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= psy16419
(346 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2DNP|A Chain A, Solution Structure Of Rna Binding Domain 2 In Rna-Binding
Protein 14
Length = 90
Score = 64.3 bits (155), Expect = 1e-10, Method: Compositional matrix adjust.
Identities = 31/72 (43%), Positives = 44/72 (61%), Gaps = 1/72 (1%)
Query: 39 GPNTPTTKVFVGNLSDNTRAPEVRELFVPYGTVVECDIVRNYGFVHID-SPDINKCIKEL 97
G + T K+FVGN+S + E+R LF G V+ECD+V++Y FVH++ D I +L
Sbjct: 4 GSSGNTWKIFVGNVSAACTSQELRSLFERRGRVIECDVVKDYAFVHMEKEADAKAAIAQL 63
Query: 98 NGMMVDGKPMKV 109
NG V GK + V
Sbjct: 64 NGKEVKGKRINV 75
Score = 56.2 bits (134), Expect = 2e-08, Method: Compositional matrix adjust.
Identities = 24/44 (54%), Positives = 34/44 (77%)
Query: 303 SSVGTFKIFIGNVNPGTSVELIRPLFEKYGKVVECDVVKNYGFV 346
SS T+KIF+GNV+ + + +R LFE+ G+V+ECDVVK+Y FV
Sbjct: 5 SSGNTWKIFVGNVSAACTSQELRSLFERRGRVIECDVVKDYAFV 48
Score = 32.0 bits (71), Expect = 0.55, Method: Compositional matrix adjust.
Identities = 13/41 (31%), Positives = 25/41 (60%)
Query: 5 HMENDEEGRTAIKELNGQIVNEKPLKIEAATSRKGPNTPTT 45
HME + + + AI +LNG+ V K + +E +T + + P++
Sbjct: 49 HMEKEADAKAAIAQLNGKEVKGKRINVELSTKGQKKSGPSS 89
>pdb|2DNQ|A Chain A, Solution Structure Of Rna Binding Domain 1 In Rna-Binding
Protein 30
Length = 90
Score = 58.2 bits (139), Expect = 7e-09, Method: Composition-based stats.
Identities = 25/43 (58%), Positives = 33/43 (76%)
Query: 304 SVGTFKIFIGNVNPGTSVELIRPLFEKYGKVVECDVVKNYGFV 346
S G K+FIGN+ + + IR LFE+YGKV+ECD++KNYGFV
Sbjct: 5 SSGMVKLFIGNLPREATEQEIRSLFEQYGKVLECDIIKNYGFV 47
Score = 57.4 bits (137), Expect = 1e-08, Method: Composition-based stats.
Identities = 23/41 (56%), Positives = 30/41 (73%)
Query: 46 KVFVGNLSDNTRAPEVRELFVPYGTVVECDIVRNYGFVHID 86
K+F+GNL E+R LF YG V+ECDI++NYGFVHI+
Sbjct: 10 KLFIGNLPREATEQEIRSLFEQYGKVLECDIIKNYGFVHIE 50
>pdb|2DGT|A Chain A, Solution Structure Of The Second Rna Binding Domain In
Rna- Binding Protein 30
Length = 92
Score = 55.8 bits (133), Expect = 3e-08, Method: Compositional matrix adjust.
Identities = 28/70 (40%), Positives = 43/70 (61%), Gaps = 1/70 (1%)
Query: 44 TTKVFVGNLSDNTRAPEVRELFVPYGTVVECDIVRNYGFVHID-SPDINKCIKELNGMMV 102
+TK+ VGN+S E+R F YG V+ECDIV++Y FVH++ + D + I+ L+
Sbjct: 10 STKLHVGNISPTCTNQELRAKFEEYGPVIECDIVKDYAFVHMERAEDAVEAIRGLDNTEF 69
Query: 103 DGKPMKVVVA 112
GK M V ++
Sbjct: 70 QGKRMHVQLS 79
Score = 48.9 bits (115), Expect = 4e-06, Method: Compositional matrix adjust.
Identities = 18/41 (43%), Positives = 30/41 (73%)
Query: 306 GTFKIFIGNVNPGTSVELIRPLFEKYGKVVECDVVKNYGFV 346
+ K+ +GN++P + + +R FE+YG V+ECD+VK+Y FV
Sbjct: 9 ASTKLHVGNISPTCTNQELRAKFEEYGPVIECDIVKDYAFV 49
>pdb|2D9P|A Chain A, Solution Structure Of Rna Binding Domain 4 In
Polyadenylation Binding Protein 3
Length = 103
Score = 45.1 bits (105), Expect = 5e-05, Method: Compositional matrix adjust.
Identities = 23/73 (31%), Positives = 39/73 (53%), Gaps = 7/73 (9%)
Query: 47 VFVGNLSDNTRAPEVRELFVPYGTVVECDIV------RNYGFVHIDSP-DINKCIKELNG 99
++V NL D +R+ F P+GT+ ++ + +GFV SP + K + E+NG
Sbjct: 18 LYVKNLDDGIDDERLRKAFSPFGTITSAKVMMEGGRSKGFGFVCFSSPEEATKAVTEMNG 77
Query: 100 MMVDGKPMKVVVA 112
+V KP+ V +A
Sbjct: 78 RIVATKPLYVALA 90
>pdb|1CVJ|A Chain A, X-Ray Crystal Structure Of The Poly(A)-Binding Protein In
Complex With Polyadenylate Rna
pdb|1CVJ|B Chain B, X-Ray Crystal Structure Of The Poly(A)-Binding Protein In
Complex With Polyadenylate Rna
pdb|1CVJ|C Chain C, X-Ray Crystal Structure Of The Poly(A)-Binding Protein In
Complex With Polyadenylate Rna
pdb|1CVJ|D Chain D, X-Ray Crystal Structure Of The Poly(A)-Binding Protein In
Complex With Polyadenylate Rna
pdb|1CVJ|E Chain E, X-Ray Crystal Structure Of The Poly(A)-Binding Protein In
Complex With Polyadenylate Rna
pdb|1CVJ|F Chain F, X-Ray Crystal Structure Of The Poly(A)-Binding Protein In
Complex With Polyadenylate Rna
pdb|1CVJ|G Chain G, X-Ray Crystal Structure Of The Poly(A)-Binding Protein In
Complex With Polyadenylate Rna
pdb|1CVJ|H Chain H, X-Ray Crystal Structure Of The Poly(A)-Binding Protein In
Complex With Polyadenylate Rna
Length = 190
Score = 44.3 bits (103), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 28/116 (24%), Positives = 60/116 (51%), Gaps = 14/116 (12%)
Query: 11 EGRTAIKELNGQIVNEKPLKIEAATSRKGPNTPTT---KVFVGNLSDNTRAPEVRELFVP 67
+ A+ +N ++ KP++I S++ P+ + +F+ NL + + + F
Sbjct: 64 DAERALDTMNFDVIKGKPVRI--MWSQRDPSLRKSGVGNIFIKNLDKSIDNKALYDTFSA 121
Query: 68 YGTVVECDIV------RNYGFVHIDSPD-INKCIKELNGMMVDGKPMKVVVAGFIS 116
+G ++ C +V + YGFVH ++ + + I+++NGM+++ + KV V F S
Sbjct: 122 FGNILSCKVVCDENGSKGYGFVHFETQEAAERAIEKMNGMLLNDR--KVFVGRFKS 175
Score = 36.2 bits (82), Expect = 0.024, Method: Compositional matrix adjust.
Identities = 18/81 (22%), Positives = 39/81 (48%), Gaps = 9/81 (11%)
Query: 39 GPNTPTTKVFVGNLSDNTRAPEVRELFVPYGTVVECDIVRN--------YGFVHIDSP-D 89
P+ P ++VG+L + + E F P G ++ + R+ Y +V+ P D
Sbjct: 5 APSYPMASLYVGDLHPDVTEAMLYEKFSPAGPILSIRVCRDMITRRSLGYAYVNFQQPAD 64
Query: 90 INKCIKELNGMMVDGKPMKVV 110
+ + +N ++ GKP++++
Sbjct: 65 AERALDTMNFDVIKGKPVRIM 85
Score = 29.6 bits (65), Expect = 2.6, Method: Compositional matrix adjust.
Identities = 17/62 (27%), Positives = 28/62 (45%), Gaps = 6/62 (9%)
Query: 291 VVVIEARNMPGFSSVGTFKIFIGNVNPGTSVELIRPLFEKYGKVVECDVV------KNYG 344
V ++ ++ P G IFI N++ + + F +G ++ C VV K YG
Sbjct: 82 VRIMWSQRDPSLRKSGVGNIFIKNLDKSIDNKALYDTFSAFGNILSCKVVCDENGSKGYG 141
Query: 345 FV 346
FV
Sbjct: 142 FV 143
>pdb|1FXL|A Chain A, Crystal Structure Of Hud And Au-Rich Element Of The C-Fos
Rna
pdb|1G2E|A Chain A, Crystal Structure Of Hud And Au-Rich Element Of The Tumor
Necrosis Factor Alpha Rna
Length = 167
Score = 43.9 bits (102), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 28/77 (36%), Positives = 36/77 (46%), Gaps = 9/77 (11%)
Query: 45 TKVFVGNLSDNTRAPEVRELFVPYGTVVECDIVRN--------YGFV-HIDSPDINKCIK 95
T + V L N E R LF G + C +VR+ YGFV +ID D K I
Sbjct: 3 TNLIVNYLPQNMTQEEFRSLFGSIGEIESCKLVRDKITGQSLGYGFVNYIDPKDAEKAIN 62
Query: 96 ELNGMMVDGKPMKVVVA 112
LNG+ + K +KV A
Sbjct: 63 TLNGLRLQTKTIKVSYA 79
>pdb|4F02|A Chain A, Crystal Structure Of The Pabp-Binding Site Of Eif4g In
Complex With Rrm1-2 Of Pabp And Poly(A)
pdb|4F02|D Chain D, Crystal Structure Of The Pabp-Binding Site Of Eif4g In
Complex With Rrm1-2 Of Pabp And Poly(A)
Length = 213
Score = 43.9 bits (102), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 28/122 (22%), Positives = 62/122 (50%), Gaps = 14/122 (11%)
Query: 5 HMENDEEGRTAIKELNGQIVNEKPLKIEAATSRKGPNTPTT---KVFVGNLSDNTRAPEV 61
+ + + A+ +N ++ KP++I S++ P+ + +F+ NL + +
Sbjct: 63 NFQQPADAERALDTMNFDVIKGKPVRI--MWSQRDPSLRKSGVGNIFIKNLDKSIDNKAL 120
Query: 62 RELFVPYGTVVECDIV------RNYGFVHIDSPD-INKCIKELNGMMVDGKPMKVVVAGF 114
+ F +G ++ C +V + YGFVH ++ + + I+++NGM+++ + KV V F
Sbjct: 121 YDTFSAFGNILSCKVVCDENGSKGYGFVHFETQEAAERAIEKMNGMLLNDR--KVFVGRF 178
Query: 115 IS 116
S
Sbjct: 179 KS 180
Score = 36.2 bits (82), Expect = 0.028, Method: Compositional matrix adjust.
Identities = 18/81 (22%), Positives = 39/81 (48%), Gaps = 9/81 (11%)
Query: 39 GPNTPTTKVFVGNLSDNTRAPEVRELFVPYGTVVECDIVRN--------YGFVHIDSP-D 89
P+ P ++VG+L + + E F P G ++ + R+ Y +V+ P D
Sbjct: 10 APSYPMASLYVGDLHPDVTEAMLYEKFSPAGPILSIRVCRDMITRRSLGYAYVNFQQPAD 69
Query: 90 INKCIKELNGMMVDGKPMKVV 110
+ + +N ++ GKP++++
Sbjct: 70 AERALDTMNFDVIKGKPVRIM 90
Score = 29.6 bits (65), Expect = 2.7, Method: Compositional matrix adjust.
Identities = 17/62 (27%), Positives = 28/62 (45%), Gaps = 6/62 (9%)
Query: 291 VVVIEARNMPGFSSVGTFKIFIGNVNPGTSVELIRPLFEKYGKVVECDVV------KNYG 344
V ++ ++ P G IFI N++ + + F +G ++ C VV K YG
Sbjct: 87 VRIMWSQRDPSLRKSGVGNIFIKNLDKSIDNKALYDTFSAFGNILSCKVVCDENGSKGYG 146
Query: 345 FV 346
FV
Sbjct: 147 FV 148
>pdb|3SDE|B Chain B, Crystal Structure Of A Paraspeckle-Protein Heterodimer,
Pspc1NONO
Length = 261
Score = 42.0 bits (97), Expect = 5e-04, Method: Compositional matrix adjust.
Identities = 25/80 (31%), Positives = 46/80 (57%), Gaps = 3/80 (3%)
Query: 42 TPTTKVFVGNLSDNTRAPEVRELFVPYGTVVECDIVRN--YGFVHIDSPDINKCIK-ELN 98
T +++FVGNL + E+R+LF YG E I ++ +GF+ +++ + + K EL+
Sbjct: 20 TQRSRLFVGNLPPDITEEEMRKLFEKYGKAGEVFIHKDKGFGFIRLETRTLAEIAKVELD 79
Query: 99 GMMVDGKPMKVVVAGFISSI 118
M + GK ++V A +S+
Sbjct: 80 NMPLRGKQLRVRFACHSASL 99
Score = 39.7 bits (91), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 17/37 (45%), Positives = 25/37 (67%)
Query: 309 KIFIGNVNPGTSVELIRPLFEKYGKVVECDVVKNYGF 345
++F+GN+ P + E +R LFEKYGK E + K+ GF
Sbjct: 24 RLFVGNLPPDITEEEMRKLFEKYGKAGEVFIHKDKGF 60
>pdb|2CPJ|A Chain A, Solution Structure Of The N-Terminal Rna Recognition Motif
Of Nono
pdb|2RS8|A Chain A, Solution Structure Of The N-Terminal Rna Recognition Motif
Of Nono
Length = 99
Score = 41.2 bits (95), Expect = 0.001, Method: Composition-based stats.
Identities = 26/82 (31%), Positives = 47/82 (57%), Gaps = 3/82 (3%)
Query: 42 TPTTKVFVGNLSDNTRAPEVRELFVPYGTVVECDIVRN--YGFVHIDSPDINKCIK-ELN 98
T +++FVGNL + E+R+LF YG E I ++ +GF+ +++ + + K EL+
Sbjct: 13 TQRSRLFVGNLPPDITEEEMRKLFEKYGKAGEVFIHKDKGFGFIRLETRTLAEIAKVELD 72
Query: 99 GMMVDGKPMKVVVAGFISSILS 120
M + GK ++V A +S+ S
Sbjct: 73 NMPLRGKQLRVRFACHSASLTS 94
Score = 38.9 bits (89), Expect = 0.004, Method: Composition-based stats.
Identities = 17/37 (45%), Positives = 25/37 (67%)
Query: 309 KIFIGNVNPGTSVELIRPLFEKYGKVVECDVVKNYGF 345
++F+GN+ P + E +R LFEKYGK E + K+ GF
Sbjct: 17 RLFVGNLPPDITEEEMRKLFEKYGKAGEVFIHKDKGF 53
>pdb|1X5S|A Chain A, Solution Structure Of Rrm Domain In A18 Hnrnp
Length = 102
Score = 40.8 bits (94), Expect = 0.001, Method: Composition-based stats.
Identities = 26/77 (33%), Positives = 41/77 (53%), Gaps = 9/77 (11%)
Query: 46 KVFVGNLSDNTRAPEVRELFVPYGTVVECDIV--------RNYGFVHIDSPDINK-CIKE 96
K+FVG LS +T + ++F YG + E +V R +GFV ++ D K +
Sbjct: 14 KLFVGGLSFDTNEQSLEQVFSKYGQISEVVVVKDRETQRSRGFGFVTFENIDDAKDAMMA 73
Query: 97 LNGMMVDGKPMKVVVAG 113
+NG VDG+ ++V AG
Sbjct: 74 MNGKSVDGRQIRVDQAG 90
Score = 28.9 bits (63), Expect = 4.3, Method: Composition-based stats.
Identities = 15/46 (32%), Positives = 27/46 (58%), Gaps = 8/46 (17%)
Query: 309 KIFIGNVNPGTSVELIRPLFEKYGKVVECDVVKN--------YGFV 346
K+F+G ++ T+ + + +F KYG++ E VVK+ +GFV
Sbjct: 14 KLFVGGLSFDTNEQSLEQVFSKYGQISEVVVVKDRETQRSRGFGFV 59
>pdb|1WF1|A Chain A, Solution Structure Of Rrm Domain In Rna-Binding Protein
Np_057951
Length = 110
Score = 40.4 bits (93), Expect = 0.001, Method: Composition-based stats.
Identities = 24/89 (26%), Positives = 48/89 (53%), Gaps = 4/89 (4%)
Query: 29 LKIEAA--TSRKGPNTPTTKVFVGNLSDN-TRAPEVRELFVPYGTVVECDIVRNYGFV-H 84
LK++A+ T++ P + ++VF+GNL+ + +V +F YG V C + + Y FV +
Sbjct: 10 LKLQASNVTNKNDPKSINSRVFIGNLNTALVKKSDVETIFSKYGRVAGCSVHKGYAFVQY 69
Query: 85 IDSPDINKCIKELNGMMVDGKPMKVVVAG 113
+ + NG ++ G+ + + +AG
Sbjct: 70 SNERHARAAVLGENGRVLAGQTLDINMAG 98
Score = 34.7 bits (78), Expect = 0.081, Method: Composition-based stats.
Identities = 19/42 (45%), Positives = 24/42 (57%), Gaps = 7/42 (16%)
Query: 309 KIFIGNVNPG----TSVELIRPLFEKYGKVVECDVVKNYGFV 346
++FIGN+N + VE I F KYG+V C V K Y FV
Sbjct: 29 RVFIGNLNTALVKKSDVETI---FSKYGRVAGCSVHKGYAFV 67
>pdb|2JRS|A Chain A, Solution Nmr Structure Of Caper Rrm2 Domain. Northeast
Structural Genomics Target Hr4730a
Length = 108
Score = 40.4 bits (93), Expect = 0.002, Method: Composition-based stats.
Identities = 25/82 (30%), Positives = 43/82 (52%), Gaps = 10/82 (12%)
Query: 37 RKGPNTPTTKVFVGNLSDNTRAPEVRELFVPYGTVVECDIV--------RNYGFVHI-DS 87
+KG P +++VG+L N +R +F P+G + ++ + YGF+ DS
Sbjct: 20 QKGSAGPM-RLYVGSLHFNITEDMLRGIFEPFGRIESIQLMMDSETGRSKGYGFITFSDS 78
Query: 88 PDINKCIKELNGMMVDGKPMKV 109
K +++LNG + G+PMKV
Sbjct: 79 ECAKKALEQLNGFELAGRPMKV 100
Score = 27.7 bits (60), Expect = 8.6, Method: Composition-based stats.
Identities = 11/51 (21%), Positives = 29/51 (56%), Gaps = 8/51 (15%)
Query: 304 SVGTFKIFIGNVNPGTSVELIRPLFEKYGKVVECDVV--------KNYGFV 346
S G ++++G+++ + +++R +FE +G++ ++ K YGF+
Sbjct: 23 SAGPMRLYVGSLHFNITEDMLRGIFEPFGRIESIQLMMDSETGRSKGYGFI 73
>pdb|3SDE|A Chain A, Crystal Structure Of A Paraspeckle-Protein Heterodimer,
Pspc1NONO
Length = 261
Score = 39.7 bits (91), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 21/70 (30%), Positives = 40/70 (57%), Gaps = 3/70 (4%)
Query: 46 KVFVGNLSDNTRAPEVRELFVPYGTVVECDIVRN--YGFVHIDSPDINKCIK-ELNGMMV 102
++FVGNL + + + LF YG E I R+ +GF+ ++S + + K EL+G ++
Sbjct: 24 RLFVGNLPTDITEEDFKRLFERYGEPSEVFINRDRGFGFIRLESRTLAEIAKAELDGTIL 83
Query: 103 DGKPMKVVVA 112
+P+++ A
Sbjct: 84 KSRPLRIRFA 93
Score = 30.0 bits (66), Expect = 2.2, Method: Compositional matrix adjust.
Identities = 12/37 (32%), Positives = 23/37 (62%)
Query: 309 KIFIGNVNPGTSVELIRPLFEKYGKVVECDVVKNYGF 345
++F+GN+ + E + LFE+YG+ E + ++ GF
Sbjct: 24 RLFVGNLPTDITEEDFKRLFERYGEPSEVFINRDRGF 60
>pdb|2L41|A Chain A, Nab3 Rrm - Ucuu Complex
Length = 77
Score = 39.7 bits (91), Expect = 0.003, Method: Composition-based stats.
Identities = 15/47 (31%), Positives = 29/47 (61%), Gaps = 1/47 (2%)
Query: 43 PTTKVFVGNLS-DNTRAPEVRELFVPYGTVVECDIVRNYGFVHIDSP 88
P +++F+GNL N ++ +F PYG +++ +I +GF+ D+P
Sbjct: 1 PKSRLFIGNLPLKNVSKEDLFRIFSPYGHIMQINIKNAFGFIQFDNP 47
>pdb|2KVI|A Chain A, Structure Of Nab3 Rrm
Length = 96
Score = 39.7 bits (91), Expect = 0.003, Method: Composition-based stats.
Identities = 15/47 (31%), Positives = 29/47 (61%), Gaps = 1/47 (2%)
Query: 43 PTTKVFVGNLS-DNTRAPEVRELFVPYGTVVECDIVRNYGFVHIDSP 88
P +++F+GNL N ++ +F PYG +++ +I +GF+ D+P
Sbjct: 9 PKSRLFIGNLPLKNVSKEDLFRIFSPYGHIMQINIKNAFGFIQFDNP 55
>pdb|2K8G|A Chain A, Solution Structure Of Rrm2 Domain Of Pabp1
Length = 95
Score = 38.9 bits (89), Expect = 0.005, Method: Composition-based stats.
Identities = 21/77 (27%), Positives = 42/77 (54%), Gaps = 9/77 (11%)
Query: 47 VFVGNLSDNTRAPEVRELFVPYGTVVECDIV------RNYGFVHIDSPD-INKCIKELNG 99
+F+ NL + + + F +G ++ C +V + YGFVH ++ + + I+++NG
Sbjct: 14 IFIKNLDKSIDNKALYDTFSAFGNILSCKVVCDENGSKGYGFVHFETQEAAERAIEKMNG 73
Query: 100 MMVDGKPMKVVVAGFIS 116
M+++ + KV V F S
Sbjct: 74 MLLNDR--KVFVGRFKS 88
Score = 30.0 bits (66), Expect = 2.2, Method: Composition-based stats.
Identities = 16/53 (30%), Positives = 23/53 (43%), Gaps = 6/53 (11%)
Query: 300 PGFSSVGTFKIFIGNVNPGTSVELIRPLFEKYGKVVECDVV------KNYGFV 346
P G IFI N++ + + F +G ++ C VV K YGFV
Sbjct: 4 PSLRKSGVGNIFIKNLDKSIDNKALYDTFSAFGNILSCKVVCDENGSKGYGFV 56
>pdb|4F25|A Chain A, Crystal Structure Of The Second Rrm Domain Of Human Pabpc1
At Ph 6.0
pdb|4F26|A Chain A, Crystal Structure Of The Second Rrm Domain Of Human Pabpc1
A Ph 9.0
Length = 115
Score = 38.5 bits (88), Expect = 0.005, Method: Composition-based stats.
Identities = 21/77 (27%), Positives = 42/77 (54%), Gaps = 9/77 (11%)
Query: 47 VFVGNLSDNTRAPEVRELFVPYGTVVECDIV------RNYGFVHIDSPD-INKCIKELNG 99
+F+ NL + + + F +G ++ C +V + YGFVH ++ + + I+++NG
Sbjct: 8 IFIKNLDKSIDNKALYDTFSAFGNILSCKVVCDENGSKGYGFVHFETQEAAERAIEKMNG 67
Query: 100 MMVDGKPMKVVVAGFIS 116
M+++ + KV V F S
Sbjct: 68 MLLNDR--KVFVGRFKS 82
Score = 28.9 bits (63), Expect = 4.8, Method: Composition-based stats.
Identities = 15/48 (31%), Positives = 24/48 (50%), Gaps = 6/48 (12%)
Query: 305 VGTFKIFIGNVNPGTSVELIRPLFEKYGKVVECDVV------KNYGFV 346
+G+ IFI N++ + + F +G ++ C VV K YGFV
Sbjct: 3 LGSGNIFIKNLDKSIDNKALYDTFSAFGNILSCKVVCDENGSKGYGFV 50
>pdb|1WF2|A Chain A, Solution Structure Of Rrm Domain In Hnrpc Protein
Length = 98
Score = 38.5 bits (88), Expect = 0.005, Method: Compositional matrix adjust.
Identities = 20/83 (24%), Positives = 45/83 (54%), Gaps = 6/83 (7%)
Query: 34 ATSRKGPNTPTTKVFVGNLSDNT---RAPEVRELFVPYGTVVECDIVRNYGFV-HIDSPD 89
++ + P + ++VF+GNL NT + +V +F YG +V C + + + FV +++ +
Sbjct: 5 SSGKTDPRSMNSRVFIGNL--NTLVVKKSDVEAIFSKYGKIVGCSVHKGFAFVQYVNERN 62
Query: 90 INKCIKELNGMMVDGKPMKVVVA 112
+ +G M+ G+ + + +A
Sbjct: 63 ARAAVAGEDGRMIAGQVLDINLA 85
Score = 33.9 bits (76), Expect = 0.15, Method: Compositional matrix adjust.
Identities = 19/42 (45%), Positives = 25/42 (59%), Gaps = 7/42 (16%)
Query: 309 KIFIGNVN----PGTSVELIRPLFEKYGKVVECDVVKNYGFV 346
++FIGN+N + VE I F KYGK+V C V K + FV
Sbjct: 17 RVFIGNLNTLVVKKSDVEAI---FSKYGKIVGCSVHKGFAFV 55
>pdb|2CQ3|A Chain A, Solution Structure Of Rna Binding Domain In Rna Binding
Motif Protein 9
Length = 103
Score = 38.5 bits (88), Expect = 0.006, Method: Compositional matrix adjust.
Identities = 19/71 (26%), Positives = 44/71 (61%), Gaps = 7/71 (9%)
Query: 46 KVFVGNLSDNTRAPEVRELFVPYGTVVECDIVRN------YGFVHID-SPDINKCIKELN 98
++ V N+ R P++R++F +G +++ +I+ N +GFV + S D ++ ++L+
Sbjct: 17 RLHVSNIPFRFRDPDLRQMFGQFGKILDVEIIFNERGSKGFGFVTFENSADADRAREKLH 76
Query: 99 GMMVDGKPMKV 109
G +V+G+ ++V
Sbjct: 77 GTVVEGRKIEV 87
>pdb|4A8X|A Chain A, Structure Of The Core Asap Complex
Length = 88
Score = 38.5 bits (88), Expect = 0.006, Method: Composition-based stats.
Identities = 20/71 (28%), Positives = 35/71 (49%), Gaps = 10/71 (14%)
Query: 45 TKVFVGNLSDNTRAPEVRELFVPYGTVVECD---------IVRNYGFVHIDSPD-INKCI 94
TKV +G L+ N + E+F YG + D + + Y +V ++PD K +
Sbjct: 5 TKVHIGRLTRNVTKDHIMEIFSTYGKIKMIDMPVERMHPHLSKGYAYVEFENPDEAEKAL 64
Query: 95 KELNGMMVDGK 105
K ++G +DG+
Sbjct: 65 KHMDGGQIDGQ 75
>pdb|2ERR|A Chain A, Nmr Structure Of The Rna Binding Domain Of Human Fox-1 In
Complex With Ugcaugu
Length = 109
Score = 38.1 bits (87), Expect = 0.007, Method: Compositional matrix adjust.
Identities = 19/71 (26%), Positives = 44/71 (61%), Gaps = 7/71 (9%)
Query: 46 KVFVGNLSDNTRAPEVRELFVPYGTVVECDIVRN------YGFVHID-SPDINKCIKELN 98
++ V N+ R P++R++F +G +++ +I+ N +GFV + S D ++ ++L+
Sbjct: 31 RLHVSNIPFRFRDPDLRQMFGQFGKILDVEIIFNERGSKGFGFVTFENSADADRAREKLH 90
Query: 99 GMMVDGKPMKV 109
G +V+G+ ++V
Sbjct: 91 GTVVEGRKIEV 101
>pdb|2OSQ|A Chain A, Nmr Structure Of Rrm-1 Of Yeast Npl3 Protein
Length = 74
Score = 37.7 bits (86), Expect = 0.010, Method: Composition-based stats.
Identities = 19/67 (28%), Positives = 37/67 (55%), Gaps = 1/67 (1%)
Query: 45 TKVFVGNLSDNTRAPEVRELFVPYGTVVECDIVRNYGFVHIDSPD-INKCIKELNGMMVD 103
T++FV + + E+ E+F P+G + E I+ + FV + + K I+E++G
Sbjct: 5 TRLFVRPFPLDVQESELNEIFGPFGPMKEVKILNGFAFVEFEEAESAAKAIEEVHGKSFA 64
Query: 104 GKPMKVV 110
+P++VV
Sbjct: 65 NQPLEVV 71
>pdb|2JVO|A Chain A, Segmental Isotope Labeling Of Npl3
Length = 108
Score = 37.7 bits (86), Expect = 0.010, Method: Composition-based stats.
Identities = 20/75 (26%), Positives = 39/75 (52%), Gaps = 1/75 (1%)
Query: 37 RKGPNTPTTKVFVGNLSDNTRAPEVRELFVPYGTVVECDIVRNYGFVHIDSPD-INKCIK 95
R+ T++FV + + E+ E+F P+G + E I+ + FV + + K I+
Sbjct: 24 RQEGELSNTRLFVRPFPLDVQESELNEIFGPFGPMKEVKILNGFAFVEFEEAESAAKAIE 83
Query: 96 ELNGMMVDGKPMKVV 110
E++G +P++VV
Sbjct: 84 EVHGKSFANQPLEVV 98
>pdb|2DNZ|A Chain A, Solution Structure Of The Second Rna Binding Domain Of Rna
Binding Motif Protein 23
Length = 95
Score = 37.7 bits (86), Expect = 0.010, Method: Compositional matrix adjust.
Identities = 20/78 (25%), Positives = 43/78 (55%), Gaps = 9/78 (11%)
Query: 41 NTPTTKVFVGNLSDNTRAPEVRELFVPYGTVVECDIVRN--------YGFVHI-DSPDIN 91
++ ++ ++VG+L N +R +F P+G + ++++ YGF+ DS
Sbjct: 2 SSGSSGLYVGSLHFNITEDMLRGIFEPFGKIDNIVLMKDSDTGRSKGYGFITFSDSECAR 61
Query: 92 KCIKELNGMMVDGKPMKV 109
+ +++LNG + G+PM+V
Sbjct: 62 RALEQLNGFELAGRPMRV 79
>pdb|2CPD|A Chain A, Solution Structure Of The Rna Recognition Motif Of Human
Apobec-1 Complementation Factor, Acf
Length = 99
Score = 37.4 bits (85), Expect = 0.011, Method: Compositional matrix adjust.
Identities = 22/69 (31%), Positives = 38/69 (55%), Gaps = 3/69 (4%)
Query: 47 VFVGNLSDNTRAPEVRELF--VPYGTVVECDIVRNYGFVHI-DSPDINKCIKELNGMMVD 103
++V NL +T + + F + G V +R+Y FVH + D + +K LNG ++D
Sbjct: 18 LYVRNLMLSTSEEMIEKEFNNIKPGAVERVKKIRDYAFVHFSNREDAVEAMKALNGKVLD 77
Query: 104 GKPMKVVVA 112
G P++V +A
Sbjct: 78 GSPIEVTLA 86
>pdb|2QFJ|A Chain A, Crystal Structure Of First Two Rrm Domains Of Fir Bound To
Ssdna From A Portion Of Fuse
pdb|2QFJ|B Chain B, Crystal Structure Of First Two Rrm Domains Of Fir Bound To
Ssdna From A Portion Of Fuse
Length = 216
Score = 37.4 bits (85), Expect = 0.012, Method: Compositional matrix adjust.
Identities = 19/86 (22%), Positives = 44/86 (51%), Gaps = 9/86 (10%)
Query: 33 AATSRKGPNTPTTKVFVGNLSDNTRAPEVRELFVPYGTVVECDIV--------RNYGFVH 84
+A R+G ++V+VG++ +R+ F P+G + D+ + + FV
Sbjct: 17 SAAQRQGALAIMSRVYVGSIYYELGEDTIRQAFAPFGPIKSIDMSWDSVTMKHKGFAFVE 76
Query: 85 IDSPDINK-CIKELNGMMVDGKPMKV 109
+ P+ + ++++N +M+ G+ +KV
Sbjct: 77 YEVPEAAQLALEQMNSVMLGGRNIKV 102
>pdb|2XNR|A Chain A, Structural Insights Into Cis Element Recognition Of Non-
Polyadenylated Rnas By The Nab3-Rrm
Length = 97
Score = 37.4 bits (85), Expect = 0.013, Method: Compositional matrix adjust.
Identities = 14/46 (30%), Positives = 28/46 (60%), Gaps = 1/46 (2%)
Query: 45 TKVFVGNLS-DNTRAPEVRELFVPYGTVVECDIVRNYGFVHIDSPD 89
+++F+GNL N ++ +F PYG +++ +I +GF+ D+P
Sbjct: 23 SRLFIGNLPLKNVSKEDLFRIFSPYGHIMQINIKNAFGFIQFDNPQ 68
>pdb|2DGU|A Chain A, Solution Structure Of The Rna Binding Domain In
Heterogeneous Nuclear Ribonucleoprotein Q
Length = 103
Score = 37.0 bits (84), Expect = 0.014, Method: Composition-based stats.
Identities = 18/67 (26%), Positives = 38/67 (56%), Gaps = 1/67 (1%)
Query: 47 VFVGNLSDNTRAPEVRELFVPYGTVVECDIVRNYGFVHIDSPD-INKCIKELNGMMVDGK 105
+FV NL++ + + F +G + +++Y F+H D D K ++E+NG ++G+
Sbjct: 14 LFVRNLANTVTEEILEKAFSQFGKLERVKKLKDYAFIHFDERDGAVKAMEEMNGKDLEGE 73
Query: 106 PMKVVVA 112
+++V A
Sbjct: 74 NIEIVFA 80
>pdb|2RRB|A Chain A, Refinement Of Rna Binding Domain In Human Tra2 Beta
Protein
Length = 96
Score = 37.0 bits (84), Expect = 0.015, Method: Compositional matrix adjust.
Identities = 28/83 (33%), Positives = 43/83 (51%), Gaps = 10/83 (12%)
Query: 36 SRKGPNTPTTKVFVGNLSDNTRAPEVRELFVPYGTVVECDIV--------RNYGFVHIDS 87
SR P+ P + V LS T ++RE+F YG + + IV R + FV+ ++
Sbjct: 5 SRANPD-PNCCLGVFGLSLYTTERDLREVFSKYGPIADVSIVYDQQSRRSRGFAFVYFEN 63
Query: 88 PDINKCIKE-LNGMMVDGKPMKV 109
D K KE NGM +DG+ ++V
Sbjct: 64 VDDAKEAKERANGMELDGRRIRV 86
>pdb|1B7F|A Chain A, Sxl-Lethal ProteinRNA COMPLEX
pdb|1B7F|B Chain B, Sxl-Lethal ProteinRNA COMPLEX
Length = 168
Score = 37.0 bits (84), Expect = 0.016, Method: Compositional matrix adjust.
Identities = 31/113 (27%), Positives = 55/113 (48%), Gaps = 12/113 (10%)
Query: 11 EGRTAIKELNGQIVNEKPLKIEAATSRKGPNTPTTKVFVGNLSDNTRAPEVRELFVPYGT 70
+ + AIK LNG V K LK+ A G + T ++V NL ++ +F YG+
Sbjct: 57 DSQRAIKVLNGITVRNKRLKVSYARP-GGESIKDTNLYVTNLPRTITDDQLDTIFGKYGS 115
Query: 71 VVECDIVRN--------YGFVHIDS-PDINKCIKELNGMMVDG--KPMKVVVA 112
+V+ +I+R+ FV + + + I LN ++ +G +P+ V +A
Sbjct: 116 IVQKNILRDKLTGRPRGVAFVRYNKREEAQEAISALNNVIPEGGSQPLSVRLA 168
Score = 33.1 bits (74), Expect = 0.20, Method: Compositional matrix adjust.
Identities = 24/77 (31%), Positives = 35/77 (45%), Gaps = 9/77 (11%)
Query: 45 TKVFVGNLSDNTRAPEVRELFVPYGTVVECDIVRN------YGFVHID---SPDINKCIK 95
T + V L + E+ LF G + C I+R+ YG+ +D D + IK
Sbjct: 4 TNLIVNYLPQDMTDRELYALFRAIGPINTCRIMRDYKTGYSYGYAFVDFTSEMDSQRAIK 63
Query: 96 ELNGMMVDGKPMKVVVA 112
LNG+ V K +KV A
Sbjct: 64 VLNGITVRNKRLKVSYA 80
>pdb|2XNQ|A Chain A, Structural Insights Into Cis Element Recognition Of Non-
Polyadenylated Rnas By The Nab3-Rrm
Length = 97
Score = 36.6 bits (83), Expect = 0.018, Method: Composition-based stats.
Identities = 14/45 (31%), Positives = 28/45 (62%), Gaps = 1/45 (2%)
Query: 45 TKVFVGNLS-DNTRAPEVRELFVPYGTVVECDIVRNYGFVHIDSP 88
+++F+GNL N ++ +F PYG +++ +I +GF+ D+P
Sbjct: 23 SRLFIGNLPLKNVSKEDLFRIFSPYGHIMQINIKNAFGFIQFDNP 67
>pdb|2CJK|A Chain A, Structure Of The Rna Binding Domain Of Hrp1 In Complex
With Rna
pdb|2KM8|C Chain C, Interdomain Rrm Packing Contributes To Rna Recognition In
The Rna15, Hrp1, Anchor Rna 3' Processing Ternary
Complex
Length = 167
Score = 36.6 bits (83), Expect = 0.019, Method: Compositional matrix adjust.
Identities = 23/79 (29%), Positives = 39/79 (49%), Gaps = 14/79 (17%)
Query: 19 LNGQIVNEKPLKIEAATSRKGPNTPTTKVFVGNLSDNTRAPEVRELFVPYGTVVECDIV- 77
L+G++++ K A R + T K+FVG + + R E E F +GT+++ ++
Sbjct: 68 LDGKVIDPK-----RAIPRDEQDK-TGKIFVGGIGPDVRPKEFEEFFSQWGTIIDAQLML 121
Query: 78 -------RNYGFVHIDSPD 89
R +GFV DS D
Sbjct: 122 DKDTGQSRGFGFVTYDSAD 140
Score = 35.0 bits (79), Expect = 0.064, Method: Compositional matrix adjust.
Identities = 22/72 (30%), Positives = 39/72 (54%), Gaps = 12/72 (16%)
Query: 46 KVFVGNLSDNTRAPEVRELFVPYGTVVECDIV--------RNYGFVHIDSP-DINKCIKE 96
K+F+G L+ +T +RE F YGTV + I+ R +GF+ + P +++ +K
Sbjct: 5 KMFIGGLNWDTTEDNLREYFGKYGTVTDLKIMKDPATGRSRGFGFLSFEKPSSVDEVVKT 64
Query: 97 ---LNGMMVDGK 105
L+G ++D K
Sbjct: 65 QHILDGKVIDPK 76
Score = 30.4 bits (67), Expect = 1.6, Method: Compositional matrix adjust.
Identities = 13/34 (38%), Positives = 22/34 (64%)
Query: 309 KIFIGNVNPGTSVELIRPLFEKYGKVVECDVVKN 342
K+FIG +N T+ + +R F KYG V + ++K+
Sbjct: 5 KMFIGGLNWDTTEDNLREYFGKYGTVTDLKIMKD 38
>pdb|2CQC|A Chain A, Solution Structure Of The Rna Recognition Motif In
ArginineSERINE-Rich Splicing Factor 10
Length = 95
Score = 36.6 bits (83), Expect = 0.020, Method: Compositional matrix adjust.
Identities = 27/86 (31%), Positives = 45/86 (52%), Gaps = 10/86 (11%)
Query: 33 AATSRKGPNTPTTKVFVGNLSDNTRAPEVRELFVPYGTVVECDIV--------RNYGFVH 84
++ +R P+ P + V LS T ++RE+F YG + + IV R + FV+
Sbjct: 5 SSGNRANPD-PNCCLGVFGLSLYTTERDLREVFSKYGPIADVSIVYDQQSRRSRGFAFVY 63
Query: 85 IDSPDINKCIKE-LNGMMVDGKPMKV 109
++ D K KE NGM +DG+ ++V
Sbjct: 64 FENVDDAKEAKERANGMELDGRRIRV 89
>pdb|3SXL|A Chain A, Sex-Lethal Rna Recognition Domains 1 And 2 From Drosophila
Melanogaster
pdb|3SXL|B Chain B, Sex-Lethal Rna Recognition Domains 1 And 2 From Drosophila
Melanogaster
pdb|3SXL|C Chain C, Sex-Lethal Rna Recognition Domains 1 And 2 From Drosophila
Melanogaster
Length = 184
Score = 36.6 bits (83), Expect = 0.022, Method: Compositional matrix adjust.
Identities = 31/115 (26%), Positives = 56/115 (48%), Gaps = 12/115 (10%)
Query: 9 DEEGRTAIKELNGQIVNEKPLKIEAATSRKGPNTPTTKVFVGNLSDNTRAPEVRELFVPY 68
+ + + AIK LNG V K LK+ A G + T ++V NL ++ +F Y
Sbjct: 66 EXDSQRAIKVLNGITVRNKRLKVSYARP-GGESIKDTNLYVTNLPRTITDDQLDTIFGKY 124
Query: 69 GTVVECDIVRN--------YGFVHIDS-PDINKCIKELNGMMVDG--KPMKVVVA 112
G++V+ +I+R+ FV + + + I LN ++ +G +P+ V +A
Sbjct: 125 GSIVQKNILRDKLTGRPRGVAFVRYNKREEAQEAISALNNVIPEGGSQPLSVRLA 179
Score = 35.0 bits (79), Expect = 0.063, Method: Compositional matrix adjust.
Identities = 25/82 (30%), Positives = 35/82 (42%), Gaps = 9/82 (10%)
Query: 40 PNTPTTKVFVGNLSDNTRAPEVRELFVPYGTVVECDIVRNY------GFVHID---SPDI 90
P T + V L + E+ LF G + C I R+Y G+ +D D
Sbjct: 10 PRASNTNLIVNYLPQDXTDRELYALFRAIGPINTCRIXRDYKTGYSFGYAFVDFTSEXDS 69
Query: 91 NKCIKELNGMMVDGKPMKVVVA 112
+ IK LNG+ V K +KV A
Sbjct: 70 QRAIKVLNGITVRNKRLKVSYA 91
>pdb|2I2Y|A Chain A, Solution Structure Of The Rrm Of Srp20 Bound To The Rna
Cauc
Length = 150
Score = 36.2 bits (82), Expect = 0.025, Method: Compositional matrix adjust.
Identities = 22/71 (30%), Positives = 37/71 (52%), Gaps = 4/71 (5%)
Query: 46 KVFVGNLSDNTRAPEVRELFVPYGTVVECDIVRN---YGFVHIDSP-DINKCIKELNGMM 101
KV+VGNL +N E+ F YG + + RN + FV + P D ++EL+G
Sbjct: 75 KVYVGNLGNNGNKTELERAFGYYGPLRSVWVARNPPGFAFVEFEDPRDAADAVRELDGRT 134
Query: 102 VDGKPMKVVVA 112
+ G ++V ++
Sbjct: 135 LCGCRVRVELS 145
>pdb|2RRA|A Chain A, Solution Structure Of Rna Binding Domain In Human Tra2
Beta Protein In Complex With Rna (Gaagaa)
Length = 99
Score = 36.2 bits (82), Expect = 0.026, Method: Compositional matrix adjust.
Identities = 27/86 (31%), Positives = 45/86 (52%), Gaps = 10/86 (11%)
Query: 33 AATSRKGPNTPTTKVFVGNLSDNTRAPEVRELFVPYGTVVECDIV--------RNYGFVH 84
++ +R P+ P + V LS T ++RE+F YG + + IV R + FV+
Sbjct: 5 SSGNRANPD-PNCCLGVFGLSLYTTERDLREVFSKYGPIADVSIVYDQQSRRSRGFAFVY 63
Query: 85 IDSPDINKCIKE-LNGMMVDGKPMKV 109
++ D K KE NGM +DG+ ++V
Sbjct: 64 FENVDDAKEAKERANGMELDGRRIRV 89
>pdb|2KXN|B Chain B, Nmr Structure Of Human Tra2beta1 Rrm In Complex With
Aagaac Rna
Length = 129
Score = 36.2 bits (82), Expect = 0.029, Method: Compositional matrix adjust.
Identities = 27/83 (32%), Positives = 43/83 (51%), Gaps = 10/83 (12%)
Query: 36 SRKGPNTPTTKVFVGNLSDNTRAPEVRELFVPYGTVVECDIV--------RNYGFVHIDS 87
+R P+ P + V LS T ++RE+F YG + + IV R + FV+ ++
Sbjct: 39 NRANPD-PNCCLGVFGLSLYTTERDLREVFSKYGPIADVSIVYDQQSRRSRGFAFVYFEN 97
Query: 88 PDINKCIKE-LNGMMVDGKPMKV 109
D K KE NGM +DG+ ++V
Sbjct: 98 VDDAKEAKERANGMELDGRRIRV 120
>pdb|2UP1|A Chain A, Structure Of Up1-Telomeric Dna Complex
pdb|1PO6|A Chain A, Crystal Structure Of Up1 Complexed With
D(Tagg(6mi)ttaggg): A Human Telomeric Repeat Containing
6-Methyl-8-(2-Deoxy-
Beta-Ribofuranosyl)isoxanthopteridine (6mi)
Length = 183
Score = 36.2 bits (82), Expect = 0.031, Method: Compositional matrix adjust.
Identities = 20/80 (25%), Positives = 37/80 (46%), Gaps = 8/80 (10%)
Query: 18 ELNGQIVNEKPLKIEAATSRKGPNTPTTKVFVGNLSDNTRAPEVRELFVPYGTVVECDIV 77
+++G++V K + R G + K+FVG + ++T +R+ F YG + +I+
Sbjct: 71 KVDGRVVEPKRAVSREDSQRPGAHLTVKKIFVGGIKEDTEEHHLRDYFEQYGKIEVIEIM 130
Query: 78 --------RNYGFVHIDSPD 89
R + FV D D
Sbjct: 131 TDRGSGKKRGFAFVTFDDHD 150
Score = 31.2 bits (69), Expect = 0.89, Method: Compositional matrix adjust.
Identities = 16/54 (29%), Positives = 27/54 (50%), Gaps = 1/54 (1%)
Query: 291 VVVIEARNMPGFSSVGTFKIFIGNVNPGTSVELIRPLFEKYGKVVECDVVKNYG 344
V E PG + + KIF+G + T +R FE+YGK+ +++ + G
Sbjct: 82 AVSREDSQRPG-AHLTVKKIFVGGIKEDTEEHHLRDYFEQYGKIEVIEIMTDRG 134
Score = 30.4 bits (67), Expect = 1.5, Method: Compositional matrix adjust.
Identities = 20/72 (27%), Positives = 36/72 (50%), Gaps = 15/72 (20%)
Query: 46 KVFVGNLSDNTRAPEVRELFVPYGTVVECDIVRN--------YGFVHIDSPDINKCIKEL 97
K+F+G LS T +R F +GT+ +C ++R+ +GFV ++E+
Sbjct: 8 KLFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFV------TYATVEEV 61
Query: 98 NGMMVDGKPMKV 109
+ M + +P KV
Sbjct: 62 DAAM-NARPHKV 72
Score = 29.6 bits (65), Expect = 2.3, Method: Compositional matrix adjust.
Identities = 15/46 (32%), Positives = 28/46 (60%), Gaps = 8/46 (17%)
Query: 309 KIFIGNVNPGTSVELIRPLFEKYGKVVECDVVKN--------YGFV 346
K+FIG ++ T+ E +R FE++G + +C V+++ +GFV
Sbjct: 8 KLFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFV 53
>pdb|2YWK|A Chain A, Crystal Structure Of Rrm-Domain Derived From Human
Putative Rna-Binding Protein 11
Length = 95
Score = 36.2 bits (82), Expect = 0.031, Method: Composition-based stats.
Identities = 23/71 (32%), Positives = 37/71 (52%), Gaps = 8/71 (11%)
Query: 47 VFVGNLSDNTRAPEVRELFVPYGTVVECDIVRN-------YGFVHIDSPD-INKCIKELN 98
VFVGNL R + ELF+ G + + I ++ +GFV P+ ++ I LN
Sbjct: 19 VFVGNLEARVREEILYELFLQAGPLTKVTICKDREGKPKSFGFVCFKHPESVSYAIALLN 78
Query: 99 GMMVDGKPMKV 109
G+ + G+P+ V
Sbjct: 79 GIRLYGRPINV 89
>pdb|2LYV|A Chain A, Solution Structure Of The Two Rrm Domains Of Hnrnp A1
(up1) Using Segmental Isotope Labeling
Length = 197
Score = 35.8 bits (81), Expect = 0.035, Method: Compositional matrix adjust.
Identities = 21/86 (24%), Positives = 41/86 (47%), Gaps = 9/86 (10%)
Query: 18 ELNGQIVNEKPLKIEAATSRKGPNTPTTKVFVGNLSDNTRAPEVRELFVPYGTVVECDIV 77
+++G++V K + R G + K+FVG + ++T +R+ F YG + +I+
Sbjct: 79 KVDGRVVEPKRAVSREDSQRPGAHLTVKKIFVGGIKEDTEEHHLRDYFEQYGKIEVIEIM 138
Query: 78 --------RNYGFVHIDSPD-INKCI 94
R + FV D D ++K +
Sbjct: 139 TDRGSGKKRGFAFVTFDDHDSVDKIV 164
Score = 31.2 bits (69), Expect = 0.87, Method: Compositional matrix adjust.
Identities = 16/54 (29%), Positives = 27/54 (50%), Gaps = 1/54 (1%)
Query: 291 VVVIEARNMPGFSSVGTFKIFIGNVNPGTSVELIRPLFEKYGKVVECDVVKNYG 344
V E PG + + KIF+G + T +R FE+YGK+ +++ + G
Sbjct: 90 AVSREDSQRPG-AHLTVKKIFVGGIKEDTEEHHLRDYFEQYGKIEVIEIMTDRG 142
Score = 30.8 bits (68), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 22/82 (26%), Positives = 39/82 (47%), Gaps = 17/82 (20%)
Query: 38 KGPNTPTT--KVFVGNLSDNTRAPEVRELFVPYGTVVECDIVRN--------YGFVHIDS 87
+ P P K+F+G LS T +R F +GT+ +C ++R+ +GFV
Sbjct: 6 ESPKEPEQLRKLFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFV---- 61
Query: 88 PDINKCIKELNGMMVDGKPMKV 109
++E++ M + +P KV
Sbjct: 62 --TYATVEEVDAAM-NARPHKV 80
Score = 30.0 bits (66), Expect = 2.1, Method: Compositional matrix adjust.
Identities = 15/46 (32%), Positives = 28/46 (60%), Gaps = 8/46 (17%)
Query: 309 KIFIGNVNPGTSVELIRPLFEKYGKVVECDVVKN--------YGFV 346
K+FIG ++ T+ E +R FE++G + +C V+++ +GFV
Sbjct: 16 KLFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFV 61
>pdb|1PGZ|A Chain A, Crystal Structure Of Up1 Complexed With D(Ttagggttag(6-Mi)
G); A Human Telomeric Repeat Containing 6-Methyl-8-(2-
Deoxy-Beta-Ribofuranosyl)isoxanthopteridine (6-Mi)
Length = 195
Score = 35.8 bits (81), Expect = 0.035, Method: Compositional matrix adjust.
Identities = 21/86 (24%), Positives = 41/86 (47%), Gaps = 9/86 (10%)
Query: 18 ELNGQIVNEKPLKIEAATSRKGPNTPTTKVFVGNLSDNTRAPEVRELFVPYGTVVECDIV 77
+++G++V K + R G + K+FVG + ++T +R+ F YG + +I+
Sbjct: 77 KVDGRVVEPKRAVSREDSQRPGAHLTVKKIFVGGIKEDTEEHHLRDYFEQYGKIEVIEIM 136
Query: 78 --------RNYGFVHIDSPD-INKCI 94
R + FV D D ++K +
Sbjct: 137 TDRGSGKKRGFAFVTFDDHDSVDKIV 162
Score = 31.2 bits (69), Expect = 0.80, Method: Compositional matrix adjust.
Identities = 16/54 (29%), Positives = 27/54 (50%), Gaps = 1/54 (1%)
Query: 291 VVVIEARNMPGFSSVGTFKIFIGNVNPGTSVELIRPLFEKYGKVVECDVVKNYG 344
V E PG + + KIF+G + T +R FE+YGK+ +++ + G
Sbjct: 88 AVSREDSQRPG-AHLTVKKIFVGGIKEDTEEHHLRDYFEQYGKIEVIEIMTDRG 140
Score = 30.8 bits (68), Expect = 1.0, Method: Compositional matrix adjust.
Identities = 22/82 (26%), Positives = 39/82 (47%), Gaps = 17/82 (20%)
Query: 38 KGPNTPTT--KVFVGNLSDNTRAPEVRELFVPYGTVVECDIVRN--------YGFVHIDS 87
+ P P K+F+G LS T +R F +GT+ +C ++R+ +GFV
Sbjct: 4 ESPKEPEQLRKLFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFV---- 59
Query: 88 PDINKCIKELNGMMVDGKPMKV 109
++E++ M + +P KV
Sbjct: 60 --TYATVEEVDAAM-NARPHKV 78
Score = 30.0 bits (66), Expect = 2.1, Method: Compositional matrix adjust.
Identities = 15/46 (32%), Positives = 28/46 (60%), Gaps = 8/46 (17%)
Query: 309 KIFIGNVNPGTSVELIRPLFEKYGKVVECDVVKN--------YGFV 346
K+FIG ++ T+ E +R FE++G + +C V+++ +GFV
Sbjct: 14 KLFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFV 59
>pdb|1L3K|A Chain A, Up1, The Two Rna-Recognition Motif Domain Of Hnrnp A1
pdb|1U1K|A Chain A, Crystal Structure Of Up1 Complexed With D(Ttagggtt 7da
Ggg); A Human Telomeric Repeat Containing
7-Deaza-Adenine
pdb|1U1L|A Chain A, Crystal Structure Of Up1 Complexed With D(Ttagggtt Prn
Ggg); A Human Telomeric Repeat Containing Nebularine
pdb|1U1M|A Chain A, Crystal Structure Of Up1 Complexed With D(Ttagggtta 7gu
Gg); A Human Telomeric Repeat Containing 7-Deaza-Guanine
pdb|1U1N|A Chain A, Crystal Structure Of Up1 Complexed With D(Ttagggtta (Prn)
Gg); A Human Telomeric Repeat Containing Nebularine
pdb|1U1O|A Chain A, Crystal Structure Of Up1 Complexed With
D(Ttagggttag(Di)g); A Human Telomeric Repeat Containing
Inosine
pdb|1U1P|A Chain A, Crystal Structure Of Up1 Complexed With D(Ttagggtta 2pr
Gg); A Human Telomeric Repeat Containing 2-Aminopurine
pdb|1U1Q|A Chain A, Crystal Structure Of Up1 Complexed With
D(Ttagggtta(Di)gg); A Human Telomeric Repeat Containing
Inosine
pdb|1U1R|A Chain A, Crystal Structure Of Up1 Complexed With D(Ttagggttag(2pr)
G); A Human Telomeric Repeat Containing 2-Aminopurine
Length = 196
Score = 35.8 bits (81), Expect = 0.035, Method: Compositional matrix adjust.
Identities = 21/86 (24%), Positives = 41/86 (47%), Gaps = 9/86 (10%)
Query: 18 ELNGQIVNEKPLKIEAATSRKGPNTPTTKVFVGNLSDNTRAPEVRELFVPYGTVVECDIV 77
+++G++V K + R G + K+FVG + ++T +R+ F YG + +I+
Sbjct: 78 KVDGRVVEPKRAVSREDSQRPGAHLTVKKIFVGGIKEDTEEHHLRDYFEQYGKIEVIEIM 137
Query: 78 --------RNYGFVHIDSPD-INKCI 94
R + FV D D ++K +
Sbjct: 138 TDRGSGKKRGFAFVTFDDHDSVDKIV 163
Score = 31.2 bits (69), Expect = 0.81, Method: Compositional matrix adjust.
Identities = 16/54 (29%), Positives = 27/54 (50%), Gaps = 1/54 (1%)
Query: 291 VVVIEARNMPGFSSVGTFKIFIGNVNPGTSVELIRPLFEKYGKVVECDVVKNYG 344
V E PG + + KIF+G + T +R FE+YGK+ +++ + G
Sbjct: 89 AVSREDSQRPG-AHLTVKKIFVGGIKEDTEEHHLRDYFEQYGKIEVIEIMTDRG 141
Score = 30.8 bits (68), Expect = 1.0, Method: Compositional matrix adjust.
Identities = 22/82 (26%), Positives = 39/82 (47%), Gaps = 17/82 (20%)
Query: 38 KGPNTPTT--KVFVGNLSDNTRAPEVRELFVPYGTVVECDIVRN--------YGFVHIDS 87
+ P P K+F+G LS T +R F +GT+ +C ++R+ +GFV
Sbjct: 5 ESPKEPEQLRKLFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFV---- 60
Query: 88 PDINKCIKELNGMMVDGKPMKV 109
++E++ M + +P KV
Sbjct: 61 --TYATVEEVDAAM-NARPHKV 79
Score = 30.0 bits (66), Expect = 2.1, Method: Compositional matrix adjust.
Identities = 15/46 (32%), Positives = 28/46 (60%), Gaps = 8/46 (17%)
Query: 309 KIFIGNVNPGTSVELIRPLFEKYGKVVECDVVKN--------YGFV 346
K+FIG ++ T+ E +R FE++G + +C V+++ +GFV
Sbjct: 15 KLFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFV 60
>pdb|1HA1|A Chain A, Hnrnp A1 (Rbd1,2) From Homo Sapiens
Length = 184
Score = 35.8 bits (81), Expect = 0.037, Method: Compositional matrix adjust.
Identities = 20/80 (25%), Positives = 37/80 (46%), Gaps = 8/80 (10%)
Query: 18 ELNGQIVNEKPLKIEAATSRKGPNTPTTKVFVGNLSDNTRAPEVRELFVPYGTVVECDIV 77
+++G++V K + R G + K+FVG + ++T +R+ F YG + +I+
Sbjct: 78 KVDGRVVEPKRAVSREDSQRPGAHLTVKKIFVGGIKEDTEEHHLRDYFEQYGKIEVIEIM 137
Query: 78 --------RNYGFVHIDSPD 89
R + FV D D
Sbjct: 138 TDRGSGKKRGFAFVTFDDHD 157
Score = 31.2 bits (69), Expect = 0.98, Method: Compositional matrix adjust.
Identities = 16/54 (29%), Positives = 27/54 (50%), Gaps = 1/54 (1%)
Query: 291 VVVIEARNMPGFSSVGTFKIFIGNVNPGTSVELIRPLFEKYGKVVECDVVKNYG 344
V E PG + + KIF+G + T +R FE+YGK+ +++ + G
Sbjct: 89 AVSREDSQRPG-AHLTVKKIFVGGIKEDTEEHHLRDYFEQYGKIEVIEIMTDRG 141
Score = 30.8 bits (68), Expect = 1.3, Method: Compositional matrix adjust.
Identities = 22/82 (26%), Positives = 39/82 (47%), Gaps = 17/82 (20%)
Query: 38 KGPNTPTT--KVFVGNLSDNTRAPEVRELFVPYGTVVECDIVRN--------YGFVHIDS 87
+ P P K+F+G LS T +R F +GT+ +C ++R+ +GFV
Sbjct: 5 ESPKEPEQLRKLFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFV---- 60
Query: 88 PDINKCIKELNGMMVDGKPMKV 109
++E++ M + +P KV
Sbjct: 61 --TYATVEEVDAAM-NARPHKV 79
Score = 29.6 bits (65), Expect = 2.7, Method: Compositional matrix adjust.
Identities = 15/46 (32%), Positives = 28/46 (60%), Gaps = 8/46 (17%)
Query: 309 KIFIGNVNPGTSVELIRPLFEKYGKVVECDVVKN--------YGFV 346
K+FIG ++ T+ E +R FE++G + +C V+++ +GFV
Sbjct: 15 KLFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFV 60
>pdb|1UP1|A Chain A, Up1, The Two Rna-Recognition Motif Domain Of Hnrnp A1
Length = 182
Score = 35.8 bits (81), Expect = 0.040, Method: Compositional matrix adjust.
Identities = 20/80 (25%), Positives = 37/80 (46%), Gaps = 8/80 (10%)
Query: 18 ELNGQIVNEKPLKIEAATSRKGPNTPTTKVFVGNLSDNTRAPEVRELFVPYGTVVECDIV 77
+++G++V K + R G + K+FVG + ++T +R+ F YG + +I+
Sbjct: 76 KVDGRVVEPKRAVSREDSQRPGAHLTVKKIFVGGIKEDTEEHHLRDYFEQYGKIEVIEIM 135
Query: 78 --------RNYGFVHIDSPD 89
R + FV D D
Sbjct: 136 TDRGSGKKRGFAFVTFDDHD 155
Score = 31.2 bits (69), Expect = 0.95, Method: Compositional matrix adjust.
Identities = 16/54 (29%), Positives = 27/54 (50%), Gaps = 1/54 (1%)
Query: 291 VVVIEARNMPGFSSVGTFKIFIGNVNPGTSVELIRPLFEKYGKVVECDVVKNYG 344
V E PG + + KIF+G + T +R FE+YGK+ +++ + G
Sbjct: 87 AVSREDSQRPG-AHLTVKKIFVGGIKEDTEEHHLRDYFEQYGKIEVIEIMTDRG 139
Score = 30.8 bits (68), Expect = 1.3, Method: Compositional matrix adjust.
Identities = 22/82 (26%), Positives = 39/82 (47%), Gaps = 17/82 (20%)
Query: 38 KGPNTPTT--KVFVGNLSDNTRAPEVRELFVPYGTVVECDIVRN--------YGFVHIDS 87
+ P P K+F+G LS T +R F +GT+ +C ++R+ +GFV
Sbjct: 3 ESPKEPEQLRKLFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFV---- 58
Query: 88 PDINKCIKELNGMMVDGKPMKV 109
++E++ M + +P KV
Sbjct: 59 --TYATVEEVDAAM-NARPHKV 77
Score = 29.6 bits (65), Expect = 2.7, Method: Compositional matrix adjust.
Identities = 15/46 (32%), Positives = 28/46 (60%), Gaps = 8/46 (17%)
Query: 309 KIFIGNVNPGTSVELIRPLFEKYGKVVECDVVKN--------YGFV 346
K+FIG ++ T+ E +R FE++G + +C V+++ +GFV
Sbjct: 13 KLFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFV 58
>pdb|2DNO|A Chain A, Solution Structure Of Rna Binding Domain In
Trinucleotide Repeat Containing 4 Variant
Length = 102
Score = 35.4 bits (80), Expect = 0.048, Method: Composition-based stats.
Identities = 14/33 (42%), Positives = 22/33 (66%)
Query: 46 KVFVGNLSDNTRAPEVRELFVPYGTVVECDIVR 78
K+FVG L +VR++F P+GT+ EC ++R
Sbjct: 14 KLFVGMLGKQQTDEDVRKMFEPFGTIDECTVLR 46
Score = 29.3 bits (64), Expect = 3.6, Method: Composition-based stats.
Identities = 11/33 (33%), Positives = 21/33 (63%)
Query: 309 KIFIGNVNPGTSVELIRPLFEKYGKVVECDVVK 341
K+F+G + + E +R +FE +G + EC V++
Sbjct: 14 KLFVGMLGKQQTDEDVRKMFEPFGTIDECTVLR 46
>pdb|2KI2|A Chain A, Solution Structure Of Ss-Dna Binding Protein 12rnp2
Precursor, Hp0827(O25501_helpy) Form Helicobacter Pylori
Length = 90
Score = 35.4 bits (80), Expect = 0.049, Method: Composition-based stats.
Identities = 18/74 (24%), Positives = 38/74 (51%), Gaps = 8/74 (10%)
Query: 47 VFVGNLSDNTRAPEVRELFVPYGTVVECDIV--------RNYGFVHIDSPDINKCIKELN 98
++VGNL + + +V+ELF +G V ++ + +GFV + +++ I +L+
Sbjct: 4 IYVGNLVYSATSEQVKELFSQFGKVFNVKLIYDRETKKPKGFGFVEMQEESVSEAIAKLD 63
Query: 99 GMMVDGKPMKVVVA 112
G+ ++V A
Sbjct: 64 NTDFMGRTIRVTEA 77
>pdb|3NNC|A Chain A, Crystal Structure Of Cugbp1 Rrm12-Rna Complex
Length = 175
Score = 35.4 bits (80), Expect = 0.049, Method: Compositional matrix adjust.
Identities = 15/51 (29%), Positives = 28/51 (54%)
Query: 28 PLKIEAATSRKGPNTPTTKVFVGNLSDNTRAPEVRELFVPYGTVVECDIVR 78
P++++ A S K K+F+G +S ++R +F +G + EC I+R
Sbjct: 79 PIQMKPADSEKNNAVEDRKLFIGMISKKCTENDIRVMFSSFGQIEECRILR 129
Score = 31.6 bits (70), Expect = 0.77, Method: Compositional matrix adjust.
Identities = 14/34 (41%), Positives = 23/34 (67%)
Query: 309 KIFIGNVNPGTSVELIRPLFEKYGKVVECDVVKN 342
K+F+G V S + +R LFE+YG V E +V+++
Sbjct: 5 KMFVGQVPRTWSEKDLRELFEQYGAVYEINVLRD 38
Score = 30.8 bits (68), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 13/34 (38%), Positives = 21/34 (61%)
Query: 46 KVFVGNLSDNTRAPEVRELFVPYGTVVECDIVRN 79
K+FVG + ++RELF YG V E +++R+
Sbjct: 5 KMFVGQVPRTWSEKDLRELFEQYGAVYEINVLRD 38
Score = 28.5 bits (62), Expect = 6.2, Method: Compositional matrix adjust.
Identities = 11/39 (28%), Positives = 24/39 (61%)
Query: 303 SSVGTFKIFIGNVNPGTSVELIRPLFEKYGKVVECDVVK 341
++V K+FIG ++ + IR +F +G++ EC +++
Sbjct: 91 NAVEDRKLFIGMISKKCTENDIRVMFSSFGQIEECRILR 129
>pdb|2DH8|A Chain A, Solution Structure Of The N-Terminal Rna Binding Domain In
Daz-Associated Protein 1
Length = 105
Score = 35.0 bits (79), Expect = 0.057, Method: Compositional matrix adjust.
Identities = 24/74 (32%), Positives = 34/74 (45%), Gaps = 13/74 (17%)
Query: 46 KVFVGNLSDNTRAPEVRELFVPYGTVVECDIV--------RNYGFVHIDSPDINKCI--- 94
K+FVG L +T +R F YG VV+C I+ R +GFV P+ +
Sbjct: 18 KLFVGGLDWSTTQETLRSYFSQYGEVVDCVIMKDKTTNQSRGFGFVKFKDPNCVGTVLAS 77
Query: 95 --KELNGMMVDGKP 106
L+G +D KP
Sbjct: 78 RPHTLDGRNIDPKP 91
Score = 34.7 bits (78), Expect = 0.071, Method: Compositional matrix adjust.
Identities = 13/34 (38%), Positives = 25/34 (73%)
Query: 309 KIFIGNVNPGTSVELIRPLFEKYGKVVECDVVKN 342
K+F+G ++ T+ E +R F +YG+VV+C ++K+
Sbjct: 18 KLFVGGLDWSTTQETLRSYFSQYGEVVDCVIMKD 51
>pdb|2DHS|A Chain A, Solution Structure Of Nucleic Acid Binding Protein
Cugbp1ab And Its Binding Study With Dna And Rna
Length = 187
Score = 35.0 bits (79), Expect = 0.059, Method: Compositional matrix adjust.
Identities = 15/51 (29%), Positives = 28/51 (54%)
Query: 28 PLKIEAATSRKGPNTPTTKVFVGNLSDNTRAPEVRELFVPYGTVVECDIVR 78
P++++ A S K K+F+G +S ++R +F +G + EC I+R
Sbjct: 91 PIQMKPADSEKNNAVEDRKLFIGMISKKCTENDIRVMFSSFGQIEECRILR 141
Score = 32.7 bits (73), Expect = 0.30, Method: Compositional matrix adjust.
Identities = 14/40 (35%), Positives = 23/40 (57%)
Query: 40 PNTPTTKVFVGNLSDNTRAPEVRELFVPYGTVVECDIVRN 79
P+ K+FVG + ++RELF YG V E +++R+
Sbjct: 11 PDLDAIKMFVGQVPRTWSEKDLRELFEQYGAVYEINVLRD 50
Score = 32.7 bits (73), Expect = 0.31, Method: Compositional matrix adjust.
Identities = 15/43 (34%), Positives = 25/43 (58%)
Query: 300 PGFSSVGTFKIFIGNVNPGTSVELIRPLFEKYGKVVECDVVKN 342
P + K+F+G V S + +R LFE+YG V E +V+++
Sbjct: 8 PDQPDLDAIKMFVGQVPRTWSEKDLRELFEQYGAVYEINVLRD 50
Score = 28.5 bits (62), Expect = 6.3, Method: Compositional matrix adjust.
Identities = 11/39 (28%), Positives = 24/39 (61%)
Query: 303 SSVGTFKIFIGNVNPGTSVELIRPLFEKYGKVVECDVVK 341
++V K+FIG ++ + IR +F +G++ EC +++
Sbjct: 103 NAVEDRKLFIGMISKKCTENDIRVMFSSFGQIEECRILR 141
>pdb|1NO8|A Chain A, Solution Structure Of The Nuclear Factor Aly Rbd Domain
Length = 106
Score = 35.0 bits (79), Expect = 0.065, Method: Composition-based stats.
Identities = 22/72 (30%), Positives = 38/72 (52%), Gaps = 8/72 (11%)
Query: 46 KVFVGNLSDNTRAPEVRELFVPYGTVVECDIV-----RNYGF--VHID-SPDINKCIKEL 97
K+ V NL +++ELF +GT+ + + R+ G VH + D K +K+
Sbjct: 30 KLLVSNLDFGVSDADIQELFAEFGTLKKAAVHYDRSGRSLGTADVHFERKADALKAMKQY 89
Query: 98 NGMMVDGKPMKV 109
NG+ +DG+PM +
Sbjct: 90 NGVPLDGRPMNI 101
>pdb|2DH7|A Chain A, Solution Structure Of The Second Rna Binding Domain In
Nucleolysin Tiar
Length = 105
Score = 35.0 bits (79), Expect = 0.065, Method: Compositional matrix adjust.
Identities = 18/72 (25%), Positives = 34/72 (47%), Gaps = 9/72 (12%)
Query: 47 VFVGNLSDNTRAPEVRELFVPYGTVVECDIVRN--------YGFVHI-DSPDINKCIKEL 97
VFVG+LS +++ F P+G + + +V++ YGFV + D I +
Sbjct: 18 VFVGDLSPEITTEDIKSAFAPFGKISDARVVKDMATGKSKGYGFVSFYNKLDAENAIVHM 77
Query: 98 NGMMVDGKPMKV 109
G + G+ ++
Sbjct: 78 GGQWLGGRQIRT 89
Score = 34.7 bits (78), Expect = 0.088, Method: Compositional matrix adjust.
Identities = 16/47 (34%), Positives = 27/47 (57%), Gaps = 8/47 (17%)
Query: 308 FKIFIGNVNPGTSVELIRPLFEKYGKVVECDVVKN--------YGFV 346
F +F+G+++P + E I+ F +GK+ + VVK+ YGFV
Sbjct: 16 FHVFVGDLSPEITTEDIKSAFAPFGKISDARVVKDMATGKSKGYGFV 62
>pdb|2I38|A Chain A, Solution Structure Of The Rrm Of Srp20
Length = 150
Score = 35.0 bits (79), Expect = 0.068, Method: Compositional matrix adjust.
Identities = 21/71 (29%), Positives = 37/71 (52%), Gaps = 4/71 (5%)
Query: 46 KVFVGNLSDNTRAPEVRELFVPYGTVVECDIVRN---YGFVHIDSP-DINKCIKELNGMM 101
KV+VGNL +N E+ F YG + + RN + FV + P D +++L+G
Sbjct: 75 KVYVGNLGNNGNKTELERAFGYYGPLRSVWVARNPPGFAFVEFEDPRDAADAVRDLDGRT 134
Query: 102 VDGKPMKVVVA 112
+ G ++V ++
Sbjct: 135 LCGCRVRVELS 145
>pdb|3S7R|A Chain A, Crystal Structure Of A Heterogeneous Nuclear
Ribonucleoprotein AB (Hnrpab) From Homo Sapiens At 2.15
A Resolution
pdb|3S7R|B Chain B, Crystal Structure Of A Heterogeneous Nuclear
Ribonucleoprotein AB (Hnrpab) From Homo Sapiens At 2.15
A Resolution
Length = 87
Score = 34.7 bits (78), Expect = 0.077, Method: Composition-based stats.
Identities = 22/73 (30%), Positives = 38/73 (52%), Gaps = 13/73 (17%)
Query: 46 KVFVGNLSDNTRAPEVRELFVPYGTVVECDI--------VRNYGFVHI-DSPDINKCIKE 96
K FVG LS +T ++++ F +G VV+C I R +GF+ D+ + K + +
Sbjct: 13 KXFVGGLSWDTSKKDLKDYFTKFGEVVDCTIKXDPNTGRSRGFGFILFKDAASVEKVLDQ 72
Query: 97 ----LNGMMVDGK 105
L+G ++D K
Sbjct: 73 KEHRLDGRVIDPK 85
>pdb|2RS2|A Chain A, 1h, 13c, And 15n Chemical Shift Assignments For Musashi1
Rbd1:r(Guagu) Complex
Length = 109
Score = 34.3 bits (77), Expect = 0.097, Method: Compositional matrix adjust.
Identities = 23/73 (31%), Positives = 37/73 (50%), Gaps = 13/73 (17%)
Query: 46 KVFVGNLSDNTRAPEVRELFVPYGTVVECDIVRN--------YGFV-HIDSPDINKCI-- 94
K+F+G LS T +RE F +G V EC ++R+ +GFV +D ++K +
Sbjct: 27 KMFIGGLSWQTTQEGLREYFGQFGEVKECLVMRDPLTKRSRGFGFVTFMDQAGVDKVLAQ 86
Query: 95 --KELNGMMVDGK 105
EL+ +D K
Sbjct: 87 SRHELDSKTIDPK 99
Score = 30.4 bits (67), Expect = 1.3, Method: Compositional matrix adjust.
Identities = 13/34 (38%), Positives = 24/34 (70%)
Query: 309 KIFIGNVNPGTSVELIRPLFEKYGKVVECDVVKN 342
K+FIG ++ T+ E +R F ++G+V EC V+++
Sbjct: 27 KMFIGGLSWQTTQEGLREYFGQFGEVKECLVMRD 60
>pdb|2YKA|A Chain A, Rrm Domain Of Mrna Export Adaptor Ref2-I Bound To Hvs
Orf57 Peptide
Length = 124
Score = 34.3 bits (77), Expect = 0.11, Method: Compositional matrix adjust.
Identities = 17/73 (23%), Positives = 36/73 (49%), Gaps = 8/73 (10%)
Query: 45 TKVFVGNLSDNTRAPEVRELFVPYGTVVECDIVRNYGFVHIDSPDIN--------KCIKE 96
K+ V NL +++ELF +GT+ + + + + + D++ K +K+
Sbjct: 36 AKLLVSNLDFGVSDADIQELFAEFGTLKKAAVDYDRSGRSLGTADVHFERRADALKAMKQ 95
Query: 97 LNGMMVDGKPMKV 109
G+ +DG+PM +
Sbjct: 96 YKGVPLDGRPMDI 108
>pdb|2KRR|A Chain A, Solution Structure Of The Rbd1,2 Domains From Human
Nucleoli
Length = 180
Score = 34.3 bits (77), Expect = 0.11, Method: Compositional matrix adjust.
Identities = 28/77 (36%), Positives = 43/77 (55%), Gaps = 11/77 (14%)
Query: 43 PTT--KVFVGNLSDNTRAPEVR----ELFVPYG-TVVECDI--VRNYGFVHIDSP-DINK 92
PTT +FVGNL+ N APE++ ++F VV+ I R +G+V +S D+ K
Sbjct: 4 PTTAFNLFVGNLNFNKSAPELKTGISDVFAKNDLAVVDVRIGMTRKFGYVDFESAEDLEK 63
Query: 93 CIKELNGMMVDGKPMKV 109
+ EL G+ V G +K+
Sbjct: 64 AL-ELTGLKVFGNEIKL 79
>pdb|1X5U|A Chain A, Solution Structure Of Rrm Domain In Splicing Factor 3b
Length = 105
Score = 34.3 bits (77), Expect = 0.11, Method: Composition-based stats.
Identities = 22/72 (30%), Positives = 37/72 (51%), Gaps = 9/72 (12%)
Query: 47 VFVGNLSDNTRAPEVRELFVPYGTVVECDIVRN--------YGFVH-IDSPDINKCIKEL 97
V+VG L + P + ELF+ G VV + ++ YGFV + D + IK +
Sbjct: 18 VYVGGLDEKVSEPLLWELFLQAGPVVNTHMPKDRVTGQHQGYGFVEFLSEEDADYAIKIM 77
Query: 98 NGMMVDGKPMKV 109
+ + + GKP++V
Sbjct: 78 DMIKLYGKPIRV 89
>pdb|2KT5|A Chain A, Rrm Domain Of Mrna Export Adaptor Ref2-I Bound To Hsv-1
Icp27 Peptide
Length = 124
Score = 34.3 bits (77), Expect = 0.11, Method: Compositional matrix adjust.
Identities = 17/73 (23%), Positives = 36/73 (49%), Gaps = 8/73 (10%)
Query: 45 TKVFVGNLSDNTRAPEVRELFVPYGTVVECDIVRNYGFVHIDSPDIN--------KCIKE 96
K+ V NL +++ELF +GT+ + + + + + D++ K +K+
Sbjct: 36 AKLLVSNLDFGVSDADIQELFAEFGTLKKAAVDYDRSGRSLGTADVHFERRADALKAMKQ 95
Query: 97 LNGMMVDGKPMKV 109
G+ +DG+PM +
Sbjct: 96 YKGVPLDGRPMDI 108
>pdb|2DGO|A Chain A, Solution Structure Of The Rna Binding Domain In Cytotoxic
Granule-Associated Rna Binding Protein 1
pdb|2RNE|A Chain A, Solution Structure Of The Second Rna Recognition Motif
(Rrm) Of Tia-1
Length = 115
Score = 34.3 bits (77), Expect = 0.11, Method: Composition-based stats.
Identities = 18/71 (25%), Positives = 36/71 (50%), Gaps = 9/71 (12%)
Query: 47 VFVGNLSDNTRAPEVRELFVPYGTVVECDIVRN--------YGFVH-IDSPDINKCIKEL 97
VFVG+LS +++ F P+G + + +V++ YGFV + D I+++
Sbjct: 18 VFVGDLSPEITTEDIKAAFAPFGRISDARVVKDMATGKSKGYGFVSFFNKWDAENAIQQM 77
Query: 98 NGMMVDGKPMK 108
G + G+ ++
Sbjct: 78 GGQWLGGRQIR 88
Score = 32.3 bits (72), Expect = 0.36, Method: Composition-based stats.
Identities = 15/47 (31%), Positives = 27/47 (57%), Gaps = 8/47 (17%)
Query: 308 FKIFIGNVNPGTSVELIRPLFEKYGKVVECDVVKN--------YGFV 346
F +F+G+++P + E I+ F +G++ + VVK+ YGFV
Sbjct: 16 FHVFVGDLSPEITTEDIKAAFAPFGRISDARVVKDMATGKSKGYGFV 62
>pdb|2CQH|A Chain A, Solution Structure Of The Rna Binding Domain Of Igf-Ii
Mrna- Binding Protein 2
Length = 93
Score = 33.9 bits (76), Expect = 0.15, Method: Composition-based stats.
Identities = 21/68 (30%), Positives = 38/68 (55%), Gaps = 4/68 (5%)
Query: 46 KVFVGNLSDNTRAPEVRELFVPYGTVVECDIVRNYGFVHIDSPDIN---KCIKELNGMM- 101
K+++GNLS A ++R+LF + ++ G+ +D PD N + I+ L+G +
Sbjct: 10 KLYIGNLSPAVTADDLRQLFGDRKLPLAGQVLLKSGYAFVDYPDQNWAIRAIETLSGKVE 69
Query: 102 VDGKPMKV 109
+ GK M+V
Sbjct: 70 LHGKIMEV 77
>pdb|2DGQ|A Chain A, Solution Structure Of The N-Terminal Rna Binding Domain In
Bruno-Like 6 Rna-Binding Protein
Length = 108
Score = 33.5 bits (75), Expect = 0.18, Method: Composition-based stats.
Identities = 12/34 (35%), Positives = 24/34 (70%)
Query: 309 KIFIGNVNPGTSVELIRPLFEKYGKVVECDVVKN 342
K+F+G + G + ++PLFE++G++ E V+K+
Sbjct: 17 KLFVGQIPRGLDEQDLKPLFEEFGRIYELTVLKD 50
>pdb|1HD0|A Chain A, Heterogeneous Nuclear Ribonucleoprotein D0 (Hnrnp D0
Rbd1), Nmr
pdb|1HD1|A Chain A, Heterogeneous Nuclear Ribonucleoprotein D0 (Hnrnp D0
Rbd1), Nmr
Length = 75
Score = 33.5 bits (75), Expect = 0.19, Method: Compositional matrix adjust.
Identities = 21/72 (29%), Positives = 39/72 (54%), Gaps = 13/72 (18%)
Query: 47 VFVGNLSDNTRAPEVRELFVPYGTVVECDI--------VRNYGFVHI-DSPDINKCIKE- 96
+F+G LS +T ++++ F +G VV+C + R +GFV +S ++K + +
Sbjct: 2 MFIGGLSWDTTKKDLKDYFSKFGEVVDCTLKLDPITGRSRGFGFVLFKESESVDKVMDQK 61
Query: 97 ---LNGMMVDGK 105
LNG ++D K
Sbjct: 62 EHKLNGKVIDPK 73
>pdb|2CQD|A Chain A, Solution Structure Of The Rna Recognition Motif In Rna-
Binding Region Containing Protein 1
Length = 116
Score = 33.5 bits (75), Expect = 0.19, Method: Compositional matrix adjust.
Identities = 24/81 (29%), Positives = 40/81 (49%), Gaps = 10/81 (12%)
Query: 41 NTPTTKVFVGNLSDNTRAPEVRELFVPYGTVVECDIV--------RNYGFVHI-DSPDIN 91
+T TK+FVG L +T +R+ F +G + E ++ R YGFV + D
Sbjct: 14 DTTFTKIFVGGLPYHTTDASLRKYFEGFGDIEEAVVITDRQTGKSRGYGFVTMADRAAAE 73
Query: 92 KCIKELNGMMVDGKPMKVVVA 112
+ K+ N ++DG+ V +A
Sbjct: 74 RACKDPN-PIIDGRKANVNLA 93
>pdb|2SXL|A Chain A, Sex-Lethal Rbd1, Nmr, Minimized Average Structure
Length = 88
Score = 33.1 bits (74), Expect = 0.22, Method: Composition-based stats.
Identities = 24/77 (31%), Positives = 35/77 (45%), Gaps = 9/77 (11%)
Query: 45 TKVFVGNLSDNTRAPEVRELFVPYGTVVECDIVRNY------GFVHID---SPDINKCIK 95
T + V L + E+ LF G + C I+R+Y G+ +D D + IK
Sbjct: 4 TNLIVNYLPQDMTDRELYALFRAIGPINTCRIMRDYKTGYSYGYAFVDFTSEMDSQRAIK 63
Query: 96 ELNGMMVDGKPMKVVVA 112
LNG+ V K +KV A
Sbjct: 64 VLNGITVRNKRLKVSYA 80
>pdb|2CPF|A Chain A, Solution Structure Of The Penultimate Rna Recognition
Motif Of Hypothetical Rna-Binding Protein Rbm19
Length = 98
Score = 33.1 bits (74), Expect = 0.23, Method: Composition-based stats.
Identities = 20/81 (24%), Positives = 39/81 (48%), Gaps = 12/81 (14%)
Query: 44 TTKVFVGNLSDNTRAPEVRELFVPYGTVVECDIVRN-----------YGFVHIDSPD-IN 91
++ +F+ NL+ +T ++ +F G + C I + +GFV P+
Sbjct: 5 SSGLFIKNLNFSTTEETLKGVFSKVGAIKSCTISKKKNKAGVLLSMGFGFVEYKKPEQAQ 64
Query: 92 KCIKELNGMMVDGKPMKVVVA 112
K +K+L G VDG ++V ++
Sbjct: 65 KALKQLQGHTVDGHKLEVRIS 85
Score = 29.3 bits (64), Expect = 3.6, Method: Composition-based stats.
Identities = 13/38 (34%), Positives = 22/38 (57%)
Query: 304 SVGTFKIFIGNVNPGTSVELIRPLFEKYGKVVECDVVK 341
S G+ +FI N+N T+ E ++ +F K G + C + K
Sbjct: 2 SSGSSGLFIKNLNFSTTEETLKGVFSKVGAIKSCTISK 39
>pdb|2F3J|A Chain A, The Solution Structure Of The Ref2-I Mrna Export Factor
(Residues 1-155)
Length = 177
Score = 33.1 bits (74), Expect = 0.24, Method: Compositional matrix adjust.
Identities = 17/75 (22%), Positives = 37/75 (49%), Gaps = 8/75 (10%)
Query: 45 TKVFVGNLSDNTRAPEVRELFVPYGTVVECDIVRNYGFVHIDSPDIN--------KCIKE 96
K+ V NL +++ELF +GT+ + + + + + D++ K +K+
Sbjct: 89 AKLLVSNLDFGVSDADIQELFAEFGTLKKAAVDYDRSGRSLGTADVHFERRADALKAMKQ 148
Query: 97 LNGMMVDGKPMKVVV 111
G+ +DG+PM + +
Sbjct: 149 YKGVPLDGRPMDIQL 163
>pdb|3NMR|A Chain A, Crystal Structure Of Cugbp1 Rrm12-Rna Complex
pdb|3NNA|A Chain A, Crystal Structure Of Cugbp1 Rrm12-Rna Complex
Length = 175
Score = 33.1 bits (74), Expect = 0.26, Method: Compositional matrix adjust.
Identities = 15/51 (29%), Positives = 26/51 (50%)
Query: 28 PLKIEAATSRKGPNTPTTKVFVGNLSDNTRAPEVRELFVPYGTVVECDIVR 78
P++ + A S K K+F+G +S ++R F +G + EC I+R
Sbjct: 79 PIQXKPADSEKNNAVEDRKLFIGXISKKCTENDIRVXFSSFGQIEECRILR 129
Score = 30.0 bits (66), Expect = 1.8, Method: Compositional matrix adjust.
Identities = 14/34 (41%), Positives = 22/34 (64%)
Query: 309 KIFIGNVNPGTSVELIRPLFEKYGKVVECDVVKN 342
K F+G V S + +R LFE+YG V E +V+++
Sbjct: 5 KXFVGQVPRTWSEKDLRELFEQYGAVYEINVLRD 38
Score = 29.6 bits (65), Expect = 2.3, Method: Compositional matrix adjust.
Identities = 13/34 (38%), Positives = 20/34 (58%)
Query: 46 KVFVGNLSDNTRAPEVRELFVPYGTVVECDIVRN 79
K FVG + ++RELF YG V E +++R+
Sbjct: 5 KXFVGQVPRTWSEKDLRELFEQYGAVYEINVLRD 38
>pdb|1UAW|A Chain A, Solution Structure Of The N-Terminal Rna-Binding Domain Of
Mouse Musashi1
Length = 77
Score = 32.7 bits (73), Expect = 0.28, Method: Composition-based stats.
Identities = 23/73 (31%), Positives = 37/73 (50%), Gaps = 13/73 (17%)
Query: 46 KVFVGNLSDNTRAPEVRELFVPYGTVVECDIVRN--------YGFV-HIDSPDINKCI-- 94
K+F+G LS T +RE F +G V EC ++R+ +GFV +D ++K +
Sbjct: 2 KMFIGGLSWQTTQEGLREYFGQFGEVKECLVMRDPLTKRSRGFGFVTFMDQAGVDKVLAQ 61
Query: 95 --KELNGMMVDGK 105
EL+ +D K
Sbjct: 62 SRHELDSKTIDPK 74
Score = 29.6 bits (65), Expect = 2.3, Method: Composition-based stats.
Identities = 16/46 (34%), Positives = 28/46 (60%), Gaps = 8/46 (17%)
Query: 309 KIFIGNVNPGTSVELIRPLFEKYGKVVECDVVKN--------YGFV 346
K+FIG ++ T+ E +R F ++G+V EC V+++ +GFV
Sbjct: 2 KMFIGGLSWQTTQEGLREYFGQFGEVKECLVMRDPLTKRSRGFGFV 47
>pdb|2DGP|A Chain A, Solution Structure Of The N-Terminal Rna Binding Domain In
Bruno-Like 4 Rna-Binding Protein
Length = 106
Score = 32.7 bits (73), Expect = 0.29, Method: Composition-based stats.
Identities = 14/42 (33%), Positives = 24/42 (57%)
Query: 301 GFSSVGTFKIFIGNVNPGTSVELIRPLFEKYGKVVECDVVKN 342
G K+FIG + + ++PLFE++GK+ E V+K+
Sbjct: 7 GMKDHDAIKLFIGQIPRNLDEKDLKPLFEEFGKIYELTVLKD 48
>pdb|2KXF|A Chain A, Solution Structure Of The First Two Rrm Domains Of
Fbp-Interacting Repressor (Fir)
pdb|2KXH|A Chain A, Solution Structure Of The First Two Rrm Domains Of Fir In
The Complex With Fbp Nbox Peptide
Length = 199
Score = 32.7 bits (73), Expect = 0.31, Method: Compositional matrix adjust.
Identities = 16/73 (21%), Positives = 38/73 (52%), Gaps = 9/73 (12%)
Query: 46 KVFVGNLSDNTRAPEVRELFVPYGTVVECDIV--------RNYGFVHIDSPDINK-CIKE 96
+V+VG++ +R+ F P+G + D+ + + FV + P+ + +++
Sbjct: 15 RVYVGSIYYELGEDTIRQAFAPFGPIKSIDMSWDSVTMKHKGFAFVEYEVPEAAQLALEQ 74
Query: 97 LNGMMVDGKPMKV 109
+N +M+ G+ +KV
Sbjct: 75 MNSVMLGGRNIKV 87
Score = 28.5 bits (62), Expect = 5.8, Method: Compositional matrix adjust.
Identities = 13/46 (28%), Positives = 25/46 (54%), Gaps = 8/46 (17%)
Query: 309 KIFIGNVNPGTSVELIRPLFEKYGKVVECDVV--------KNYGFV 346
+I++ +V+ S + I+ +FE +GK+ C + K YGF+
Sbjct: 112 RIYVASVHQDLSDDDIKSVFEAFGKIKSCTLARDPTTGKHKGYGFI 157
>pdb|2KN4|A Chain A, The Structure Of The Rrm Domain Of Sc35
Length = 158
Score = 32.7 bits (73), Expect = 0.32, Method: Compositional matrix adjust.
Identities = 21/79 (26%), Positives = 38/79 (48%), Gaps = 9/79 (11%)
Query: 45 TKVFVGNLSDNTRAPEVRELFVPYGTVVECDIVRN--------YGFVHI-DSPDINKCIK 95
T + V NL+ T +R +F YG V + I R+ + FV D D +
Sbjct: 71 TSLKVDNLTYRTSPDTLRRVFEKYGRVGDVYIPRDRYTKESRGFAFVRFHDKRDAEDAMD 130
Query: 96 ELNGMMVDGKPMKVVVAGF 114
++G ++DG+ ++V +A +
Sbjct: 131 AMDGAVLDGRELRVQMARY 149
>pdb|2LEA|A Chain A, Solution Structure Of Human Srsf2 (Sc35) Rrm
pdb|2LEB|A Chain A, Solution Structure Of Human Srsf2 (Sc35) Rrm In Complex
With 5'- Uccagu-3'
pdb|2LEC|A Chain A, Solution Structure Of Human Srsf2 (Sc35) Rrm In Complex
With 5'- Uggagu-3'
Length = 135
Score = 32.7 bits (73), Expect = 0.33, Method: Compositional matrix adjust.
Identities = 21/79 (26%), Positives = 38/79 (48%), Gaps = 9/79 (11%)
Query: 45 TKVFVGNLSDNTRAPEVRELFVPYGTVVECDIVRN--------YGFVHI-DSPDINKCIK 95
T + V NL+ T +R +F YG V + I R+ + FV D D +
Sbjct: 48 TSLKVDNLTYRTSPDTLRRVFEKYGRVGDVYIPRDRYTKESRGFAFVRFHDKRDAEDAMD 107
Query: 96 ELNGMMVDGKPMKVVVAGF 114
++G ++DG+ ++V +A +
Sbjct: 108 AMDGAVLDGRELRVQMARY 126
>pdb|2HVZ|A Chain A, Solution Structure Of The Rrm Domain Of Sr Rich Factor 9g8
Length = 101
Score = 32.3 bits (72), Expect = 0.35, Method: Composition-based stats.
Identities = 21/68 (30%), Positives = 33/68 (48%), Gaps = 4/68 (5%)
Query: 46 KVFVGNLSDNTRAPEVRELFVPYGTVVECDIVRN---YGFVHIDSP-DINKCIKELNGMM 101
KV+VGNL E+ F YG + I RN + FV + P D ++ L+G +
Sbjct: 2 KVYVGNLGTGAGKGELERAFSYYGPLRTVWIARNPPGFAFVEFEDPRDAEDAVRGLDGKV 61
Query: 102 VDGKPMKV 109
+ G ++V
Sbjct: 62 ICGSRVRV 69
>pdb|2XSF|A Chain A, Crystal Structure Of The Rrm Domain Of Mouse Deleted In
Azoospermia-Like
Length = 89
Score = 32.0 bits (71), Expect = 0.50, Method: Compositional matrix adjust.
Identities = 21/64 (32%), Positives = 30/64 (46%), Gaps = 12/64 (18%)
Query: 40 PNTPTTKVFVGNLSDNTRAPEVRELFVPYGTVVECDIV-------RNYGFVHI-DSPDIN 91
PNT VFVG + E+R F YG+V E I+ + YGFV + D+
Sbjct: 10 PNT----VFVGGIDVRMDETEIRSFFARYGSVKEVKIITDRTGVSKGYGFVSFYNDVDVQ 65
Query: 92 KCIK 95
K ++
Sbjct: 66 KIVE 69
>pdb|2XS5|A Chain A, Crystal Structure Of The Rrm Domain Of Mouse Deleted In
Azoospermia-Like In Complex With Mvh Rna, Uguuc
pdb|2XS5|B Chain B, Crystal Structure Of The Rrm Domain Of Mouse Deleted In
Azoospermia-Like In Complex With Mvh Rna, Uguuc
pdb|2XS7|A Chain A, Crystal Structure Of The Rrm Domain Of Mouse Deleted In
Azoospermia-Like In Complex With Sycp3 Rna, Uuguuu
Length = 87
Score = 32.0 bits (71), Expect = 0.52, Method: Compositional matrix adjust.
Identities = 21/64 (32%), Positives = 30/64 (46%), Gaps = 12/64 (18%)
Query: 40 PNTPTTKVFVGNLSDNTRAPEVRELFVPYGTVVECDIV-------RNYGFVHI-DSPDIN 91
PNT VFVG + E+R F YG+V E I+ + YGFV + D+
Sbjct: 9 PNT----VFVGGIDVRMDETEIRSFFARYGSVKEVKIITDRTGVSKGYGFVSFYNDVDVQ 64
Query: 92 KCIK 95
K ++
Sbjct: 65 KIVE 68
>pdb|2DNK|A Chain A, Solution Structure Of Rna Binding Domain In Bruno-Like 4
Rna Binding Protein
Length = 105
Score = 32.0 bits (71), Expect = 0.54, Method: Composition-based stats.
Identities = 14/33 (42%), Positives = 20/33 (60%)
Query: 46 KVFVGNLSDNTRAPEVRELFVPYGTVVECDIVR 78
K+FVG L+ +VR LF +G + EC I+R
Sbjct: 17 KLFVGMLNKQQSEDDVRRLFEAFGNIEECTILR 49
Score = 32.0 bits (71), Expect = 0.58, Method: Composition-based stats.
Identities = 12/33 (36%), Positives = 22/33 (66%)
Query: 309 KIFIGNVNPGTSVELIRPLFEKYGKVVECDVVK 341
K+F+G +N S + +R LFE +G + EC +++
Sbjct: 17 KLFVGMLNKQQSEDDVRRLFEAFGNIEECTILR 49
>pdb|1X4B|A Chain A, Solution Structure Of Rrm Domain In Heterogeneous Nuclear
Ribonucleaoproteins A2B1
Length = 116
Score = 32.0 bits (71), Expect = 0.55, Method: Compositional matrix adjust.
Identities = 15/46 (32%), Positives = 29/46 (63%), Gaps = 8/46 (17%)
Query: 309 KIFIGNVNPGTSVELIRPLFEKYGKVVECDVVKN--------YGFV 346
K+FIG ++ T+ E +R +E++GK+ +C V+++ +GFV
Sbjct: 29 KLFIGGLSFETTEESLRNYYEQWGKLTDCVVMRDPASKRSRGFGFV 74
Score = 28.5 bits (62), Expect = 5.6, Method: Compositional matrix adjust.
Identities = 18/70 (25%), Positives = 31/70 (44%), Gaps = 8/70 (11%)
Query: 26 EKPLKIEAATSRKGPNTPTTKVFVGNLSDNTRAPEVRELFVPYGTVVECDIVRN------ 79
EK L+ +K K+F+G LS T +R + +G + +C ++R+
Sbjct: 9 EKTLETVPLERKKREKEQFRKLFIGGLSFETTEESLRNYYEQWGKLTDCVVMRDPASKRS 68
Query: 80 --YGFVHIDS 87
+GFV S
Sbjct: 69 RGFGFVTFSS 78
>pdb|1X4A|A Chain A, Solution Structure Of Rrm Domain In Splicing Factor Sf2
Length = 109
Score = 32.0 bits (71), Expect = 0.55, Method: Composition-based stats.
Identities = 18/70 (25%), Positives = 34/70 (48%), Gaps = 6/70 (8%)
Query: 46 KVFVGNLSDNTRAPEVRELFVPYGTVVECDIVRNYG-----FVHIDSP-DINKCIKELNG 99
+++VGNL + R ++ ++F YG + + D+ G FV + P D + +G
Sbjct: 24 RIYVGNLPPDIRTKDIEDVFYKYGAIRDIDLKNRRGGPPFAFVEFEDPRDAEDAVYGRDG 83
Query: 100 MMVDGKPMKV 109
DG ++V
Sbjct: 84 YDYDGYRLRV 93
>pdb|2DNH|A Chain A, Solution Structure Of Rna Binding Domain In Bruno-Like 5
Rna Binding Protein
Length = 105
Score = 32.0 bits (71), Expect = 0.57, Method: Composition-based stats.
Identities = 13/33 (39%), Positives = 20/33 (60%)
Query: 46 KVFVGNLSDNTRAPEVRELFVPYGTVVECDIVR 78
K+FVG L+ +V LF P+G + EC ++R
Sbjct: 17 KLFVGMLNKQQSEEDVLRLFQPFGVIDECTVLR 49
Score = 28.1 bits (61), Expect = 6.6, Method: Composition-based stats.
Identities = 12/33 (36%), Positives = 21/33 (63%)
Query: 309 KIFIGNVNPGTSVELIRPLFEKYGKVVECDVVK 341
K+F+G +N S E + LF+ +G + EC V++
Sbjct: 17 KLFVGMLNKQQSEEDVLRLFQPFGVIDECTVLR 49
>pdb|3VAF|A Chain A, Structure Of U2af65 Variant With Bru3 Dna
pdb|3VAF|B Chain B, Structure Of U2af65 Variant With Bru3 Dna
pdb|3VAG|A Chain A, Structure Of U2af65 Variant With Bru3c2 Dna
pdb|3VAG|B Chain B, Structure Of U2af65 Variant With Bru3c2 Dna
pdb|3VAH|A Chain A, Structure Of U2af65 Variant With Bru3c4 Dna
pdb|3VAH|B Chain B, Structure Of U2af65 Variant With Bru3c4 Dna
pdb|3VAI|A Chain A, Structure Of U2af65 Variant With Bru3c5 Dna
pdb|3VAI|B Chain B, Structure Of U2af65 Variant With Bru3c5 Dna
pdb|3VAJ|A Chain A, Structure Of U2af65 Variant With Bru5c6 Dna
pdb|3VAJ|B Chain B, Structure Of U2af65 Variant With Bru5c6 Dna
pdb|3VAK|A Chain A, Structure Of U2af65 Variant With Bru5 Dna
pdb|3VAK|B Chain B, Structure Of U2af65 Variant With Bru5 Dna
pdb|3VAL|A Chain A, Structure Of U2af65 Variant With Bru5c1 Dna
pdb|3VAL|B Chain B, Structure Of U2af65 Variant With Bru5c1 Dna
pdb|3VAL|D Chain D, Structure Of U2af65 Variant With Bru5c1 Dna
pdb|3VAL|I Chain I, Structure Of U2af65 Variant With Bru5c1 Dna
pdb|3VAM|A Chain A, Structure Of U2af65 Variant With Bru5c2 Dna
pdb|3VAM|B Chain B, Structure Of U2af65 Variant With Bru5c2 Dna
Length = 174
Score = 31.6 bits (70), Expect = 0.60, Method: Compositional matrix adjust.
Identities = 28/108 (25%), Positives = 47/108 (43%), Gaps = 10/108 (9%)
Query: 14 TAIKELNGQIVNEKPLKIEAATSRKGPNTPTTKVFVGNLSDNTRAPEVRELFVPYGTVVE 73
T +G I + LKI + P K+F+G L + +V+EL +G +
Sbjct: 67 TQAMAFDGIIFQGQSLKIRRPHDYQ-PLPGAHKLFIGGLPNYLNDDQVKELLTSFGPLKA 125
Query: 74 CDIVRNY------GFVHIDSPDIN---KCIKELNGMMVDGKPMKVVVA 112
++V++ G+ + DIN + I LNGM + K + V A
Sbjct: 126 FNLVKDSATGLSKGYAFCEYVDINVTDQAIAGLNGMQLGDKKLLVQRA 173
>pdb|2G4B|A Chain A, Structure Of U2af65 Variant With Polyuridine Tract
Length = 172
Score = 31.6 bits (70), Expect = 0.62, Method: Compositional matrix adjust.
Identities = 27/105 (25%), Positives = 46/105 (43%), Gaps = 10/105 (9%)
Query: 14 TAIKELNGQIVNEKPLKIEAATSRKGPNTPTTKVFVGNLSDNTRAPEVRELFVPYGTVVE 73
T +G I + LKI + P K+F+G L + +V+EL +G +
Sbjct: 65 TQAMAFDGIIFQGQSLKIRRPHDYQ-PLPGAHKLFIGGLPNYLNDDQVKELLTSFGPLKA 123
Query: 74 CDIVRNY------GFVHIDSPDIN---KCIKELNGMMVDGKPMKV 109
++V++ G+ + DIN + I LNGM + K + V
Sbjct: 124 FNLVKDSATGLSKGYAFCEYVDINVTDQAIAGLNGMQLGDKKLLV 168
>pdb|2CQ0|A Chain A, Solution Structure Of Rna Binding Domain In Eukaryotic
Translation Initiation Factor 3 Subunit 4
Length = 103
Score = 31.6 bits (70), Expect = 0.67, Method: Composition-based stats.
Identities = 14/42 (33%), Positives = 25/42 (59%), Gaps = 3/42 (7%)
Query: 33 AATSRKGPN---TPTTKVFVGNLSDNTRAPEVRELFVPYGTV 71
++ GPN + V NLS++TR +++ELF P+G++
Sbjct: 1 GSSGSSGPNRRADDNATIRVTNLSEDTRETDLQELFRPFGSI 42
>pdb|3D2W|A Chain A, Crystal Structure Of Mouse Tdp-43 Rrm2 Domain In Complex
Wit
Length = 89
Score = 31.6 bits (70), Expect = 0.75, Method: Compositional matrix adjust.
Identities = 16/42 (38%), Positives = 25/42 (59%), Gaps = 3/42 (7%)
Query: 45 TKVFVGNLSDNTRAPEVRELFVPYGTVVECDI---VRNYGFV 83
+KVFVG +++ A E+++ F YG VV+ I R + FV
Sbjct: 12 SKVFVGRCTEDMTAEELQQFFCQYGEVVDVFIPKPFRAFAFV 53
>pdb|3ULH|A Chain A, Crystal Structure Of A Rna Binding Domain Of Tho Complex
Subunit 4 Protein (Thoc4) From Homo Sapiens At 2.54 A
Resolution
Length = 107
Score = 31.2 bits (69), Expect = 0.90, Method: Composition-based stats.
Identities = 21/72 (29%), Positives = 36/72 (50%), Gaps = 8/72 (11%)
Query: 46 KVFVGNLSDNTRAPEVRELFVPYGTVVECDIV-----RNYGF--VHID-SPDINKCIKEL 97
K+ V NL +++ELF +GT+ + + R+ G VH + D K K+
Sbjct: 31 KLLVSNLDFGVSDADIQELFAEFGTLKKAAVHYDRSGRSLGTADVHFERKADALKAXKQY 90
Query: 98 NGMMVDGKPMKV 109
NG+ +DG+P +
Sbjct: 91 NGVPLDGRPXNI 102
>pdb|2XS2|A Chain A, Crystal Structure Of The Rrm Domain Of Mouse Deleted In
Azoospermia-Like In Complex With Rna, Uuguucuu
Length = 102
Score = 31.2 bits (69), Expect = 0.94, Method: Compositional matrix adjust.
Identities = 24/78 (30%), Positives = 37/78 (47%), Gaps = 14/78 (17%)
Query: 40 PNTPTTKVFVGNLSDNTRAPEVRELFVPYGTVVECDIV-------RNYGFVHI-DSPDIN 91
PNT VFVG + E+R F YG+V E I+ + YGFV + D+
Sbjct: 9 PNT----VFVGGIDVRMDETEIRSFFARYGSVKEVKIITDRTGVSKGYGFVSFYNDVDVQ 64
Query: 92 KCIKELNGMMVDGKPMKV 109
K ++ + + GK +K+
Sbjct: 65 KIVE--SQINFHGKKLKL 80
>pdb|3NNH|A Chain A, Crystal Structure Of The Cugbp1 Rrm1 With Guuguuuuguuu Rna
pdb|3NNH|C Chain C, Crystal Structure Of The Cugbp1 Rrm1 With Guuguuuuguuu Rna
pdb|3NNH|B Chain B, Crystal Structure Of The Cugbp1 Rrm1 With Guuguuuuguuu Rna
pdb|3NNH|D Chain D, Crystal Structure Of The Cugbp1 Rrm1 With Guuguuuuguuu Rna
Length = 88
Score = 31.2 bits (69), Expect = 0.99, Method: Composition-based stats.
Identities = 14/34 (41%), Positives = 23/34 (67%)
Query: 309 KIFIGNVNPGTSVELIRPLFEKYGKVVECDVVKN 342
K+F+G V S + +R LFE+YG V E +V+++
Sbjct: 5 KMFVGQVPRTWSEKDLRELFEQYGAVYEINVLRD 38
Score = 30.8 bits (68), Expect = 1.1, Method: Composition-based stats.
Identities = 13/34 (38%), Positives = 21/34 (61%)
Query: 46 KVFVGNLSDNTRAPEVRELFVPYGTVVECDIVRN 79
K+FVG + ++RELF YG V E +++R+
Sbjct: 5 KMFVGQVPRTWSEKDLRELFEQYGAVYEINVLRD 38
>pdb|2U2F|A Chain A, Solution Structure Of The Second Rna-Binding Domain Of
Hu2af65
Length = 85
Score = 30.0 bits (66), Expect = 1.8, Method: Composition-based stats.
Identities = 20/73 (27%), Positives = 36/73 (49%), Gaps = 9/73 (12%)
Query: 46 KVFVGNLSDNTRAPEVRELFVPYGTVVECDIVRNY------GFVHIDSPDIN---KCIKE 96
K+F+G L + +V+EL +G + ++V++ G+ + DIN + I
Sbjct: 3 KLFIGGLPNYLNDDQVKELLTSFGPLKAFNLVKDSATGLSKGYAFCEYVDINVTDQAIAG 62
Query: 97 LNGMMVDGKPMKV 109
LNGM + K + V
Sbjct: 63 LNGMQLGDKKLLV 75
>pdb|2YH0|A Chain A, Solution Structure Of The Closed Conformation Of Human
U2af65 Tandem Rrm1 And Rrm2 Domains
pdb|2YH1|A Chain A, Model Of Human U2af65 Tandem Rrm1 And Rrm2 Domains With
Eight-Site Uridine Binding
Length = 198
Score = 30.0 bits (66), Expect = 1.9, Method: Compositional matrix adjust.
Identities = 20/73 (27%), Positives = 36/73 (49%), Gaps = 9/73 (12%)
Query: 46 KVFVGNLSDNTRAPEVRELFVPYGTVVECDIVRNY------GFVHIDSPDIN---KCIKE 96
K+F+G L + +V+EL +G + ++V++ G+ + DIN + I
Sbjct: 116 KLFIGGLPNYLNDDQVKELLTSFGPLKAFNLVKDSATGLSKGYAFCEYVDINVTDQAIAG 175
Query: 97 LNGMMVDGKPMKV 109
LNGM + K + V
Sbjct: 176 LNGMQLGDKKLLV 188
>pdb|1WHY|A Chain A, Solution Structure Of The Rna Recognition Motif From
Hypothetical Rna Binding Protein Bc052180
Length = 97
Score = 30.0 bits (66), Expect = 1.9, Method: Composition-based stats.
Identities = 15/47 (31%), Positives = 24/47 (51%)
Query: 39 GPNTPTTKVFVGNLSDNTRAPEVRELFVPYGTVVECDIVRNYGFVHI 85
G PTT+++VG L NT + F +G++ D V+ F +I
Sbjct: 12 GKANPTTRLWVGGLGPNTSLAALAREFDRFGSIRTIDHVKGDSFAYI 58
>pdb|2BZ2|A Chain A, Solution Structure Of Nelf E Rrm
pdb|2JX2|A Chain A, Solution Conformation Of Rna-Bound Nelf-E Rrm
Length = 121
Score = 30.0 bits (66), Expect = 2.1, Method: Compositional matrix adjust.
Identities = 17/55 (30%), Positives = 30/55 (54%), Gaps = 3/55 (5%)
Query: 61 VRELFVPYGTVVEC--DIVRNYGFVHIDSPD-INKCIKELNGMMVDGKPMKVVVA 112
+R F P+G +++ D RN FV + + ++ + ELNG V+ +KV +A
Sbjct: 54 LRGAFSPFGNIIDLSMDPPRNCAFVTYEKMESADQAVAELNGTQVESVQLKVNIA 108
>pdb|2MSS|A Chain A, Musashi1 Rbd2, Nmr
pdb|2MST|A Chain A, Musashi1 Rbd2, Nmr
Length = 75
Score = 28.9 bits (63), Expect = 4.3, Method: Compositional matrix adjust.
Identities = 11/25 (44%), Positives = 19/25 (76%)
Query: 310 IFIGNVNPGTSVELIRPLFEKYGKV 334
IF+G ++ T+VE ++ FE++GKV
Sbjct: 2 IFVGGLSVNTTVEDVKHYFEQFGKV 26
>pdb|2FY1|A Chain A, A Dual Mode Of Rna Recognition By The Rbmy Protein
Length = 116
Score = 28.9 bits (63), Expect = 4.6, Method: Compositional matrix adjust.
Identities = 11/34 (32%), Positives = 24/34 (70%)
Query: 309 KIFIGNVNPGTSVELIRPLFEKYGKVVECDVVKN 342
K+FIG +N T+ ++++ +F K+G + E ++K+
Sbjct: 9 KLFIGGLNRETNEKMLKAVFGKHGPISEVLLIKD 42
>pdb|1P1T|A Chain A, Nmr Structure Of The N-Terminal Rrm Domain Of Cleavage
Stimulation Factor 64 Kda Subunit
Length = 104
Score = 28.5 bits (62), Expect = 5.1, Method: Composition-based stats.
Identities = 19/72 (26%), Positives = 33/72 (45%), Gaps = 9/72 (12%)
Query: 47 VFVGNLSDNTRAPEVRELFVPYGTVVECDIV--------RNYGFV-HIDSPDINKCIKEL 97
VFVGN+ +++++F G VV +V + YGF + D ++ L
Sbjct: 11 VFVGNIPYEATEEQLKDIFSEVGPVVSFRLVYDRETGKPKGYGFCEYQDQETALSAMRNL 70
Query: 98 NGMMVDGKPMKV 109
NG G+ ++V
Sbjct: 71 NGREFSGRALRV 82
>pdb|1X5P|A Chain A, Solution Structure Of Rrm Domain In Parp14
Length = 97
Score = 28.5 bits (62), Expect = 5.9, Method: Composition-based stats.
Identities = 17/55 (30%), Positives = 30/55 (54%), Gaps = 3/55 (5%)
Query: 61 VRELFVPYGTVVEC--DIVRNYGFVHIDSPD-INKCIKELNGMMVDGKPMKVVVA 112
+R F P+G +++ D RN FV + + ++ + ELNG V+ +KV +A
Sbjct: 30 LRGAFSPFGNIIDLSMDPPRNCAFVTYEKMESADQAVAELNGTQVESVQLKVNIA 84
>pdb|2DGS|A Chain A, Solution Structure Of The Second Rna Binding Domain In
Daz- Associated Protein 1
Length = 99
Score = 28.5 bits (62), Expect = 6.2, Method: Compositional matrix adjust.
Identities = 16/59 (27%), Positives = 28/59 (47%), Gaps = 9/59 (15%)
Query: 45 TKVFVGNLSDNTRAPEVRELFVPYGTVVECDIV--------RNYGFVHI-DSPDINKCI 94
K+FVG + N E+RE F +G V E ++ R +GF+ D +++ +
Sbjct: 11 NKIFVGGIPHNCGETELREYFKKFGVVTEVVMIYDAEKQRPRGFGFITFEDEQSVDQAV 69
>pdb|3DG3|A Chain A, Crystal Structure Of Muconate Lactonizing Enzyme From
Mucobacterium Smegmatis
pdb|3DG6|A Chain A, Crystal Structure Of Muconate Lactonizing Enzyme From
Mucobacterium Smegmatis Complexed With Muconolactone
pdb|3DG7|A Chain A, Crystal Structure Of Muconate Lactonizing Enzyme From
Mucobacterium Smegmatis Complexed With Muconolactone
pdb|3DG7|B Chain B, Crystal Structure Of Muconate Lactonizing Enzyme From
Mucobacterium Smegmatis Complexed With Muconolactone
pdb|3DG7|C Chain C, Crystal Structure Of Muconate Lactonizing Enzyme From
Mucobacterium Smegmatis Complexed With Muconolactone
pdb|3DG7|D Chain D, Crystal Structure Of Muconate Lactonizing Enzyme From
Mucobacterium Smegmatis Complexed With Muconolactone
Length = 367
Score = 28.5 bits (62), Expect = 6.2, Method: Compositional matrix adjust.
Identities = 15/54 (27%), Positives = 26/54 (48%)
Query: 292 VVIEARNMPGFSSVGTFKIFIGNVNPGTSVELIRPLFEKYGKVVECDVVKNYGF 345
+V EA + + TFK+ +G ++R L E++G +E V N G+
Sbjct: 143 MVAEAERIRETYGINTFKVKVGRRPVQLDTAVVRALRERFGDAIELYVDGNRGW 196
>pdb|2DO0|A Chain A, Solution Structure Of The Rna Binding Domain Of
Heterogeneous Nuclear Ribonucleoprotein M
Length = 114
Score = 28.5 bits (62), Expect = 6.2, Method: Composition-based stats.
Identities = 22/73 (30%), Positives = 34/73 (46%), Gaps = 8/73 (10%)
Query: 45 TKVFVGNLSDNTRAPEVRELFVPYGTVVECDIV-------RNYGFVHID-SPDINKCIKE 96
+ VFV NL +++E+F G VV DI+ R G V + S + + I
Sbjct: 16 STVFVANLDYKVGWKKLKEVFSMAGVVVRADILEDKDGKSRGIGTVTFEQSIEAVQAISM 75
Query: 97 LNGMMVDGKPMKV 109
NG ++ +PM V
Sbjct: 76 FNGQLLFDRPMHV 88
>pdb|1X4E|A Chain A, Solution Structure Of Rrm Domain In Rna Binding Motif,
Single-Stranded Interacting Protein 2
Length = 85
Score = 28.5 bits (62), Expect = 6.5, Method: Composition-based stats.
Identities = 16/51 (31%), Positives = 26/51 (50%), Gaps = 8/51 (15%)
Query: 304 SVGTFKIFIGNVNPGTSVELIRPLFEKYGKVVECDVV--------KNYGFV 346
S G+ ++I + PGT+ + + L + YGK+V + K YGFV
Sbjct: 2 SSGSSGLYIRGLQPGTTDQDLVKLCQPYGKIVSTKAILDKTTNKCKGYGFV 52
>pdb|3UWT|A Chain A, Crystal Structure Of A Rna Binding Domain Of Poly-U
Binding Splicing Factor 60kda (Puf60) From Homo Sapiens
At 2.50 A Resolution
Length = 200
Score = 28.1 bits (61), Expect = 7.2, Method: Compositional matrix adjust.
Identities = 13/46 (28%), Positives = 25/46 (54%), Gaps = 8/46 (17%)
Query: 309 KIFIGNVNPGTSVELIRPLFEKYGKVVECDVV--------KNYGFV 346
+I++ +V+ S + I+ +FE +GK+ C + K YGF+
Sbjct: 111 RIYVASVHQDLSDDDIKSVFEAFGKIKSCTLARDPTTGKHKGYGFI 156
Score = 28.1 bits (61), Expect = 8.3, Method: Compositional matrix adjust.
Identities = 15/73 (20%), Positives = 35/73 (47%), Gaps = 9/73 (12%)
Query: 46 KVFVGNLSDNTRAPEVRELFVPYGTVVECDIV--------RNYGFVHIDSPDINK-CIKE 96
+V+VG++ +R+ F P+G + D + + FV + P+ + +++
Sbjct: 14 RVYVGSIYYELGEDTIRQAFAPFGPIKSIDXSWDSVTXKHKGFAFVEYEVPEAAQLALEQ 73
Query: 97 LNGMMVDGKPMKV 109
N + + G+ +KV
Sbjct: 74 XNSVXLGGRNIKV 86
>pdb|1QAP|A Chain A, Quinolinic Acid Phosphoribosyltransferase With Bound
Quinolinic Acid
pdb|1QAP|B Chain B, Quinolinic Acid Phosphoribosyltransferase With Bound
Quinolinic Acid
Length = 296
Score = 28.1 bits (61), Expect = 7.5, Method: Compositional matrix adjust.
Identities = 18/58 (31%), Positives = 29/58 (50%)
Query: 8 NDEEGRTAIKELNGQIVNEKPLKIEAATSRKGPNTPTTKVFVGNLSDNTRAPEVRELF 65
N ++ R A+K +NGQ E + A T R+ T + VG L+ + RA ++ F
Sbjct: 238 NTDQMREAVKRVNGQARLEVSGNVTAETLREFAETGVDFISVGALTKHVRALDLSMRF 295
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 0.438
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 10,501,030
Number of Sequences: 62578
Number of extensions: 420438
Number of successful extensions: 1210
Number of sequences better than 100.0: 108
Number of HSP's better than 100.0 without gapping: 56
Number of HSP's successfully gapped in prelim test: 52
Number of HSP's that attempted gapping in prelim test: 1035
Number of HSP's gapped (non-prelim): 225
length of query: 346
length of database: 14,973,337
effective HSP length: 100
effective length of query: 246
effective length of database: 8,715,537
effective search space: 2144022102
effective search space used: 2144022102
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)