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= 009973
(521 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 = 72.4 bits (176), Expect = 6e-13, Method: Compositional matrix adjust.
Identities = 48/132 (36%), Positives = 75/132 (56%), Gaps = 16/132 (12%)
Query: 132 FRMLVPAQKVGSIIGRKGEFIKKIVEETRARIKILDGPPGTTERAVMISAKEEPESSLPP 191
R+L+ ++VGSIIG+KGE +KK+ EE+ ARI I +G ER + +L
Sbjct: 7 IRLLMHGKEVGSIIGKKGESVKKMREESGARINISEG--NCPERII----------TLAG 54
Query: 192 AMDGLLRVHKRIVDGLDSDSSHAPSGTGGK----VSTKLLVPASQAGSLIGKQGGTVKSI 247
+ + + I+D L+ D S + + + V+ +L+VPASQ GSLIGK G +K I
Sbjct: 55 PTNAIFKAFAMIIDKLEEDISSSMTNSTAASRPPVTLRLVVPASQCGSLIGKGGCKIKEI 114
Query: 248 QEASNCIVRVLG 259
+E++ V+V G
Sbjct: 115 RESTGAQVQVAG 126
Score = 30.8 bits (68), Expect = 1.9, Method: Compositional matrix adjust.
Identities = 19/73 (26%), Positives = 39/73 (53%), Gaps = 7/73 (9%)
Query: 222 VSTKLLVPASQAGSLIGKQGGTVKSIQEASNCIVRVLGAEDLPVFALQDDRVVEVVGDAS 281
++ +LL+ + GS+IGK+G +VK ++E S + + + P +R++ + G +
Sbjct: 5 LTIRLLMHGKEVGSIIGKKGESVKKMREESGARINI-SEGNCP------ERIITLAGPTN 57
Query: 282 GVHKAMELIGSHL 294
+ KA +I L
Sbjct: 58 AIFKAFAMIIDKL 70
Score = 30.0 bits (66), Expect = 3.0, Method: Compositional matrix adjust.
Identities = 18/49 (36%), Positives = 26/49 (53%)
Query: 389 SSNAQSTPSMITQVTQQMQIPLSYADAVIGTAGASISYIRRSSGATVTI 437
SS ST + VT ++ +P S ++IG G I IR S+GA V +
Sbjct: 76 SSMTNSTAASRPPVTLRLVVPASQCGSLIGKGGCKIKEIRESTGAQVQV 124
>pdb|2ANR|A Chain A, Crystal Structure (Ii) Of Nova-1 Kh1KH2 DOMAIN TANDEM WITH
25NT RNA Hairpin
Length = 178
Score = 64.3 bits (155), Expect = 1e-10, Method: Compositional matrix adjust.
Identities = 58/165 (35%), Positives = 85/165 (51%), Gaps = 9/165 (5%)
Query: 132 FRMLVPAQKVGSIIGRKGEFIKKIVEETRARIKI---LDGPPGTTERAVMISAKEEPESS 188
++L+P+ GSIIG+ G+ I ++ +ET A IK+ D PGTTER +I E ++
Sbjct: 8 LKVLIPSYAAGSIIGKGGQTIVQLQKETGATIKLSKSKDFYPGTTERVCLIQGTIEALNA 67
Query: 189 LPPAMDGLLRVHKRIVDGLDSDSSHAPSGTGG---KVSTKLLVPASQAGSLIGKQGGTVK 245
+ + +R + V + S P T K++VP S AG +IGK G TVK
Sbjct: 68 VHGFIAEKIREXPQNVAKTEPVSILQPQTTVNPDRANQVKIIVPNSTAGLIIGKGGATVK 127
Query: 246 SIQEASNCIVRVLGAEDLPVFALQDDRVVEVVGDASGVHKAMELI 290
+I E S V++ D LQ +RVV V G+ KA+ELI
Sbjct: 128 AIXEQSGAWVQLSQKPD--GINLQ-NRVVTVSGEPEQNRKAVELI 169
Score = 35.0 bits (79), Expect = 0.10, Method: Compositional matrix adjust.
Identities = 19/77 (24%), Positives = 39/77 (50%), Gaps = 2/77 (2%)
Query: 219 GGKVSTKLLVPASQAGSLIGKQGGTVKSIQEASNCIVRVLGAEDLPVFALQDDRVVEVVG 278
G + K+L+P+ AGS+IGK G T+ +Q+ + +++ ++D + +RV + G
Sbjct: 3 GSQYFLKVLIPSYAAGSIIGKGGQTIVQLQKETGATIKLSKSKDF--YPGTTERVCLIQG 60
Query: 279 DASGVHKAMELIGSHLR 295
++ I +R
Sbjct: 61 TIEALNAVHGFIAEKIR 77
>pdb|2ANN|A Chain A, Crystal Structure (I) Of Nova-1 Kh1KH2 DOMAIN TANDEM WITH
25 NT RNA Hairpin
Length = 178
Score = 64.3 bits (155), Expect = 1e-10, Method: Compositional matrix adjust.
Identities = 58/165 (35%), Positives = 85/165 (51%), Gaps = 9/165 (5%)
Query: 132 FRMLVPAQKVGSIIGRKGEFIKKIVEETRARIKI---LDGPPGTTERAVMISAKEEPESS 188
++L+P+ GSIIG+ G+ I ++ +ET A IK+ D PGTTER +I E ++
Sbjct: 8 LKVLIPSYAAGSIIGKGGQTIVQLQKETGATIKLSKSKDFYPGTTERVCLIQGTIEALNA 67
Query: 189 LPPAMDGLLRVHKRIVDGLDSDSSHAPSGTGG---KVSTKLLVPASQAGSLIGKQGGTVK 245
+ + +R + V + S P T K++VP S AG +IGK G TVK
Sbjct: 68 VHGFIAEKIREMPQNVAKTEPVSILQPQTTVNPDRANQVKIIVPNSTAGLIIGKGGATVK 127
Query: 246 SIQEASNCIVRVLGAEDLPVFALQDDRVVEVVGDASGVHKAMELI 290
+I E S V++ D LQ +RVV V G+ KA+ELI
Sbjct: 128 AIMEQSGAWVQLSQKPD--GINLQ-NRVVTVSGEPEQNRKAVELI 169
Score = 35.4 bits (80), Expect = 0.086, Method: Compositional matrix adjust.
Identities = 19/79 (24%), Positives = 40/79 (50%), Gaps = 2/79 (2%)
Query: 219 GGKVSTKLLVPASQAGSLIGKQGGTVKSIQEASNCIVRVLGAEDLPVFALQDDRVVEVVG 278
G + K+L+P+ AGS+IGK G T+ +Q+ + +++ ++D + +RV + G
Sbjct: 3 GSQYFLKVLIPSYAAGSIIGKGGQTIVQLQKETGATIKLSKSKDF--YPGTTERVCLIQG 60
Query: 279 DASGVHKAMELIGSHLRKF 297
++ I +R+
Sbjct: 61 TIEALNAVHGFIAEKIREM 79
>pdb|3KRM|A Chain A, Imp1 Kh34
pdb|3KRM|B Chain B, Imp1 Kh34
pdb|3KRM|C Chain C, Imp1 Kh34
Length = 163
Score = 56.2 bits (134), Expect = 5e-08, Method: Compositional matrix adjust.
Identities = 45/132 (34%), Positives = 67/132 (50%), Gaps = 16/132 (12%)
Query: 129 ESVFRMLVPAQKVGSIIGRKGEFIKKIVEETRARIKILDGPPGTTE---RAVMISAKEEP 185
+ + ++ +PAQ VG+IIG+KG+ IK++ A IKI PP T + R V+I+
Sbjct: 2 QEMVQVFIPAQAVGAIIGKKGQHIKQLSRFASASIKI--APPETPDSKVRMVIITG---- 55
Query: 186 ESSLPPAMDGLLRVHKRIVDGLDSDSSHAPSGTGGKVSTKLLVPASQAGSLIGKQGGTVK 245
PP + + RI L ++ P K+ T + VPAS AG +IGK G TV
Sbjct: 56 ----PP--EAQFKAQGRIYGKLKEENFFGPK-EEVKLETHIRVPASAAGRVIGKGGKTVN 108
Query: 246 SIQEASNCIVRV 257
+Q + V V
Sbjct: 109 ELQNLTAAEVVV 120
>pdb|1KHM|A Chain A, C-Terminal Kh Domain Of Hnrnp K (Kh3)
Length = 89
Score = 47.8 bits (112), Expect = 1e-05, Method: Compositional matrix adjust.
Identities = 26/73 (35%), Positives = 40/73 (54%)
Query: 402 VTQQMQIPLSYADAVIGTAGASISYIRRSSGATVTIQETRGVPGEMTVEISGTASQVQTA 461
+T Q+ IP A ++IG G I IR SGA++ I E + + I+GT Q+Q A
Sbjct: 14 ITTQVTIPKDLARSIIGKGGQRIKQIRHESGASIKIDEPLEGSEDRIITITGTQDQIQNA 73
Query: 462 QQLIQNFMAEAAA 474
Q L+QN + + +
Sbjct: 74 QYLLQNSVKQYSG 86
Score = 30.8 bits (68), Expect = 1.8, Method: Compositional matrix adjust.
Identities = 17/52 (32%), Positives = 31/52 (59%)
Query: 133 RMLVPAQKVGSIIGRKGEFIKKIVEETRARIKILDGPPGTTERAVMISAKEE 184
++ +P SIIG+ G+ IK+I E+ A IKI + G+ +R + I+ ++
Sbjct: 17 QVTIPKDLARSIIGKGGQRIKQIRHESGASIKIDEPLEGSEDRIITITGTQD 68
>pdb|1J5K|A Chain A, Complex Of The Kh3 Domain Of Hnrnp K With A
Single_stranded 10mer Dna Oligonucleotide
Length = 89
Score = 47.4 bits (111), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 26/73 (35%), Positives = 40/73 (54%)
Query: 402 VTQQMQIPLSYADAVIGTAGASISYIRRSSGATVTIQETRGVPGEMTVEISGTASQVQTA 461
+T Q+ IP A ++IG G I IR SGA++ I E + + I+GT Q+Q A
Sbjct: 14 ITTQVTIPKDLAGSIIGKGGQRIKQIRHESGASIKIDEPLEGSEDRIITITGTQDQIQNA 73
Query: 462 QQLIQNFMAEAAA 474
Q L+QN + + +
Sbjct: 74 QYLLQNSVKQYSG 86
Score = 35.8 bits (81), Expect = 0.054, Method: Compositional matrix adjust.
Identities = 19/76 (25%), Positives = 42/76 (55%), Gaps = 5/76 (6%)
Query: 222 VSTKLLVPASQAGSLIGKQGGTVKSIQEASNCIVRVLGAEDLPVFALQDDRVVEVVGDAS 281
++T++ +P AGS+IGK G +K I+ S +++ D P+ +DR++ + G
Sbjct: 14 ITTQVTIPKDLAGSIIGKGGQRIKQIRHESGASIKI----DEPLEG-SEDRIITITGTQD 68
Query: 282 GVHKAMELIGSHLRKF 297
+ A L+ + ++++
Sbjct: 69 QIQNAQYLLQNSVKQY 84
Score = 34.3 bits (77), Expect = 0.16, Method: Compositional matrix adjust.
Identities = 18/52 (34%), Positives = 32/52 (61%)
Query: 133 RMLVPAQKVGSIIGRKGEFIKKIVEETRARIKILDGPPGTTERAVMISAKEE 184
++ +P GSIIG+ G+ IK+I E+ A IKI + G+ +R + I+ ++
Sbjct: 17 QVTIPKDLAGSIIGKGGQRIKQIRHESGASIKIDEPLEGSEDRIITITGTQD 68
>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 = 47.0 bits (110), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 26/66 (39%), Positives = 37/66 (56%)
Query: 402 VTQQMQIPLSYADAVIGTAGASISYIRRSSGATVTIQETRGVPGEMTVEISGTASQVQTA 461
+T Q+ IP A ++IG G I IR SGA++ I E + + I+GT Q+Q A
Sbjct: 7 ITTQVTIPKDLAGSIIGKGGQRIKQIRHESGASIKIDEPLEGSEDRIITITGTQDQIQNA 66
Query: 462 QQLIQN 467
Q L+QN
Sbjct: 67 QYLLQN 72
Score = 35.8 bits (81), Expect = 0.057, Method: Compositional matrix adjust.
Identities = 19/76 (25%), Positives = 42/76 (55%), Gaps = 5/76 (6%)
Query: 222 VSTKLLVPASQAGSLIGKQGGTVKSIQEASNCIVRVLGAEDLPVFALQDDRVVEVVGDAS 281
++T++ +P AGS+IGK G +K I+ S +++ D P+ +DR++ + G
Sbjct: 7 ITTQVTIPKDLAGSIIGKGGQRIKQIRHESGASIKI----DEPLEG-SEDRIITITGTQD 61
Query: 282 GVHKAMELIGSHLRKF 297
+ A L+ + ++++
Sbjct: 62 QIQNAQYLLQNSVKQY 77
Score = 33.5 bits (75), Expect = 0.27, Method: Compositional matrix adjust.
Identities = 18/52 (34%), Positives = 32/52 (61%)
Query: 133 RMLVPAQKVGSIIGRKGEFIKKIVEETRARIKILDGPPGTTERAVMISAKEE 184
++ +P GSIIG+ G+ IK+I E+ A IKI + G+ +R + I+ ++
Sbjct: 10 QVTIPKDLAGSIIGKGGQRIKQIRHESGASIKIDEPLEGSEDRIITITGTQD 61
>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 = 44.7 bits (104), Expect = 1e-04, Method: Composition-based stats.
Identities = 26/78 (33%), Positives = 44/78 (56%), Gaps = 12/78 (15%)
Query: 133 RMLVPAQKVGSIIGRKGEFIKKIVEETRARIKILDGPPGTTERAVMISAKEEPESSLPPA 192
R+L+ ++VGSIIG+KGE +K+I EE+ ARI I +G + ER + ++
Sbjct: 6 RLLMHGKEVGSIIGKKGESVKRIREESGARINISEG--NSPERIITLTG----------P 53
Query: 193 MDGLLRVHKRIVDGLDSD 210
+ + + I+D L+ D
Sbjct: 54 TNAIFKAFAMIIDKLEED 71
Score = 33.9 bits (76), Expect = 0.26, Method: Composition-based stats.
Identities = 18/69 (26%), Positives = 36/69 (52%), Gaps = 7/69 (10%)
Query: 222 VSTKLLVPASQAGSLIGKQGGTVKSIQEASNCIVRVLGAEDLPVFALQDDRVVEVVGDAS 281
++ +LL+ + GS+IGK+G +VK I+E S + + +R++ + G +
Sbjct: 3 LTIRLLMHGKEVGSIIGKKGESVKRIREESGARINISEGN-------SPERIITLTGPTN 55
Query: 282 GVHKAMELI 290
+ KA +I
Sbjct: 56 AIFKAFAMI 64
Score = 28.5 bits (62), Expect = 9.7, Method: Composition-based stats.
Identities = 17/57 (29%), Positives = 29/57 (50%), Gaps = 2/57 (3%)
Query: 415 AVIGTAGASISYIRRSSGATVTIQETRGVPGEMTVEISGTASQVQTAQQLIQNFMAE 471
++IG G S+ IR SGA + I E G E + ++G + + A +I + + E
Sbjct: 16 SIIGKKGESVKRIREESGARINISE--GNSPERIITLTGPTNAIFKAFAMIIDKLEE 70
>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 = 44.3 bits (103), Expect = 2e-04, Method: Composition-based stats.
Identities = 26/78 (33%), Positives = 43/78 (55%), Gaps = 12/78 (15%)
Query: 133 RMLVPAQKVGSIIGRKGEFIKKIVEETRARIKILDGPPGTTERAVMISAKEEPESSLPPA 192
R+L+ ++VGSIIG+KGE +K+I EE+ ARI I +G ER + ++
Sbjct: 6 RLLMHGKEVGSIIGKKGESVKRIREESGARINISEG--NCPERIITLTG----------P 53
Query: 193 MDGLLRVHKRIVDGLDSD 210
+ + + I+D L+ D
Sbjct: 54 TNAIFKAFAMIIDKLEED 71
Score = 35.4 bits (80), Expect = 0.085, Method: Composition-based stats.
Identities = 20/71 (28%), Positives = 39/71 (54%), Gaps = 7/71 (9%)
Query: 220 GKVSTKLLVPASQAGSLIGKQGGTVKSIQEASNCIVRVLGAEDLPVFALQDDRVVEVVGD 279
G ++ +LL+ + GS+IGK+G +VK I+E S + + + P +R++ + G
Sbjct: 1 GILTIRLLMHGKEVGSIIGKKGESVKRIREESGARINI-SEGNCP------ERIITLTGP 53
Query: 280 ASGVHKAMELI 290
+ + KA +I
Sbjct: 54 TNAIFKAFAMI 64
>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 = 42.0 bits (97), Expect = 8e-04, Method: Composition-based stats.
Identities = 27/78 (34%), Positives = 41/78 (52%), Gaps = 12/78 (15%)
Query: 133 RMLVPAQKVGSIIGRKGEFIKKIVEETRARIKILDGPPGTTERAVMISAKEEPESSLPPA 192
R+L ++VGSIIG+KGE +KK EE+ ARI I +G ER + +L
Sbjct: 8 RLLXHGKEVGSIIGKKGESVKKXREESGARINISEG--NCPERII----------TLAGP 55
Query: 193 MDGLLRVHKRIVDGLDSD 210
+ + + I+D L+ D
Sbjct: 56 TNAIFKAFAXIIDKLEED 73
Score = 29.6 bits (65), Expect = 3.8, Method: Composition-based stats.
Identities = 18/69 (26%), Positives = 35/69 (50%), Gaps = 7/69 (10%)
Query: 222 VSTKLLVPASQAGSLIGKQGGTVKSIQEASNCIVRVLGAEDLPVFALQDDRVVEVVGDAS 281
++ +LL + GS+IGK+G +VK +E S + + + P +R++ + G +
Sbjct: 5 LTIRLLXHGKEVGSIIGKKGESVKKXREESGARINI-SEGNCP------ERIITLAGPTN 57
Query: 282 GVHKAMELI 290
+ KA I
Sbjct: 58 AIFKAFAXI 66
>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 = 40.0 bits (92), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 37/139 (26%), Positives = 54/139 (38%), Gaps = 9/139 (6%)
Query: 128 GESVFRMLVPAQKVGSIIGRKGEFIKKIVEETRARIKILDGPPGTTERAVMISAKEEPES 187
G + + +P VG +IGR GE IKKI + RI+ T ER I+ +
Sbjct: 1 GSHMIDVPIPRFAVGIVIGRNGEMIKKIQNDAGVRIQFKPDDGTTPERIAQITGPPDRAQ 60
Query: 188 SLPPAMDGLLRVHKRIVDGLDSDSSHAPSGT---------GGKVSTKLLVPASQAGSLIG 238
+ LLR + G GG +VP + G +IG
Sbjct: 61 HAAEIITDLLRSVQAGNPGGPGPGGRGRGRGQGNWNMGPPGGLQEFNFIVPTGKTGLIIG 120
Query: 239 KQGGTVKSIQEASNCIVRV 257
K G T+KSI + S + +
Sbjct: 121 KGGETIKSISQQSGARIEL 139
Score = 37.7 bits (86), Expect = 0.016, Method: Compositional matrix adjust.
Identities = 18/39 (46%), Positives = 25/39 (64%)
Query: 132 FRMLVPAQKVGSIIGRKGEFIKKIVEETRARIKILDGPP 170
F +VP K G IIG+ GE IK I +++ ARI++ PP
Sbjct: 106 FNFIVPTGKTGLIIGKGGETIKSISQQSGARIELQRNPP 144
Score = 31.6 bits (70), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 19/62 (30%), Positives = 28/62 (45%), Gaps = 3/62 (4%)
Query: 408 IPLSYADAVIGTAGASISYIRRSSGATVTIQET---RGVPGEMTVEISGTASQVQTAQQL 464
+P +IG G +I I + SGA + +Q P I GT Q+ A+QL
Sbjct: 110 VPTGKTGLIIGKGGETIKSISQQSGARIELQRNPPPNADPNMKLFTIRGTPQQIDYARQL 169
Query: 465 IQ 466
I+
Sbjct: 170 IE 171
>pdb|1WVN|A Chain A, Crsytal Structure Of Domain 3 Of Human Alpha Polyc Binding
Protein
Length = 82
Score = 39.7 bits (91), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 30/85 (35%), Positives = 44/85 (51%), Gaps = 7/85 (8%)
Query: 400 TQVTQQMQIPLSYADAVIGTAGASISYIRRSSGATVTIQE-TRGVPGEMTVEISGTASQV 458
+Q T ++ IP + +IG GA+I+ IR+ SGA + I G G V I+G+A+ +
Sbjct: 4 SQTTHELTIPNNLIGCIIGRQGANINEIRQMSGAQIKIANPVEGSSGRQ-VTITGSAASI 62
Query: 459 QTAQQLIQNFMAEAAAPSQAQMGAS 483
AQ LI A S+ MG S
Sbjct: 63 SLAQYLI-----NARLSSEKGMGCS 82
Score = 33.5 bits (75), Expect = 0.27, Method: Compositional matrix adjust.
Identities = 17/53 (32%), Positives = 31/53 (58%)
Query: 129 ESVFRMLVPAQKVGSIIGRKGEFIKKIVEETRARIKILDGPPGTTERAVMISA 181
++ + +P +G IIGR+G I +I + + A+IKI + G++ R V I+
Sbjct: 5 QTTHELTIPNNLIGCIIGRQGANINEIRQMSGAQIKIANPVEGSSGRQVTITG 57
Score = 29.6 bits (65), Expect = 3.7, Method: Compositional matrix adjust.
Identities = 20/76 (26%), Positives = 37/76 (48%), Gaps = 5/76 (6%)
Query: 219 GGKVSTKLLVPASQAGSLIGKQGGTVKSIQEASNCIVRVLGAEDLPVFALQDDRVVEVVG 278
G + + +L +P + G +IG+QG + I++ S +++ PV R V + G
Sbjct: 3 GSQTTHELTIPNNLIGCIIGRQGANINEIRQMSGAQIKIAN----PVEG-SSGRQVTITG 57
Query: 279 DASGVHKAMELIGSHL 294
A+ + A LI + L
Sbjct: 58 SAASISLAQYLINARL 73
>pdb|2OPV|A Chain A, Solution Nmr Structure Of The Second Domain Of Ksrp
Length = 85
Score = 38.1 bits (87), Expect = 0.012, Method: Compositional matrix adjust.
Identities = 26/86 (30%), Positives = 50/86 (58%), Gaps = 8/86 (9%)
Query: 213 HAPSGTGGKVSTKLLVPASQAGSLIGKQGGTVKSIQEASNCIVRVL--GAEDLPVFALQD 270
+A G G V ++++PA +AG +IGK G T+K +QE + + ++ G+++ V
Sbjct: 6 NANGGQNGTVQ-EIMIPAGKAGLVIGKGGETIKQLQERAGVKMILIQDGSQNTNV----- 59
Query: 271 DRVVEVVGDASGVHKAMELIGSHLRK 296
D+ + ++GD V +A E++ LR+
Sbjct: 60 DKPLRIIGDPYKVQQACEMVMDILRE 85
Score = 30.0 bits (66), Expect = 3.7, Method: Compositional matrix adjust.
Identities = 18/47 (38%), Positives = 29/47 (61%), Gaps = 5/47 (10%)
Query: 130 SVFRMLVPAQKVGSIIGRKGEFIKKIVEETRARIKIL---DGPPGTT 173
+V +++PA K G +IG+ GE IK++ E RA +K++ DG T
Sbjct: 14 TVQEIMIPAGKAGLVIGKGGETIKQLQE--RAGVKMILIQDGSQNTN 58
>pdb|1WE8|A Chain A, Solution Structure Of Kh Domain In Protein Bab28342
Length = 104
Score = 36.6 bits (83), Expect = 0.032, Method: Composition-based stats.
Identities = 27/86 (31%), Positives = 46/86 (53%), Gaps = 2/86 (2%)
Query: 388 GSSNAQSTPSMITQVTQQMQIPLSYADAVIGTAGASISYIRRSSGATVTI-QETRG-VPG 445
GSS + + T V +Q+ +P +IG G +I I ++SGA +T +E+ G +
Sbjct: 1 GSSGSSGILTENTPVFEQLSVPQRSVGRIIGRGGETIRSICKASGAKITCDKESEGTLLL 60
Query: 446 EMTVEISGTASQVQTAQQLIQNFMAE 471
++ISGT +V A+ LI ++E
Sbjct: 61 SRLIKISGTQKEVAAAKHLILEKVSE 86
>pdb|1X4N|A Chain A, Solution Structure Of Kh Domain In Fuse Binding Protein 1
Length = 92
Score = 36.6 bits (83), Expect = 0.033, Method: Compositional matrix adjust.
Identities = 22/59 (37%), Positives = 31/59 (52%)
Query: 136 VPAQKVGSIIGRKGEFIKKIVEETRARIKILDGPPGTTERAVMISAKEEPESSLPPAMD 194
VP VG IIGR GE I +I +E+ +I+I G ER+ M++ E S +D
Sbjct: 21 VPDGMVGFIIGRGGEQISRIQQESGCKIQIAPDSGGLPERSCMLTGTPESVQSAKRLLD 79
Score = 35.4 bits (80), Expect = 0.083, Method: Compositional matrix adjust.
Identities = 27/91 (29%), Positives = 50/91 (54%), Gaps = 6/91 (6%)
Query: 388 GSSNAQSTPSMITQVTQQMQIPLSYADAVIGTAGASISYIRRSSGATVTIQ-ETRGVPGE 446
GSS Q S++T+ + ++P +IG G IS I++ SG + I ++ G+P E
Sbjct: 4 GSSGHQQQRSVMTE---EYKVPDGMVGFIIGRGGEQISRIQQESGCKIQIAPDSGGLP-E 59
Query: 447 MTVEISGTASQVQTAQQLIQNFMAEA-AAPS 476
+ ++GT VQ+A++L+ + + + PS
Sbjct: 60 RSCMLTGTPESVQSAKRLLDQIVEKGRSGPS 90
>pdb|2OPU|A Chain A, Solution Nmr Structure Of The First Domain Of Ksrp
Length = 89
Score = 36.6 bits (83), Expect = 0.035, Method: Compositional matrix adjust.
Identities = 19/73 (26%), Positives = 37/73 (50%)
Query: 400 TQVTQQMQIPLSYADAVIGTAGASISYIRRSSGATVTIQETRGVPGEMTVEISGTASQVQ 459
T +T++ ++P +IG G I+ I++ SG V I G E +V ++G VQ
Sbjct: 14 TSMTEEYRVPDGMVGLIIGRGGEQINKIQQDSGCKVQISPDSGGLPERSVSLTGAPESVQ 73
Query: 460 TAQQLIQNFMAEA 472
A+ ++ + ++
Sbjct: 74 KAKMMLDDIVSRG 86
Score = 32.7 bits (73), Expect = 0.57, Method: Compositional matrix adjust.
Identities = 19/49 (38%), Positives = 28/49 (57%)
Query: 136 VPAQKVGSIIGRKGEFIKKIVEETRARIKILDGPPGTTERAVMISAKEE 184
VP VG IIGR GE I KI +++ +++I G ER+V ++ E
Sbjct: 22 VPDGMVGLIIGRGGEQINKIQQDSGCKVQISPDSGGLPERSVSLTGAPE 70
>pdb|2JVZ|A Chain A, Solution Nmr Structure Of The Second And Third Kh Domains
Of Ksrp
Length = 164
Score = 36.2 bits (82), Expect = 0.046, Method: Compositional matrix adjust.
Identities = 22/74 (29%), Positives = 45/74 (60%), Gaps = 7/74 (9%)
Query: 225 KLLVPASQAGSLIGKQGGTVKSIQEASNCIVRVL--GAEDLPVFALQDDRVVEVVGDASG 282
++++PA +AG +IGK G T+K +QE + + ++ G+++ V D+ + ++GD
Sbjct: 5 EIMIPAGKAGLVIGKGGETIKQLQERAGVKMILIQDGSQNTNV-----DKPLRIIGDPYK 59
Query: 283 VHKAMELIGSHLRK 296
V +A E++ LR+
Sbjct: 60 VQQACEMVMDILRE 73
Score = 33.5 bits (75), Expect = 0.31, Method: Compositional matrix adjust.
Identities = 36/122 (29%), Positives = 57/122 (46%), Gaps = 9/122 (7%)
Query: 130 SVFRMLVPAQKVGSIIGRKGEFIKKIVEETRAR-IKILDGPPGTT--ERAVMISAKEEPE 186
+V +++PA K G +IG+ GE IK++ E + I I DG T + +I + +
Sbjct: 2 TVQEIMIPAGKAGLVIGKGGETIKQLQERAGVKMILIQDGSQNTNVDKPLRIIGDPYKVQ 61
Query: 187 SSLPPAMDGLLRVHKRIVDGLDSDSSHAPSGTGGKVSTKLLVPASQAGSLIGKQGGTVKS 246
+ MD +LR + G D + S GG + VP G +IG+ G +K
Sbjct: 62 QACEMVMD-ILRERDQ---GGFGDRNEYGSRIGGGIDVP--VPRHSVGVVIGRSGEMIKK 115
Query: 247 IQ 248
IQ
Sbjct: 116 IQ 117
Score = 32.0 bits (71), Expect = 0.96, Method: Compositional matrix adjust.
Identities = 21/57 (36%), Positives = 25/57 (43%), Gaps = 13/57 (22%)
Query: 136 VPAQKVGSIIGRKGEFIKKIVEETRARIKI-------------LDGPPGTTERAVMI 179
VP VG +IGR GE IKKI + RI+ + GPP E A I
Sbjct: 97 VPRHSVGVVIGRSGEMIKKIQNDAGVRIQFKQDDGTGPEKIAHIMGPPDRCEHAARI 153
>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 = 0.048, Method: Compositional matrix adjust.
Identities = 23/70 (32%), Positives = 42/70 (60%), Gaps = 3/70 (4%)
Query: 226 LLVPASQAGSLIGKQGGTVKSIQEASNCIVRVLGAEDLPVFALQDDRVVEVVGDASGVHK 285
+++PAS+AG +IGK G T+K +QE + V+++ +D P D+ + + GD V +
Sbjct: 19 IMIPASKAGLVIGKGGETIKQLQERAG--VKMVMIQDGPQNT-GADKPLRITGDPYKVQQ 75
Query: 286 AMELIGSHLR 295
A E++ +R
Sbjct: 76 AKEMVLELIR 85
Score = 32.3 bits (72), Expect = 0.64, Method: Compositional matrix adjust.
Identities = 19/46 (41%), Positives = 30/46 (65%), Gaps = 5/46 (10%)
Query: 130 SVFRMLVPAQKVGSIIGRKGEFIKKIVEETRARIKIL---DGPPGT 172
+V +++PA K G +IG+ GE IK++ E RA +K++ DGP T
Sbjct: 15 AVQEIMIPASKAGLVIGKGGETIKQLQE--RAGVKMVMIQDGPQNT 58
>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 = 35.8 bits (81), Expect = 0.056, Method: Compositional matrix adjust.
Identities = 18/47 (38%), Positives = 30/47 (63%)
Query: 134 MLVPAQKVGSIIGRKGEFIKKIVEETRARIKILDGPPGTTERAVMIS 180
+ +P +G IIGR+G I +I + + A+IKI + G+T+R V I+
Sbjct: 9 LTIPNDLIGCIIGRQGAKINEIRQXSGAQIKIANPVEGSTDRQVTIT 55
Score = 33.1 bits (74), Expect = 0.38, Method: Compositional matrix adjust.
Identities = 21/63 (33%), Positives = 33/63 (52%)
Query: 403 TQQMQIPLSYADAVIGTAGASISYIRRSSGATVTIQETRGVPGEMTVEISGTASQVQTAQ 462
+ ++ IP +IG GA I+ IR+ SGA + I + V I+G+A+ + AQ
Sbjct: 6 SHELTIPNDLIGCIIGRQGAKINEIRQXSGAQIKIANPVEGSTDRQVTITGSAASISLAQ 65
Query: 463 QLI 465
LI
Sbjct: 66 YLI 68
Score = 30.4 bits (67), Expect = 2.6, Method: Compositional matrix adjust.
Identities = 21/72 (29%), Positives = 34/72 (47%), Gaps = 5/72 (6%)
Query: 223 STKLLVPASQAGSLIGKQGGTVKSIQEASNCIVRVLGAEDLPVFALQDDRVVEVVGDASG 282
S +L +P G +IG+QG + I++ S +++ PV DR V + G A+
Sbjct: 6 SHELTIPNDLIGCIIGRQGAKINEIRQXSGAQIKIAN----PVEG-STDRQVTITGSAAS 60
Query: 283 VHKAMELIGSHL 294
+ A LI L
Sbjct: 61 ISLAQYLINVRL 72
>pdb|2DGR|A Chain A, Solution Structure Of The Second Kh Domain In Ring Finger
And Kh Domain Containing Protein 1
Length = 83
Score = 33.9 bits (76), Expect = 0.24, Method: Compositional matrix adjust.
Identities = 21/74 (28%), Positives = 37/74 (50%), Gaps = 8/74 (10%)
Query: 221 KVSTKLLVPASQAGSLIGKQGGTVKSIQEASNCIVRVLGAEDLPVFALQDDRVVEVVGDA 280
+ + ++ VP G ++G +G T+K IQ+ ++ + G + PVFA V G
Sbjct: 9 QTTIQVRVPYRVVGLVVGPKGATIKRIQQRTHTYIVTPGRDKEPVFA--------VTGMP 60
Query: 281 SGVHKAMELIGSHL 294
V +A E I +H+
Sbjct: 61 ENVDRAREEIEAHI 74
>pdb|4B8T|A Chain A, Rna Binding Protein Solution Structure Of The Third Kh
Domain Of Ksrp In Complex With The G-rich Target
Sequence
Length = 106
Score = 32.3 bits (72), Expect = 0.61, Method: Compositional matrix adjust.
Identities = 21/57 (36%), Positives = 25/57 (43%), Gaps = 13/57 (22%)
Query: 136 VPAQKVGSIIGRKGEFIKKIVEETRARIKI-------------LDGPPGTTERAVMI 179
VP VG +IGR GE IKKI + RI+ + GPP E A I
Sbjct: 17 VPRHSVGVVIGRSGEMIKKIQNDAGVRIQFKQDDGTGPEKIAHIMGPPDRCEHAARI 73
>pdb|2HH3|A Chain A, Solution Structure Of The Third Kh Domain Of Ksrp
Length = 106
Score = 32.3 bits (72), Expect = 0.68, Method: Compositional matrix adjust.
Identities = 21/57 (36%), Positives = 25/57 (43%), Gaps = 13/57 (22%)
Query: 136 VPAQKVGSIIGRKGEFIKKIVEETRARIKI-------------LDGPPGTTERAVMI 179
VP VG +IGR GE IKKI + RI+ + GPP E A I
Sbjct: 17 VPRHSVGVVIGRSGEMIKKIQNDAGVRIQFKQDDGTGPEKIAHIMGPPDRCEHAARI 73
>pdb|2HH2|A Chain A, Solution Structure Of The Fourth Kh Domain Of Ksrp
Length = 107
Score = 30.8 bits (68), Expect = 1.7, Method: Compositional matrix adjust.
Identities = 20/64 (31%), Positives = 28/64 (43%), Gaps = 3/64 (4%)
Query: 406 MQIPLSYADAVIGTAGASISYIRRSSGATVTIQET---RGVPGEMTVEISGTASQVQTAQ 462
IP VIG G ++ I + +GA V I G P I G+ Q+ A+
Sbjct: 11 FSIPTHKCGLVIGRGGENVKAINQQTGAFVEISRQLPPNGDPNFKLFIIRGSPQQIDHAK 70
Query: 463 QLIQ 466
QLI+
Sbjct: 71 QLIE 74
>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 = 30.0 bits (66), Expect = 3.2, Method: Compositional matrix adjust.
Identities = 20/50 (40%), Positives = 29/50 (58%), Gaps = 3/50 (6%)
Query: 134 MLVPAQKVGSIIGRKGEFIKKIVEETRARIKIL---DGPPGTTERAVMIS 180
M VP VG+I+G+ G+ + + E T ARI+I + PGT R V I+
Sbjct: 7 MAVPENLVGAILGKGGKTLVEYQELTGARIQISKKGEFLPGTRNRRVTIT 56
>pdb|3R9W|A Chain A, Crystal Structure Of Era In Complex With Mggdpnp And
Nucleotides 1506- 1542 Of 16s Ribosomal Rna
pdb|3R9X|A Chain A, Crystal Structure Of Era In Complex With Mggdpnp,
Nucleotides 1506- 1542 Of 16s Ribosomal Rna, And Ksga
Length = 307
Score = 29.3 bits (64), Expect = 5.4, Method: Compositional matrix adjust.
Identities = 30/113 (26%), Positives = 55/113 (48%), Gaps = 14/113 (12%)
Query: 75 EDHVPEDQVPEDHVPEDQVPEDIVPEDSQLQEKQENEVNLAVGSTEKKWPGWPGESVFRM 134
E PED + + +P + +IV E + + ++E ++AV E K PG++ M
Sbjct: 183 EPLFPEDMITD--LPLRLLAAEIVREKAMMLTREEVPTSIAVKINEIK----PGDANPNM 236
Query: 135 LVPAQKVGS--------IIGRKGEFIKKIVEETRARIKILDGPPGTTERAVMI 179
LV ++ IIG+KG+ +K+I + R ++++ G P E V +
Sbjct: 237 LVIKGEIIVDRENLKPIIIGKKGQRLKEIGKRARQELELILGRPVYLELWVKV 289
>pdb|3IEV|A Chain A, Crystal Structure Of Era In Complex With Mggnp And The 3'
End Of 16s Rrna
Length = 308
Score = 29.3 bits (64), Expect = 5.5, Method: Compositional matrix adjust.
Identities = 30/113 (26%), Positives = 55/113 (48%), Gaps = 14/113 (12%)
Query: 75 EDHVPEDQVPEDHVPEDQVPEDIVPEDSQLQEKQENEVNLAVGSTEKKWPGWPGESVFRM 134
E PED + + +P + +IV E + + ++E ++AV E K PG++ M
Sbjct: 184 EPLFPEDMITD--LPLRLLAAEIVREKAMMLTREEVPTSIAVKINEIK----PGDANPNM 237
Query: 135 LVPAQKVGS--------IIGRKGEFIKKIVEETRARIKILDGPPGTTERAVMI 179
LV ++ IIG+KG+ +K+I + R ++++ G P E V +
Sbjct: 238 LVIKGEIIVDRENLKPIIIGKKGQRLKEIGKRARQELELILGRPVYLELWVKV 290
>pdb|2NTY|A Chain A, Rop4-Gdp-Prone8
pdb|2NTY|B Chain B, Rop4-Gdp-Prone8
pdb|2WBL|A Chain A, Three-Dimensional Structure Of A Binary Rop-Prone Complex
pdb|2WBL|B Chain B, Three-Dimensional Structure Of A Binary Rop-Prone Complex
Length = 365
Score = 29.3 bits (64), Expect = 5.8, Method: Compositional matrix adjust.
Identities = 17/68 (25%), Positives = 34/68 (50%), Gaps = 5/68 (7%)
Query: 357 YYPPADLPPPMEKQPHQGISAYGREAPVNVHGSSNAQSTPSMITQVTQQMQIPLSYADAV 416
+ PP +PP +P + + + +++ V ++ A + QV +M+IP SY D++
Sbjct: 160 WLPPVKVPPGGLSEPSRRMLYFQKDSVTQVQKAAMA-----INAQVLSEMEIPESYIDSL 214
Query: 417 IGTAGASI 424
AS+
Sbjct: 215 PKNGRASL 222
>pdb|1DT4|A Chain A, Crystal Structure Of Nova-1 Kh3 K-Homology Rna-Binding
Domain
Length = 73
Score = 28.5 bits (62), Expect = 9.1, Method: Composition-based stats.
Identities = 19/56 (33%), Positives = 29/56 (51%), Gaps = 3/56 (5%)
Query: 129 ESVFRMLVPAQKVGSIIGRKGEFIKKIVEETRARIKILDGP---PGTTERAVMISA 181
+ V + VP VG+I+G+ G+ + + E T RI+I PGT R V I+
Sbjct: 2 KDVVEIAVPENLVGAILGKGGKTLVEYQELTGCRIQISKKGEFLPGTRNRKVTITG 57
>pdb|2E3U|A Chain A, Crystal Structure Analysis Of Dim2p From Pyrococcus
Horikoshii Ot3
pdb|3AEV|B Chain B, Crystal Structure Of AEIF2ALPHA-Adim2p-Rrna Complex From
Pyrococcus Horikoshii Ot3
Length = 219
Score = 28.5 bits (62), Expect = 9.2, Method: Compositional matrix adjust.
Identities = 34/136 (25%), Positives = 62/136 (45%), Gaps = 21/136 (15%)
Query: 136 VPAQKVGSIIGRKGEFIKKIVEETRARIKILDGPPGTTERAVMISAKEEPESSLP--PAM 193
+P ++ +IG+KG+ K+I + T+ +I I D G V I++ +E E L A
Sbjct: 40 IPKDRIAVLIGKKGQTKKEIEKRTKTKITI-DSETG----EVWITSTKETEDPLAVWKAR 94
Query: 194 DGLLRVHKRIVDGLDSDSSHAPSGTGGKVS----TKLLVPASQ------AGSLIGKQGGT 243
D +L + + G + + G + T +++ + G +IG++G T
Sbjct: 95 DIVLAIGR----GFSPERAFRLLNEGEYLEIINLTDIIIGNEKNALPRVRGRIIGRKGRT 150
Query: 244 VKSIQEASNCIVRVLG 259
+ I+E S V V G
Sbjct: 151 RQIIEEMSGASVSVYG 166
>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 = 28.5 bits (62), Expect = 9.5, Method: Compositional matrix adjust.
Identities = 19/48 (39%), Positives = 28/48 (58%), Gaps = 3/48 (6%)
Query: 136 VPAQKVGSIIGRKGEFIKKIVEETRARIKIL---DGPPGTTERAVMIS 180
VP VG+I+G+ G+ + + E T ARI+I + PGT R V I+
Sbjct: 9 VPENLVGAILGKGGKTLVEYQELTGARIQISKKGEFLPGTRNRRVTIT 56
>pdb|3AF5|A Chain A, The Crystal Structure Of An Archaeal Cpsf Subunit, Ph1404
From Pyrococcus Horikoshii
pdb|3AF6|A Chain A, The Crystal Structure Of An Archaeal Cpsf Subunit, Ph1404
From Pyrococcus Horikoshii Complexed With Rna-Analog
Length = 651
Score = 28.5 bits (62), Expect = 9.5, Method: Compositional matrix adjust.
Identities = 14/41 (34%), Positives = 26/41 (63%)
Query: 130 SVFRMLVPAQKVGSIIGRKGEFIKKIVEETRARIKILDGPP 170
SV +L+ A+K G +IG+ GE ++ I ++ + K++ PP
Sbjct: 107 SVGEVLIEAKKPGLVIGKNGETLRLITQKVKWAPKVVRTPP 147
>pdb|1E3P|A Chain A, Tungstate Derivative Of Streptomyces Antibioticus Pnpase
Gpsi Enzyme
Length = 757
Score = 28.5 bits (62), Expect = 9.5, Method: Compositional matrix adjust.
Identities = 14/32 (43%), Positives = 20/32 (62%)
Query: 136 VPAQKVGSIIGRKGEFIKKIVEETRARIKILD 167
+P K+G +IG K + I +I E+T A I I D
Sbjct: 604 IPVDKIGEVIGPKRQMINQIQEDTGAEITIED 635
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
0.310 0.129 0.367
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 13,998,092
Number of Sequences: 62578
Number of extensions: 536136
Number of successful extensions: 1304
Number of sequences better than 100.0: 41
Number of HSP's better than 100.0 without gapping: 31
Number of HSP's successfully gapped in prelim test: 10
Number of HSP's that attempted gapping in prelim test: 1211
Number of HSP's gapped (non-prelim): 94
length of query: 521
length of database: 14,973,337
effective HSP length: 103
effective length of query: 418
effective length of database: 8,527,803
effective search space: 3564621654
effective search space used: 3564621654
T: 11
A: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.8 bits)
S2: 54 (25.4 bits)