Reference:
Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schäffer,
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.
Query= Dr_sW_007_K05
(668 letters)
Database: Non-redundant SwissProt sequences
184,735 sequences; 68,354,980 total letters
Score E
Sequences producing significant alignments: (bits) Value
sp|Q9CQ49|NCBP2_MOUSE Nuclear cap binding protein subunit 2... 202 6e-52
sp|P52298|NCBP2_HUMAN Nuclear cap binding protein subunit 2... 202 8e-52
sp|P52299|NCBP2_XENLA Nuclear cap binding protein subunit 2... 194 2e-49
sp|Q14011|CIRBP_HUMAN Cold-inducible RNA-binding protein (G... 61 2e-09
sp|P60825|CIRBP_RAT Cold-inducible RNA-binding protein (Gly... 61 3e-09
sp|P49313|ROC1_NICPL 30 kDa ribonucleoprotein, chloroplast ... 59 9e-09
sp|P27476|NSR1_YEAST Nuclear localization sequence binding ... 58 3e-08
sp|Q08935|ROC1_NICSY 29 kDa ribonucleoprotein A, chloroplas... 57 4e-08
sp|P78795|IF34_SCHPO Probable eukaryotic translation initia... 56 1e-07
sp|Q9Y4C8|RBM19_HUMAN Probable RNA-binding protein 19 (RNA-... 55 2e-07
>sp|Q9CQ49|NCBP2_MOUSE Nuclear cap binding protein subunit 2 (20 kDa nuclear cap binding
protein) (NCBP 20 kDa subunit) (CBP20)
Length = 156
Score = 202 bits (514), Expect = 6e-52
Identities = 93/140 (66%), Positives = 111/140 (79%)
Frame = +2
Query: 101 LSSYRDQQFKGSRNEQEKALLNSCTLYIGNLSFFTREEQIWELFSRAGKVKRVIMGLDKF 280
LS YRDQ F+G EQEK L SCTLY+GNLSF+T EEQI+ELFS++G +K++IMGLDK
Sbjct: 17 LSEYRDQHFRGDNEEQEKLLKKSCTLYVGNLSFYTTEEQIYELFSKSGDIKKIIMGLDKM 76
Query: 281 KKTPCGFCFVEYYNRDQAENAVCYINGTRLDDRVIRTDWDAGFKENRQFGRGRTGGQVRD 460
KKT CGFCFVEYY+R AENA+ YINGTRLDDR+IRTDWDAGFKE RQ+GRGR+GGQVRD
Sbjct: 77 KKTACGFCFVEYYSRADAENAMRYINGTRLDDRIIRTDWDAGFKEGRQYGRGRSGGQVRD 136
Query: 461 EFXXXXXXXXXXXXKIVQQK 520
E+ K+ Q++
Sbjct: 137 EYREDYDAGRGGYGKLAQKQ 156
>sp|P52298|NCBP2_HUMAN Nuclear cap binding protein subunit 2 (20 kDa nuclear cap binding
protein) (NCBP 20 kDa subunit) (CBP20) (NCBP interacting
protein 1) (NIP1)
Length = 156
Score = 202 bits (513), Expect = 8e-52
Identities = 93/140 (66%), Positives = 110/140 (78%)
Frame = +2
Query: 101 LSSYRDQQFKGSRNEQEKALLNSCTLYIGNLSFFTREEQIWELFSRAGKVKRVIMGLDKF 280
LS YRDQ F+G EQEK L SCTLY+GNLSF+T EEQI+ELFS++G +K++IMGLDK
Sbjct: 17 LSQYRDQHFRGDNEEQEKLLKKSCTLYVGNLSFYTTEEQIYELFSKSGDIKKIIMGLDKM 76
Query: 281 KKTPCGFCFVEYYNRDQAENAVCYINGTRLDDRVIRTDWDAGFKENRQFGRGRTGGQVRD 460
KKT CGFCFVEYY+R AENA+ YINGTRLDDR+IRTDWDAGFKE RQ+GRGR+GGQVRD
Sbjct: 77 KKTACGFCFVEYYSRADAENAMRYINGTRLDDRIIRTDWDAGFKEGRQYGRGRSGGQVRD 136
Query: 461 EFXXXXXXXXXXXXKIVQQK 520
E+ K+ Q +
Sbjct: 137 EYRQDYDAGRGGYGKLAQNQ 156
>sp|P52299|NCBP2_XENLA Nuclear cap binding protein subunit 2 (20 kDa nuclear cap binding
protein) (NCBP 20 kDa subunit) (CBP20)
Length = 148
Score = 194 bits (492), Expect = 2e-49
Identities = 89/138 (64%), Positives = 108/138 (78%)
Frame = +2
Query: 101 LSSYRDQQFKGSRNEQEKALLNSCTLYIGNLSFFTREEQIWELFSRAGKVKRVIMGLDKF 280
LS YRDQ F+G+R++QE L SCTLY+GNLSF+T EEQI ELFS++G VKR++MGLDK
Sbjct: 9 LSQYRDQHFRGNRSDQESLLKQSCTLYVGNLSFYTTEEQIHELFSKSGDVKRIVMGLDKV 68
Query: 281 KKTPCGFCFVEYYNRDQAENAVCYINGTRLDDRVIRTDWDAGFKENRQFGRGRTGGQVRD 460
KKT CGFCFVEYY R A A+ +INGTRLDDR++RTDWDAGFKE RQ+GRG++GGQVRD
Sbjct: 69 KKTACGFCFVEYYTRADAGTAMRFINGTRLDDRIVRTDWDAGFKEGRQYGRGKSGGQVRD 128
Query: 461 EFXXXXXXXXXXXXKIVQ 514
E+ K+VQ
Sbjct: 129 EYRQDYDAGRGGYGKVVQ 146
>sp|Q14011|CIRBP_HUMAN Cold-inducible RNA-binding protein (Glycine-rich RNA-binding
protein CIRP) (A18 hnRNP)
Length = 172
Score = 61.2 bits (147), Expect = 2e-09
Identities = 33/91 (36%), Positives = 53/91 (58%)
Frame = +2
Query: 176 LYIGNLSFFTREEQIWELFSRAGKVKRVIMGLDKFKKTPCGFCFVEYYNRDQAENAVCYI 355
L++G LSF T E+ + ++FS+ G++ V++ D+ + GF FV + N D A++A+ +
Sbjct: 8 LFVGGLSFDTNEQSLEQVFSKYGQISEVVVVKDRETQRSRGFGFVTFENIDDAKDAMMAM 67
Query: 356 NGTRLDDRVIRTDWDAGFKENRQFGRGRTGG 448
NG +D R IR D +NR RG GG
Sbjct: 68 NGKSVDGRQIRVDQAGKSSDNR--SRGYRGG 96
>sp|P60825|CIRBP_RAT Cold-inducible RNA-binding protein (Glycine-rich RNA-binding
protein CIRP) (A18 hnRNP)
sp|P60824|CIRBP_MOUSE Cold-inducible RNA-binding protein (Glycine-rich RNA-binding
protein CIRP) (A18 hnRNP)
sp|P60826|CIRBP_CRIGR Cold-inducible RNA-binding protein (Glycine-rich RNA-binding
protein CIRP) (A18 hnRNP)
Length = 172
Score = 60.8 bits (146), Expect = 3e-09
Identities = 33/91 (36%), Positives = 53/91 (58%)
Frame = +2
Query: 176 LYIGNLSFFTREEQIWELFSRAGKVKRVIMGLDKFKKTPCGFCFVEYYNRDQAENAVCYI 355
L++G LSF T E+ + ++FS+ G++ V++ D+ + GF FV + N D A++A+ +
Sbjct: 8 LFVGGLSFDTNEQALEQVFSKYGQISEVVVVKDRETQRSRGFGFVTFENIDDAKDAMMAM 67
Query: 356 NGTRLDDRVIRTDWDAGFKENRQFGRGRTGG 448
NG +D R IR D +NR RG GG
Sbjct: 68 NGKSVDGRQIRVDQAGKSSDNR--SRGYRGG 96
>sp|P49313|ROC1_NICPL 30 kDa ribonucleoprotein, chloroplast precursor (CP-RBP30)
Length = 279
Score = 59.3 bits (142), Expect = 9e-09
Identities = 38/134 (28%), Positives = 60/134 (44%), Gaps = 8/134 (5%)
Frame = +2
Query: 71 RLIKKISTGGLSSYRDQQFKGSRNEQEKALLNSCTLYIGNLSFFTREEQIWELFSRAGKV 250
R ++K++ D + E+E+ +++GNL F + ELF RAG V
Sbjct: 54 RFVRKVTLPDFDQIEDVEDGDEGVEEERNFSPDLKIFVGNLLFSADSAALAELFERAGNV 113
Query: 251 KRVIMGLDKFKKTPCGFCFVEYYNRDQAENAVCYINGTRLDDRVIRTD--------WDAG 406
+ V + DK GF FV ++++ E A NG LD R +R + ++
Sbjct: 114 EMVEVIYDKLTGRSRGFGFVTMSSKEEVEAACQQFNGYELDGRALRVNSGPPPEKRENSS 173
Query: 407 FKENRQFGRGRTGG 448
F+EN F G GG
Sbjct: 174 FRENSSFRGGSRGG 187
Score = 45.4 bits (106), Expect = 1e-04
Identities = 30/108 (27%), Positives = 51/108 (47%)
Frame = +2
Query: 104 SSYRDQQFKGSRNEQEKALLNSCTLYIGNLSFFTREEQIWELFSRAGKVKRVIMGLDKFK 283
SS+R+ + + +S +Y+GNL++ ++ + LFS GKV + D+
Sbjct: 172 SSFRENSSFRGGSRGGGSFDSSNRVYVGNLAWGVDQDALETLFSEQGKVVDAKVVYDRDS 231
Query: 284 KTPCGFCFVEYYNRDQAENAVCYINGTRLDDRVIRTDWDAGFKENRQF 427
GF FV Y + ++ NA+ ++G L+ R IR RQF
Sbjct: 232 GRSRGFGFVTYSSAEEVNNAIESLDGVDLNGRAIRVSPAEARPPRRQF 279
>sp|P27476|NSR1_YEAST Nuclear localization sequence binding protein (P67)
Length = 414
Score = 57.8 bits (138), Expect = 3e-08
Identities = 36/102 (35%), Positives = 58/102 (56%), Gaps = 7/102 (6%)
Frame = +2
Query: 167 SCTLYIGNLSFFTREEQIWELFSRAGKVKRVIMGLDKFKKTPCGFCFVEYYNRDQAENAV 346
S TL++GNLSF + I+ELF++ G+V V + + P GF +V++ N + A+ A+
Sbjct: 266 SDTLFLGNLSFNADRDAIFELFAKHGEVVSVRIPTHPETEQPKGFGYVQFSNMEDAKKAL 325
Query: 347 CYINGTRLDDRVIRTDW-------DAGFKENRQFGRGRTGGQ 451
+ G +D+R +R D+ D G +R FG GR GG+
Sbjct: 326 DALQGEYIDNRPVRLDFSSPRPNNDGGRGGSRGFG-GRGGGR 366
>sp|Q08935|ROC1_NICSY 29 kDa ribonucleoprotein A, chloroplast precursor (CP29A)
Length = 273
Score = 57.0 bits (136), Expect = 4e-08
Identities = 37/128 (28%), Positives = 57/128 (44%), Gaps = 2/128 (1%)
Frame = +2
Query: 71 RLIKKISTGGLSSYRDQQFKGSRNEQEKALLNSCTLYIGNLSFFTREEQIWELFSRAGKV 250
R ++K++ D + E+E+ +++GNL F + ELF RAG V
Sbjct: 54 RFVRKVTLSDFDQIEDVEDGDDGVEEERNFSPDLKIFVGNLPFSADSAALAELFERAGNV 113
Query: 251 KRVIMGLDKFKKTPCGFCFVEYYNRDQAENAVCYINGTRLDDRVIRTDW--DAGFKENRQ 424
+ V + DK GF FV ++++ E A NG LD R +R + +EN
Sbjct: 114 EMVEVIYDKLTGRSRGFGFVTMSSKEEVEAACQQFNGYELDGRALRVNSGPPPEKRENSS 173
Query: 425 FGRGRTGG 448
F G GG
Sbjct: 174 FRGGSRGG 181
Score = 45.1 bits (105), Expect = 2e-04
Identities = 27/88 (30%), Positives = 44/88 (50%)
Frame = +2
Query: 164 NSCTLYIGNLSFFTREEQIWELFSRAGKVKRVIMGLDKFKKTPCGFCFVEYYNRDQAENA 343
+S +Y+GNL++ ++ + LFS GKV + D+ GF FV Y + ++ NA
Sbjct: 186 SSNRVYVGNLAWGVDQDALETLFSEQGKVVDAKVVYDRDSGRSRGFGFVTYSSAEEVNNA 245
Query: 344 VCYINGTRLDDRVIRTDWDAGFKENRQF 427
+ ++G L+ R IR RQF
Sbjct: 246 IESLDGVDLNGRAIRVSPAEARPPRRQF 273
>sp|P78795|IF34_SCHPO Probable eukaryotic translation initiation factor 3 RNA-binding
subunit (eIF-3 RNA-binding subunit) (eIF3 p33)
(Translation initiation factor eIF3, p33 subunit)
Length = 282
Score = 55.8 bits (133), Expect = 1e-07
Identities = 34/94 (36%), Positives = 52/94 (55%)
Frame = +2
Query: 116 DQQFKGSRNEQEKALLNSCTLYIGNLSFFTREEQIWELFSRAGKVKRVIMGLDKFKKTPC 295
D FK R++ S TL + NLS TREE++ +LF R G ++RV + DK
Sbjct: 191 DSMFKRERDD-------SATLRVTNLSDDTREEELRDLFRRFGGIQRVYLAKDKETGRAK 243
Query: 296 GFCFVEYYNRDQAENAVCYINGTRLDDRVIRTDW 397
GF FV YY+RD A A ++G ++ ++R ++
Sbjct: 244 GFAFVSYYDRDCAIKARDRLDGYGWNNLILRCEF 277
>sp|Q9Y4C8|RBM19_HUMAN Probable RNA-binding protein 19 (RNA-binding motif protein 19)
Length = 960
Score = 54.7 bits (130), Expect = 2e-07
Identities = 34/96 (35%), Positives = 51/96 (53%), Gaps = 3/96 (3%)
Frame = +2
Query: 95 GGLSSYRDQQFKGSRNEQEKALLNSCTLYIGNLSFFTREEQIWELFSRAGKVKRVIMGLD 274
G +S + + E+E+ L CTL+I NL+F T EE++ E+FS+ G VK +
Sbjct: 705 GADNSSAKMEEEEEEEEEEEESLPGCTLFIKNLNFDTTEEKLKEVFSKVGTVKSCSISKK 764
Query: 275 KFKK---TPCGFCFVEYYNRDQAENAVCYINGTRLD 373
K K GF FVEY +QA+ A+ + G +D
Sbjct: 765 KNKAGVLLSMGFGFVEYRKPEQAQKALKQLQGHVVD 800
Score = 47.8 bits (112), Expect = 3e-05
Identities = 24/82 (29%), Positives = 43/82 (52%)
Frame = +2
Query: 140 NEQEKALLNSCTLYIGNLSFFTREEQIWELFSRAGKVKRVIMGLDKFKKTPCGFCFVEYY 319
NE+E+ L S L++ NL + + EE + +LFS+ G + + +D K P GF F+ +
Sbjct: 392 NEEEEDLAESGRLFVRNLPYTSTEEDLEKLFSKYGPLSELHYPIDSLTKKPKGFAFITFM 451
Query: 320 NRDQAENAVCYINGTRLDDRVI 385
+ A A ++G R++
Sbjct: 452 FPEHAVKAYSEVDGQVFQGRML 473
Database: Non-redundant SwissProt sequences
Posted date: Dec 6, 2005 7:40 AM
Number of letters in database: 68,354,980
Number of sequences in database: 184,735
Database: swissprot.01
Posted date: Dec 6, 2005 8:18 AM
Number of letters in database: 66,202,850
Number of sequences in database: 184,431
Lambda K H
0.318 0.134 0.401
Gapped
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 66,813,462
Number of Sequences: 369166
Number of extensions: 1230573
Number of successful extensions: 3081
Number of sequences better than 10.0: 10
Number of HSP's better than 10.0 without gapping: 2889
Number of HSP's successfully gapped in prelim test: 0
Number of HSP's that attempted gapping in prelim test: 0
Number of HSP's gapped (non-prelim): 3054
length of database: 68,354,980
effective HSP length: 106
effective length of database: 48,773,070
effective search space used: 5657676120
frameshift window, decay const: 40, 0.1
T: 12
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)