method: Compositional matrix adjust.
Identities = 19/74 (25%), Positives = 33/74 (44%), Gaps = 10/74 (13%)
Query: 217 SFEQIKQASAMVRELIVRIGPAHAKNPATAGSAAHPLSSNFKTKLCGNFAKGSCTFGDRC 276
S+ ++ +AMV +G A++ + + ++ K C F +G C F + C
Sbjct: 40 SWGTLEYHNAMV------VGTEEAEDGSAGVRVLYLYPTHKSLKPCPFFLEGKCRFKENC 93
Query: 277 HFAHGAA----ELR 286
F+HG ELR
Sbjct: 94 RFSHGQVVSLDELR 107
>pdb|1VIG|A Chain A, Nmr Study Of Vigilin, Repeat 6, 40 Structures
pdb|1VIH|A Chain A, Nmr Study Of Vigilin, Repeat 6, Minimized Average
Structure
Length = 71
Score = 27.7 bits (60), Expect = 7.5, Method: Composition-based stats.
Identities = 19/64 (29%), Positives = 30/64 (46%), Gaps = 2/64 (3%)
Query: 168 KISVDASLAGAIIGKGGVNSKQICRQTGAKLSIRDHEADPNLRNIELEGSFEQIKQASAM 227
+I++D +IGK G N +I Q + I NL I +EG + ++QA
Sbjct: 8 EINIDHKFHRHLIGKSGANINRIKDQYKVSVRIPPDSEKSNL--IRIEGDPQGVQQAKRE 65
Query: 228 VREL 231
+ EL
Sbjct: 66 LLEL 69
>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 = 27.7 bits (60), Expect = 8.6, Method: Compositional matrix adjust.
Identities = 21/63 (33%), Positives = 35/63 (55%), Gaps = 2/63 (3%)
Query: 166 TAKISVDASLAGAIIGKGGVNSKQICRQTGAKLSIRDHEADPNLRNIELEGSFEQIKQAS 225
T ++ + G+IIGK G + K+I ++GA+++I E + R I L G I +A
Sbjct: 4 TIRLLMHGKEVGSIIGKKGESVKRIREESGARINI--SEGNCPERIITLTGPTNAIFKAF 61
Query: 226 AMV 228
AM+
Sbjct: 62 AMI 64
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
0.317 0.132 0.407
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 8,461,773
Number of Sequences: 62578
Number of extensions: 325246
Number of successful extensions: 711
Number of sequences better than 100.0: 37
Number of HSP's better than 100.0 without gapping: 32
Number of HSP's successfully gapped in prelim test: 5
Number of HSP's that attempted gapping in prelim test: 656
Number of HSP's gapped (non-prelim): 57
length of query: 290
length of database: 14,973,337
effective HSP length: 98
effective length of query: 192
effective length of database: 8,840,693
effective search space: 1697413056
effective search space used: 1697413056
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 51 (24.3 bits)