RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy5031
(281 letters)
>3q5d_A Atlastin-1; G protein, GTPase, GDP/GTP binding, hydrolase; HET:
GDP; 2.70A {Homo sapiens} PDB: 3q5e_A* 3qnu_A* 3qof_A*
Length = 447
Score = 132 bits (331), Expect = 9e-36
Identities = 100/146 (68%), Positives = 119/146 (81%), Gaps = 5/146 (3%)
Query: 136 AFRKGKSFLLDFLLRYMNFTYIEEAPSGDWMGPDDVPLEGFSWRGGSERDTTGILMWSHV 195
AFRKGKSFL+DF+LRYM S DW+G + PL GFSWRGGSER+TTGI +WS +
Sbjct: 75 AFRKGKSFLMDFMLRYMY-----NQESVDWVGDYNEPLTGFSWRGGSERETTGIQIWSEI 129
Query: 196 YIATLPTGEKAAVILLDTQGTFDSESTVRDCATVFALSTMLSSIQIYNLSQNIQEDDLQH 255
++ P G+K AV+L+DTQGTFDS+ST+RD ATVFALSTM+SSIQ+YNLSQN+QEDDLQH
Sbjct: 130 FLINKPDGKKVAVLLMDTQGTFDSQSTLRDSATVFALSTMISSIQVYNLSQNVQEDDLQH 189
Query: 256 LQLFTEYGRLALADTGTKPFQRLQFL 281
LQLFTEYGRLA+ +T KPFQ L FL
Sbjct: 190 LQLFTEYGRLAMEETFLKPFQSLIFL 215
Score = 113 bits (283), Expect = 6e-29
Identities = 65/124 (52%), Positives = 86/124 (69%), Gaps = 5/124 (4%)
Query: 14 EEDSLPQYGAIQIVKSEEKHKFILDYEALERILLQDHVKDKHVVVVSVAGAFRKGKSFLL 73
EE+ + + G +Q++ ++ H F LD AL RILL + V+DK VV VSVAGAFRKGKSFL+
Sbjct: 25 EEEPVKKAGPVQVLIVKDDHSFELDETALNRILLSEAVRDKEVVAVSVAGAFRKGKSFLM 84
Query: 74 DFLLRYMNFTYIEEAPSGDWMGPDDVPLEGFSWRGGSERDTTGILMWSHVYIATLPTGEK 133
DF+LRYM S DW+G + PL GFSWRGGSER+TTGI +WS +++ P G+K
Sbjct: 85 DFMLRYMY-----NQESVDWVGDYNEPLTGFSWRGGSERETTGIQIWSEIFLINKPDGKK 139
Query: 134 VSAF 137
V+
Sbjct: 140 VAVL 143
>1f5n_A Interferon-induced guanylate-binding protein 1; GBP, GTP
hydrolysis, GDP, GMP, dynamin related, large GTPase
family. GMPPNP, GPPNHP.; HET: GNP; 1.70A {Homo sapiens}
SCOP: a.114.1.1 c.37.1.8 PDB: 1dg3_A* 2b8w_A* 2b92_A*
2bc9_A* 2d4h_A*
Length = 592
Score = 103 bits (257), Expect = 4e-25
Identities = 35/144 (24%), Positives = 55/144 (38%), Gaps = 26/144 (18%)
Query: 134 VSAFRKGKSFLLDFLLRYMNFTYIEEAPSGDWMGPDDVPLEGFSWRGGSERDTTGILMWS 193
V +R GKS+L++ L GFS + T GI MW
Sbjct: 44 VGLYRTGKSYLMNKLAGKKK---------------------GFSLGSTVQSHTKGIWMWC 82
Query: 194 HVYIATLPTGEKAAVILLDTQGTFDSE-STVRDCATVFALSTMLSSIQIYNLSQNIQEDD 252
P ++LLDT+G D E ++ + +FAL+ +LSS +YN I +
Sbjct: 83 V----PHPKKPGHILVLLDTEGLGDVEKGDNQNDSWIFALAVLLSSTFVYNSIGTINQQA 138
Query: 253 LQHLQLFTEYGRLALADTGTKPFQ 276
+ L TE + + +
Sbjct: 139 MDQLYYVTELTHRIRSKSSPDENE 162
Score = 74.2 bits (181), Expect = 3e-15
Identities = 22/104 (21%), Positives = 40/104 (38%), Gaps = 26/104 (25%)
Query: 18 LPQYGAIQIVKSEEKHKFILDYEALERILLQDHVKDKHVVVVSVAGAFRKGKSFLLDFLL 77
+ G + ++ + + + EAL+ + + +VVV++ G +R GKS+L++ L
Sbjct: 5 IHMTGPMCLI-ENTNGRLMANPEALKIL----SAITQPMVVVAIVGLYRTGKSYLMNKLA 59
Query: 78 RYMNFTYIEEAPSGDWMGPDDVPLEGFSWRGGSERDTTGILMWS 121
GFS + T GI MW
Sbjct: 60 GKKK---------------------GFSLGSTVQSHTKGIWMWC 82
>1vt4_I APAF-1 related killer DARK; drosophila apoptosome, apoptosis,
programmed cell death; HET: DTP; 6.90A {Drosophila
melanogaster} PDB: 3iz8_A*
Length = 1221
Score = 37.9 bits (87), Expect = 0.003
Identities = 41/321 (12%), Positives = 84/321 (26%), Gaps = 117/321 (36%)
Query: 30 EEKHKFILDYEALERILL-QDHVKDKHVVVVSVAGAFRKGKSFLLDF----LL--RYMNF 82
+ + + +L + E LL +V++ +F + LL R+
Sbjct: 231 QAELRRLLKSKPYENCLLVLLNVQNAKAW-----------NAF--NLSCKILLTTRFKQV 277
Query: 83 TYIEEAPSGDWMGPD---DVPLEGFSWRGGSERDTTGILM-WSHVYIATLPTGEKVSAFR 138
T D++ + L+ S + + +L+ + LP
Sbjct: 278 T--------DFLSAATTTHISLDHHSM-TLTPDEVKSLLLKYLDCRPQDLP-----REVL 323
Query: 139 KGKSFLL--------DFLLRYMNFTY-------------IEEAPSGDWMG--------PD 169
L D L + N+ + + ++ P
Sbjct: 324 TTNPRRLSIIAESIRDGLATWDNWKHVNCDKLTTIIESSLNVLEPAEYRKMFDRLSVFPP 383
Query: 170 DVP-----LEGFSWRGGSERDTTGILM----------WSHVYIATLPTGEKAAVILLDTQ 214
L W + D ++ ++P+ I L+ +
Sbjct: 384 SAHIPTILLSLI-WFDVIKSDVMVVVNKLHKYSLVEKQPKESTISIPS------IYLELK 436
Query: 215 GTFDSESTVRDCATVFALSTMLSSIQIYNLSQNIQEDDLQ--------------HLQLFT 260
++E + S + YN+ + DDL HL+
Sbjct: 437 VKLENEYALHR-----------SIVDHYNIPKTFDSDDLIPPYLDQYFYSHIGHHLKNIE 485
Query: 261 EYGRLALADTGTKPFQRLQFL 281
R+ L F +FL
Sbjct: 486 HPERMTLF---RMVFLDFRFL 503
Score = 31.7 bits (71), Expect = 0.30
Identities = 30/179 (16%), Positives = 60/179 (33%), Gaps = 50/179 (27%)
Query: 1 MKKEVDLKMGGDFEEDSL----PQYGAIQI--------VKSEEK---HKFILD-YEALER 44
+ K + + + SL P+ I I VK E + H+ I+D Y +
Sbjct: 399 VIKSDVMVVVNKLHKYSLVEKQPKESTISIPSIYLELKVKLENEYALHRSIVDHYNIPKT 458
Query: 45 ILLQDHVKDK-----------HVVVVSVAGAFRKGKSFLLDFLLRYMNFTYIEEAPSGDW 93
D + H+ + L F + +++F ++E+
Sbjct: 459 FDSDDLIPPYLDQYFYSHIGHHLK------NIEHPERMTL-FRMVFLDFRFLEQK----- 506
Query: 94 MGPDDVPLEGFSWRG-GSERDTTGILMWSHVYIATLPTGEKVSAFRKGKSFLLDFLLRY 151
+ + +W GS +T L + YI + + + + +LDFL +
Sbjct: 507 -----IRHDSTAWNASGSILNTLQQLKFYKPYIC-----DNDPKYERLVNAILDFLPKI 555
>1qzv_F Plant photosystem I: subunit PSAF; photosynthesis,plant
photosynthetic reaction center, peripheral antenna;
HET: CL1 PQN; 4.44A {Pisum sativum} SCOP: i.5.1.1
Length = 154
Score = 35.3 bits (80), Expect = 0.007
Identities = 10/32 (31%), Positives = 17/32 (53%), Gaps = 7/32 (21%)
Query: 1 MKK-EVDLKMGGDFEEDSLPQYGAIQIVKSEE 31
+KK + LK+ + +DS P A+ I + E
Sbjct: 22 LKKLQASLKL---YADDSAP---ALAIKATME 47
>2cq0_A Eukaryotic translation initiation factor 3 subunit 4; RRM domain,
structural genomics, NPPSFA; NMR {Homo sapiens} SCOP:
d.58.7.1
Length = 103
Score = 32.6 bits (75), Expect = 0.027
Identities = 11/29 (37%), Positives = 21/29 (72%), Gaps = 2/29 (6%)
Query: 237 SSIQIYNLSQNIQEDDLQHLQLFTEYGRL 265
++I++ NLS++ +E DLQ +LF +G +
Sbjct: 16 ATIRVTNLSEDTRETDLQ--ELFRPFGSI 42
>2cqh_A IGF-II mRNA-binding protein 2 isoform A; RNA recognition motif,
RRM, RNA binding domain, RBD, RNP, structural genomics,
NPPSFA; NMR {Homo sapiens} SCOP: d.58.7.1
Length = 93
Score = 32.6 bits (75), Expect = 0.028
Identities = 12/41 (29%), Positives = 19/41 (46%), Gaps = 2/41 (4%)
Query: 233 STMLSSIQIYNLSQNIQEDDLQHLQLFTEYGRLALADTGTK 273
S+ ++ + I NLS + DDL+ QLF + K
Sbjct: 5 SSGMNKLYIGNLSPAVTADDLR--QLFGDRKLPLAGQVLLK 43
>1u6f_A Tcubp1, RNA-binding protein UBP1; trypanosome, mRNA-binding
protein, GU-rich RNA, structure; NMR {Trypanosoma cruzi}
SCOP: d.58.7.1
Length = 139
Score = 32.4 bits (74), Expect = 0.061
Identities = 7/23 (30%), Positives = 11/23 (47%), Gaps = 2/23 (8%)
Query: 241 IYNLSQNIQEDDLQHLQLFTEYG 263
+ + + E L+ QLF YG
Sbjct: 47 VNYIPTTVDEVQLR--QLFERYG 67
>2cpz_A CUG triplet repeat RNA-binding protein 1; RRM domain, structural
genomics, NPPSFA, national project on protein structural
and functional analyses; NMR {Homo sapiens} SCOP:
d.58.7.1 PDB: 2rq4_A 2rqc_A
Length = 115
Score = 31.5 bits (72), Expect = 0.11
Identities = 9/23 (39%), Positives = 13/23 (56%), Gaps = 2/23 (8%)
Query: 241 IYNLSQNIQEDDLQHLQLFTEYG 263
IY+L Q + DL Q+F +G
Sbjct: 30 IYHLPQEFGDQDLL--QMFMPFG 50
>1x4e_A RNA binding motif, single-stranded interacting protein 2;
structural genomics, RRM domain, NPPSFA; NMR {Homo
sapiens} SCOP: d.58.7.1
Length = 85
Score = 30.6 bits (70), Expect = 0.11
Identities = 7/24 (29%), Positives = 10/24 (41%), Gaps = 2/24 (8%)
Query: 241 IYNLSQNIQEDDLQHLQLFTEYGR 264
I L + DL +L YG+
Sbjct: 10 IRGLQPGTTDQDLV--KLCQPYGK 31
>2khc_A Testis-specific RNP-type RNA binding protein; RRM, RNA recognition
motif, bruno; NMR {Drosophila melanogaster}
Length = 118
Score = 30.8 bits (70), Expect = 0.16
Identities = 8/23 (34%), Positives = 11/23 (47%), Gaps = 2/23 (8%)
Query: 241 IYNLSQNIQEDDLQHLQLFTEYG 263
IY+L Q + DL F +G
Sbjct: 45 IYHLPQEFTDTDLA--STFLPFG 65
>2dnp_A RNA-binding protein 14; RRM domain, RBD, structural genomics,
NPPSFA, national project on protein structural and
functional analyses; NMR {Homo sapiens}
Length = 90
Score = 29.9 bits (68), Expect = 0.24
Identities = 10/37 (27%), Positives = 15/37 (40%), Gaps = 2/37 (5%)
Query: 233 STMLSSIQIYNLSQNIQEDDLQHLQLFTEYGRLALAD 269
S I + N+S +L+ LF GR+ D
Sbjct: 6 SGNTWKIFVGNVSAACTSQELR--SLFERRGRVIECD 40
>2dnq_A RNA-binding protein 4B; RRM domain,RBD, structural genomics,
NPPSFA, national project on protein structural and
functional analyses; NMR {Homo sapiens}
Length = 90
Score = 29.5 bits (67), Expect = 0.31
Identities = 8/35 (22%), Positives = 19/35 (54%), Gaps = 4/35 (11%)
Query: 237 SSIQIY--NLSQNIQEDDLQHLQLFTEYGRLALAD 269
++++ NL + E +++ LF +YG++ D
Sbjct: 7 GMVKLFIGNLPREATEQEIR--SLFEQYGKVLECD 39
>2dgt_A RNA-binding protein 30; RRM domain, structural genomics, NPPSFA,
national project on protein structural and functional
analyses; NMR {Homo sapiens}
Length = 92
Score = 29.5 bits (67), Expect = 0.31
Identities = 9/35 (25%), Positives = 17/35 (48%), Gaps = 4/35 (11%)
Query: 237 SSIQIY--NLSQNIQEDDLQHLQLFTEYGRLALAD 269
+S +++ N+S +L+ F EYG + D
Sbjct: 9 ASTKLHVGNISPTCTNQELR--AKFEEYGPVIECD 41
>4a8x_A RNA-binding protein with serine-rich domain 1; transcription,
splicing, RNA processing, nonsense mediated D NMD, HDAC,
histone deacetylation; 1.90A {Homo sapiens}
Length = 88
Score = 29.4 bits (67), Expect = 0.34
Identities = 7/35 (20%), Positives = 21/35 (60%), Gaps = 4/35 (11%)
Query: 237 SSIQIY--NLSQNIQEDDLQHLQLFTEYGRLALAD 269
+++ L++N+ +D + ++F+ YG++ + D
Sbjct: 3 KPTKVHIGRLTRNVTKDHIM--EIFSTYGKIKMID 35
>2e44_A Insulin-like growth factor 2 mRNA binding protein 3; RRM domain,
RBD, structural genomics, NPPSFA; NMR {Homo sapiens}
Length = 96
Score = 29.3 bits (66), Expect = 0.37
Identities = 8/28 (28%), Positives = 15/28 (53%), Gaps = 2/28 (7%)
Query: 239 IQIYNLSQNIQEDDLQHLQLFTEYGRLA 266
+QI N+ ++Q + L L +YG +
Sbjct: 18 LQIRNIPPHLQWEVLD--SLLVQYGVVE 43
>2dgu_A Heterogeneous nuclear ribonucleoprotein Q; RRM domain, structural
genomics, NPPSFA, national project on protein structural
and functional analyses; NMR {Homo sapiens} PDB: 2dk2_A
Length = 103
Score = 29.2 bits (66), Expect = 0.43
Identities = 9/35 (25%), Positives = 20/35 (57%), Gaps = 4/35 (11%)
Query: 233 STMLSSIQIY--NLSQNIQEDDLQHLQLFTEYGRL 265
S M ++ NL+ + E+ L+ + F+++G+L
Sbjct: 6 SGMAKVKVLFVRNLANTVTEEILE--KAFSQFGKL 38
>1oo0_B CG8781-PA, drosophila Y14; RNA recognition motif, splicing, protein
complex, EXON junct complex, signaling protein; 1.85A
{Drosophila melanogaster} SCOP: d.58.7.1 PDB: 2hyi_B*
2j0s_D* 2xb2_D*
Length = 110
Score = 29.2 bits (66), Expect = 0.51
Identities = 8/51 (15%), Positives = 21/51 (41%), Gaps = 4/51 (7%)
Query: 215 GTFDSESTVRDCATVFALSTMLSSIQIY--NLSQNIQEDDLQHLQLFTEYG 263
+++ D + ++ ++ + QED++Q + F +YG
Sbjct: 3 HSYERVRNEDDDELEPGPQRSVEGWILFVTSIHEEAQEDEIQ--EKFCDYG 51
>2jrs_A RNA-binding protein 39; RNA binding motif of RBM39_human (caper),
RRM2 domain, solution structure, structural genomics,
PSI-2; NMR {Homo sapiens}
Length = 108
Score = 29.2 bits (66), Expect = 0.53
Identities = 12/43 (27%), Positives = 21/43 (48%), Gaps = 10/43 (23%)
Query: 237 SSIQIY--NLSQNIQEDDLQHLQLFTEYGRLALA------DTG 271
+++Y +L NI ED L+ +F +GR+ +TG
Sbjct: 25 GPMRLYVGSLHFNITEDMLR--GIFEPFGRIESIQLMMDSETG 65
>2lea_A Serine/arginine-rich splicing factor 2; SR protein, RNA binding
protein; NMR {Homo sapiens} PDB: 2leb_A 2lec_A
Length = 135
Score = 29.3 bits (66), Expect = 0.60
Identities = 9/31 (29%), Positives = 20/31 (64%), Gaps = 2/31 (6%)
Query: 235 MLSSIQIYNLSQNIQEDDLQHLQLFTEYGRL 265
++S+++ NL+ D L+ ++F +YGR+
Sbjct: 46 GMTSLKVDNLTYRTSPDTLR--RVFEKYGRV 74
>2dgx_A KIAA0430 protein; RRM domain, structural genomics, NPPSFA, national
project on protein structural and functional analyses;
NMR {Homo sapiens} SCOP: d.58.7.1
Length = 96
Score = 28.8 bits (64), Expect = 0.64
Identities = 7/28 (25%), Positives = 15/28 (53%), Gaps = 2/28 (7%)
Query: 239 IQIYNLSQNIQEDDLQHL--QLFTEYGR 264
+Q+ N+ + +LQ L + F +G+
Sbjct: 12 VQVSNIDYRLSRKELQQLLQEAFARHGK 39
>2jvo_A Nucleolar protein 3; nucleus, phosphorylation, ribonucleoprotein,
ribosome biogenesis, RNA-binding, rRNA processing; NMR
{Saccharomyces cerevisiae} PDB: 2osq_A
Length = 108
Score = 28.8 bits (65), Expect = 0.69
Identities = 5/25 (20%), Positives = 13/25 (52%), Gaps = 2/25 (8%)
Query: 241 IYNLSQNIQEDDLQHLQLFTEYGRL 265
+ ++QE +L ++F +G +
Sbjct: 36 VRPFPLDVQESELN--EIFGPFGPM 58
>2cpx_A Hypothetical protein FLJ11016; RRM domain, structural genomics,
NPPSFA, national project on protein structural and
functional analyses; NMR {Homo sapiens} SCOP: d.58.7.1
Length = 115
Score = 28.8 bits (65), Expect = 0.77
Identities = 8/23 (34%), Positives = 11/23 (47%), Gaps = 2/23 (8%)
Query: 241 IYNLSQNIQEDDLQHLQLFTEYG 263
+ NLS + E DL LF +
Sbjct: 30 LKNLSPRVTERDLV--SLFARFQ 50
>2cq4_A RNA binding motif protein 23; RRM domain, structural genomics,
NPPSFA, national project on protein structural and
functional analyses; NMR {Homo sapiens} SCOP: d.58.7.1
Length = 114
Score = 28.8 bits (65), Expect = 0.82
Identities = 11/40 (27%), Positives = 15/40 (37%), Gaps = 12/40 (30%)
Query: 224 RDCATVFALSTMLSSIQIYNLSQNIQEDDLQHLQLFTEYG 263
RD TVF L+ I+ DL+ F+ G
Sbjct: 23 RDARTVF----------CMQLAARIRPRDLE--DFFSAVG 50
>1x5o_A RNA binding motif, single-stranded interacting protein 1; structure
genomics, RRM domain, structural genomics, NPPSFA; NMR
{Homo sapiens} SCOP: d.58.7.1
Length = 114
Score = 28.8 bits (65), Expect = 0.85
Identities = 6/24 (25%), Positives = 13/24 (54%), Gaps = 2/24 (8%)
Query: 241 IYNLSQNIQEDDLQHLQLFTEYGR 264
I NL ++ E +L+ + +G+
Sbjct: 30 ISNLPLSMDEQELE--NMLKPFGQ 51
>3ulh_A THO complex subunit 4; nuclear protein, RNA binding, structural
genomi center for structural genomics, JCSG, protein
structure INI PSI-biology; 2.54A {Homo sapiens} PDB:
1no8_A
Length = 107
Score = 28.4 bits (64), Expect = 0.98
Identities = 10/35 (28%), Positives = 18/35 (51%), Gaps = 4/35 (11%)
Query: 237 SSIQIY--NLSQNIQEDDLQHLQLFTEYGRLALAD 269
+ ++ NL + + D+Q +LF E+G L A
Sbjct: 28 TGGKLLVSNLDFGVSDADIQ--ELFAEFGTLKKAA 60
>1x4a_A Splicing factor, arginine/serine-rich 1 (splicing factor 2,
alternate splicing factor)...; structure genomics, SURP
domain, splicing factor SF2; NMR {Homo sapiens} SCOP:
d.58.7.1
Length = 109
Score = 28.4 bits (64), Expect = 1.00
Identities = 9/31 (29%), Positives = 18/31 (58%), Gaps = 4/31 (12%)
Query: 237 SSIQIY--NLSQNIQEDDLQHLQLFTEYGRL 265
+ +IY NL +I+ D++ +F +YG +
Sbjct: 21 NDCRIYVGNLPPDIRTKDIE--DVFYKYGAI 49
>2cpj_A Non-POU domain-containing octamer-binding protein; RNA recognition
motif, RRM, RNP, structural genomics, NPPSFA; NMR {Mus
musculus} SCOP: d.58.7.1
Length = 99
Score = 28.4 bits (64), Expect = 1.0
Identities = 8/23 (34%), Positives = 16/23 (69%), Gaps = 2/23 (8%)
Query: 243 NLSQNIQEDDLQHLQLFTEYGRL 265
NL +I E++++ +LF +YG+
Sbjct: 22 NLPPDITEEEMR--KLFEKYGKA 42
>2cpe_A RNA-binding protein EWS; RNA recognition motif, RRM, RNP,
structural genomics, NPPSFA; NMR {Homo sapiens} SCOP:
d.58.7.1
Length = 113
Score = 28.5 bits (64), Expect = 1.1
Identities = 9/46 (19%), Positives = 20/46 (43%), Gaps = 2/46 (4%)
Query: 233 STMLSSIQIYNLSQNIQEDDLQHLQLFTEYGRLALADTGTKPFQRL 278
+ S+I + L+ ++ DDL F + G + + +P +
Sbjct: 12 DSDNSAIYVQGLNDSVTLDDLA--DFFKQCGVVKMNKRTGQPMIHI 55
>2kt5_A RNA and export factor-binding protein 2; chaperone, mRNA
processing, mRNA splicing, transport, nucleus,
RNA-binding, spliceosome, transport; NMR {Mus musculus}
Length = 124
Score = 28.5 bits (64), Expect = 1.2
Identities = 10/35 (28%), Positives = 18/35 (51%), Gaps = 4/35 (11%)
Query: 237 SSIQIY--NLSQNIQEDDLQHLQLFTEYGRLALAD 269
+ ++ NL + + D+Q +LF E+G L A
Sbjct: 34 TGAKLLVSNLDFGVSDADIQ--ELFAEFGTLKKAA 66
>2d9p_A Polyadenylate-binding protein 3; RRM domain, structural genomics,
NPPSFA, national project on protein structural and
functional analyses; NMR {Homo sapiens}
Length = 103
Score = 27.9 bits (63), Expect = 1.2
Identities = 8/35 (22%), Positives = 17/35 (48%), Gaps = 6/35 (17%)
Query: 241 IYNLSQNIQEDDLQHLQLFTEYGRLALA----DTG 271
+ NL I ++ L+ + F+ +G + A + G
Sbjct: 20 VKNLDDGIDDERLR--KAFSPFGTITSAKVMMEGG 52
>2f3j_A RNA and export factor binding protein 2; RRM domain, RBD domain.,
transport protein; NMR {Mus musculus}
Length = 177
Score = 29.0 bits (65), Expect = 1.3
Identities = 10/31 (32%), Positives = 17/31 (54%), Gaps = 2/31 (6%)
Query: 239 IQIYNLSQNIQEDDLQHLQLFTEYGRLALAD 269
+ + NL + + D+Q +LF E+G L A
Sbjct: 91 LLVSNLDFGVSDADIQ--ELFAEFGTLKKAA 119
>2ad9_A Polypyrimidine tract-binding protein 1; RBD, RRM, protein-RNA
complex, RNA binding protein/RNA complex; NMR {Homo
sapiens} SCOP: d.58.7.1
Length = 119
Score = 28.0 bits (62), Expect = 1.5
Identities = 5/25 (20%), Positives = 13/25 (52%), Gaps = 2/25 (8%)
Query: 241 IYNLSQNIQEDDLQHLQLFTEYGRL 265
I L ++ E ++ + L +G++
Sbjct: 36 IRKLPIDVTEGEV--ISLGLPFGKV 58
>2dnz_A Probable RNA-binding protein 23; RNA recognition motif, RRM, RNA
binding domain, RBD, RNP, structural genomics, NPPSFA;
NMR {Homo sapiens}
Length = 95
Score = 27.5 bits (62), Expect = 1.5
Identities = 13/42 (30%), Positives = 20/42 (47%), Gaps = 10/42 (23%)
Query: 238 SIQIY--NLSQNIQEDDLQHLQLFTEYGRLALA------DTG 271
S +Y +L NI ED L+ +F +G++ DTG
Sbjct: 5 SSGLYVGSLHFNITEDMLR--GIFEPFGKIDNIVLMKDSDTG 44
>1p27_B RNA-binding protein 8A; nuclear protein, mRNA splicing; 2.00A {Homo
sapiens} SCOP: d.58.7.1
Length = 106
Score = 27.6 bits (62), Expect = 1.6
Identities = 6/21 (28%), Positives = 10/21 (47%), Gaps = 2/21 (9%)
Query: 243 NLSQNIQEDDLQHLQLFTEYG 263
+ + E+D+ F EYG
Sbjct: 30 GVHEEATEEDIH--DKFAEYG 48
>1whx_A Hypothetical protein riken cDNA 1200009A02; RNA recognition motif,
RRM, RNA binding domain, RBD, RNP, structural genomics;
NMR {Mus musculus} SCOP: d.58.7.1
Length = 111
Score = 27.9 bits (62), Expect = 1.6
Identities = 7/30 (23%), Positives = 13/30 (43%), Gaps = 2/30 (6%)
Query: 237 SSIQIYNLSQNIQEDDLQHLQLFTEYGRLA 266
+ I NL ++Q + F+ +G L
Sbjct: 11 TVILAKNLPAGTLAAEIQ--ETFSRFGSLG 38
>2a3j_A U1 small nuclear ribonucleoprotein A; computationally designed
protein, RRM, U1A, RNA binding protein; NMR {Homo
sapiens}
Length = 127
Score = 27.9 bits (62), Expect = 1.7
Identities = 7/30 (23%), Positives = 14/30 (46%), Gaps = 2/30 (6%)
Query: 237 SSIQIYNLSQNIQEDDLQHL--QLFTEYGR 264
+ I N++ + ++ LQ L L + G
Sbjct: 30 QVVLITNINPEVPKEKLQALLYALASSQGD 59
>2qmc_A GGT, gamma-glutamyltranspeptidase; NTN-hydrolase, transferase; HET:
GTB; 1.55A {Helicobacter pylori} PDB: 2qm6_A* 3fnm_A*
2nqo_A
Length = 377
Score = 29.1 bits (66), Expect = 1.7
Identities = 9/39 (23%), Positives = 19/39 (48%), Gaps = 1/39 (2%)
Query: 231 ALSTMLSSIQIYNLSQNIQEDDLQHLQLFTEYGRLALAD 269
L +L+ ++ +LS + +++ + E R A AD
Sbjct: 286 HLIQILNVMENADLSA-LGYGASKNIHIAAEAMRQAYAD 323
>2adc_A Polypyrimidine tract-binding protein 1; RBD, RRM, protein-RNA
complex, RNA binding protein/RNA complex; NMR {Homo
sapiens} SCOP: d.58.7.1 d.58.7.1 PDB: 2evz_A
Length = 229
Score = 28.8 bits (64), Expect = 1.9
Identities = 7/25 (28%), Positives = 15/25 (60%), Gaps = 2/25 (8%)
Query: 239 IQIYNLSQNIQEDDLQHLQLFTEYG 263
+ + N+ ++ E+DL+ LF+ G
Sbjct: 154 LHLSNIPPSVSEEDLK--VLFSSNG 176
>2dnh_A Bruno-like 5, RNA binding protein; RRM domain, RBD, structural
genomics, NPPSFA, national project on protein structural
and functional analyses; NMR {Homo sapiens} PDB: 2dnk_A
2dno_A
Length = 105
Score = 27.6 bits (62), Expect = 1.9
Identities = 6/25 (24%), Positives = 14/25 (56%), Gaps = 2/25 (8%)
Query: 241 IYNLSQNIQEDDLQHLQLFTEYGRL 265
+ L++ E+D+ +LF +G +
Sbjct: 20 VGMLNKQQSEEDVL--RLFQPFGVI 42
>2cq3_A RNA-binding protein 9; RRM domain, structural genomics, NPPSFA,
national project on protein structural and functional
analyses; NMR {Homo sapiens} SCOP: d.58.7.1
Length = 103
Score = 27.6 bits (62), Expect = 2.0
Identities = 6/33 (18%), Positives = 18/33 (54%), Gaps = 2/33 (6%)
Query: 233 STMLSSIQIYNLSQNIQEDDLQHLQLFTEYGRL 265
+ + + N+ ++ DL+ Q+F ++G++
Sbjct: 12 KSTPKRLHVSNIPFRFRDPDLR--QMFGQFGKI 42
>3egn_A RNA-binding protein 40; RNA recognition motif (RRM), RNP motif,
U11/U12-65K protein, DI-snRNP, U1A protein, U2B protein;
2.50A {Homo sapiens}
Length = 143
Score = 27.9 bits (62), Expect = 2.1
Identities = 8/23 (34%), Positives = 15/23 (65%), Gaps = 2/23 (8%)
Query: 241 IYNLSQNIQEDDLQHLQLFTEYG 263
+ NL++++QE DL+ +F Y
Sbjct: 50 VKNLAKHVQEKDLK--YIFGRYV 70
>1wex_A Hypothetical protein (riken cDNA 2810036L13); structural genomics,
RRM domain, riken structural genomics/proteomics
initiative, RSGI; NMR {Mus musculus} SCOP: d.58.7.1
Length = 104
Score = 27.5 bits (61), Expect = 2.1
Identities = 5/26 (19%), Positives = 14/26 (53%), Gaps = 2/26 (7%)
Query: 241 IYNLSQNIQEDDLQHLQLFTEYGRLA 266
+ L +++ E DL ++ ++G +
Sbjct: 20 VRGLCESVVEADL--VEALEKFGTIC 43
>1sjq_A Polypyrimidine tract-binding protein 1; babbab motif, RNA binding
protein; NMR {Homo sapiens} SCOP: d.58.7.1
Length = 105
Score = 27.5 bits (61), Expect = 2.2
Identities = 5/25 (20%), Positives = 13/25 (52%), Gaps = 2/25 (8%)
Query: 241 IYNLSQNIQEDDLQHLQLFTEYGRL 265
I L ++ E ++ + L +G++
Sbjct: 21 IRKLPIDVTEGEV--ISLGLPFGKV 43
>1rk8_A CG8781-PA, CG8781-PA protein; mRNA processing, RRM, RBD, NMD, oskar
mRNA localization, translation; 1.90A {Drosophila
melanogaster} SCOP: d.58.7.1 PDB: 1hl6_A 2x1g_A
Length = 165
Score = 28.3 bits (63), Expect = 2.2
Identities = 7/27 (25%), Positives = 16/27 (59%), Gaps = 2/27 (7%)
Query: 237 SSIQIYNLSQNIQEDDLQHLQLFTEYG 263
+ + ++ + QED++Q + F +YG
Sbjct: 73 WILFVTSIHEEAQEDEIQ--EKFCDYG 97
>2dg5_A Gamma-glutamyltranspeptidase; gamma-glutamyltransferase, GGT,
gamma-GT, glutathione; HET: GLU; 1.60A {Escherichia coli
K12} SCOP: d.153.1.6 PDB: 2dbu_A 2dbw_A* 2dbx_A* 2e0x_A
2e0y_A 2z8i_A* 2z8j_A* 2z8k_A*
Length = 366
Score = 28.7 bits (65), Expect = 2.3
Identities = 6/39 (15%), Positives = 18/39 (46%), Gaps = 1/39 (2%)
Query: 231 ALSTMLSSIQIYNLSQNIQEDDLQHLQLFTEYGRLALAD 269
+ +L+ ++ +++ + +Q+ E + A AD
Sbjct: 275 HIVQILNILENFDMKK-YGFGSADAMQIMAEAEKYAYAD 312
>2err_A Ataxin-2-binding protein 1; protein-RNA complex, RNA binding
protein; NMR {Homo sapiens} SCOP: d.58.7.1
Length = 109
Score = 27.3 bits (61), Expect = 2.4
Identities = 6/23 (26%), Positives = 14/23 (60%), Gaps = 2/23 (8%)
Query: 241 IYNLSQNIQEDDLQHLQLFTEYG 263
+ N+ ++ DL+ Q+F ++G
Sbjct: 34 VSNIPFRFRDPDLR--QMFGQFG 54
>2la4_A Nuclear and cytoplasmic polyadenylated RNA-bindin PUB1; RRM, RNA
recognition, stress granules, nucleus, RNA-binding,
transcription; NMR {Saccharomyces cerevisiae}
Length = 101
Score = 26.9 bits (60), Expect = 2.8
Identities = 8/25 (32%), Positives = 11/25 (44%), Gaps = 2/25 (8%)
Query: 241 IYNLSQNIQEDDLQHLQLFTEYGRL 265
I N+ E DL LF +G +
Sbjct: 32 IGNIPHFATEADLI--PLFQNFGFI 54
>2cpd_A Apobec-1 stimulating protein; RNA recognition motif, RRM, RNP,
structural genomics, NPPSFA; NMR {Homo sapiens} SCOP:
d.58.7.1
Length = 99
Score = 26.9 bits (60), Expect = 2.8
Identities = 9/40 (22%), Positives = 16/40 (40%), Gaps = 4/40 (10%)
Query: 233 STMLSSIQIY--NLSQNIQEDDLQHLQLFTEYGRLALADT 270
TM S +Y NL + E+ ++ + F A+
Sbjct: 10 DTMSSVKILYVRNLMLSTSEEMIE--KEFNNIKPGAVERV 47
>1qm9_A Polypyrimidine tract-binding protein; ribonucleoprotein, RNP, RNA,
spicing, translation; NMR {Homo sapiens} SCOP: d.58.7.1
d.58.7.1
Length = 198
Score = 27.9 bits (62), Expect = 2.9
Identities = 7/25 (28%), Positives = 15/25 (60%), Gaps = 2/25 (8%)
Query: 239 IQIYNLSQNIQEDDLQHLQLFTEYG 263
+ + N+ ++ E+DL+ LF+ G
Sbjct: 123 LHLSNIPPSVSEEDLK--VLFSSNG 145
>1nu4_A U1A RNA binding domain; RNA recognition motif, U1 small nuclear
ribonucleoprotein, R binding domain, RNA binding
protein; HET: MLA; 1.80A {Homo sapiens} SCOP: d.58.7.1
PDB: 1drz_A* 1urn_A 3hhn_B* 3egz_A* 1zzn_A* 1u6b_A*
3cun_A* 3cul_A* 3g8s_A* 3g8t_A* 3g96_A* 3g9c_A* 3irw_P*
3mum_P* 3mur_P* 3mut_P* 3muv_P* 3mxh_P* 3p49_B 3r1h_A*
...
Length = 97
Score = 26.8 bits (60), Expect = 3.0
Identities = 9/28 (32%), Positives = 19/28 (67%), Gaps = 4/28 (14%)
Query: 241 IY--NLSQNIQEDDLQHL--QLFTEYGR 264
IY NL++ I++D+L+ +F+ +G+
Sbjct: 11 IYINNLNEKIKKDELKKSLHAIFSRFGQ 38
>3uma_A Hypothetical peroxiredoxin protein; nysgrc, PSI biology,
structural genomics, NEW YORK structura genomics
research consortium; 2.20A {Sinorhizobium meliloti}
Length = 184
Score = 27.6 bits (62), Expect = 3.1
Identities = 8/31 (25%), Positives = 13/31 (41%)
Query: 35 FILDYEALERILLQDHVKDKHVVVVSVAGAF 65
+ + + K K VV+ +V GAF
Sbjct: 38 KEKTADGPVEVTTELLFKGKRVVLFAVPGAF 68
>2cq1_A PTB-like protein L; RRM domain, structural genomics, NPPSFA,
national project on protein structural and functional
analyses; NMR {Homo sapiens} SCOP: d.58.7.1
Length = 101
Score = 26.7 bits (59), Expect = 3.1
Identities = 5/25 (20%), Positives = 12/25 (48%), Gaps = 2/25 (8%)
Query: 241 IYNLSQNIQEDDLQHLQLFTEYGRL 265
I L + E ++ + L +G++
Sbjct: 20 IRKLPGEVTETEV--IALGLPFGKV 42
>2cph_A RNA binding motif protein 19; RNA recognition motif, RRM, RNP,
structural genomics, NPPSFA; NMR {Mus musculus} SCOP:
d.58.7.1
Length = 107
Score = 26.9 bits (60), Expect = 3.2
Identities = 5/23 (21%), Positives = 13/23 (56%), Gaps = 2/23 (8%)
Query: 243 NLSQNIQEDDLQHLQLFTEYGRL 265
N+ + +++ +LF+ +G L
Sbjct: 22 NIPFQANQREIR--ELFSTFGEL 42
>3ex7_B RNA-binding protein 8A; protein-RNA complex, mRNA processing, mRNA
splicing, mRNA transport, nonsense-mediated mRNA decay,
nucleus; HET: ADP; 2.30A {Homo sapiens} PDB: 2j0q_D*
Length = 126
Score = 27.3 bits (61), Expect = 3.2
Identities = 6/27 (22%), Positives = 12/27 (44%), Gaps = 2/27 (7%)
Query: 237 SSIQIYNLSQNIQEDDLQHLQLFTEYG 263
+ + + + E+D+ F EYG
Sbjct: 23 WILFVTGVHEEATEEDIH--DKFAEYG 47
>2kn4_A Immunoglobulin G-binding protein G, splicing FACT
arginine/serine-rich 2, S35, splicing factor SC35,; RRM
domain, cell WALL; NMR {Streptococcus SP}
Length = 158
Score = 27.5 bits (61), Expect = 3.3
Identities = 9/29 (31%), Positives = 19/29 (65%), Gaps = 2/29 (6%)
Query: 237 SSIQIYNLSQNIQEDDLQHLQLFTEYGRL 265
+S+++ NL+ D L+ ++F +YGR+
Sbjct: 71 TSLKVDNLTYRTSPDTLR--RVFEKYGRV 97
>3tyt_A Heterogeneous nuclear ribonucleoprotein L; ferredoxin-like,
structural genomics, joint center for struc genomics,
JCSG; 1.60A {Mus musculus} PDB: 3s01_A 3to8_A
Length = 205
Score = 27.7 bits (61), Expect = 3.5
Identities = 4/25 (16%), Positives = 11/25 (44%), Gaps = 2/25 (8%)
Query: 239 IQIYNLSQNIQEDDLQHLQLFTEYG 263
+ +N + E++ ++ E G
Sbjct: 126 LHFFNAPLEVTEENFF--EICDELG 148
>2cqb_A Peptidyl-prolyl CIS-trans isomerase E; RNA recognition motif,
structural genomics, NPPSFA; NMR {Homo sapiens} SCOP:
d.58.7.1
Length = 102
Score = 26.8 bits (60), Expect = 3.6
Identities = 5/25 (20%), Positives = 11/25 (44%), Gaps = 4/25 (16%)
Query: 241 IY--NLSQNIQEDDLQHLQLFTEYG 263
+Y L++ + + L F +G
Sbjct: 15 LYVGGLAEEVDDKVLH--AAFIPFG 37
>3r27_A HnRNP L, heterogeneous nuclear ribonucleoprotein L; RBD fold,
protein binding, nucleus; 2.04A {Homo sapiens}
Length = 100
Score = 26.6 bits (59), Expect = 3.8
Identities = 7/25 (28%), Positives = 12/25 (48%), Gaps = 2/25 (8%)
Query: 241 IYNLSQNIQEDDLQHLQLFTEYGRL 265
I L + E DL ++ E+G +
Sbjct: 26 IRGLIDGVVEADL--VEALQEFGPI 48
>2dgv_A HnRNP M, heterogeneous nuclear ribonucleoprotein M; RRM domain,
structural genomics, NPPSFA; NMR {Homo sapiens} PDB:
2dh9_A
Length = 92
Score = 26.4 bits (59), Expect = 3.8
Identities = 8/29 (27%), Positives = 12/29 (41%), Gaps = 2/29 (6%)
Query: 241 IYNLSQNIQEDDLQHLQLFTEYGRLALAD 269
+ NL + L+ F E G + AD
Sbjct: 13 VRNLPFDFTWKMLK--DKFNECGHVLYAD 39
>3s8s_A Histone-lysine N-methyltransferase SETD1A; chromatin modification,
transcription regulation, structural genomics,
structural genomics consortium; 1.30A {Homo sapiens}
Length = 110
Score = 26.6 bits (59), Expect = 3.9
Identities = 6/23 (26%), Positives = 12/23 (52%), Gaps = 2/23 (8%)
Query: 241 IYNLSQNIQEDDLQHLQLFTEYG 263
L+ N++E L+ + +YG
Sbjct: 11 FARLNDNVRETFLK--DMCRKYG 31
>1whw_A Hypothetical protein riken cDNA 1200009A02; RNA recognition motif,
RRM, RNA binding domain, RBD, RNP, structural genomics;
NMR {Mus musculus} SCOP: d.58.7.1
Length = 99
Score = 26.4 bits (59), Expect = 4.2
Identities = 11/29 (37%), Positives = 17/29 (58%), Gaps = 2/29 (6%)
Query: 237 SSIQIYNLSQNIQEDDLQHLQLFTEYGRL 265
+ + NLS E+DL+ +LF+ YG L
Sbjct: 9 GRLFVRNLSYTSSEEDLE--KLFSAYGPL 35
>2dnm_A SRP46 splicing factor; RRM domain, RBD, structural genomics,
NPPSFA, national project on protein structural and
functional analyses; NMR {Homo sapiens}
Length = 103
Score = 26.4 bits (59), Expect = 4.3
Identities = 8/29 (27%), Positives = 18/29 (62%), Gaps = 2/29 (6%)
Query: 237 SSIQIYNLSQNIQEDDLQHLQLFTEYGRL 265
++++ NL+ D L+ ++F +YGR+
Sbjct: 14 ITLKVDNLTYRTSPDSLR--RVFEKYGRV 40
>1nm3_A Protein HI0572; hybrid, peroxiredoxin, glutaredoxin, electron
transport; 2.80A {Haemophilus influenzae} SCOP:
c.47.1.1 c.47.1.10
Length = 241
Score = 27.7 bits (62), Expect = 4.3
Identities = 7/31 (22%), Positives = 13/31 (41%)
Query: 35 FILDYEALERILLQDHVKDKHVVVVSVAGAF 65
+ + + +K V+V S+ GAF
Sbjct: 15 RTRQGDKWVDVTTSELFDNKTVIVFSLPGAF 45
>2v36_A Gamma-glutamyltranspeptidase large chain; transferase, glutathione
biosynthesis, gamma-glutamyl transferase,
acyltransferase, zymogen; 1.85A {Bacillus subtilis} PDB:
3a75_A*
Length = 376
Score = 27.5 bits (62), Expect = 4.6
Identities = 12/39 (30%), Positives = 16/39 (41%), Gaps = 1/39 (2%)
Query: 231 ALSTMLSSIQIYNLSQNIQEDDLQHLQLFTEYGRLALAD 269
L M + +NLSQ + QL E L+ AD
Sbjct: 271 FLLQMPKILDHFNLSQ-YDVRSWEKYQLLAETMHLSYAD 308
>1x4g_A Nucleolysin TIAR; structural genomics, RRM domain, TIA-1 related
protein, NPPSFA, national project on protein structural
and functional analyses; NMR {Homo sapiens} SCOP:
d.58.7.1
Length = 109
Score = 26.5 bits (59), Expect = 5.1
Identities = 3/24 (12%), Positives = 13/24 (54%), Gaps = 2/24 (8%)
Query: 243 NLSQNIQEDDLQHLQLFTEYGRLA 266
++ + + ++ Q F+ +G++
Sbjct: 32 GIASGLTDQLMR--QTFSPFGQIM 53
>1c41_A Lumazine synthase; riboflavin biosynthesis, transferase; HET:
LMZ; 3.10A {Magnaporthe grisea} SCOP: c.16.1.1
Length = 200
Score = 27.1 bits (60), Expect = 5.2
Identities = 10/35 (28%), Positives = 20/35 (57%), Gaps = 2/35 (5%)
Query: 33 HKFILD--YEALERILLQDHVKDKHVVVVSVAGAF 65
++ I++ + LL VK+ ++VV SV G++
Sbjct: 26 NETIIEPLLAGTKAKLLACGVKESNIVVQSVPGSW 60
>1why_A Hypothetical protein riken cDNA 1810017N16; RNA recognition motif,
RRM, RNA binding domain, RBD, RNP, structural genomics;
NMR {Mus musculus} SCOP: d.58.7.1
Length = 97
Score = 25.7 bits (57), Expect = 7.4
Identities = 5/23 (21%), Positives = 8/23 (34%), Gaps = 2/23 (8%)
Query: 243 NLSQNIQEDDLQHLQLFTEYGRL 265
L N L + F +G +
Sbjct: 24 GLGPNTSLAALA--REFDRFGSI 44
>3q2w_A Cadherin-2; cell adhesion, calcium binding; HET: MAN NAG; 3.20A
{Mus musculus}
Length = 559
Score = 27.3 bits (61), Expect = 7.4
Identities = 9/59 (15%), Positives = 20/59 (33%), Gaps = 9/59 (15%)
Query: 10 GGDF--EEDSLPQYGAIQIVKSEEKHKFILDYEALERILLQDHVKDKHVVVVSVAGAFR 66
G F D G + +VK +D+E +L +++ + + +
Sbjct: 269 TGRFAILTDPNSNDGLVTVVKP-------IDFETNRMFVLTVAAENQVPLAKGIQHPPQ 320
>2wfc_A Peroxiredoxin 5, PRDX5; oxidoreductase, antioxidant enzymes;
1.75A {Arenicola marina}
Length = 167
Score = 26.4 bits (59), Expect = 7.7
Identities = 6/23 (26%), Positives = 13/23 (56%)
Query: 43 ERILLQDHVKDKHVVVVSVAGAF 65
+++ + + K V+ +V GAF
Sbjct: 21 DKVNMAELFAGKKGVLFAVPGAF 43
>3cm0_A Adenylate kinase; ATP-binding, cytoplasm, nucleotide biosynthesis,
nucleotide-binding, transferase, structural genomics;
1.80A {Thermus thermophilus}
Length = 186
Score = 26.7 bits (60), Expect = 7.7
Identities = 12/46 (26%), Positives = 24/46 (52%), Gaps = 8/46 (17%)
Query: 24 IQIVKSEEKHKFILD-Y-------EALERILLQDHVKDKHVVVVSV 61
+++++ E + I D + EAL+R+L + + VV+V V
Sbjct: 69 LELIREELAERVIFDGFPRTLAQAEALDRLLSETGTRLLGVVLVEV 114
>4f82_A Thioredoxin reductase; structural genomics, niaid, national
institute of allergy AN infectious diseases; 1.85A
{Burkholderia cenocepacia}
Length = 176
Score = 26.4 bits (59), Expect = 7.8
Identities = 8/23 (34%), Positives = 12/23 (52%)
Query: 43 ERILLQDHVKDKHVVVVSVAGAF 65
++D V K VV+ + GAF
Sbjct: 37 NACSVRDQVAGKRVVIFGLPGAF 59
>4f25_A Polyadenylate-binding protein 1; RRM fold, translation initiation,
RNA-binding, EIF4G-binding translation; 1.90A {Homo
sapiens} PDB: 4f26_A 2k8g_A
Length = 115
Score = 25.7 bits (57), Expect = 8.5
Identities = 8/36 (22%), Positives = 13/36 (36%), Gaps = 6/36 (16%)
Query: 241 IYNLSQNIQEDDLQHLQLFTEYGRLALA----DTGT 272
I NL ++I L F+ +G + D
Sbjct: 10 IKNLDKSIDNKALY--DTFSAFGNILSCKVVCDENG 43
>3g9k_L Capsule biosynthesis protein CAPD; CAPD protein, the great lakes
regional C excellence, GLRCE, capsule
biogenesis/degradation; HET: GLU; 1.79A {Bacillus
anthracis} PDB: 3ga9_L*
Length = 323
Score = 26.8 bits (60), Expect = 8.7
Identities = 7/39 (17%), Positives = 14/39 (35%), Gaps = 1/39 (2%)
Query: 231 ALSTMLSSIQIYNLSQNIQEDDLQHLQLFTEYGRLALAD 269
L ML + + + + ++ E R+A D
Sbjct: 244 TLLQMLKLAEKKEVYK-DVDHTATYMSKMEEISRIAYQD 281
>2j69_A Bacterial dynamin-like protein; FZO, FZL, GTPase, hydrolase; 3.0A
{Nostoc punctiforme} PDB: 2j68_A 2w6d_A*
Length = 695
Score = 26.9 bits (58), Expect = 9.1
Identities = 13/58 (22%), Positives = 25/58 (43%), Gaps = 6/58 (10%)
Query: 26 IVKSEEKHKFILDYEALERIL-----LQDHVKDKHVVVVSVAGAFRKGKSFLLDFLLR 78
I K+E +LER + +++ ++ V G ++GKS L+ L+
Sbjct: 35 INKAELAGDSSSGKLSLERDIEDITIASKNLQQGVFRLL-VLGDMKRGKSTFLNALIG 91
>2e0w_A Gamma-glutamyltranspeptidase; NTN hydrolase, precursor, gamma-GTP,
post-translational PROC maturation, transferase; 2.55A
{Escherichia coli K12} SCOP: d.153.1.6
Length = 556
Score = 26.8 bits (60), Expect = 9.4
Identities = 6/39 (15%), Positives = 18/39 (46%), Gaps = 1/39 (2%)
Query: 231 ALSTMLSSIQIYNLSQNIQEDDLQHLQLFTEYGRLALAD 269
+ +L+ ++ +++ + +Q+ E + A AD
Sbjct: 275 HIVQILNILENFDMKK-YGFGSADAMQIMAEAEKYAYAD 312
Database: pdb70
Posted date: Sep 4, 2012 3:40 AM
Number of letters in database: 6,701,793
Number of sequences in database: 27,921
Lambda K H
0.320 0.138 0.415
Gapped
Lambda K H
0.267 0.0762 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 4,466,752
Number of extensions: 275278
Number of successful extensions: 578
Number of sequences better than 10.0: 1
Number of HSP's gapped: 571
Number of HSP's successfully gapped: 87
Length of query: 281
Length of database: 6,701,793
Length adjustment: 92
Effective length of query: 189
Effective length of database: 4,133,061
Effective search space: 781148529
Effective search space used: 781148529
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 57 (25.7 bits)