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= 019798
(335 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3SAH|A Chain A, Crystal Structure Of The Human Rrp6 Catalytic Domain With
Y436a Mutation In The Catalytic Site
pdb|3SAH|B Chain B, Crystal Structure Of The Human Rrp6 Catalytic Domain With
Y436a Mutation In The Catalytic Site
Length = 428
Score = 50.8 bits (120), Expect = 1e-06, Method: Compositional matrix adjust.
Identities = 46/167 (27%), Positives = 70/167 (41%), Gaps = 28/167 (16%)
Query: 54 FDCE--GVDLCRH------GSLCIMQLAFPDAIYLVDAIQGGETVVKACKPALESSYITK 105
+C+ VDL H G C+MQ++ +++D ++ + +L I K
Sbjct: 127 LNCQEFAVDLEHHSYRSFLGLTCLMQISTRTEDFIIDTLELRSDMY-ILNESLTDPAIVK 185
Query: 106 VIHDCKRDSEALYFQFGIKLHNVVDTQIAYSLIEEQEGRKRSPDDYISFVGLLADPRYCG 165
V H D E L FG+ + N+ DT A L+ GR S D + YC
Sbjct: 186 VFHGADSDIEWLQKDFGLYVVNMFDTHQAARLL--NLGR-HSLDHLLKL--------YCN 234
Query: 166 ISYQEKEEVRVLLRQDPQFWTYRPLTELMVRAAADDVRFLPYIYHNM 212
+ ++ ++ W RPL E M+ AA DD +L YIY M
Sbjct: 235 VDSNKQYQLAD--------WRIRPLPEEMLSAARDDTHYLLYIYDKM 273
>pdb|2HBJ|A Chain A, Structure Of The Yeast Nuclear Exosome Component, Rrp6p,
Reveals An Interplay Between The Active Site And The
Hrdc Domain
pdb|2HBK|A Chain A, Structure Of The Yeast Nuclear Exosome Component, Rrp6p,
Reveals An Interplay Between The Active Site And The
Hrdc Domain; Protein In Complex With Mn
pdb|2HBL|A Chain A, Structure Of The Yeast Nuclear Exosome Component, Rrp6p,
Reveals An Interplay Between The Active Site And The
Hrdc Domain; Protein In Complex With Mn, Zn, And Amp
pdb|2HBM|A Chain A, Structure Of The Yeast Nuclear Exosome Component, Rrp6p,
Reveals An Interplay Between The Active Site And The
Hrdc Domain; Protein In Complex With Mn, Zn, And Ump
Length = 410
Score = 48.1 bits (113), Expect = 6e-06, Method: Compositional matrix adjust.
Identities = 63/263 (23%), Positives = 105/263 (39%), Gaps = 34/263 (12%)
Query: 19 GKPIDSVVPIHIVTNASQLPAEFLEPSSERQLVIGFDCEGVDL-CRHGSLCIMQLAFPDA 77
K D VPI + T +++L + + + ++ I D E D +G +C+MQ++ +
Sbjct: 79 SKSWDDSVPIWVDT-STELESMLEDLKNTKE--IAVDLEHHDYRSYYGIVCLMQISTRER 135
Query: 78 IYLVDAIQGGETVVKACKPALESSYITKVIHDCKRDSEALYFQFGIKLHNVVDTQIAYSL 137
YLVD ++ E + + I KV H D L G+ + + DT A
Sbjct: 136 DYLVDTLKLREN-LHILNEVFTNPSIVKVFHGAFMDIIWLQRDLGLYVVGLFDTYHASKA 194
Query: 138 IEEQEGRKRSPDDYI--SFVGLLADPRYCGISYQEKEEVRVLLRQDPQFWTYRPLTELMV 195
I G R Y+ +F +Y W RPL++ M
Sbjct: 195 I----GLPRHSLAYLLENFANFKTSKKYQLAD-----------------WRIRPLSKPMT 233
Query: 196 RAAADDVRFLPYIYHNMMKKLNQQSLWYLAVRGALY-CRCFCINENDYVDWPPLPPVPD- 253
AA D FL IY + KL + + + G LY R +Y + PL P +
Sbjct: 234 AAARADTHFLLNIYDQLRNKLIESN----KLAGVLYESRNVAKRRFEYSKYRPLTPSSEV 289
Query: 254 YLIVEGDVPEEEILSILDVPPGK 276
Y +E + P + ++ ++PP +
Sbjct: 290 YSPIEKESPWKILMYQYNIPPER 312
>pdb|3SAF|A Chain A, Crystal Structure Of The Human Rrp6 Catalytic Domain With
D313n Mutation In The Active Site
pdb|3SAF|B Chain B, Crystal Structure Of The Human Rrp6 Catalytic Domain With
D313n Mutation In The Active Site
pdb|3SAG|A Chain A, Crystal Structure Of The Human Rrp6 Catalytic Domain With
D313n Mutation In The Active Site
pdb|3SAG|B Chain B, Crystal Structure Of The Human Rrp6 Catalytic Domain With
D313n Mutation In The Active Site
Length = 428
Score = 47.4 bits (111), Expect = 1e-05, Method: Compositional matrix adjust.
Identities = 40/148 (27%), Positives = 62/148 (41%), Gaps = 20/148 (13%)
Query: 65 GSLCIMQLAFPDAIYLVDAIQGGETVVKACKPALESSYITKVIHDCKRDSEALYFQFGIK 124
G C+MQ++ +++D ++ + +L I KV H D E L FG+
Sbjct: 146 GLTCLMQISTRTEDFIIDTLELRSDMY-ILNESLTDPAIVKVFHGADSDIEWLQKDFGLY 204
Query: 125 LHNVVDTQIAYSLIEEQEGRKRSPDDYISFVGLLADPRYCGISYQEKEEVRVLLRQDPQF 184
+ N+ DT A L+ GR S D + YC + ++ ++
Sbjct: 205 VVNMFDTHQAARLL--NLGR-HSLDHLLKL--------YCNVDSNKQYQLAD-------- 245
Query: 185 WTYRPLTELMVRAAADDVRFLPYIYHNM 212
W RPL E M+ A DD +L YIY M
Sbjct: 246 WRIRPLPEEMLSYARDDTHYLLYIYDKM 273
>pdb|1YT3|A Chain A, Crystal Structure Of Escherichia Coli Rnase D, An
Exoribonuclease Involved In Structured Rna Processing
Length = 375
Score = 38.9 bits (89), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 68/268 (25%), Positives = 96/268 (35%), Gaps = 53/268 (19%)
Query: 51 VIGFDCEGVDL-CRHGSLCIMQLAFPDAIYLVDAIQGGETVVKACKPALESSYITKVIHD 109
I D E V + L ++QL + + L+D + G T K L ITK +H
Sbjct: 24 AIALDTEFVRTRTYYPQLGLIQLFDGEHLALIDPL--GITDWSPLKAILRDPSITKFLHA 81
Query: 110 CKRDSEALYFQFGIKLHNVVDTQIAYSLIEEQEGRKRSPDDYISFVGLLADPRYCGISYQ 169
D E FG ++DTQI + GR S F ++ + Y G++
Sbjct: 82 GSEDLEVFLNVFGELPQPLIDTQILAAFC----GRPMS----WGFASMVEE--YSGVTLD 131
Query: 170 EKEEVRVLLRQDPQFWTYRPLTELMVRAAADDVRFLPYIYHNMMKKLNQQSLWYLAVRGA 229
+ E R D W RPLTE AA DV +L I +M + + S W A
Sbjct: 132 KSES-----RTD---WLARPLTERQCEYAAADVWYLLPITAKLMVE-TEASGWLPAALDE 182
Query: 230 LYCRCFCINENDYV---------------------------DWPPLPPVPDYLIVEGDVP 262
CR + + V DW L V V
Sbjct: 183 --CRLMQMRRQEVVAPEDAWRDITNAWQLRTRQLACLQLLADWRLRKARERDLAVNFVVR 240
Query: 263 EEEILSILDVPPGKMGRI--IGRRGSSI 288
EE + S+ PG +G + +G GS I
Sbjct: 241 EEHLWSVARYMPGSLGELDSLGLSGSEI 268
>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 = 38.5 bits (88), Expect = 0.006, Method: Composition-based stats.
Identities = 19/58 (32%), Positives = 31/58 (53%)
Query: 276 KMGRIIGRRGSSILAIKESCNAEILIGGAKGPPDKVFIIGPVKQVRKAEAMLRGRMLE 333
++G IIG++G S+ I+E A I I P + + GP + KA AM+ ++ E
Sbjct: 13 EVGSIIGKKGESVKRIREESGARINISEGNSPERIITLTGPTNAIFKAFAMIIDKLEE 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 = 38.1 bits (87), Expect = 0.006, Method: Composition-based stats.
Identities = 24/69 (34%), Positives = 37/69 (53%), Gaps = 1/69 (1%)
Query: 266 ILSILDVPPGK-MGRIIGRRGSSILAIKESCNAEILIGGAKGPPDKVFIIGPVKQVRKAE 324
IL+I + GK +G IIG++G S+ I+E A I I P + + GP + KA
Sbjct: 2 ILTIRLLMHGKEVGSIIGKKGESVKRIREESGARINISEGNCPERIITLTGPTNAIFKAF 61
Query: 325 AMLRGRMLE 333
AM+ ++ E
Sbjct: 62 AMIIDKLEE 70
>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 = 32.7 bits (73), Expect = 0.31, Method: Composition-based stats.
Identities = 17/58 (29%), Positives = 29/58 (50%)
Query: 276 KMGRIIGRRGSSILAIKESCNAEILIGGAKGPPDKVFIIGPVKQVRKAEAMLRGRMLE 333
++G IIG++G S+ +E A I I P + + GP + KA A + ++ E
Sbjct: 15 EVGSIIGKKGESVKKXREESGARINISEGNCPERIITLAGPTNAIFKAFAXIIDKLEE 72
>pdb|2JZX|A Chain A, Pcbp2 Kh1-Kh2 Domains
Length = 160
Score = 32.0 bits (71), Expect = 0.45, Method: Compositional matrix adjust.
Identities = 18/58 (31%), Positives = 31/58 (53%)
Query: 276 KMGRIIGRRGSSILAIKESCNAEILIGGAKGPPDKVFIIGPVKQVRKAEAMLRGRMLE 333
++G IIG++G S+ ++E A I I P + + GP + KA AM+ ++ E
Sbjct: 15 EVGSIIGKKGESVKKMREESGARINISEGNCPERIITLAGPTNAIFKAFAMIIDKLEE 72
>pdb|3DDR|A Chain A, Structure Of The Serratia Marcescens Hemophore Receptor
Hasr-Ile671gly Mutant In Complex With Its Hemophore Hasa
And Heme
pdb|3DDR|B Chain B, Structure Of The Serratia Marcescens Hemophore Receptor
Hasr-Ile671gly Mutant In Complex With Its Hemophore Hasa
And Heme
Length = 865
Score = 31.6 bits (70), Expect = 0.61, Method: Compositional matrix adjust.
Identities = 13/46 (28%), Positives = 25/46 (54%)
Query: 32 TNASQLPAEFLEPSSERQLVIGFDCEGVDLCRHGSLCIMQLAFPDA 77
++++Q P FL+P R +GF+ + DL G + ++A+ D
Sbjct: 604 SSSTQYPNPFLQPERSRAWEVGFNVQQPDLWFEGDRLVAKVAYFDT 649
>pdb|3CSL|A Chain A, Structure Of The Serratia Marcescens Hemophore Receptor
Hasr In Complex With Its Hemophore Hasa And Heme
pdb|3CSL|B Chain B, Structure Of The Serratia Marcescens Hemophore Receptor
Hasr In Complex With Its Hemophore Hasa And Heme
pdb|3CSN|A Chain A, Structure Of The Serratia Marcescens Hemophore Receptor
Hasr In Complex With Its Hemophore Hasa
pdb|3CSN|B Chain B, Structure Of The Serratia Marcescens Hemophore Receptor
Hasr In Complex With Its Hemophore Hasa
Length = 865
Score = 31.6 bits (70), Expect = 0.61, Method: Compositional matrix adjust.
Identities = 13/46 (28%), Positives = 25/46 (54%)
Query: 32 TNASQLPAEFLEPSSERQLVIGFDCEGVDLCRHGSLCIMQLAFPDA 77
++++Q P FL+P R +GF+ + DL G + ++A+ D
Sbjct: 604 SSSTQYPNPFLQPERSRAWEVGFNVQQPDLWFEGDRLVAKVAYFDT 649
>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 = 31.6 bits (70), Expect = 0.72, Method: Composition-based stats.
Identities = 20/64 (31%), Positives = 34/64 (53%), Gaps = 2/64 (3%)
Query: 270 LDVPPGKMGRIIGRRGSSILAIKESCNAEILIGG-AKGPPDK-VFIIGPVKQVRKAEAML 327
L +P +G IIGR+G+ I I++ A+I I +G D+ V I G + A+ ++
Sbjct: 9 LTIPNDLIGCIIGRQGAKINEIRQXSGAQIKIANPVEGSTDRQVTITGSAASISLAQYLI 68
Query: 328 RGRM 331
R+
Sbjct: 69 NVRL 72
>pdb|1WVN|A Chain A, Crsytal Structure Of Domain 3 Of Human Alpha Polyc Binding
Protein
Length = 82
Score = 31.2 bits (69), Expect = 0.75, Method: Composition-based stats.
Identities = 20/66 (30%), Positives = 35/66 (53%), Gaps = 6/66 (9%)
Query: 270 LDVPPGKMGRIIGRRGSSILAIKESCNAEILIG----GAKGPPDKVFIIGPVKQVRKAEA 325
L +P +G IIGR+G++I I++ A+I I G+ G +V I G + A+
Sbjct: 10 LTIPNNLIGCIIGRQGANINEIRQMSGAQIKIANPVEGSSG--RQVTITGSAASISLAQY 67
Query: 326 MLRGRM 331
++ R+
Sbjct: 68 LINARL 73
>pdb|3BD9|A Chain A, Human 3-O-Sulfotransferase Isoform 5 With Bound Pap
Length = 280
Score = 30.4 bits (67), Expect = 1.3, Method: Compositional matrix adjust.
Identities = 25/101 (24%), Positives = 46/101 (45%), Gaps = 8/101 (7%)
Query: 142 EGRKRSPDDYISFVGLLADPRYCGISYQEKEEVRVLLRQDPQFW-TYRPLTELMV----R 196
EG++R Y F L DP C ++ + K + + + W Y P+ + V R
Sbjct: 132 EGKERKNKTYYKFEKLAIDPNTCEVNTKYKAVRTSIYTKHLERWLKYFPIEQFHVVDGDR 191
Query: 197 AAADDVRFLPYI--YHNMMKKLNQQSLWYLAVRGALYCRCF 235
+ + L + + N+ +++Q +L++ A RG YC F
Sbjct: 192 LITEPLPELQLVEKFLNLPPRISQYNLYFNATRG-FYCLRF 231
>pdb|2JFB|A Chain A, 3d Structure Of Lumazine Synthase From Candida Albicans
pdb|2JFB|B Chain B, 3d Structure Of Lumazine Synthase From Candida Albicans
pdb|2JFB|C Chain C, 3d Structure Of Lumazine Synthase From Candida Albicans
pdb|2JFB|D Chain D, 3d Structure Of Lumazine Synthase From Candida Albicans
pdb|2JFB|E Chain E, 3d Structure Of Lumazine Synthase From Candida Albicans
pdb|2JFB|F Chain F, 3d Structure Of Lumazine Synthase From Candida Albicans
pdb|2JFB|G Chain G, 3d Structure Of Lumazine Synthase From Candida Albicans
pdb|2JFB|H Chain H, 3d Structure Of Lumazine Synthase From Candida Albicans
pdb|2JFB|I Chain I, 3d Structure Of Lumazine Synthase From Candida Albicans
pdb|2JFB|J Chain J, 3d Structure Of Lumazine Synthase From Candida Albicans
pdb|2JFB|K Chain K, 3d Structure Of Lumazine Synthase From Candida Albicans
pdb|2JFB|L Chain L, 3d Structure Of Lumazine Synthase From Candida Albicans
pdb|2JFB|M Chain M, 3d Structure Of Lumazine Synthase From Candida Albicans
pdb|2JFB|N Chain N, 3d Structure Of Lumazine Synthase From Candida Albicans
pdb|2JFB|O Chain O, 3d Structure Of Lumazine Synthase From Candida Albicans
Length = 164
Score = 30.4 bits (67), Expect = 1.6, Method: Compositional matrix adjust.
Identities = 11/33 (33%), Positives = 22/33 (66%)
Query: 19 GKPIDSVVPIHIVTNASQLPAEFLEPSSERQLV 51
GKP+D+++PI ++ S + E++ S+ QL+
Sbjct: 79 GKPLDAIIPIGVLIKGSTMHFEYICDSTTHQLM 111
>pdb|2OPU|A Chain A, Solution Nmr Structure Of The First Domain Of Ksrp
Length = 89
Score = 30.0 bits (66), Expect = 2.0, Method: Compositional matrix adjust.
Identities = 24/66 (36%), Positives = 33/66 (50%), Gaps = 7/66 (10%)
Query: 272 VPPGKMGRIIGRRGSSILAIKESCNAEILIGGAKG--PPDKVFIIGPVKQVRKAEAML-- 327
VP G +G IIGR G I I++ ++ I G P V + G + V+KA+ ML
Sbjct: 22 VPDGMVGLIIGRGGEQINKIQQDSGCKVQISPDSGGLPERSVSLTGAPESVQKAKMMLDD 81
Query: 328 ---RGR 330
RGR
Sbjct: 82 IVSRGR 87
>pdb|1WE8|A Chain A, Solution Structure Of Kh Domain In Protein Bab28342
Length = 104
Score = 29.6 bits (65), Expect = 2.7, Method: Composition-based stats.
Identities = 14/34 (41%), Positives = 21/34 (61%)
Query: 266 ILSILDVPPGKMGRIIGRRGSSILAIKESCNAEI 299
+ L VP +GRIIGR G +I +I ++ A+I
Sbjct: 15 VFEQLSVPQRSVGRIIGRGGETIRSICKASGAKI 48
>pdb|2Y1H|A Chain A, Crystal Structure Of The Human Tatd-Domain Protein 3
(Tatdn3)
pdb|2Y1H|B Chain B, Crystal Structure Of The Human Tatd-Domain Protein 3
(Tatdn3)
Length = 272
Score = 29.3 bits (64), Expect = 3.1, Method: Compositional matrix adjust.
Identities = 18/51 (35%), Positives = 28/51 (54%), Gaps = 4/51 (7%)
Query: 130 DTQIAYSLIEEQEGRKRSPDDYISFVGLLADPRYCGISYQEKEEVRVLLRQ 180
D +A +IE + R + I VGL PR+ G Q++E+ +VL+RQ
Sbjct: 85 DLDVALPIIENYKDRLLA----IGEVGLDFSPRFAGTGEQKEEQRQVLIRQ 131
>pdb|1J5K|A Chain A, Complex Of The Kh3 Domain Of Hnrnp K With A
Single_stranded 10mer Dna Oligonucleotide
Length = 89
Score = 29.3 bits (64), Expect = 3.2, Method: Composition-based stats.
Identities = 21/72 (29%), Positives = 35/72 (48%), Gaps = 2/72 (2%)
Query: 259 GDVPEEEILSILDVPPGKMGRIIGRRGSSILAIKESCNAEILIGGA-KGPPDKVF-IIGP 316
GD+ I + + +P G IIG+ G I I+ A I I +G D++ I G
Sbjct: 7 GDLGGPIITTQVTIPKDLAGSIIGKGGQRIKQIRHESGASIKIDEPLEGSEDRIITITGT 66
Query: 317 VKQVRKAEAMLR 328
Q++ A+ +L+
Sbjct: 67 QDQIQNAQYLLQ 78
>pdb|1K1G|A Chain A, Structural Basis For Recognition Of The Intron Branch Site
Rna By Splicing Factor 1
Length = 131
Score = 29.3 bits (64), Expect = 3.2, Method: Compositional matrix adjust.
Identities = 12/27 (44%), Positives = 21/27 (77%)
Query: 277 MGRIIGRRGSSILAIKESCNAEILIGG 303
+G +IG RG+++ I++ CNA+I+I G
Sbjct: 24 VGLLIGPRGNTLKNIEKECNAKIMIRG 50
>pdb|2BA0|A Chain A, Archaeal Exosome Core
pdb|2BA0|B Chain B, Archaeal Exosome Core
pdb|2BA0|C Chain C, Archaeal Exosome Core
Length = 229
Score = 28.9 bits (63), Expect = 4.6, Method: Compositional matrix adjust.
Identities = 11/34 (32%), Positives = 23/34 (67%)
Query: 269 ILDVPPGKMGRIIGRRGSSILAIKESCNAEILIG 302
I+ + P ++ R+IG++GS I +K + +I++G
Sbjct: 139 IVAINPARVPRVIGKKGSMIKLLKSELDVQIVVG 172
>pdb|1EJB|A Chain A, Lumazine Synthase From Saccharomyces Cerevisiae
pdb|1EJB|B Chain B, Lumazine Synthase From Saccharomyces Cerevisiae
pdb|1EJB|C Chain C, Lumazine Synthase From Saccharomyces Cerevisiae
pdb|1EJB|D Chain D, Lumazine Synthase From Saccharomyces Cerevisiae
pdb|1EJB|E Chain E, Lumazine Synthase From Saccharomyces Cerevisiae
Length = 168
Score = 28.5 bits (62), Expect = 4.9, Method: Compositional matrix adjust.
Identities = 11/33 (33%), Positives = 20/33 (60%)
Query: 19 GKPIDSVVPIHIVTNASQLPAEFLEPSSERQLV 51
GKP+D V+PI ++ S + E++ S+ L+
Sbjct: 78 GKPLDVVIPIGVLIKGSTMHFEYISDSTTHALM 110
>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 = 28.1 bits (61), Expect = 7.9, Method: Compositional matrix adjust.
Identities = 13/28 (46%), Positives = 17/28 (60%)
Query: 272 VPPGKMGRIIGRRGSSILAIKESCNAEI 299
VP GK G IIG+ G +I +I + A I
Sbjct: 110 VPTGKTGLIIGKGGETIKSISQQSGARI 137
>pdb|2OPV|A Chain A, Solution Nmr Structure Of The Second Domain Of Ksrp
Length = 85
Score = 27.7 bits (60), Expect = 8.9, Method: Composition-based stats.
Identities = 18/60 (30%), Positives = 32/60 (53%), Gaps = 4/60 (6%)
Query: 272 VPPGKMGRIIGRRGSSILAIKESCNAEILI---GGAKGPPDKVF-IIGPVKQVRKAEAML 327
+P GK G +IG+ G +I ++E ++++ G DK IIG +V++A M+
Sbjct: 20 IPAGKAGLVIGKGGETIKQLQERAGVKMILIQDGSQNTNVDKPLRIIGDPYKVQQACEMV 79
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
0.322 0.140 0.429
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 10,249,448
Number of Sequences: 62578
Number of extensions: 422327
Number of successful extensions: 968
Number of sequences better than 100.0: 28
Number of HSP's better than 100.0 without gapping: 15
Number of HSP's successfully gapped in prelim test: 13
Number of HSP's that attempted gapping in prelim test: 948
Number of HSP's gapped (non-prelim): 31
length of query: 335
length of database: 14,973,337
effective HSP length: 99
effective length of query: 236
effective length of database: 8,778,115
effective search space: 2071635140
effective search space used: 2071635140
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 52 (24.6 bits)