RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy17506
(252 letters)
>3mmy_B Nuclear pore complex protein NUP98; mRNA export, nuclear protein;
HET: MES; 1.65A {Homo sapiens}
Length = 56
Score = 89.7 bits (222), Expect = 9e-24
Identities = 41/56 (73%), Positives = 48/56 (85%)
Query: 156 TGTTIKFSPVTGTDTMMRGGSSQTINTRHVCITCMKEYENKSLEELRYEDYKANRK 211
TGTTIKF+P TGTDTM++ G S I+T+H CIT MKEYE+KSLEELR EDY+ANRK
Sbjct: 1 TGTTIKFNPPTGTDTMVKAGVSTNISTKHQCITAMKEYESKSLEELRLEDYQANRK 56
>1twf_A B220, DNA-directed RNA polymerase II largest subunit; transcription,
mRNA, multiprotein complex; HET: UTP; 2.30A
{Saccharomyces cerevisiae} SCOP: e.29.1.2 PDB: 1i3q_A
1i6h_A 1k83_A* 1nik_A 1nt9_A 1pqv_A 1r5u_A 1r9s_A*
1r9t_A* 1sfo_A* 1twa_A* 1twc_A* 1i50_A* 1twg_A* 1twh_A*
1wcm_A 1y1v_A 1y1w_A 1y1y_A 1y77_A* ...
Length = 1733
Score = 33.9 bits (77), Expect = 0.051
Identities = 28/174 (16%), Positives = 62/174 (35%), Gaps = 21/174 (12%)
Query: 4 SSFGQASTSSAFGQSSFGKPAFSSPGFGATNNSLFGQTATQAPATSLFGGTQQQTTTFGS 63
+++G A A A +SPGFG ++ +P + + T +
Sbjct: 1509 TAYGGADYGEATSPFGAYGEAPTSPGFGVSSPG-------FSPTSPTYSPTSPAYSPTSP 1561
Query: 64 GLFGSQPQATTSATSGLFGNQQQPATNTTGGLFGASNTTFGQSKPAFGGFGGTTS----- 118
+ P S TS + P+ + T + ++ ++ + P++ + S
Sbjct: 1562 SYSPTSPS--YSPTSPSYS-PTSPSYSPTSPSYSPTSPSYSPTSPSYSPTSPSYSPTSPS 1618
Query: 119 ----GGGLFGQSTMFGQTNQAQPGTSSLFGGTTSAF--GGAAATGTTIKFSPVT 166
S + T+ + TS + T+ ++ A + T+ +SP +
Sbjct: 1619 YSPTSPSYSPTSPSYSPTSPSYSPTSPSYSPTSPSYSPTSPAYSPTSPSYSPTS 1672
>3lz8_A Putative chaperone DNAJ; structure genomics, structural genomics,
PSI-2, protein STRU initiative; 2.90A {Klebsiella
pneumoniae subsp} PDB: 2kqx_A
Length = 329
Score = 30.3 bits (69), Expect = 0.49
Identities = 16/95 (16%), Positives = 27/95 (28%), Gaps = 14/95 (14%)
Query: 103 FGQSKPAFGGFGGTTSGGGLFGQ-------STMFGQTNQAQPGTSSLFGGTTSAFGG--- 152
Q + G + + Q S+MFGQ + + G
Sbjct: 92 LWQHRNDPGFGRQRQTHEQSYSQQDFDDIFSSMFGQQAHQRRRQHAARGHDLEIEVAVFL 151
Query: 153 -AAATGTTIKFS---PVTGTDTMMRGGSSQTINTR 183
T S PV M+ + +T+N +
Sbjct: 152 EETLAEQTRTISYNLPVYNVFGMIESETPKTLNVK 186
>2pff_B Fatty acid synthase subunit beta; fatty acid synthase,
acyl-carrier-protein, beta-ketoacyl RED beta-ketoacyl
synthase, dehydratase; 4.00A {Saccharomyces cerevisiae}
Length = 2006
Score = 30.8 bits (69), Expect = 0.57
Identities = 42/219 (19%), Positives = 62/219 (28%), Gaps = 78/219 (35%)
Query: 5 SFGQASTSSAFGQSS----FGKPAFSSPGF---GATNNSLF---GQTATQAPAT-----S 49
++ S + + S G P SP T + +T + PA S
Sbjct: 313 AYPNTSLPPSILEDSLENNEGVP---SPMLSISNLTQEQVQDYVNKTNSHLPAGKQVEIS 369
Query: 50 LFGGTQQQTTTFG--SGLFGSQPQ-ATTSATSGLFGNQQQPATNTTGGLFGASNTTFGQS 106
L G + + G L+G A SGL +Q S F +
Sbjct: 370 LVNGAKNLVVS-GPPQSLYGLNLTLRKAKAPSGL--DQ--------------SRIPFSER 412
Query: 107 KPAFGGFGGTTSGGGLFGQSTMFGQTNQAQPGT----SSLFGGTTSAFGGAAATGTTIKF 162
K F S F P S L + + F
Sbjct: 413 KLKF---------------SNRFL------PVASPFHSHLLVPASDLINKDLVKN-NVSF 450
Query: 163 S------PV----TGTDTMMRGGSSQTINTRHV-CITCM 190
+ PV G+D +R S +I+ R V CI +
Sbjct: 451 NAKDIQIPVYDTFDGSD--LRVLSG-SISERIVDCIIRL 486
>1ggp_A TKL-1, protein (lectin 1 A chain); sugar binding protein; 2.70A
{Trichosanthes kirilowii} SCOP: d.165.1.1
Length = 234
Score = 29.6 bits (66), Expect = 0.72
Identities = 10/35 (28%), Positives = 16/35 (45%)
Query: 29 GFGATNNSLFGQTATQAPATSLFGGTQQQTTTFGS 63
+ A +NS F A + + LF + Q T F +
Sbjct: 64 AYRAGSNSYFHAAAPGSSLSHLFSRSSQHTLGFDN 98
>1m2v_B SEC24, protein transport protein SEC24, SEC24P, SEC24 protein,
abnormal nuclear; zinc-finger, beta barrel, VWA domain,
gelsolin domain,; 2.75A {Saccharomyces cerevisiae} SCOP:
a.71.2.1 b.2.8.1 c.62.1.2 d.109.2.1 g.41.10.1
Length = 926
Score = 28.6 bits (63), Expect = 2.6
Identities = 14/146 (9%), Positives = 21/146 (14%), Gaps = 13/146 (8%)
Query: 26 SSPGFGATNNSLFGQTATQAPATSLFGGTQQQTTTFGSGLFGSQPQATTSATSGLFGNQQ 85
+ +G L P G T Q
Sbjct: 12 AQLQYGQNATPLQQPAQFMPPQDPAAAGMSYGQMGMPPQGAVPSMGQQQFLTPAQEQLHQ 71
Query: 86 QPATNTTGGLFGASNTTFGQSKPAFGGFGGTTSGGGLFGQSTMFGQTNQAQPGTSSLFGG 145
Q TT + Q + Q
Sbjct: 72 QIDQATTSM-------------NDMHLHNVPLVDPNAYMQPQVPVQMGTPLQQQQQPMAA 118
Query: 146 TTSAFGGAAATGTTIKFSPVTGTDTM 171
AA + + D +
Sbjct: 119 PAYGQPSAAMGQNMRPMNQLYPIDLL 144
Score = 27.9 bits (61), Expect = 4.4
Identities = 19/118 (16%), Positives = 26/118 (22%), Gaps = 6/118 (5%)
Query: 23 PAFSSPGFGATNNSLFGQTATQAPATSLFGGTQQQTTTFGSGLFGSQPQATTSATSGLFG 82
++ + Q A + G Q G Q Q T A L
Sbjct: 16 YGQNATPLQQPAQFMPPQDPAAAGMSYGQMGMPPQGAVPSMG----QQQFLTPAQEQL-- 69
Query: 83 NQQQPATNTTGGLFGASNTTFGQSKPAFGGFGGTTSGGGLFGQSTMFGQTNQAQPGTS 140
+QQ T+ N G L Q QP +
Sbjct: 70 HQQIDQATTSMNDMHLHNVPLVDPNAYMQPQVPVQMGTPLQQQQQPMAAPAYGQPSAA 127
Score = 27.5 bits (60), Expect = 6.0
Identities = 13/135 (9%), Positives = 21/135 (15%), Gaps = 4/135 (2%)
Query: 3 GSSFGQASTSSAFGQSSFGKPAFSSPGFGATNNSLFGQTATQAPATSLFGGTQQQTTTFG 62
++ + S G Q T QQ
Sbjct: 18 QNATPLQQPAQFMPPQDPAAAGMSYGQMGMPPQGAVPSMGQQQFLTPAQEQLHQQIDQAT 77
Query: 63 SGLFGSQPQATTSATSGLFGNQQQPATNTTGGLFGASNTTFGQSKPAFGGFGGTTSGGGL 122
+ + + Q P T + PA+G
Sbjct: 78 TSMNDMHLHNVPLVDPNAYMQPQVPVQMGT----PLQQQQQPMAAPAYGQPSAAMGQNMR 133
Query: 123 FGQSTMFGQTNQAQP 137
P
Sbjct: 134 PMNQLYPIDLLTELP 148
>1abr_A Abrin-A; glycosidase/carbohydrate complex, lectin, lectin
(agglutinin), glycoprotein, plant SEED protein, plant
toxin; HET: NDG NGZ MAN BMA BGC; 2.14A {Abrus
precatorius} SCOP: d.165.1.1
Length = 251
Score = 27.7 bits (61), Expect = 3.8
Identities = 10/35 (28%), Positives = 15/35 (42%)
Query: 29 GFGATNNSLFGQTATQAPATSLFGGTQQQTTTFGS 63
+ A S F + A + + LF GT Q + F
Sbjct: 77 AYRAGTQSYFLRDAPSSASDYLFTGTDQHSLPFYG 111
>1exn_A 5'-exonuclease, 5'-nuclease; hydrolase; 2.50A {Enterobacteria phage
T5} SCOP: a.60.7.1 c.120.1.2 PDB: 1ut5_A 1ut8_A 1xo1_A
Length = 290
Score = 27.7 bits (62), Expect = 4.2
Identities = 4/9 (44%), Positives = 5/9 (55%)
Query: 203 YEDYKANRK 211
+YK NR
Sbjct: 78 LPEYKGNRD 86
>3gd0_A Laminaripentaose-producing beta-1,3-guluase (lphase); glycoside
hydrolase, 3- glucnase; 1.62A {Streptomyces matensis}
PDB: 3gd9_A*
Length = 367
Score = 27.7 bits (61), Expect = 4.4
Identities = 13/61 (21%), Positives = 18/61 (29%), Gaps = 1/61 (1%)
Query: 101 TTFGQSKPAFGGFGGTTSGGGL-FGQSTMFGQTNQAQPGTSSLFGGTTSAFGGAAATGTT 159
+ + G SGG L F + T +P SS+FG
Sbjct: 227 IVTPFADRPDVRYTGRVSGGVLRFTDGSGAVVTTFQKPDASSVFGCHRLLDAPNDQVRGP 286
Query: 160 I 160
I
Sbjct: 287 I 287
>2exr_A Cytokinin dehydrogenase 7; AT5G21482.1, cytokinin
oxidase/dehydrogenase, CKX, structura genomics, protein
structure initiative; HET: MSE FAD; 1.70A {Arabidopsis
thaliana} PDB: 2q4w_A*
Length = 524
Score = 27.3 bits (60), Expect = 5.0
Identities = 8/20 (40%), Positives = 11/20 (55%)
Query: 111 GGFGGTTSGGGLFGQSTMFG 130
GGT S G+ GQ+ +G
Sbjct: 166 LTVGGTLSNAGVSGQAFRYG 185
>1m2t_A MLA, mistletoe lectin I A chain, M; ribosome inactivation, ribosome
inhibitor, hydrolase; HET: NAG FUC ADE; 1.89A {Viscum
album} SCOP: d.165.1.1 PDB: 2r9k_A* 3cef_A* 3d7w_A*
3o5w_A* 1pum_A* 1sz6_A* 1puu_A* 2rg9_A* 1onk_A* 1oql_A*
1ce7_A* 1tfm_A* 1pc8_A* 1yf8_A* 2mll_A*
Length = 254
Score = 26.9 bits (59), Expect = 6.3
Identities = 10/35 (28%), Positives = 12/35 (34%)
Query: 29 GFGATNNSLFGQTATQAPATSLFGGTQQQTTTFGS 63
+ A N S F A T F GT + F
Sbjct: 79 AYEAGNQSYFLSDAPAGAETQDFSGTTSSSQPFNG 113
>4e16_A Precorrin-4 C(11)-methyltransferase; structural genomics, center
for structural genomics of infec diseases, csgid; 2.49A
{Clostridium difficile}
Length = 253
Score = 26.7 bits (60), Expect = 6.4
Identities = 13/57 (22%), Positives = 21/57 (36%), Gaps = 12/57 (21%)
Query: 145 GTTSAFGGAAATGTTIKFSPVTGTDTMMRGGSSQTINTRHVCITCMKEYENKSLEEL 201
G +S G A++ G T + S I TR T + E E+ ++
Sbjct: 113 GVSSFLGAASSLGV-----EYT-----VPEISQSVIITRMEGRTPVPEKES--IQSY 157
>1w1o_A Cytokinin dehydrogenase 1; flavin, oxidoreductase, flavoprotein,
FAD; HET: NAG FAD; 1.7A {Zea mays} SCOP: d.58.32.4
d.145.1.1 PDB: 1w1q_A* 1w1r_A* 1w1s_A* 3dq0_A* 2qkn_A*
3c0p_A* 3bw7_A* 2qpm_A* 3kjm_A*
Length = 534
Score = 26.9 bits (59), Expect = 6.5
Identities = 16/80 (20%), Positives = 24/80 (30%), Gaps = 13/80 (16%)
Query: 101 TTFGQSKPAFGGFGGTTSGGGLFGQSTMFGQTNQAQPGTSSLFGGTTSAFGGAAATGTTI 160
+ + GGT S G+ GQ+ G P S++ G +
Sbjct: 163 APRSWTDYLYLTVGGTLSNAGISGQAFRHG------PQISNVL-----EMDVITGHGEMV 211
Query: 161 KFSPVTGTDTM--MRGGSSQ 178
S D + GG Q
Sbjct: 212 TCSKQLNADLFDAVLGGLGQ 231
>3ktz_A Ribosome-inactivating protein gelonin; plant seeds, glycosidase,
disulfide bond, glycoprotein, hydrolase, plant defense;
HET: NAG; 1.60A {Gelonium multiflorum} PDB: 3ku0_A*
Length = 251
Score = 26.6 bits (58), Expect = 7.3
Identities = 11/35 (31%), Positives = 14/35 (40%)
Query: 29 GFGATNNSLFGQTATQAPATSLFGGTQQQTTTFGS 63
G+ N S F + A A LF T + FG
Sbjct: 77 GYQVRNRSYFFKDAPDAAYEGLFKNTIKTRLHFGG 111
>1hwm_A Ebulin, ebulin A chain; ribosome-inactivating protein, ricin-like,
hydrolase; HET: NAG BMA MAN GAL; 2.80A {Sambucus ebulus}
SCOP: d.165.1.1 PDB: 1hwn_A* 1hwo_A* 1hwp_A*
Length = 254
Score = 26.6 bits (58), Expect = 8.4
Identities = 14/35 (40%), Positives = 19/35 (54%)
Query: 29 GFGATNNSLFGQTATQAPATSLFGGTQQQTTTFGS 63
F A NS F + AT+ ++LF GT Q T +F
Sbjct: 80 AFSANGNSYFFKDATELQKSNLFLGTTQHTLSFTG 114
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
0.311 0.126 0.363
Gapped
Lambda K H
0.267 0.0847 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 3,379,629
Number of extensions: 185322
Number of successful extensions: 357
Number of sequences better than 10.0: 1
Number of HSP's gapped: 349
Number of HSP's successfully gapped: 58
Length of query: 252
Length of database: 6,701,793
Length adjustment: 91
Effective length of query: 161
Effective length of database: 4,160,982
Effective search space: 669918102
Effective search space used: 669918102
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.8 bits)
S2: 56 (25.1 bits)