RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy5045
(407 letters)
>3zuz_A Protein SHQ1; cell cycle, RNP assembly, X-linked dyskeratosis
congenita; HET: CME; 1.50A {Saccharomyces cerevisiae}
PDB: 3zv0_A 3uah_A 3uai_D
Length = 365
Score = 145 bits (367), Expect = 4e-40
Identities = 48/261 (18%), Positives = 95/261 (36%), Gaps = 37/261 (14%)
Query: 122 EDEDDDTMWFIEQEPQHQPEENSTTYGYGFANKTKGTLTNMKVTISK-SDLGFDLEELET 180
E + W IEQ+ YGF N ++ + ++L D E +
Sbjct: 3 MGEGFN--WEIEQKMDSSTNNGILKTKYGFDNLYDTVISVSTSNGNDINELD-DPEHTDA 59
Query: 181 AARIVEEEEVERA-------LCNHVSTLVLCSNSEQSE--RSIIFFIGLDFWVVSRDYAS 231
R++E E + +++ + + ++ F + Y
Sbjct: 60 NDRVIERLRKENLKFDPEYYVSEYMTHKYGNEEDLEINGIKELLKFTPSIVKQYLQWYKD 119
Query: 232 DVRQAQDDRTQMTPSELDTMK-QLGNREYLLSSEEKCAVLLSLVNILYAYCYDVRTTMGE 290
+ T E M+ L + YL+ + + ++++++L++Y ++ G
Sbjct: 120 STNPNLVMPIEFTDEEQKQMQDNLPKKSYLVEDIKP--LYVTILSVLFSYVFEQIENEGT 177
Query: 291 HTVESGWTVNKLSSALCWLQS---------------------FTSLKQVLISSMRRSLCY 329
HT ES WT+ KL + +L + +K +I+ +RR+L Y
Sbjct: 178 HTTESAWTMGKLCPQISFLDQQLKQVNELQDGMKEISKVNKDSSLIKIAIITGIRRALSY 237
Query: 330 PLYREWRLSCAIQQDVNTILS 350
PL+R + L+ V IL
Sbjct: 238 PLHRNYDLAMKAWTFVYYILR 258
>3eud_A Protein SHQ1; CS domain HSP20-like domain SHQ1 H/ACA snoRNP
ribosome biogenesis, nucleus, nuclear protein; HET: MSE;
2.40A {Saccharomyces cerevisiae}
Length = 115
Score = 135 bits (341), Expect = 4e-39
Identities = 34/99 (34%), Positives = 51/99 (51%), Gaps = 2/99 (2%)
Query: 1 MLTPMFELLQSEEDVTIIIKAPYANI--ADTEVYVEDTDFRFSSSPYYLRLNFPGPIKET 58
M+TP F + Q EE + + I E+ +++ F SPYYLRL FP + +
Sbjct: 15 MITPRFSITQDEEFIFLKIFISNIRFSAVGLEIIIQENMIIFHLSPYYLRLRFPHELIDD 74
Query: 59 DHTSGKYDSDKGQFTFTVIKVNTGEHFPDLDLISKLLIP 97
+ ++ +YDS V K+N E+F DLDL +KLL
Sbjct: 75 ERSTAQYDSKDECINVKVAKLNKNEYFEDLDLPTKLLAR 113
>2k8q_A Protein SHQ1; beta-sandwich, CS domain, nucleus, structural
protein; NMR {Saccharomyces cerevisiae}
Length = 134
Score = 134 bits (339), Expect = 1e-38
Identities = 36/131 (27%), Positives = 57/131 (43%), Gaps = 4/131 (3%)
Query: 2 LTPMFELLQSEEDVTIIIKAPYANI--ADTEVYVEDTDFRFSSSPYYLRLNFPGPIKETD 59
+TP F + Q EE + + I E+ +++ F SPYYLRL FP + + +
Sbjct: 2 ITPRFSITQDEEFIFLKIFISNIRFSAVGLEIIIQENMIIFHLSPYYLRLRFPHELIDDE 61
Query: 60 HTSGKYDSDKGQFTFTVIKVNTGEHFPDLDLISKLLIPPVKHRVAKPGIEVMSEPNNVSD 119
++ +YDS V K+N E+F DLDL +KLL A E
Sbjct: 62 RSTAQYDSKDECINVKVAKLNKNEYFEDLDLPTKLLARQGDLAGADALTENTDAKKTQKP 121
Query: 120 --EDEDEDDDT 128
++ + D +
Sbjct: 122 LIQEVETDGVS 132
>1vt4_I APAF-1 related killer DARK; drosophila apoptosome, apoptosis,
programmed cell death; HET: DTP; 6.90A {Drosophila
melanogaster} PDB: 3iz8_A*
Length = 1221
Score = 54.9 bits (131), Expect = 3e-08
Identities = 70/463 (15%), Positives = 131/463 (28%), Gaps = 124/463 (26%)
Query: 30 EVYVEDTDFRFSSSPYYLRLNFPGPI---KETDHTSGKYDSDKG-QFTFTVIKV---NTG 82
+ +V++ D + + P I +E DH D+ G F +
Sbjct: 27 DAFVDNFDCKDV-------QDMPKSILSKEEIDHIIMSKDAVSGTLRLFWTLLSKQEEMV 79
Query: 83 EHFPD--LDLISKLLIPPVKHRVAKPGIEVMSEPNNVSDEDEDEDDDTMWFIEQEPQH-- 138
+ F + L + K L+ P+K +P + D + + + +
Sbjct: 80 QKFVEEVLRINYKFLMSPIKTEQRQPSMMTRMYIEQRDRLYNDNQVFAKYNVSRLQPYLK 139
Query: 139 --------QPEENSTTYGYGFANKT---KGTLTNMKVTISKSDLGF------------DL 175
+P +N G + KT + KV F L
Sbjct: 140 LRQALLELRPAKNVLIDGVLGSGKTWVALDVCLSYKVQCKMDFKIFWLNLKNCNSPETVL 199
Query: 176 EELETAARIVEEEEVERALCNHVSTLVLCSNSEQSERSIIFF-----IGL----DFW--- 223
E L+ ++ R +H S + L +S Q+E + L +
Sbjct: 200 EMLQKLLYQIDPNWTSR--SDHSSNIKLRIHSIQAELRRLLKSKPYENCLLVLLNVQNAK 257
Query: 224 ------------VVSRDYA-SDVRQAQ--------DDRTQMTPSELDTM--KQLGNREYL 260
+ +R +D A +TP E+ ++ K L R
Sbjct: 258 AWNAFNLSCKILLTTRFKQVTDFLSAATTTHISLDHHSMTLTPDEVKSLLLKYLDCRPQD 317
Query: 261 LSSEEKCAVLLSLVNILYAYCYDVRTTMGEHTVESGWTVNKLSSALCWLQSFTSLKQVLI 320
L E ++I+ D T W N W +I
Sbjct: 318 LP-REVLTTNPRRLSIIAESIRDGLAT---------WD-N-------WKHVNCDKLTTII 359
Query: 321 SSMRRSLCYPLYREWRLSCAI-QQDVN------TILSQDILGYKVM-------------- 359
S L YR+ ++ + +++ D++ VM
Sbjct: 360 ESSLNVLEPAEYRKMFDRLSVFPPSAHIPTILLSLIWFDVIKSDVMVVVNKLHKYSLVEK 419
Query: 360 --KQVTISKSDLGFDL-----DELETAARIVEEEEVERALCNH 395
K+ TIS + +L +E IV+ + + +
Sbjct: 420 QPKESTISIPSIYLELKVKLENEYALHRSIVDHYNIPKTFDSD 462
Score = 54.9 bits (131), Expect = 3e-08
Identities = 42/395 (10%), Positives = 114/395 (28%), Gaps = 117/395 (29%)
Query: 60 HTSGKYDSDKGQFTFT---VIKVNTGEHFPDLDL--ISKLLIPPVKHRVAKPGIEVMSEP 114
H D + G+ + ++ V + D + + + ++
Sbjct: 2 HHHHHMDFETGEHQYQYKDILSVFEDAFVDNFDCKDVQDMPKSILSKEEID---HIIMSK 58
Query: 115 NNVSDEDEDEDDDTMWFIEQEPQHQPE---ENSTTYGYGF-----ANKTKGTLTNMKVTI 166
+ VS W + + + + E Y F + + ++ I
Sbjct: 59 DAVSGTLR-----LFWTLLSKQEEMVQKFVEEVLRINYKFLMSPIKTEQRQPSMMTRMYI 113
Query: 167 SKSDLGF-DLEELE--TAARIVEEEEVERALCN-----HV----------STLVL--CSN 206
+ D + D + +R+ ++ +AL +V + + L C +
Sbjct: 114 EQRDRLYNDNQVFAKYNVSRLQPYLKLRQALLELRPAKNVLIDGVLGSGKTWVALDVCLS 173
Query: 207 SEQSERSIIFFIGLDFWVVSRDYASD----------------VRQAQDDRTQMTPSELDT 250
+ + + FW+ ++ S ++ D + + +
Sbjct: 174 YKVQCK---MDFKI-FWLNLKNCNSPETVLEMLQKLLYQIDPNWTSRSDHSSNIKLRIHS 229
Query: 251 MKQLGNREYLLSSEEKCAVLLSLVNILYAYCYDVRTTMGEHTVESGWTVNKLSSALCWLQ 310
++ R LL S+ LL L+N V++ N + + C
Sbjct: 230 IQAELRR--LLKSKPYENCLLVLLN-----------------VQNAKAWNAFNLS-C--- 266
Query: 311 SFTSLKQVLISSMRRSLCYPLYREWRLSCAIQQDVNTILSQDILGYKVMKQVTISKSDLG 370
++L+++ + D L +++ +
Sbjct: 267 ------KILLTT--------------------RFKQVT---DFLSAATTTHISLDHHSMT 297
Query: 371 FDLDELETA-ARIVE--EEEVERALCNHVSTLVLC 402
DE+++ + ++ +++ R + + L
Sbjct: 298 LTPDEVKSLLLKYLDCRPQDLPREVLT-TNPRRLS 331
>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 = 47.4 bits (112), Expect = 8e-06
Identities = 77/503 (15%), Positives = 149/503 (29%), Gaps = 196/503 (38%)
Query: 6 FE--LLQSEEDV-TIIIKAPYANIADTEVYVEDTDFRFSSSPYYL-RLNFPGPIKETDHT 61
FE L+ D+ + A DT + + Y R+ P +
Sbjct: 91 FENCYLEGN-DIHALA--AKLLQENDTTLVKTKELIKN----YITARIMAKRPFDKK-SN 142
Query: 62 SGKYDS-DKGQFTFTVI---KVNTGEHFPDL------------DLI---SKLLIPPVKHR 102
S + + +G I + NT ++F +L DLI ++ L ++
Sbjct: 143 SALFRAVGEGNAQLVAIFGGQGNTDDYFEELRDLYQTYHVLVGDLIKFSAETLSELIRTT 202
Query: 103 VAKP-----GIEVMS---EPNNVSDEDEDEDDDTMWFIEQEP---------Q--H----- 138
+ G+ ++ P+N D+D ++ P Q H
Sbjct: 203 LDAEKVFTQGLNILEWLENPSNTPDKD---------YLLSIPISCPLIGVIQLAHYVVTA 253
Query: 139 -----QPEENSTTYGYGFANKTKGTLTNMK-----VTISKSDLGFDLEELETAARIVEEE 188
P E + KG + + V I+++D E + R
Sbjct: 254 KLLGFTPGE--------LRSYLKGATGHSQGLVTAVAIAETD---SWESFFVSVR----- 297
Query: 189 EVERALCNHVSTLVLCSNSEQSERSIIFFIGLDFWVVSRDYASDVRQAQD--DRTQMTPS 246
+A+ +++FFIG+ + + + +D + + PS
Sbjct: 298 ---KAI------------------TVLFFIGVRCYEAYPNTSLPPSILEDSLENNEGVPS 336
Query: 247 -----------ELDTMKQLGNREYLLSSEEKCAVLLSLVN------I------LYAYCYD 283
++ N L + ++ V +SLVN + LY
Sbjct: 337 PMLSISNLTQEQVQDYVNKTNSH--LPAGKQ--VEISLVNGAKNLVVSGPPQSLYGLNLT 392
Query: 284 VRTTMGEHTVESGWTVNKLSSALCWLQS---FTSLKQVL------ISSMRRSLCYPLYRE 334
+R ++ QS F+ K ++S P +
Sbjct: 393 LRKAKAPSGLD---------------QSRIPFSERKLKFSNRFLPVAS-------PFHSH 430
Query: 335 WRLSCAIQQDVNTILSQDILGYKVMKQVTISKSDL---------GFDLDELET--AARIV 383
L A +++D++ V+ + D+ G DL L + RIV
Sbjct: 431 L-LVPASDL-----INKDLVK----NNVSFNAKDIQIPVYDTFDGSDLRVLSGSISERIV 480
Query: 384 E---EEEVE-RALCNHVSTLVLC 402
+ V+ +T +L
Sbjct: 481 DCIIRLPVKWETTTQFKATHILD 503
>1ejf_A Progesterone receptor P23; chaperone, CO-chaperone, beta-sandwich;
2.49A {Homo sapiens} SCOP: b.15.1.2
Length = 125
Score = 38.3 bits (89), Expect = 8e-04
Identities = 22/133 (16%), Positives = 40/133 (30%), Gaps = 23/133 (17%)
Query: 1 MLTPMFELLQSEEDVTIIIKAPYANIADTEVYVEDTDFRFS------SSPYYLRLNFPGP 54
M + + V I + D V E + FS + + ++
Sbjct: 1 MQPASAKWYDRRDYVFIEFCVE--DSKDVNVNFEKSKLTFSCLGGSDNFKHLNEIDLFHC 58
Query: 55 IKETDHTSGKYDSDKGQFTFTVIKVNTGEHFPDLDLISKLLIPPVKHRVAKPGIEVMSEP 114
I D K+ + K +G+ +P +L K +
Sbjct: 59 I---DPNDSKHKRTDRSILCCLRKGESGQSWP------RLTKERAKLNWLSV------DF 103
Query: 115 NNVSDEDEDEDDD 127
NN D ++D D+D
Sbjct: 104 NNWKDWEDDSDED 116
>4dgw_C PRE-mRNA-splicing factor PRP11; zinc finger; 3.11A {Saccharomyces
cerevisiae}
Length = 231
Score = 30.9 bits (69), Expect = 0.59
Identities = 13/88 (14%), Positives = 31/88 (35%), Gaps = 22/88 (25%)
Query: 2 LTPM------FELLQSEEDVT--IIIKA-PYANIA----DTEVYVEDTDFRFSSSPYYLR 48
+ P+ EL +++ ++I P+ NIA E+ + + +++
Sbjct: 141 VPPLIRIVSGLELSDTKQKGKKFLVIAYEPFENIAIELPPNEILFSENNDMDNNNDGVDE 200
Query: 49 LNFPGPIKETDHTSGKYDSDKGQFTFTV 76
LN K+ +D+ +
Sbjct: 201 LN-----KKCTF----WDAISKLYYVQF 219
>3p16_A DNA polymerase III subunit beta; DNA polymerase III sliding clamp,
transferase; HET: DNA; 2.89A {Mycobacterium
tuberculosis} PDB: 3rb9_A*
Length = 408
Score = 29.9 bits (68), Expect = 1.5
Identities = 5/35 (14%), Positives = 14/35 (40%), Gaps = 3/35 (8%)
Query: 152 ANKTKGTLTNMKVTISKSDLGFDLEELETAARIVE 186
A T+ LT++ + + + + A+ +
Sbjct: 9 AATTRVGLTDLTFRLLRESF---ADAVSWVAKNLP 40
>1vpk_A DNA polymerase III, beta subunit; TM0262, structural genomic center
for structural genomics, JCSG, protein structure INI
PSI, transferase; HET: DNA; 2.00A {Thermotoga maritima}
SCOP: d.131.1.1 d.131.1.1 d.131.1.1
Length = 378
Score = 29.1 bits (66), Expect = 2.9
Identities = 7/35 (20%), Positives = 19/35 (54%), Gaps = 3/35 (8%)
Query: 152 ANKTKGTLTNMKVTISKSDLGFDLEELETAARIVE 186
++K +MKVT++ +L +++ A++ +
Sbjct: 3 SDKIHHHHHHMKVTVTTLEL---KDKITIASKALA 34
>3jwh_A HEN1; methyltransferase; HET: SAH; 2.20A {Anabaena variabilis} PDB:
3jwj_A
Length = 217
Score = 28.0 bits (62), Expect = 5.0
Identities = 15/71 (21%), Positives = 23/71 (32%), Gaps = 12/71 (16%)
Query: 46 YLRLNFP-GPIKETDHTSGKYDSDKGQFTFTVIKVNTGEHFPDLDLISKLLIPPVKHRVA 104
+ RL G + D YD + EH L + V A
Sbjct: 83 WERLQLIQGALTYQDKRFHGYD--------AATVIEVIEHLDLSRLGA---FERVLFEFA 131
Query: 105 KPGIEVMSEPN 115
+P I +++ PN
Sbjct: 132 QPKIVIVTTPN 142
>2jn4_A Hypothetical protein FIXU, NIFT; structural genomics, PSI-2,
protein structure initiative, northeast ST genomics
consortium, NESG; NMR {Rhodopseudomonas palustris} SCOP:
b.173.1.1
Length = 87
Score = 26.3 bits (58), Expect = 5.6
Identities = 14/38 (36%), Positives = 15/38 (39%), Gaps = 12/38 (31%)
Query: 162 MKVTISKSDLGF-------DLEELETAARIVEEEEVER 192
MKV I K+ G DLEE IVE E
Sbjct: 22 MKVMIRKTATGHSAYVAKKDLEE-----LIVEMENPAL 54
>3rh7_A Hypothetical oxidoreductase; FMN-binding split barrel, nudix,
structural genomics, joint for structural genomics,
JCSG; HET: FMN; 3.00A {Sinorhizobium meliloti}
Length = 321
Score = 27.8 bits (62), Expect = 7.5
Identities = 11/53 (20%), Positives = 16/53 (30%), Gaps = 14/53 (26%)
Query: 286 TTMGEHTVESGWTVNKLSSALCWLQSFTSL----KQVLISSMRRSLCYPLYRE 334
T G+T N SFTS+ +L+ + S Y
Sbjct: 36 TASDAAGKPIGFTAN----------SFTSVSLDPPLLLVCLAKSSRNYESMTS 78
>1rl1_A Suppressor of G2 allele of SKP1 homolog; beta sandwich, 7 beta
strands, similar to P23, lacking LAST beta strand SEEN
in P23, protein degradation; NMR {Homo sapiens} SCOP:
b.15.1.3
Length = 114
Score = 26.4 bits (58), Expect = 7.6
Identities = 12/55 (21%), Positives = 17/55 (30%), Gaps = 5/55 (9%)
Query: 10 QSEEDVTIIIKAPYANIADTEVYVEDTDFRF-----SSSPYYLRLNFPGPIKETD 59
Q+E V I + D V + + S Y L+L PI
Sbjct: 16 QTESQVVITLMIKNVQKNDVNVEFSEKELSALVKLPSGEDYNLKLELLHPIIPEQ 70
>2xcm_C SGT1-like protein, cytosolic heat shock protein 90;
chaperone-protein binding complex, stress response;
HET: ADP; 2.20A {Arabidopsis thaliana} PDB: 2jki_S*
Length = 92
Score = 25.9 bits (57), Expect = 9.8
Identities = 12/75 (16%), Positives = 22/75 (29%), Gaps = 15/75 (20%)
Query: 10 QSEEDVTIIIKAPYANIADTEVYVEDTDFRFS-----SSPYYLRLNFPGPIKETDHTSGK 64
Q E+V + + A + + + YYL+ G I
Sbjct: 9 QKPEEVVVTVFAKGIPKQNVNIDFGEQILSVVIEVPGEDAYYLQPRLFGKI--------- 59
Query: 65 YDSDKGQFTFTVIKV 79
DK ++ K+
Sbjct: 60 -IPDKCKYEVLSTKI 73
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
0.316 0.132 0.380
Gapped
Lambda K H
0.267 0.0515 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 5,982,729
Number of extensions: 348521
Number of successful extensions: 929
Number of sequences better than 10.0: 1
Number of HSP's gapped: 922
Number of HSP's successfully gapped: 23
Length of query: 407
Length of database: 6,701,793
Length adjustment: 96
Effective length of query: 311
Effective length of database: 4,021,377
Effective search space: 1250648247
Effective search space used: 1250648247
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.6 bits)
S2: 58 (26.6 bits)